-- dump date 20140619_053457 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1173022000001 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4877 1173022000002 Prim_Pol: Primase-polymerase (primpol) domain of the type found in bifunctional replicases from archaeal plasmids, including ORF904 protein of the crenarchaeal plasmid pRN1 from Sulfolobus islandicus (pRN1 primpol). These primpol domains belong to the...; Region: Prim_Pol; cd04859 1173022000003 polymerase nucleotide-binding site; other site 1173022000004 DNA-binding residues [nucleotide binding]; DNA binding site 1173022000005 nucleotide binding site [chemical binding]; other site 1173022000006 primase nucleotide-binding site [nucleotide binding]; other site 1173022000007 Primase C terminal 1 (PriCT-1); Region: PriCT_1; cl07362 1173022000008 CHC2 zinc finger; Region: zf-CHC2; cl17510 1173022000009 CHC2 zinc finger; Region: zf-CHC2; cl17510 1173022000010 AIPR protein; Region: AIPR; pfam10592 1173022000011 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 1173022000012 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1173022000013 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 1173022000014 S-adenosylmethionine binding site [chemical binding]; other site 1173022000015 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 1173022000016 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 1173022000017 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 1173022000018 active site 1173022000019 catalytic residues [active] 1173022000020 DNA binding site [nucleotide binding] 1173022000021 Int/Topo IB signature motif; other site 1173022000022 Protein of unknown function (DUF1517); Region: DUF1517; pfam07466 1173022000023 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 1173022000024 dimer interface [polypeptide binding]; other site 1173022000025 acyltransferase PapA5; Provisional; Region: PRK09294 1173022000026 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 1173022000027 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1173022000028 putative substrate translocation pore; other site 1173022000029 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cd00051 1173022000030 EF-hand domain pair; Region: EF_hand_5; pfam13499 1173022000031 Ca2+ binding site [ion binding]; other site 1173022000032 EF-hand domain pair; Region: EF_hand_5; pfam13499 1173022000033 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1173022000034 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1173022000035 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1173022000036 hydrophobic ligand binding site; other site 1173022000037 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1173022000038 hydrophobic ligand binding site; other site 1173022000039 N-terminal and C-terminal aromatase/cyclase domains of Streptomyces rimosus OtcD1 and related domains; Region: OtcD1_ARO-CYC_like; cd08861 1173022000040 putative hydrophobic ligand binding site [chemical binding]; other site 1173022000041 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1173022000042 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1173022000043 acyl-activating enzyme (AAE) consensus motif; other site 1173022000044 AMP binding site [chemical binding]; other site 1173022000045 active site 1173022000046 CoA binding site [chemical binding]; other site 1173022000047 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 1173022000048 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 1173022000049 S-adenosylmethionine binding site [chemical binding]; other site 1173022000050 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 1173022000051 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1173022000052 EF-hand domain pair; Region: EF_hand_5; pfam13499 1173022000053 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 1173022000054 Ca2+ binding site [ion binding]; other site 1173022000055 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cd00051 1173022000056 EF-hand domain pair; Region: EF_hand_5; pfam13499 1173022000057 Ca2+ binding site [ion binding]; other site 1173022000058 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1173022000059 hydrophobic ligand binding site; other site 1173022000060 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1173022000061 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1173022000062 C-20 methyltransferase BchU; Region: C20_methyl_CrtF; TIGR02716 1173022000063 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 1173022000064 S-adenosylmethionine binding site [chemical binding]; other site 1173022000065 hypothetical protein; Provisional; Region: PRK06185 1173022000066 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1173022000067 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1173022000068 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1173022000069 NAD(P) binding site [chemical binding]; other site 1173022000070 active site 1173022000071 Putative cyclase; Region: Cyclase; pfam04199 1173022000072 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 1173022000073 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 1173022000074 active site 1173022000075 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1173022000076 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 1173022000077 Domain of unknown function (DUF4379); Region: DUF4379; pfam14311 1173022000078 Domain of unknown function (DUF4379); Region: DUF4379; pfam14311 1173022000079 Domain of unknown function (DUF4379); Region: DUF4379; pfam14311 1173022000080 Domain of unknown function (DUF4379); Region: DUF4379; pfam14311 1173022000081 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1173022000082 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 1173022000083 nucleotide binding region [chemical binding]; other site 1173022000084 ATP-binding site [chemical binding]; other site 1173022000085 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 1173022000086 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 1173022000087 Mg binding site [ion binding]; other site 1173022000088 nucleotide binding site [chemical binding]; other site 1173022000089 putative protofilament interface [polypeptide binding]; other site 1173022000090 Domain of unknown function (DUF4343); Region: DUF4343; pfam14243 1173022000091 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 1173022000092 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 1173022000093 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 1173022000094 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1173022000095 Walker A motif; other site 1173022000096 ATP binding site [chemical binding]; other site 1173022000097 Walker B motif; other site 1173022000098 arginine finger; other site 1173022000099 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 1173022000100 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1173022000101 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 1173022000102 ATP binding site [chemical binding]; other site 1173022000103 putative Mg++ binding site [ion binding]; other site 1173022000104 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 1173022000105 nucleotide binding region [chemical binding]; other site 1173022000106 ATP-binding site [chemical binding]; other site 1173022000107 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 1173022000108 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 1173022000109 HSP70 interaction site [polypeptide binding]; other site 1173022000110 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 1173022000111 non-specific DNA binding site [nucleotide binding]; other site 1173022000112 salt bridge; other site 1173022000113 sequence-specific DNA binding site [nucleotide binding]; other site 1173022000114 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1173022000115 DNA binding residues [nucleotide binding] 1173022000116 HNH endonuclease; Region: HNH_3; pfam13392 1173022000117 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 1173022000118 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1173022000119 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 1173022000120 non-specific DNA binding site [nucleotide binding]; other site 1173022000121 salt bridge; other site 1173022000122 sequence-specific DNA binding site [nucleotide binding]; other site 1173022000123 Double zinc ribbon; Region: DZR; pfam12773 1173022000124 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 1173022000125 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 1173022000126 active site 1173022000127 DNA binding site [nucleotide binding] 1173022000128 Int/Topo IB signature motif; other site 1173022000129 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 1173022000130 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 1173022000131 active site 1173022000132 metal binding site [ion binding]; metal-binding site 1173022000133 interdomain interaction site; other site 1173022000134 D5 N terminal like; Region: D5_N; pfam08706 1173022000135 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 1173022000136 Poxvirus D5 protein-like; Region: Pox_D5; pfam03288 1173022000137 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 1173022000138 oligomeric interface; other site 1173022000139 putative active site [active] 1173022000140 homodimer interface [polypeptide binding]; other site 1173022000141 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 1173022000142 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 1173022000143 active site 1173022000144 DNA binding site [nucleotide binding] 1173022000145 Int/Topo IB signature motif; other site 1173022000146 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1173022000147 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 1173022000148 non-specific DNA binding site [nucleotide binding]; other site 1173022000149 salt bridge; other site 1173022000150 sequence-specific DNA binding site [nucleotide binding]; other site 1173022000151 Double zinc ribbon; Region: DZR; pfam12773 1173022000152 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 1173022000153 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 1173022000154 non-specific DNA binding site [nucleotide binding]; other site 1173022000155 salt bridge; other site 1173022000156 sequence-specific DNA binding site [nucleotide binding]; other site 1173022000157 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1173022000158 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 1173022000159 P-loop; other site 1173022000160 Magnesium ion binding site [ion binding]; other site 1173022000161 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1173022000162 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 1173022000163 active site 1173022000164 DNA binding site [nucleotide binding] 1173022000165 Int/Topo IB signature motif; other site 1173022000166 CHAT domain; Region: CHAT; cl17868 1173022000167 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 1173022000168 Walker A motif; other site 1173022000169 ATP binding site [chemical binding]; other site 1173022000170 Walker B motif; other site 1173022000171 ParG; Region: ParG; pfam09274 1173022000172 Plasmid recombination enzyme; Region: Mob_Pre; pfam01076 1173022000173 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 1173022000174 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 1173022000175 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1173022000176 putative active site [active] 1173022000177 putative NTP binding site [chemical binding]; other site 1173022000178 putative nucleic acid binding site [nucleotide binding]; other site 1173022000179 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1173022000180 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 1173022000181 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 1173022000182 active site 1173022000183 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1173022000184 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 1173022000185 P-loop; other site 1173022000186 Magnesium ion binding site [ion binding]; other site 1173022000187 Methyltransferase FkbM domain; Region: Methyltransf_21; cl17387 1173022000188 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1173022000189 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 1173022000190 active site 1173022000191 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1173022000192 extended (e) SDRs; Region: SDR_e; cd08946 1173022000193 NAD(P) binding site [chemical binding]; other site 1173022000194 active site 1173022000195 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1173022000196 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 1173022000197 active site 1173022000198 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 1173022000199 Strictosidine synthase; Region: Str_synth; pfam03088 1173022000200 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 1173022000201 TPR motif; other site 1173022000202 TPR repeat; Region: TPR_11; pfam13414 1173022000203 binding surface 1173022000204 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1173022000205 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1173022000206 Walker A/P-loop; other site 1173022000207 ATP binding site [chemical binding]; other site 1173022000208 Q-loop/lid; other site 1173022000209 ABC transporter signature motif; other site 1173022000210 Walker B; other site 1173022000211 D-loop; other site 1173022000212 H-loop/switch region; other site 1173022000213 Helix-turn-helix domain; Region: HTH_17; cl17695 1173022000214 CHC2 zinc finger; Region: zf-CHC2; cl17510 1173022000215 CHC2 zinc finger; Region: zf-CHC2; cl17510 1173022000216 Origin of replication binding protein; Region: Herpes_ori_bp; pfam02399 1173022000217 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 1173022000218 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 1173022000219 Mg binding site [ion binding]; other site 1173022000220 nucleotide binding site [chemical binding]; other site 1173022000221 putative protofilament interface [polypeptide binding]; other site 1173022000222 endonuclease subunit; Provisional; Region: 47; PHA02546 1173022000223 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 1173022000224 Uncharacterized protein conserved in bacteria (DUF2186); Region: DUF2186; pfam09952 1173022000225 Predicted nucleotidyltransferase [General function prediction only]; Region: COG4849 1173022000226 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1173022000227 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 1173022000228 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 1173022000229 active site 1173022000230 DNA binding site [nucleotide binding] 1173022000231 Int/Topo IB signature motif; other site 1173022000232 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 1173022000233 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 1173022000234 active site 1173022000235 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1173022000236 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 1173022000237 P-loop; other site 1173022000238 Magnesium ion binding site [ion binding]; other site 1173022000239 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1173022000240 DNA binding residues [nucleotide binding] 1173022000241 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 1173022000242 AAA domain; Region: AAA_31; pfam13614 1173022000243 P-loop; other site 1173022000244 Magnesium ion binding site [ion binding]; other site 1173022000245 Protein of unknown function (DUF433); Region: DUF433; pfam04255 1173022000246 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 1173022000247 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 1173022000248 Beta-Casp domain; Region: Beta-Casp; smart01027 1173022000249 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1173022000250 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1173022000251 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 1173022000252 ATP binding site [chemical binding]; other site 1173022000253 putative Mg++ binding site [ion binding]; other site 1173022000254 nucleotide binding region [chemical binding]; other site 1173022000255 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1173022000256 ATP-binding site [chemical binding]; other site 1173022000257 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; pfam09907 1173022000258 Predicted transcription regulator containing HTH domain [Transcription]; Region: COG5499 1173022000259 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 1173022000260 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 1173022000261 active site 1173022000262 DNA binding site [nucleotide binding] 1173022000263 Int/Topo IB signature motif; other site 1173022000264 Helix-turn-helix domain; Region: HTH_17; cl17695 1173022000265 PIN domain; Region: PIN_3; pfam13470 1173022000266 A bacterial subgroup of the C-type lectin-like (CTLD) domain; a subgroup of bacterial protein domains homologous to the carbohydrate-recognition domains (CRDs) of the C-type lectins; Region: CLECT_VCBS; cd03603 1173022000267 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 1173022000268 FOG: WD40 repeat [General function prediction only]; Region: COG2319 1173022000269 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 1173022000270 structural tetrad; other site 1173022000271 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 1173022000272 structural tetrad; other site 1173022000273 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1173022000274 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 1173022000275 TPR motif; other site 1173022000276 binding surface 1173022000277 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; cl17315 1173022000278 DNA binding residues [nucleotide binding] 1173022000279 Uncharacterized conserved protein [Function unknown]; Region: COG1432 1173022000280 LabA_like proteins; Region: LabA_like/DUF88; cl10034 1173022000281 putative metal binding site [ion binding]; other site 1173022000282 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 1173022000283 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 1173022000284 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 1173022000285 Mg binding site [ion binding]; other site 1173022000286 nucleotide binding site [chemical binding]; other site 1173022000287 putative protofilament interface [polypeptide binding]; other site 1173022000288 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl17483 1173022000289 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 1173022000290 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1173022000291 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 1173022000292 active site 1173022000293 DNA binding site [nucleotide binding] 1173022000294 Int/Topo IB signature motif; other site 1173022000295 Domain of unknown function DUF29; Region: DUF29; pfam01724 1173022000296 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 1173022000297 transcriptional regulator MalT; Provisional; Region: PRK04841 1173022000298 PIN domain of the VapC-like UPF0110 protein Mb0640 and homologs; Region: PIN_UPF0110; cd09871 1173022000299 putative active site [active] 1173022000300 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 1173022000301 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1173022000302 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 1173022000303 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1173022000304 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 1173022000305 YcfA-like protein; Region: YcfA; cl00752 1173022000306 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1173022000307 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1173022000308 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 1173022000309 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1173022000310 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 1173022000311 ATP binding site [chemical binding]; other site 1173022000312 DNA phosphorothioation system restriction enzyme; Region: dnd_restrict_1; TIGR04095 1173022000313 putative Mg++ binding site [ion binding]; other site 1173022000314 EcoEI R protein C-terminal; Region: EcoEI_R_C; pfam08463 1173022000315 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 1173022000316 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1173022000317 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 1173022000318 Walker A motif; other site 1173022000319 ATP binding site [chemical binding]; other site 1173022000320 Walker B motif; other site 1173022000321 arginine finger; other site 1173022000322 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 1173022000323 DnaA box-binding interface [nucleotide binding]; other site 1173022000324 DNA polymerase III subunit beta; Validated; Region: PRK05643 1173022000325 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 1173022000326 putative DNA binding surface [nucleotide binding]; other site 1173022000327 dimer interface [polypeptide binding]; other site 1173022000328 beta-clamp/clamp loader binding surface; other site 1173022000329 beta-clamp/translesion DNA polymerase binding surface; other site 1173022000330 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 1173022000331 Transposase domain (DUF772); Region: DUF772; pfam05598 1173022000332 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1173022000333 Anion-transporting ATPase; Region: ArsA_ATPase; pfam02374 1173022000334 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 1173022000335 P loop; other site 1173022000336 Nucleotide binding site [chemical binding]; other site 1173022000337 DTAP/Switch II; other site 1173022000338 Switch I; other site 1173022000339 Uncharacterized conserved protein (DUF2358); Region: DUF2358; pfam10184 1173022000340 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 1173022000341 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3330 1173022000342 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 1173022000343 HSP70 interaction site [polypeptide binding]; other site 1173022000344 Protein of unknown function (DUF4101); Region: DUF4101; pfam13355 1173022000345 pyruvate dehydrogenase E1 component alpha subunit; Reviewed; Region: odpA; CHL00149 1173022000346 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 1173022000347 tetramer interface [polypeptide binding]; other site 1173022000348 TPP-binding site [chemical binding]; other site 1173022000349 heterodimer interface [polypeptide binding]; other site 1173022000350 phosphorylation loop region [posttranslational modification] 1173022000351 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 1173022000352 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1173022000353 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1173022000354 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 1173022000355 Ferritin-like domain; Region: Ferritin; pfam00210 1173022000356 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1173022000357 dinuclear metal binding motif [ion binding]; other site 1173022000358 High-affinity Fe2+/Pb2+ permease [Inorganic ion transport and metabolism]; Region: FTR1; COG0672 1173022000359 Bacterial SH3 domain; Region: SH3_3; cl17532 1173022000360 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 1173022000361 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 1173022000362 active site 1173022000363 phosphorylation site [posttranslational modification] 1173022000364 intermolecular recognition site; other site 1173022000365 dimerization interface [polypeptide binding]; other site 1173022000366 CheB methylesterase; Region: CheB_methylest; pfam01339 1173022000367 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1173022000368 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 1173022000369 putative binding surface; other site 1173022000370 active site 1173022000371 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1173022000372 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 1173022000373 ATP binding site [chemical binding]; other site 1173022000374 Mg2+ binding site [ion binding]; other site 1173022000375 G-X-G motif; other site 1173022000376 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 1173022000377 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1173022000378 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 1173022000379 active site 1173022000380 phosphorylation site [posttranslational modification] 1173022000381 intermolecular recognition site; other site 1173022000382 dimerization interface [polypeptide binding]; other site 1173022000383 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1173022000384 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1173022000385 dimer interface [polypeptide binding]; other site 1173022000386 putative CheW interface [polypeptide binding]; other site 1173022000387 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1173022000388 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1173022000389 dimer interface [polypeptide binding]; other site 1173022000390 putative CheW interface [polypeptide binding]; other site 1173022000391 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1173022000392 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1173022000393 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1173022000394 dimer interface [polypeptide binding]; other site 1173022000395 putative CheW interface [polypeptide binding]; other site 1173022000396 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1173022000397 Peptidase family M23; Region: Peptidase_M23; pfam01551 1173022000398 CHASE3 domain; Region: CHASE3; pfam05227 1173022000399 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1173022000400 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1173022000401 dimer interface [polypeptide binding]; other site 1173022000402 putative CheW interface [polypeptide binding]; other site 1173022000403 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cd00588 1173022000404 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 1173022000405 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 1173022000406 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 1173022000407 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1173022000408 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 1173022000409 binding surface 1173022000410 TPR motif; other site 1173022000411 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1173022000412 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 1173022000413 PAS domain; Region: PAS_9; pfam13426 1173022000414 putative active site [active] 1173022000415 heme pocket [chemical binding]; other site 1173022000416 PAS fold; Region: PAS_4; pfam08448 1173022000417 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 1173022000418 putative active site [active] 1173022000419 heme pocket [chemical binding]; other site 1173022000420 GAF domain; Region: GAF_3; pfam13492 1173022000421 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022000422 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022000423 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1173022000424 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1173022000425 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 1173022000426 dimer interface [polypeptide binding]; other site 1173022000427 phosphorylation site [posttranslational modification] 1173022000428 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 1173022000429 ATP binding site [chemical binding]; other site 1173022000430 Mg2+ binding site [ion binding]; other site 1173022000431 G-X-G motif; other site 1173022000432 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022000433 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 1173022000434 active site 1173022000435 phosphorylation site [posttranslational modification] 1173022000436 intermolecular recognition site; other site 1173022000437 dimerization interface [polypeptide binding]; other site 1173022000438 ATP adenylyltransferase (5',5'''-P-1,P-4-tetraphosphate phosphorylase II) [Nucleotide transport and metabolism]; Region: APA2; COG4360 1173022000439 ATP adenylyltransferase; Region: ATP_transf; pfam09830 1173022000440 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 1173022000441 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 1173022000442 Cysteine-rich domain; Region: CCG; pfam02754 1173022000443 Cysteine-rich domain; Region: CCG; pfam02754 1173022000444 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1173022000445 FAD binding domain; Region: FAD_binding_4; pfam01565 1173022000446 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 1173022000447 FOG: CBS domain [General function prediction only]; Region: COG0517 1173022000448 FOG: CBS domain [General function prediction only]; Region: COG0517 1173022000449 FOG: CBS domain [General function prediction only]; Region: COG0517 1173022000450 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with a PAS domain, a GGDEF (DiGuanylate-Cyclase (DGC) domain, and a DUF1 domain downstream. PAS domains have been found to bind ligands, and to act...; Region: CBS_pair_PAS_GGDEF_DUF1_assoc; cd04611 1173022000451 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 1173022000452 PAS domain S-box; Region: sensory_box; TIGR00229 1173022000453 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 1173022000454 putative active site [active] 1173022000455 heme pocket [chemical binding]; other site 1173022000456 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022000457 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1173022000458 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1173022000459 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1173022000460 metal binding site [ion binding]; metal-binding site 1173022000461 active site 1173022000462 I-site; other site 1173022000463 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 1173022000464 putative active site [active] 1173022000465 5-methyltetrahydrofolate--homocysteine methyltransferase; Region: metH; TIGR02082 1173022000466 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 1173022000467 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 1173022000468 substrate binding pocket [chemical binding]; other site 1173022000469 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 1173022000470 B12 binding site [chemical binding]; other site 1173022000471 cobalt ligand [ion binding]; other site 1173022000472 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 1173022000473 Predicted archaeal sugar kinases [General function prediction only]; Region: COG1907 1173022000474 Orange carotenoid protein, N-terminal; Region: Carot_N; pfam09150 1173022000475 Nuclear transport factor 2 (NTF2) domain; Region: NTF2; pfam02136 1173022000476 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1173022000477 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1173022000478 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 1173022000479 TPR motif; other site 1173022000480 binding surface 1173022000481 TPR repeat; Region: TPR_11; pfam13414 1173022000482 TPR repeat; Region: TPR_11; pfam13414 1173022000483 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 1173022000484 binding surface 1173022000485 TPR motif; other site 1173022000486 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1173022000487 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 1173022000488 binding surface 1173022000489 TPR motif; other site 1173022000490 TPR repeat; Region: TPR_11; pfam13414 1173022000491 PAS domain S-box; Region: sensory_box; TIGR00229 1173022000492 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 1173022000493 putative active site [active] 1173022000494 heme pocket [chemical binding]; other site 1173022000495 PAS domain S-box; Region: sensory_box; TIGR00229 1173022000496 PAS domain; Region: PAS_9; pfam13426 1173022000497 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 1173022000498 putative active site [active] 1173022000499 heme pocket [chemical binding]; other site 1173022000500 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022000501 GAF domain; Region: GAF; pfam01590 1173022000502 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 1173022000503 PAS fold; Region: PAS_3; pfam08447 1173022000504 putative active site [active] 1173022000505 heme pocket [chemical binding]; other site 1173022000506 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1173022000507 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1173022000508 metal binding site [ion binding]; metal-binding site 1173022000509 active site 1173022000510 I-site; other site 1173022000511 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 1173022000512 FOG: WD40 repeat [General function prediction only]; Region: COG2319 1173022000513 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 1173022000514 structural tetrad; other site 1173022000515 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1173022000516 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1173022000517 active site 1173022000518 ATP binding site [chemical binding]; other site 1173022000519 substrate binding site [chemical binding]; other site 1173022000520 activation loop (A-loop); other site 1173022000521 Uncharacterized conserved protein [Function unknown]; Region: COG1262 1173022000522 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1173022000523 Cytochrome P450; Region: p450; cl12078 1173022000524 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1173022000525 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1173022000526 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1173022000527 Probable transposase; Region: OrfB_IS605; pfam01385 1173022000528 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1173022000529 Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452 1173022000530 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 1173022000531 DNA binding residues [nucleotide binding] 1173022000532 Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of...; Region: SR_IS607_transposase_like; cd03769 1173022000533 catalytic residues [active] 1173022000534 catalytic nucleophile [active] 1173022000535 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 1173022000536 putative active site [active] 1173022000537 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1173022000538 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1173022000539 HIGH motif; other site 1173022000540 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1173022000541 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1173022000542 active site 1173022000543 KMSKS motif; other site 1173022000544 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1173022000545 tRNA binding surface [nucleotide binding]; other site 1173022000546 anticodon binding site; other site 1173022000547 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1173022000548 GxxExxY protein; Region: GxxExxY; TIGR04256 1173022000549 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1173022000550 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 1173022000551 dimer interface [polypeptide binding]; other site 1173022000552 anticodon binding site; other site 1173022000553 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 1173022000554 homodimer interface [polypeptide binding]; other site 1173022000555 motif 1; other site 1173022000556 active site 1173022000557 motif 2; other site 1173022000558 GAD domain; Region: GAD; pfam02938 1173022000559 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 1173022000560 motif 3; other site 1173022000561 Double zinc ribbon; Region: DZR; pfam12773 1173022000562 Domain of unknown function (DUF1816); Region: DUF1816; pfam08846 1173022000563 Predicted methyltransferases [General function prediction only]; Region: COG0313 1173022000564 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1173022000565 putative SAM binding site [chemical binding]; other site 1173022000566 putative homodimer interface [polypeptide binding]; other site 1173022000567 Ribokinase-like subgroup B. Found in bacteria and plants, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_B; cd01945 1173022000568 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1173022000569 substrate binding site [chemical binding]; other site 1173022000570 ATP binding site [chemical binding]; other site 1173022000571 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 1173022000572 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 1173022000573 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 1173022000574 NAD(P) binding site [chemical binding]; other site 1173022000575 homodimer interface [polypeptide binding]; other site 1173022000576 substrate binding site [chemical binding]; other site 1173022000577 active site 1173022000578 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1173022000579 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 1173022000580 active site 1173022000581 nif11-like leader peptide domain; Region: ocin_TIGR03798 1173022000582 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 1173022000583 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 1173022000584 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1173022000585 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1173022000586 catalytic residue [active] 1173022000587 BON domain; Region: BON; pfam04972 1173022000588 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1173022000589 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cd00719 1173022000590 GIY-YIG motif/motif A; other site 1173022000591 active site 1173022000592 catalytic site [active] 1173022000593 metal binding site [ion binding]; metal-binding site 1173022000594 PAS domain S-box; Region: sensory_box; TIGR00229 1173022000595 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 1173022000596 putative active site [active] 1173022000597 heme pocket [chemical binding]; other site 1173022000598 PAS domain S-box; Region: sensory_box; TIGR00229 1173022000599 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 1173022000600 putative active site [active] 1173022000601 heme pocket [chemical binding]; other site 1173022000602 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1173022000603 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 1173022000604 putative active site [active] 1173022000605 heme pocket [chemical binding]; other site 1173022000606 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 1173022000607 putative active site [active] 1173022000608 heme pocket [chemical binding]; other site 1173022000609 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1173022000610 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 1173022000611 dimer interface [polypeptide binding]; other site 1173022000612 phosphorylation site [posttranslational modification] 1173022000613 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 1173022000614 ATP binding site [chemical binding]; other site 1173022000615 Mg2+ binding site [ion binding]; other site 1173022000616 G-X-G motif; other site 1173022000617 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1173022000618 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 1173022000619 active site 1173022000620 phosphorylation site [posttranslational modification] 1173022000621 intermolecular recognition site; other site 1173022000622 dimerization interface [polypeptide binding]; other site 1173022000623 Sensory domain found in DIguanylate Cyclases & Two-component systems; Region: DICT; pfam10069 1173022000624 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1173022000625 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 1173022000626 dimer interface [polypeptide binding]; other site 1173022000627 phosphorylation site [posttranslational modification] 1173022000628 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 1173022000629 ATP binding site [chemical binding]; other site 1173022000630 Mg2+ binding site [ion binding]; other site 1173022000631 G-X-G motif; other site 1173022000632 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 1173022000633 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1173022000634 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1173022000635 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1173022000636 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 1173022000637 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 1173022000638 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 1173022000639 Active Sites [active] 1173022000640 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 1173022000641 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 1173022000642 active site 1173022000643 metal binding site [ion binding]; metal-binding site 1173022000644 DNA binding site [nucleotide binding] 1173022000645 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1173022000646 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 1173022000647 DHH family; Region: DHH; pfam01368 1173022000648 Photosystem II complex subunit Ycf12; Region: PSII_Ycf12; cl12139 1173022000649 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 1173022000650 Predicted membrane protein [Function unknown]; Region: COG2119 1173022000651 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 1173022000652 Predicted membrane protein [Function unknown]; Region: COG2119 1173022000653 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 1173022000654 aspartate aminotransferase; Provisional; Region: PRK05764 1173022000655 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 1173022000656 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1173022000657 homodimer interface [polypeptide binding]; other site 1173022000658 catalytic residue [active] 1173022000659 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 1173022000660 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1173022000661 cell division protein FtsZ; Validated; Region: PRK09330 1173022000662 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 1173022000663 nucleotide binding site [chemical binding]; other site 1173022000664 SulA interaction site; other site 1173022000665 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 1173022000666 dimer interface [polypeptide binding]; other site 1173022000667 substrate binding site [chemical binding]; other site 1173022000668 ATP binding site [chemical binding]; other site 1173022000669 Domain of unknown function (DUF2382); Region: DUF2382; pfam09557 1173022000670 acetyl-CoA synthetase; Provisional; Region: PRK00174 1173022000671 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 1173022000672 active site 1173022000673 CoA binding site [chemical binding]; other site 1173022000674 acyl-activating enzyme (AAE) consensus motif; other site 1173022000675 AMP binding site [chemical binding]; other site 1173022000676 acetate binding site [chemical binding]; other site 1173022000677 Domain of unknown function (DUF1823); Region: DUF1823; pfam08853 1173022000678 Acylphosphatase; Region: Acylphosphatase; cl00551 1173022000679 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 1173022000680 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1173022000681 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 1173022000682 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1173022000683 putative catalytic site [active] 1173022000684 putative metal binding site [ion binding]; other site 1173022000685 putative phosphate binding site [ion binding]; other site 1173022000686 Protein of unknown function (DUF3148); Region: DUF3148; pfam11347 1173022000687 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 1173022000688 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 1173022000689 putative active site [active] 1173022000690 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), C-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_C; cd03414 1173022000691 putative active site [active] 1173022000692 TMAO/DMSO reductase; Reviewed; Region: PRK05363 1173022000693 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 1173022000694 Moco binding site; other site 1173022000695 metal coordination site [ion binding]; other site 1173022000696 FAD binding domain; Region: FAD_binding_4; pfam01565 1173022000697 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 1173022000698 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1173022000699 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1173022000700 active site 1173022000701 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 1173022000702 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 1173022000703 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1173022000704 homodimer interface [polypeptide binding]; other site 1173022000705 catalytic residue [active] 1173022000706 Protein of unknown function (DUF1350); Region: DUF1350; pfam07082 1173022000707 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1173022000708 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1173022000709 dimerization interface [polypeptide binding]; other site 1173022000710 DPS ferroxidase diiron center [ion binding]; other site 1173022000711 ion pore; other site 1173022000712 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 1173022000713 non-specific DNA binding site [nucleotide binding]; other site 1173022000714 salt bridge; other site 1173022000715 sequence-specific DNA binding site [nucleotide binding]; other site 1173022000716 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; cl03075 1173022000717 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1173022000718 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1173022000719 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1173022000720 dimerization interface [polypeptide binding]; other site 1173022000721 DPS ferroxidase diiron center [ion binding]; other site 1173022000722 ion pore; other site 1173022000723 ParB-like nuclease domain; Region: ParBc; cl02129 1173022000724 Sporulation protein and related proteins [Cell division and chromosome partitioning]; Region: SpoIID; COG2385 1173022000725 Stage II sporulation protein; Region: SpoIID; pfam08486 1173022000726 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1173022000727 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1173022000728 catalytic loop [active] 1173022000729 iron binding site [ion binding]; other site 1173022000730 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1173022000731 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1173022000732 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 1173022000733 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022000734 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 1173022000735 Bacterial sugar transferase; Region: Bac_transf; cl00939 1173022000736 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 1173022000737 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 1173022000738 NADP-binding site; other site 1173022000739 homotetramer interface [polypeptide binding]; other site 1173022000740 substrate binding site [chemical binding]; other site 1173022000741 homodimer interface [polypeptide binding]; other site 1173022000742 active site 1173022000743 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 1173022000744 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 1173022000745 NADP binding site [chemical binding]; other site 1173022000746 active site 1173022000747 putative substrate binding site [chemical binding]; other site 1173022000748 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 1173022000749 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1173022000750 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 1173022000751 dimer interface [polypeptide binding]; other site 1173022000752 conserved gate region; other site 1173022000753 putative PBP binding loops; other site 1173022000754 ABC-ATPase subunit interface; other site 1173022000755 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 1173022000756 TPR repeat; Region: TPR_11; pfam13414 1173022000757 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 1173022000758 binding surface 1173022000759 TPR motif; other site 1173022000760 TPR repeat; Region: TPR_11; pfam13414 1173022000761 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1173022000762 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 1173022000763 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1173022000764 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1173022000765 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 1173022000766 HlyD family secretion protein; Region: HlyD_3; pfam13437 1173022000767 Beta-mannanase [Carbohydrate transport and metabolism]; Region: ManB; COG4124 1173022000768 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; cl00047 1173022000769 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 1173022000770 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; cd02259 1173022000771 putative active site [active] 1173022000772 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1173022000773 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1173022000774 Walker A/P-loop; other site 1173022000775 ATP binding site [chemical binding]; other site 1173022000776 Q-loop/lid; other site 1173022000777 ABC transporter signature motif; other site 1173022000778 Walker B; other site 1173022000779 D-loop; other site 1173022000780 H-loop/switch region; other site 1173022000781 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022000782 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 1173022000783 active site 1173022000784 phosphorylation site [posttranslational modification] 1173022000785 intermolecular recognition site; other site 1173022000786 dimerization interface [polypeptide binding]; other site 1173022000787 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1173022000788 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1173022000789 metal binding site [ion binding]; metal-binding site 1173022000790 active site 1173022000791 I-site; other site 1173022000792 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 1173022000793 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1173022000794 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 1173022000795 Dehydroquinase class II; Region: DHquinase_II; pfam01220 1173022000796 trimer interface [polypeptide binding]; other site 1173022000797 active site 1173022000798 dimer interface [polypeptide binding]; other site 1173022000799 competence damage-inducible protein A; Provisional; Region: PRK00549 1173022000800 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 1173022000801 putative MPT binding site; other site 1173022000802 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 1173022000803 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1173022000804 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 1173022000805 dimer interface [polypeptide binding]; other site 1173022000806 active site 1173022000807 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1173022000808 folate binding site [chemical binding]; other site 1173022000809 chloroplast protein import component, Tic20 family; Region: 3a0901s05TIC20; TIGR00994 1173022000810 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 1173022000811 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 1173022000812 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1173022000813 Ribosomal protein S6; Region: Ribosomal_S6; pfam01250 1173022000814 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1173022000815 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1173022000816 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 1173022000817 binding surface 1173022000818 TPR motif; other site 1173022000819 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1173022000820 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 1173022000821 ATP binding site [chemical binding]; other site 1173022000822 putative Mg++ binding site [ion binding]; other site 1173022000823 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 1173022000824 ATP-binding site [chemical binding]; other site 1173022000825 DSHCT (NUC185) domain; Region: DSHCT; pfam08148 1173022000826 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 1173022000827 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1173022000828 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 1173022000829 Walker A motif; other site 1173022000830 ATP binding site [chemical binding]; other site 1173022000831 Walker B motif; other site 1173022000832 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 1173022000833 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 1173022000834 nucleotide binding site/active site [active] 1173022000835 HIT family signature motif; other site 1173022000836 catalytic residue [active] 1173022000837 D1 subunit of photosystem II (PS II); Region: Photosystem-II_D1; cd09289 1173022000838 protein I interface; other site 1173022000839 D2 interface; other site 1173022000840 protein T interface; other site 1173022000841 chlorophyll binding site; other site 1173022000842 beta carotene binding site; other site 1173022000843 pheophytin binding site; other site 1173022000844 manganese-stabilizing polypeptide interface; other site 1173022000845 CP43 interface; other site 1173022000846 protein L interface; other site 1173022000847 oxygen evolving complex binding site; other site 1173022000848 bromide binding site; other site 1173022000849 quinone binding site; other site 1173022000850 Fe binding site [ion binding]; other site 1173022000851 core light harvesting interface; other site 1173022000852 cytochrome b559 alpha subunit interface; other site 1173022000853 cytochrome c-550 interface; other site 1173022000854 protein J interface; other site 1173022000855 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 1173022000856 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1173022000857 sulfate transport protein; Provisional; Region: cysT; CHL00187 1173022000858 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 1173022000859 dimer interface [polypeptide binding]; other site 1173022000860 conserved gate region; other site 1173022000861 putative PBP binding loops; other site 1173022000862 ABC-ATPase subunit interface; other site 1173022000863 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1173022000864 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 1173022000865 dimer interface [polypeptide binding]; other site 1173022000866 conserved gate region; other site 1173022000867 putative PBP binding loops; other site 1173022000868 ABC-ATPase subunit interface; other site 1173022000869 NIL domain; Region: NIL; pfam09383 1173022000870 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 1173022000871 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 1173022000872 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1173022000873 active site 1173022000874 phosphorylation site [posttranslational modification] 1173022000875 intermolecular recognition site; other site 1173022000876 dimerization interface [polypeptide binding]; other site 1173022000877 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 1173022000878 DNA binding residues [nucleotide binding] 1173022000879 dimerization interface [polypeptide binding]; other site 1173022000880 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1173022000881 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 1173022000882 dimer interface [polypeptide binding]; other site 1173022000883 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1173022000884 catalytic triad [active] 1173022000885 peroxidatic and resolving cysteines [active] 1173022000886 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these...; Region: PRX_like2; cd02970 1173022000887 putative catalytic residues [active] 1173022000888 chaperone protein DnaJ; Provisional; Region: PRK14299 1173022000889 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 1173022000890 HSP70 interaction site [polypeptide binding]; other site 1173022000891 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1173022000892 substrate binding site [polypeptide binding]; other site 1173022000893 dimer interface [polypeptide binding]; other site 1173022000894 AAA domain; Region: AAA_33; pfam13671 1173022000895 L-seryl-tRNA(Sec) kinase, eukaryotic; Region: selen_PSTK_euk; TIGR03575 1173022000896 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK02862 1173022000897 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 1173022000898 ligand binding site; other site 1173022000899 oligomer interface; other site 1173022000900 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 1173022000901 dimer interface [polypeptide binding]; other site 1173022000902 N-terminal domain interface [polypeptide binding]; other site 1173022000903 sulfate 1 binding site; other site 1173022000904 Uncharacterized conserved protein [Function unknown]; Region: COG5464 1173022000905 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1173022000906 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 1173022000907 ligand binding site [chemical binding]; other site 1173022000908 flexible hinge region; other site 1173022000909 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 1173022000910 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 1173022000911 Walker A motif; other site 1173022000912 ATP binding site [chemical binding]; other site 1173022000913 Walker B motif; other site 1173022000914 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 1173022000915 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1173022000916 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1173022000917 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 1173022000918 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 1173022000919 DHH family; Region: DHH; pfam01368 1173022000920 DHHA1 domain; Region: DHHA1; pfam02272 1173022000921 TPR repeat; Region: TPR_11; pfam13414 1173022000922 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 1173022000923 binding surface 1173022000924 TPR motif; other site 1173022000925 TPR repeat; Region: TPR_11; pfam13414 1173022000926 TPR repeat; Region: TPR_11; pfam13414 1173022000927 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 1173022000928 binding surface 1173022000929 TPR motif; other site 1173022000930 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 1173022000931 TPR repeat; Region: TPR_11; pfam13414 1173022000932 binding surface 1173022000933 TPR motif; other site 1173022000934 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1173022000935 C-terminal peptidase (prc); Region: prc; TIGR00225 1173022000936 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 1173022000937 protein binding site [polypeptide binding]; other site 1173022000938 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1173022000939 Catalytic dyad [active] 1173022000940 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 1173022000941 S-adenosylmethionine binding site [chemical binding]; other site 1173022000942 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1173022000943 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 1173022000944 S-adenosylmethionine binding site [chemical binding]; other site 1173022000945 spore photoproduct lyase; Region: photo_TT_lyase; cl15393 1173022000946 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 1173022000947 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 1173022000948 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1173022000949 putative di-iron ligands [ion binding]; other site 1173022000950 Chlorophyll A-B binding protein; Region: Chloroa_b-bind; cl02879 1173022000951 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1173022000952 classical (c) SDRs; Region: SDR_c; cd05233 1173022000953 NAD(P) binding site [chemical binding]; other site 1173022000954 active site 1173022000955 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 1173022000956 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 1173022000957 catalytic residue [active] 1173022000958 putative FPP diphosphate binding site; other site 1173022000959 putative FPP binding hydrophobic cleft; other site 1173022000960 dimer interface [polypeptide binding]; other site 1173022000961 putative IPP diphosphate binding site; other site 1173022000962 Uncharacterized conserved protein [Function unknown]; Region: COG1624 1173022000963 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 1173022000964 diaminopimelate decarboxylase; Region: lysA; TIGR01048 1173022000965 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1173022000966 active site 1173022000967 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1173022000968 substrate binding site [chemical binding]; other site 1173022000969 catalytic residues [active] 1173022000970 dimer interface [polypeptide binding]; other site 1173022000971 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1173022000972 Coenzyme A binding pocket [chemical binding]; other site 1173022000973 Clp protease ATP binding subunit; Region: clpC; CHL00095 1173022000974 Clp amino terminal domain; Region: Clp_N; pfam02861 1173022000975 Clp amino terminal domain; Region: Clp_N; pfam02861 1173022000976 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 1173022000977 Walker A motif; other site 1173022000978 ATP binding site [chemical binding]; other site 1173022000979 Walker B motif; other site 1173022000980 arginine finger; other site 1173022000981 UvrB/uvrC motif; Region: UVR; pfam02151 1173022000982 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 1173022000983 Walker A motif; other site 1173022000984 ATP binding site [chemical binding]; other site 1173022000985 Walker B motif; other site 1173022000986 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1173022000987 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 1173022000988 YcfA-like protein; Region: YcfA; pfam07927 1173022000989 Lipoate-protein ligase B [Coenzyme metabolism]; Region: LipB; COG0321 1173022000990 Protein of unknown function (DUF3318); Region: DUF3318; pfam11780 1173022000991 Predicted membrane protein [Function unknown]; Region: COG5305 1173022000992 FO synthase subunit 2; Reviewed; Region: PRK07360 1173022000993 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 1173022000994 FeS/SAM binding site; other site 1173022000995 Protein of unknown function (DUF3352); Region: DUF3352; pfam11832 1173022000996 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1173022000997 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1173022000998 Probable transposase; Region: OrfB_IS605; pfam01385 1173022000999 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1173022001000 cytochrome c biogenesis protein; Region: ccsA; CHL00045 1173022001001 KGK domain; Region: KGK; pfam08872 1173022001002 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 1173022001003 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 1173022001004 Ligand Binding Site [chemical binding]; other site 1173022001005 hypothetical protein; Provisional; Region: PRK11281 1173022001006 acetolactate synthase 3 catalytic subunit; Reviewed; Region: PRK07418 1173022001007 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1173022001008 PYR/PP interface [polypeptide binding]; other site 1173022001009 dimer interface [polypeptide binding]; other site 1173022001010 TPP binding site [chemical binding]; other site 1173022001011 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1173022001012 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 1173022001013 TPP-binding site [chemical binding]; other site 1173022001014 dimer interface [polypeptide binding]; other site 1173022001015 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 1173022001016 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 1173022001017 H+ Antiporter protein; Region: 2A0121; TIGR00900 1173022001018 putative substrate translocation pore; other site 1173022001019 Protoheme ferro-lyase (ferrochelatase) [Coenzyme metabolism]; Region: HemH; COG0276 1173022001020 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 1173022001021 C-terminal domain interface [polypeptide binding]; other site 1173022001022 active site 1173022001023 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 1173022001024 active site 1173022001025 N-terminal domain interface [polypeptide binding]; other site 1173022001026 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 1173022001027 putative active site [active] 1173022001028 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1173022001029 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1173022001030 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 1173022001031 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 1173022001032 Mg2+ binding site [ion binding]; other site 1173022001033 G-X-G motif; other site 1173022001034 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 1173022001035 anchoring element; other site 1173022001036 dimer interface [polypeptide binding]; other site 1173022001037 ATP binding site [chemical binding]; other site 1173022001038 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 1173022001039 active site 1173022001040 putative metal-binding site [ion binding]; other site 1173022001041 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1173022001042 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cd00232 1173022001043 heme binding pocket [chemical binding]; other site 1173022001044 heme ligand [chemical binding]; other site 1173022001045 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 1173022001046 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 1173022001047 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1173022001048 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 1173022001049 ribosomal protein S14; Region: rps14; CHL00074 1173022001050 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1173022001051 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1173022001052 minor groove reading motif; other site 1173022001053 helix-hairpin-helix signature motif; other site 1173022001054 substrate binding pocket [chemical binding]; other site 1173022001055 active site 1173022001056 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 1173022001057 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 1173022001058 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 1173022001059 active site 1173022001060 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 1173022001061 protein binding site [polypeptide binding]; other site 1173022001062 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 1173022001063 putative substrate binding region [chemical binding]; other site 1173022001064 seryl-tRNA synthetase; Provisional; Region: PRK05431 1173022001065 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1173022001066 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 1173022001067 dimer interface [polypeptide binding]; other site 1173022001068 active site 1173022001069 motif 1; other site 1173022001070 motif 2; other site 1173022001071 motif 3; other site 1173022001072 Protein of unknown function (DUF3611); Region: DUF3611; pfam12263 1173022001073 Predicted transcriptional regulators [Transcription]; Region: COG1695 1173022001074 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1173022001075 Protein of unknown function (DUF3529); Region: DUF3529; pfam12046 1173022001076 Protein of unknown function (DUF3155); Region: DUF3155; pfam11352 1173022001077 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1173022001078 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 1173022001079 dimer interface [polypeptide binding]; other site 1173022001080 phosphorylation site [posttranslational modification] 1173022001081 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 1173022001082 ATP binding site [chemical binding]; other site 1173022001083 Mg2+ binding site [ion binding]; other site 1173022001084 G-X-G motif; other site 1173022001085 S-layer homology domain; Region: SLH; pfam00395 1173022001086 S-layer homology domain; Region: SLH; pfam00395 1173022001087 S-layer homology domain; Region: SLH; pfam00395 1173022001088 tellurium resistance terB-like protein; Region: terB_like; cd07177 1173022001089 metal binding site [ion binding]; metal-binding site 1173022001090 16S rRNA methyltransferase B; Provisional; Region: PRK14901 1173022001091 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 1173022001092 putative RNA binding site [nucleotide binding]; other site 1173022001093 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 1173022001094 S-adenosylmethionine binding site [chemical binding]; other site 1173022001095 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 1173022001096 Coenzyme F420-reducing hydrogenase, beta subunit [Energy production and conversion]; Region: FrhB; COG1035 1173022001097 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit N-term; Region: FrhB_FdhB_N; pfam04422 1173022001098 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 1173022001099 PAS domain S-box; Region: sensory_box; TIGR00229 1173022001100 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 1173022001101 putative active site [active] 1173022001102 heme pocket [chemical binding]; other site 1173022001103 PAS domain S-box; Region: sensory_box; TIGR00229 1173022001104 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 1173022001105 putative active site [active] 1173022001106 heme pocket [chemical binding]; other site 1173022001107 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022001108 GAF domain; Region: GAF; pfam01590 1173022001109 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 1173022001110 dimer interface [polypeptide binding]; other site 1173022001111 phosphorylation site [posttranslational modification] 1173022001112 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 1173022001113 ATP binding site [chemical binding]; other site 1173022001114 Mg2+ binding site [ion binding]; other site 1173022001115 G-X-G motif; other site 1173022001116 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022001117 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 1173022001118 active site 1173022001119 phosphorylation site [posttranslational modification] 1173022001120 intermolecular recognition site; other site 1173022001121 dimerization interface [polypeptide binding]; other site 1173022001122 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022001123 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 1173022001124 active site 1173022001125 phosphorylation site [posttranslational modification] 1173022001126 intermolecular recognition site; other site 1173022001127 dimerization interface [polypeptide binding]; other site 1173022001128 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 1173022001129 Aluminium resistance protein; Region: Alum_res; pfam06838 1173022001130 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 1173022001131 Di-iron ligands [ion binding]; other site 1173022001132 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 1173022001133 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1173022001134 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1173022001135 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 1173022001136 dimer interface [polypeptide binding]; other site 1173022001137 putative anticodon binding site; other site 1173022001138 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 1173022001139 motif 1; other site 1173022001140 active site 1173022001141 motif 2; other site 1173022001142 motif 3; other site 1173022001143 M28 Zn-Peptidases; Region: M28_like_1; cd05640 1173022001144 Peptidase family M28; Region: Peptidase_M28; pfam04389 1173022001145 metal binding site [ion binding]; metal-binding site 1173022001146 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 1173022001147 AAA ATPase domain; Region: AAA_16; pfam13191 1173022001148 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1173022001149 WD domain, G-beta repeat; Region: WD40; pfam00400 1173022001150 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 1173022001151 structural tetrad; other site 1173022001152 FOG: WD40 repeat [General function prediction only]; Region: COG2319 1173022001153 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 1173022001154 structural tetrad; other site 1173022001155 WD domain, G-beta repeat; Region: WD40; pfam00400 1173022001156 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1173022001157 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1173022001158 Walker A/P-loop; other site 1173022001159 ATP binding site [chemical binding]; other site 1173022001160 Q-loop/lid; other site 1173022001161 ABC transporter signature motif; other site 1173022001162 Walker B; other site 1173022001163 D-loop; other site 1173022001164 H-loop/switch region; other site 1173022001165 TOBE domain; Region: TOBE_2; pfam08402 1173022001166 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 1173022001167 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182 1173022001168 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 1173022001169 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 1173022001170 TPP-binding site; other site 1173022001171 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 1173022001172 PYR/PP interface [polypeptide binding]; other site 1173022001173 dimer interface [polypeptide binding]; other site 1173022001174 TPP binding site [chemical binding]; other site 1173022001175 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1173022001176 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 1173022001177 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 1173022001178 Nucleoside recognition; Region: Gate; pfam07670 1173022001179 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 1173022001180 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 1173022001181 catalytic residue [active] 1173022001182 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1173022001183 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 1173022001184 potential catalytic triad [active] 1173022001185 conserved cys residue [active] 1173022001186 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1173022001187 gamma-glutamyltranspeptidase; Region: g_glut_trans; TIGR00066 1173022001188 PAS domain S-box; Region: sensory_box; TIGR00229 1173022001189 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 1173022001190 putative active site [active] 1173022001191 heme pocket [chemical binding]; other site 1173022001192 PAS domain S-box; Region: sensory_box; TIGR00229 1173022001193 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 1173022001194 putative active site [active] 1173022001195 heme pocket [chemical binding]; other site 1173022001196 PAS domain; Region: PAS_9; pfam13426 1173022001197 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 1173022001198 dimer interface [polypeptide binding]; other site 1173022001199 phosphorylation site [posttranslational modification] 1173022001200 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 1173022001201 ATP binding site [chemical binding]; other site 1173022001202 Mg2+ binding site [ion binding]; other site 1173022001203 G-X-G motif; other site 1173022001204 PAP2, haloperoxidase_like subfamily. Haloperoxidases catalyze the oxidation of halides such as bromide or chloride by hydrogen peroxide, which results in subsequent halogenation of organic substrates, or halide-assisted disproportionation of hydrogen...; Region: PAP2_haloperoxidase; cd03398 1173022001205 active site 1173022001206 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 1173022001207 FOG: WD40 repeat [General function prediction only]; Region: COG2319 1173022001208 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 1173022001209 structural tetrad; other site 1173022001210 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1173022001211 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 1173022001212 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1173022001213 methionine sulfoxide reductase B; Provisional; Region: PRK00222 1173022001214 SelR domain; Region: SelR; pfam01641 1173022001215 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1173022001216 Beta-lactamase superfamily domain; Region: Lactamase_B_3; pfam13483 1173022001217 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 1173022001218 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1173022001219 substrate binding pocket [chemical binding]; other site 1173022001220 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1173022001221 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1173022001222 Probable transposase; Region: OrfB_IS605; pfam01385 1173022001223 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1173022001224 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 1173022001225 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1173022001226 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1173022001227 metal binding site [ion binding]; metal-binding site 1173022001228 active site 1173022001229 I-site; other site 1173022001230 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 1173022001231 Protein of unknown function (DUF3120); Region: DUF3120; pfam11318 1173022001232 Bacitracin resistance protein BacA; Region: BacA; pfam02673 1173022001233 photosystem I subunit VII; Region: psaC; CHL00065 1173022001234 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 1173022001235 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1173022001236 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 1173022001237 glutaminase active site [active] 1173022001238 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 1173022001239 dimer interface [polypeptide binding]; other site 1173022001240 active site 1173022001241 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 1173022001242 dimer interface [polypeptide binding]; other site 1173022001243 active site 1173022001244 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; pfam08722 1173022001245 TnsA endonuclease C terminal; Region: Tn7_Tnp_TnsA_C; pfam08721 1173022001246 AAA domain; Region: AAA_22; pfam13401 1173022001247 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 1173022001248 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 1173022001249 active site 1173022001250 DNA binding site [nucleotide binding] 1173022001251 Int/Topo IB signature motif; other site 1173022001252 Penicillin amidase; Region: Penicil_amidase; pfam01804 1173022001253 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 1173022001254 Cephalosporin acylase (CA) belongs to a family of beta-lactam acylases that includes penicillin G acylase (PGA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_CA; cd01936 1173022001255 active site 1173022001256 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 1173022001257 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 1173022001258 H+ Antiporter protein; Region: 2A0121; TIGR00900 1173022001259 putative substrate translocation pore; other site 1173022001260 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07769 1173022001261 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 1173022001262 acyl-activating enzyme (AAE) consensus motif; other site 1173022001263 active site 1173022001264 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 1173022001265 Condensation domain; Region: Condensation; pfam00668 1173022001266 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1173022001267 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1173022001268 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1173022001269 acyl-activating enzyme (AAE) consensus motif; other site 1173022001270 AMP binding site [chemical binding]; other site 1173022001271 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1173022001272 Condensation domain; Region: Condensation; pfam00668 1173022001273 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1173022001274 Nonribosomal peptide synthase; Region: NRPS; pfam08415 1173022001275 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 1173022001276 acyl-activating enzyme (AAE) consensus motif; other site 1173022001277 AMP binding site [chemical binding]; other site 1173022001278 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1173022001279 Condensation domain; Region: Condensation; pfam00668 1173022001280 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1173022001281 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1173022001282 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1173022001283 acyl-activating enzyme (AAE) consensus motif; other site 1173022001284 AMP binding site [chemical binding]; other site 1173022001285 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1173022001286 Condensation domain; Region: Condensation; pfam00668 1173022001287 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1173022001288 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1173022001289 acyl-activating enzyme (AAE) consensus motif; other site 1173022001290 AMP binding site [chemical binding]; other site 1173022001291 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1173022001292 Condensation domain; Region: Condensation; pfam00668 1173022001293 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1173022001294 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 1173022001295 Condensation domain; Region: Condensation; pfam00668 1173022001296 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1173022001297 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1173022001298 The adenylation domain of nonribosomal peptide synthetases (NRPS), including salinosporamide A polyketide synthase; Region: A_NRPS_Ta1_like; cd12116 1173022001299 acyl-activating enzyme (AAE) consensus motif; other site 1173022001300 AMP binding site [chemical binding]; other site 1173022001301 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1173022001302 Condensation domain; Region: Condensation; pfam00668 1173022001303 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1173022001304 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1173022001305 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 1173022001306 Condensation domain; Region: Condensation; pfam00668 1173022001307 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1173022001308 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1173022001309 acyl-activating enzyme (AAE) consensus motif; other site 1173022001310 AMP binding site [chemical binding]; other site 1173022001311 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1173022001312 Condensation domain; Region: Condensation; pfam00668 1173022001313 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1173022001314 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1173022001315 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1173022001316 acyl-activating enzyme (AAE) consensus motif; other site 1173022001317 AMP binding site [chemical binding]; other site 1173022001318 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1173022001319 Condensation domain; Region: Condensation; pfam00668 1173022001320 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1173022001321 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1173022001322 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 1173022001323 Condensation domain; Region: Condensation; pfam00668 1173022001324 L-aminoadipate-semialdehyde dehydrogenase; Region: alpha_am_amid; TIGR03443 1173022001325 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1173022001326 acyl-activating enzyme (AAE) consensus motif; other site 1173022001327 AMP binding site [chemical binding]; other site 1173022001328 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1173022001329 extended (e) SDRs, subgroup 1; Region: SDR_e1; cd05235 1173022001330 putative NAD(P) binding site [chemical binding]; other site 1173022001331 active site 1173022001332 putative substrate binding site [chemical binding]; other site 1173022001333 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1173022001334 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1173022001335 AMIN domain; Region: AMIN; pfam11741 1173022001336 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1173022001337 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1173022001338 N-terminal plug; other site 1173022001339 ligand-binding site [chemical binding]; other site 1173022001340 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1173022001341 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 1173022001342 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1173022001343 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1173022001344 Orbivirus outer capsid protein VP5; Region: Orbi_VP5; pfam00901 1173022001345 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 1173022001346 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 1173022001347 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 1173022001348 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 1173022001349 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 1173022001350 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 1173022001351 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 1173022001352 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 1173022001353 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 1173022001354 structural tetrad; other site 1173022001355 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 1173022001356 Transposase [DNA replication, recombination, and repair]; Region: COG5421 1173022001357 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 1173022001358 KWG Leptospira; Region: KWG; pfam07656 1173022001359 Protein of unknown function (DUF3747); Region: DUF3747; pfam12565 1173022001360 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1173022001361 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 1173022001362 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1173022001363 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 1173022001364 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 1173022001365 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 1173022001366 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 1173022001367 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 1173022001368 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 1173022001369 Repeats found in Drosophila proteins; Region: DM9; smart00696 1173022001370 Protein of unknown function (DUF3421); Region: DUF3421; pfam11901 1173022001371 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1173022001372 SPFH domain / Band 7 family; Region: Band_7; pfam01145 1173022001373 Helicase conserved C-terminal domain; Region: Helicase_C_3; pfam13625 1173022001374 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 1173022001375 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 1173022001376 ATP binding site [chemical binding]; other site 1173022001377 putative Mg++ binding site [ion binding]; other site 1173022001378 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 1173022001379 nucleotide binding region [chemical binding]; other site 1173022001380 ATP-binding site [chemical binding]; other site 1173022001381 Helicase conserved C-terminal domain; Region: Helicase_C_3; pfam13625 1173022001382 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1173022001383 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 1173022001384 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1173022001385 Coenzyme A binding pocket [chemical binding]; other site 1173022001386 pyrolysyl-tRNA synthetase; Reviewed; Region: pylS; PRK09537 1173022001387 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1173022001388 DDE superfamily endonuclease; Region: DDE_4_2; pfam13613 1173022001389 DDE superfamily endonuclease; Region: DDE_4; pfam13359 1173022001390 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 1173022001391 active site 1173022001392 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 1173022001393 cofactor binding site; other site 1173022001394 Esterase/lipase [General function prediction only]; Region: COG1647 1173022001395 PGAP1-like protein; Region: PGAP1; pfam07819 1173022001396 CHAT domain; Region: CHAT; cl17868 1173022001397 Protein of unknown function (DUF1822); Region: DUF1822; pfam08852 1173022001398 HEAT repeats; Region: HEAT_2; pfam13646 1173022001399 Protein of unknown function (DUF1822); Region: DUF1822; pfam08852 1173022001400 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1173022001401 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1173022001402 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1173022001403 Probable transposase; Region: OrfB_IS605; pfam01385 1173022001404 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1173022001405 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cd00719 1173022001406 GIY-YIG motif/motif A; other site 1173022001407 active site 1173022001408 catalytic site [active] 1173022001409 metal binding site [ion binding]; metal-binding site 1173022001410 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1173022001411 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 1173022001412 non-specific DNA binding site [nucleotide binding]; other site 1173022001413 salt bridge; other site 1173022001414 sequence-specific DNA binding site [nucleotide binding]; other site 1173022001415 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 1173022001416 non-specific DNA binding site [nucleotide binding]; other site 1173022001417 salt bridge; other site 1173022001418 sequence-specific DNA binding site [nucleotide binding]; other site 1173022001419 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 1173022001420 Transposase [DNA replication, recombination, and repair]; Region: COG5421 1173022001421 KilA-N domain; Region: KilA-N; pfam04383 1173022001422 AbrB-like transcriptional regulator; Region: AbrB-like; pfam14250 1173022001423 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 1173022001424 sequence-specific DNA binding site [nucleotide binding]; other site 1173022001425 salt bridge; other site 1173022001426 CHC2 zinc finger; Region: zf-CHC2; cl17510 1173022001427 CHC2 zinc finger; Region: zf-CHC2; cl17510 1173022001428 2-isopropylmalate synthase; Validated; Region: PRK03739 1173022001429 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 1173022001430 active site 1173022001431 catalytic residues [active] 1173022001432 metal binding site [ion binding]; metal-binding site 1173022001433 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 1173022001434 Ycf46; Provisional; Region: ycf46; CHL00195 1173022001435 ATPase family associated with various cellular activities (AAA); Region: AAA; pfam00004 1173022001436 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 1173022001437 dimer interface [polypeptide binding]; other site 1173022001438 Protein of unknown function (DUF1273); Region: DUF1273; cl01859 1173022001439 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1173022001440 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 1173022001441 P-loop; other site 1173022001442 Magnesium ion binding site [ion binding]; other site 1173022001443 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 1173022001444 Magnesium ion binding site [ion binding]; other site 1173022001445 ParB-like nuclease domain; Region: ParBc; pfam02195 1173022001446 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 1173022001447 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 1173022001448 Mg binding site [ion binding]; other site 1173022001449 nucleotide binding site [chemical binding]; other site 1173022001450 putative protofilament interface [polypeptide binding]; other site 1173022001451 Homeodomain-like domain; Region: HTH_23; pfam13384 1173022001452 Winged helix-turn helix; Region: HTH_29; pfam13551 1173022001453 Winged helix-turn helix; Region: HTH_33; pfam13592 1173022001454 DDE superfamily endonuclease; Region: DDE_3; pfam13358 1173022001455 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 1173022001456 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 1173022001457 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 1173022001458 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 1173022001459 Leucine rich repeat; Region: LRR_8; pfam13855 1173022001460 XisH protein; Region: XisH; pfam08814 1173022001461 XisI protein; Region: XisI; pfam08869 1173022001462 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1173022001463 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 1173022001464 Predicted aspartyl protease [Posttranslational modification, protein turnover, chaperones]; Region: COG5550 1173022001465 Winged helix-turn helix; Region: HTH_29; pfam13551 1173022001466 Winged helix-turn helix; Region: HTH_33; pfam13592 1173022001467 DDE superfamily endonuclease; Region: DDE_3; pfam13358 1173022001468 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 1173022001469 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 1173022001470 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 1173022001471 Walker A motif; other site 1173022001472 ATP binding site [chemical binding]; other site 1173022001473 Walker B motif; other site 1173022001474 arginine finger; other site 1173022001475 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1173022001476 DNA polymerase III subunit delta; Validated; Region: PRK07452 1173022001477 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1173022001478 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 1173022001479 Fe-S cluster binding site [ion binding]; other site 1173022001480 active site 1173022001481 Type IV secretion-system coupling protein DNA-binding domain; Region: TrwB_AAD_bind; pfam10412 1173022001482 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 1173022001483 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 1173022001484 S-adenosylmethionine binding site [chemical binding]; other site 1173022001485 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1173022001486 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 1173022001487 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 1173022001488 active site 1173022001489 DNA binding site [nucleotide binding] 1173022001490 Int/Topo IB signature motif; other site 1173022001491 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 1173022001492 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 1173022001493 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 1173022001494 Leucine-rich repeats; other site 1173022001495 Substrate binding site [chemical binding]; other site 1173022001496 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 1173022001497 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 1173022001498 Leucine rich repeat; Region: LRR_8; pfam13855 1173022001499 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 1173022001500 Protein of unknown function (DUF1348); Region: DUF1348; pfam07080 1173022001501 SnoaL-like domain; Region: SnoaL_2; pfam12680 1173022001502 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 1173022001503 Nitrogen fixation protein of unknown function; Region: Nif11; pfam07862 1173022001504 isochorismate-pyruvate lyase; Reviewed; Region: PRK07075 1173022001505 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1173022001506 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 1173022001507 TPR repeat; Region: TPR_11; pfam13414 1173022001508 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 1173022001509 binding surface 1173022001510 TPR motif; other site 1173022001511 TPR repeat; Region: TPR_11; pfam13414 1173022001512 S-layer homology domain; Region: SLH; pfam00395 1173022001513 S-layer homology domain; Region: SLH; pfam00395 1173022001514 S-layer homology domain; Region: SLH; pfam00395 1173022001515 FOG: WD40 repeat [General function prediction only]; Region: COG2319 1173022001516 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1173022001517 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 1173022001518 ATP binding site [chemical binding]; other site 1173022001519 putative Mg++ binding site [ion binding]; other site 1173022001520 nucleotide binding region [chemical binding]; other site 1173022001521 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1173022001522 ATP-binding site [chemical binding]; other site 1173022001523 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 1173022001524 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 1173022001525 Beta-Casp domain; Region: Beta-Casp; smart01027 1173022001526 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1173022001527 Cupin domain; Region: Cupin_2; cl17218 1173022001528 Cupin domain; Region: Cupin_2; pfam07883 1173022001529 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1173022001530 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1173022001531 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1173022001532 N-terminal Early set domain, a glycogen binding domain, associated with the catalytic domain of AMP-activated protein kinase beta subunit; Region: E_set_AMPKbeta_like_N; cd02859 1173022001533 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 1173022001534 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1173022001535 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1173022001536 NAD(P) binding site [chemical binding]; other site 1173022001537 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 1173022001538 1,4-alpha-glucan branching enzyme [Carbohydrate transport and metabolism]; Region: GlgB; COG0296 1173022001539 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 1173022001540 catalytic site [active] 1173022001541 active site 1173022001542 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 1173022001543 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 1173022001544 Calx-beta domain; Region: Calx-beta; cl02522 1173022001545 Predicted NTPase (NACHT family) [Signal transduction mechanisms]; Region: COG5635 1173022001546 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1173022001547 Walker A/P-loop; other site 1173022001548 ATP binding site [chemical binding]; other site 1173022001549 FOG: WD40 repeat [General function prediction only]; Region: COG2319 1173022001550 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 1173022001551 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1173022001552 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 1173022001553 non-specific DNA binding site [nucleotide binding]; other site 1173022001554 salt bridge; other site 1173022001555 sequence-specific DNA binding site [nucleotide binding]; other site 1173022001556 Double zinc ribbon; Region: DZR; pfam12773 1173022001557 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 1173022001558 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 1173022001559 active site 1173022001560 DNA binding site [nucleotide binding] 1173022001561 Int/Topo IB signature motif; other site 1173022001562 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1173022001563 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 1173022001564 Circadian oscillating protein COP23; Region: COP23; pfam14218 1173022001565 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1173022001566 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1173022001567 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 1173022001568 binding surface 1173022001569 TPR motif; other site 1173022001570 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 1173022001571 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 1173022001572 binding surface 1173022001573 TPR motif; other site 1173022001574 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 1173022001575 binding surface 1173022001576 TPR motif; other site 1173022001577 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 1173022001578 binding surface 1173022001579 TPR motif; other site 1173022001580 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1173022001581 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1173022001582 TPR repeat; Region: TPR_11; pfam13414 1173022001583 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 1173022001584 binding surface 1173022001585 TPR motif; other site 1173022001586 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 1173022001587 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 1173022001588 binding surface 1173022001589 TPR motif; other site 1173022001590 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 1173022001591 binding surface 1173022001592 TPR motif; other site 1173022001593 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 1173022001594 binding surface 1173022001595 TPR motif; other site 1173022001596 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 1173022001597 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 1173022001598 binding surface 1173022001599 TPR motif; other site 1173022001600 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 1173022001601 binding surface 1173022001602 TPR motif; other site 1173022001603 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 1173022001604 binding surface 1173022001605 TPR motif; other site 1173022001606 TPR repeat; Region: TPR_11; pfam13414 1173022001607 Circadian oscillating protein COP23; Region: COP23; pfam14218 1173022001608 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 1173022001609 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1173022001610 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1173022001611 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1173022001612 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1173022001613 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1173022001614 Walker A/P-loop; other site 1173022001615 ATP binding site [chemical binding]; other site 1173022001616 Q-loop/lid; other site 1173022001617 ABC transporter signature motif; other site 1173022001618 Walker B; other site 1173022001619 D-loop; other site 1173022001620 H-loop/switch region; other site 1173022001621 TPR repeat; Region: TPR_11; pfam13414 1173022001622 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 1173022001623 binding surface 1173022001624 TPR motif; other site 1173022001625 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1173022001626 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 1173022001627 active site 1173022001628 extended (e) SDRs; Region: SDR_e; cd08946 1173022001629 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1173022001630 NAD(P) binding site [chemical binding]; other site 1173022001631 active site 1173022001632 substrate binding site [chemical binding]; other site 1173022001633 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1173022001634 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 1173022001635 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 1173022001636 putative active site [active] 1173022001637 Protein of unknown function (DUF2281); Region: DUF2281; cl02355 1173022001638 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1173022001639 type II restriction m6 adenine DNA methyltransferase, Alw26I/Eco31I/Esp3I family; Region: met_A_Alw26; TIGR02987 1173022001640 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 1173022001641 AAA domain; Region: AAA_22; pfam13401 1173022001642 Walker A motif; other site 1173022001643 ATP binding site [chemical binding]; other site 1173022001644 Walker B motif; other site 1173022001645 arginine finger; other site 1173022001646 Integrase core domain; Region: rve; pfam00665 1173022001647 multiple promoter invertase; Provisional; Region: mpi; PRK13413 1173022001648 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 1173022001649 catalytic residues [active] 1173022001650 catalytic nucleophile [active] 1173022001651 Presynaptic Site I dimer interface [polypeptide binding]; other site 1173022001652 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1173022001653 Synaptic Flat tetramer interface [polypeptide binding]; other site 1173022001654 Synaptic Site I dimer interface [polypeptide binding]; other site 1173022001655 DNA binding site [nucleotide binding] 1173022001656 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 1173022001657 DNA-binding interface [nucleotide binding]; DNA binding site 1173022001658 RRXRR protein; Region: RRXRR; pfam14239 1173022001659 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 1173022001660 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 1173022001661 active site 1173022001662 KilA-N domain; Region: KilA-N; pfam04383 1173022001663 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 1173022001664 sequence-specific DNA binding site [nucleotide binding]; other site 1173022001665 salt bridge; other site 1173022001666 AbrB-like transcriptional regulator; Region: AbrB-like; pfam14250 1173022001667 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 1173022001668 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 1173022001669 ATP binding site [chemical binding]; other site 1173022001670 putative Mg++ binding site [ion binding]; other site 1173022001671 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 1173022001672 nucleotide binding region [chemical binding]; other site 1173022001673 ATP-binding site [chemical binding]; other site 1173022001674 Protein of unknown function (DUF1207); Region: DUF1207; pfam06727 1173022001675 DDE superfamily endonuclease; Region: DDE_4_2; pfam13613 1173022001676 DDE superfamily endonuclease; Region: DDE_4; pfam13359 1173022001677 Domain of Unknown Function with PDB structure (DUF3862); Region: DUF3862; pfam12978 1173022001678 NACHT domain; Region: NACHT; pfam05729 1173022001679 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; cd01120 1173022001680 Walker A motif; other site 1173022001681 ATP binding site [chemical binding]; other site 1173022001682 Walker B motif; other site 1173022001683 Restriction endonuclease [Defense mechanisms]; Region: Mrr; COG1715 1173022001684 Mrr N-terminal domain; Region: Mrr_N; pfam14338 1173022001685 Restriction endonuclease; Region: Mrr_cat; pfam04471 1173022001686 GUN4-like; Region: GUN4; pfam05419 1173022001687 Macro domain, Poa1p_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose...; Region: Macro_Poa1p_like; cd02901 1173022001688 ADP-ribose binding site [chemical binding]; other site 1173022001689 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1173022001690 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 1173022001691 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 1173022001692 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1173022001693 classical (c) SDRs; Region: SDR_c; cd05233 1173022001694 NAD(P) binding site [chemical binding]; other site 1173022001695 active site 1173022001696 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 1173022001697 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 1173022001698 cofactor binding site; other site 1173022001699 DNA binding site [nucleotide binding] 1173022001700 substrate interaction site [chemical binding]; other site 1173022001701 Protein-interacting V-domain of mammalian Alix and related domains; Region: V_Alix_like; cl14654 1173022001702 S23 ribosomal protein; Region: Ribosomal_S23p; pfam05635 1173022001703 four helix bundle protein; Region: TIGR02436 1173022001704 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 1173022001705 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 1173022001706 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1173022001707 Transposase [DNA replication, recombination, and repair]; Region: COG5433 1173022001708 Transposase [DNA replication, recombination, and repair]; Region: COG5433 1173022001709 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cd09726 1173022001710 CRISPR/Cas system-associated RAMP superfamily protein Csx10; Region: Csx10; cl17558 1173022001711 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cd09726 1173022001712 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cd09726 1173022001713 CRISPR-associated protein, TIGR03984 family; Region: TIGR03984 1173022001714 CRISPR-associated protein; Region: TIGR03986 1173022001715 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cd09726 1173022001716 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl17214 1173022001717 CRISPR/Cas system-associated protein Csm6; Region: Csm6_III-A; cd09742 1173022001718 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cd09652 1173022001719 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 1173022001720 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 1173022001721 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1173022001722 catalytic residue [active] 1173022001723 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 1173022001724 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1173022001725 Walker A motif; other site 1173022001726 ATP binding site [chemical binding]; other site 1173022001727 Walker B motif; other site 1173022001728 arginine finger; other site 1173022001729 WYL domain; Region: WYL; cl14852 1173022001730 CRISPR/Cas system-associated protein Csx3; Region: Csx3_III-U; cl09837 1173022001731 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1173022001732 active site 1173022001733 ATP binding site [chemical binding]; other site 1173022001734 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1173022001735 substrate binding site [chemical binding]; other site 1173022001736 activation loop (A-loop); other site 1173022001737 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 1173022001738 binding surface 1173022001739 TPR motif; other site 1173022001740 AAA ATPase domain; Region: AAA_16; pfam13191 1173022001741 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cd00161 1173022001742 Ricin-type beta-trefoil lectin domain; Region: Ricin_B_lectin; pfam00652 1173022001743 putative sugar binding sites [chemical binding]; other site 1173022001744 Q-X-W motif; other site 1173022001745 D-mannose binding lectin; Region: B_lectin; pfam01453 1173022001746 Bulb-type mannose-specific lectin. The domain contains a three-fold internal repeat (beta-prism architecture). The consensus sequence motif QXDXNXVXY is involved in alpha-D-mannose recognition. Lectins are carbohydrate-binding proteins which specifically...; Region: B_lectin; cd00028 1173022001747 mannose binding site [chemical binding]; other site 1173022001748 dimerization interface [polypeptide binding]; other site 1173022001749 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1173022001750 Peptidase family M23; Region: Peptidase_M23; pfam01551 1173022001751 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 1173022001752 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 1173022001753 Walker A motif; other site 1173022001754 ATP binding site [chemical binding]; other site 1173022001755 Walker B motif; other site 1173022001756 Uncharacterized conserved protein [Function unknown]; Region: COG1432 1173022001757 LabA_like proteins; Region: LabA; cd10911 1173022001758 putative metal binding site [ion binding]; other site 1173022001759 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 1173022001760 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1173022001761 putative active site [active] 1173022001762 putative NTP binding site [chemical binding]; other site 1173022001763 putative nucleic acid binding site [nucleotide binding]; other site 1173022001764 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cd09634 1173022001765 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 1173022001766 Uncharacterized conserved protein [Function unknown]; Region: COG1432 1173022001767 LabA_like proteins; Region: LabA_like/DUF88; cl10034 1173022001768 putative metal binding site [ion binding]; other site 1173022001769 Prokaryotic E2 family E; Region: Prok-E2_E; pfam14462 1173022001770 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cd01483 1173022001771 ATP binding site [chemical binding]; other site 1173022001772 substrate interface [chemical binding]; other site 1173022001773 DDE superfamily endonuclease; Region: DDE_5; cl17874 1173022001774 Homeodomain-like domain; Region: HTH_23; pfam13384 1173022001775 Winged helix-turn helix; Region: HTH_29; pfam13551 1173022001776 Winged helix-turn helix; Region: HTH_33; pfam13592 1173022001777 DDE superfamily endonuclease; Region: DDE_3; pfam13358 1173022001778 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 1173022001779 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2425 1173022001780 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; cl00057 1173022001781 metal ion-dependent adhesion site (MIDAS); other site 1173022001782 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 1173022001783 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1173022001784 Phage protein Gp37/Gp68; Region: Gp37_Gp68; cl15384 1173022001785 Src Homology 3 domain superfamily; Region: SH3; cl17036 1173022001786 peptide ligand binding site [polypeptide binding]; other site 1173022001787 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 1173022001788 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 1173022001789 Beta-Casp domain; Region: Beta-Casp; smart01027 1173022001790 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1173022001791 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1173022001792 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; pfam02899 1173022001793 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 1173022001794 active site 1173022001795 DNA binding site [nucleotide binding] 1173022001796 Int/Topo IB signature motif; other site 1173022001797 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 1173022001798 active site 1173022001799 DNA binding site [nucleotide binding] 1173022001800 Int/Topo IB signature motif; other site 1173022001801 proteasome-activating nucleotidase; Provisional; Region: PRK03992 1173022001802 Leucine rich repeat; Region: LRR_8; pfam13855 1173022001803 Leucine rich repeat; Region: LRR_8; pfam13855 1173022001804 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 1173022001805 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; cl17321 1173022001806 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1173022001807 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 1173022001808 active site 1173022001809 catalytic residues [active] 1173022001810 DNA binding site [nucleotide binding] 1173022001811 Int/Topo IB signature motif; other site 1173022001812 AAA domain; Region: AAA_22; pfam13401 1173022001813 Integrase core domain; Region: rve; pfam00665 1173022001814 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 1173022001815 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; pfam08722 1173022001816 TnsA endonuclease C terminal; Region: Tn7_Tnp_TnsA_C; pfam08721 1173022001817 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 1173022001818 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 1173022001819 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 1173022001820 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 1173022001821 Leucine-rich repeats; other site 1173022001822 Substrate binding site [chemical binding]; other site 1173022001823 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 1173022001824 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 1173022001825 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 1173022001826 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 1173022001827 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 1173022001828 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 1173022001829 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 1173022001830 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 1173022001831 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1173022001832 SPFH domain / Band 7 family; Region: Band_7; pfam01145 1173022001833 Helicase conserved C-terminal domain; Region: Helicase_C_3; pfam13625 1173022001834 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 1173022001835 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 1173022001836 ATP binding site [chemical binding]; other site 1173022001837 putative Mg++ binding site [ion binding]; other site 1173022001838 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 1173022001839 nucleotide binding region [chemical binding]; other site 1173022001840 ATP-binding site [chemical binding]; other site 1173022001841 Helicase conserved C-terminal domain; Region: Helicase_C_3; pfam13625 1173022001842 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1173022001843 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 1173022001844 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1173022001845 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1173022001846 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1173022001847 ABC transporter; Region: ABC_tran_2; pfam12848 1173022001848 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1173022001849 thiopurine S-methyltransferase, Se/Te detoxification family; Region: TMPT_Se_Te; TIGR03840 1173022001850 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular...; Region: adenosine_kinase; cd01168 1173022001851 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1173022001852 substrate binding site [chemical binding]; other site 1173022001853 ATP binding site [chemical binding]; other site 1173022001854 GAF domain; Region: GAF; cl17456 1173022001855 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1173022001856 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 1173022001857 DNA binding residues [nucleotide binding] 1173022001858 dimerization interface [polypeptide binding]; other site 1173022001859 MAPEG family; Region: MAPEG; cl09190 1173022001860 Probable zinc-binding domain; Region: zf-trcl; pfam13451 1173022001861 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1173022001862 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1173022001863 Probable transposase; Region: OrfB_IS605; pfam01385 1173022001864 TPR repeat; Region: TPR_11; pfam13414 1173022001865 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 1173022001866 binding surface 1173022001867 TPR motif; other site 1173022001868 TPR repeat; Region: TPR_11; pfam13414 1173022001869 Uncharacterized conserved protein [Function unknown]; Region: COG0397 1173022001870 hypothetical protein; Validated; Region: PRK00029 1173022001871 Protein of unknown function (DUF1822); Region: DUF1822; pfam08852 1173022001872 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1173022001873 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 1173022001874 binding surface 1173022001875 TPR motif; other site 1173022001876 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1173022001877 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 1173022001878 TPR motif; other site 1173022001879 binding surface 1173022001880 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 1173022001881 TPR motif; other site 1173022001882 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1173022001883 binding surface 1173022001884 CHAT domain; Region: CHAT; pfam12770 1173022001885 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1173022001886 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 1173022001887 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 1173022001888 Caspase domain; Region: Peptidase_C14; pfam00656 1173022001889 PGAP1-like protein; Region: PGAP1; pfam07819 1173022001890 Caspase domain; Region: Peptidase_C14; pfam00656 1173022001891 AAA ATPase domain; Region: AAA_16; pfam13191 1173022001892 FOG: WD40 repeat [General function prediction only]; Region: COG2319 1173022001893 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 1173022001894 structural tetrad; other site 1173022001895 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 1173022001896 structural tetrad; other site 1173022001897 WD40 repeats; Region: WD40; smart00320 1173022001898 TPR repeat; Region: TPR_11; pfam13414 1173022001899 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 1173022001900 binding surface 1173022001901 TPR motif; other site 1173022001902 TPR repeat; Region: TPR_11; pfam13414 1173022001903 TPR repeat; Region: TPR_11; pfam13414 1173022001904 Domain of unknown function (DUF4344); Region: DUF4344; pfam14247 1173022001905 Piwi-like: PIWI domain. Domain found in proteins involved in RNA silencing. RNA silencing refers to a group of related gene-silencing mechanisms mediated by short RNA molecules, including siRNAs, miRNAs, and heterochromatin-related guide RNAs. The...; Region: Piwi-like; cl00628 1173022001906 5' RNA guide strand anchoring site; other site 1173022001907 active site 1173022001908 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1173022001909 Uncharacterized conserved protein (DUF2246); Region: DUF2246; pfam10229 1173022001910 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 1173022001911 non-specific DNA binding site [nucleotide binding]; other site 1173022001912 salt bridge; other site 1173022001913 sequence-specific DNA binding site [nucleotide binding]; other site 1173022001914 Domain of unknown function (DUF955); Region: DUF955; pfam06114 1173022001915 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 1173022001916 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1173022001917 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 1173022001918 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 1173022001919 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 1173022001920 oligomeric interface; other site 1173022001921 putative active site [active] 1173022001922 homodimer interface [polypeptide binding]; other site 1173022001923 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 1173022001924 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1173022001925 NmrA-like family; Region: NmrA; pfam05368 1173022001926 NAD(P) binding site [chemical binding]; other site 1173022001927 active site 1173022001928 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 1173022001929 active site 1173022001930 substrate binding pocket [chemical binding]; other site 1173022001931 dimer interface [polypeptide binding]; other site 1173022001932 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1173022001933 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1173022001934 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 1173022001935 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 1173022001936 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 1173022001937 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1173022001938 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 1173022001939 dimerization interface [polypeptide binding]; other site 1173022001940 putative DNA binding site [nucleotide binding]; other site 1173022001941 putative Zn2+ binding site [ion binding]; other site 1173022001942 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1173022001943 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1173022001944 Probable transposase; Region: OrfB_IS605; pfam01385 1173022001945 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1173022001946 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 1173022001947 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1173022001948 Phytochelatin synthase; Region: Phytochelatin; pfam05023 1173022001949 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1173022001950 classical (c) SDRs; Region: SDR_c; cd05233 1173022001951 NAD(P) binding site [chemical binding]; other site 1173022001952 active site 1173022001953 C factor cell-cell signaling protein; Provisional; Region: PRK09009 1173022001954 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 1173022001955 NADP binding site [chemical binding]; other site 1173022001956 homodimer interface [polypeptide binding]; other site 1173022001957 active site 1173022001958 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 1173022001959 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1173022001960 active site 1173022001961 catalytic tetrad [active] 1173022001962 Protein of unknown function (DUF2786); Region: DUF2786; pfam10979 1173022001963 recombination factor protein RarA/unknown domain fusion protein; Reviewed; Region: PRK13341 1173022001964 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 1173022001965 Walker A motif; other site 1173022001966 ATP binding site [chemical binding]; other site 1173022001967 Walker B motif; other site 1173022001968 arginine finger; other site 1173022001969 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1173022001970 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 1173022001971 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1173022001972 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1173022001973 Protein of unknown function (DUF3616); Region: DUF3616; pfam12275 1173022001974 glycerol kinase; Provisional; Region: glpK; PRK00047 1173022001975 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 1173022001976 N- and C-terminal domain interface [polypeptide binding]; other site 1173022001977 active site 1173022001978 MgATP binding site [chemical binding]; other site 1173022001979 catalytic site [active] 1173022001980 metal binding site [ion binding]; metal-binding site 1173022001981 glycerol binding site [chemical binding]; other site 1173022001982 homotetramer interface [polypeptide binding]; other site 1173022001983 homodimer interface [polypeptide binding]; other site 1173022001984 FBP binding site [chemical binding]; other site 1173022001985 protein IIAGlc interface [polypeptide binding]; other site 1173022001986 NAD/NADP octopine/nopaline dehydrogenase, alpha-helical domain; Region: Octopine_DH; pfam02317 1173022001987 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1173022001988 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 1173022001989 active site 1173022001990 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1173022001991 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 1173022001992 S-adenosylmethionine binding site [chemical binding]; other site 1173022001993 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 1173022001994 putative active site [active] 1173022001995 putative metal binding site [ion binding]; other site 1173022001996 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 1173022001997 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 1173022001998 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 1173022001999 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 1173022002000 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1173022002001 Multicopper oxidase; Region: Cu-oxidase; pfam00394 1173022002002 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1173022002003 Predicted flavoprotein [General function prediction only]; Region: COG0431 1173022002004 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1173022002005 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 1173022002006 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1173022002007 Walker A/P-loop; other site 1173022002008 ATP binding site [chemical binding]; other site 1173022002009 Q-loop/lid; other site 1173022002010 ABC transporter signature motif; other site 1173022002011 Walker B; other site 1173022002012 D-loop; other site 1173022002013 H-loop/switch region; other site 1173022002014 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 1173022002015 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 1173022002016 dimer interface [polypeptide binding]; other site 1173022002017 conserved gate region; other site 1173022002018 putative PBP binding loops; other site 1173022002019 ABC-ATPase subunit interface; other site 1173022002020 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 1173022002021 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 1173022002022 dimer interface [polypeptide binding]; other site 1173022002023 conserved gate region; other site 1173022002024 putative PBP binding loops; other site 1173022002025 ABC-ATPase subunit interface; other site 1173022002026 PBP superfamily domain; Region: PBP_like_2; cl17296 1173022002027 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1173022002028 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1173022002029 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 1173022002030 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1173022002031 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 1173022002032 ligand-binding site [chemical binding]; other site 1173022002033 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 1173022002034 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 1173022002035 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 1173022002036 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 1173022002037 Chromate transporter; Region: Chromate_transp; pfam02417 1173022002038 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1173022002039 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1173022002040 Coenzyme A binding pocket [chemical binding]; other site 1173022002041 Cache domain; Region: Cache_1; pfam02743 1173022002042 HAMP domain; Region: HAMP; pfam00672 1173022002043 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 1173022002044 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1173022002045 putative active site [active] 1173022002046 heme pocket [chemical binding]; other site 1173022002047 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 1173022002048 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1173022002049 putative active site [active] 1173022002050 heme pocket [chemical binding]; other site 1173022002051 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 1173022002052 putative active site [active] 1173022002053 heme pocket [chemical binding]; other site 1173022002054 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 1173022002055 dimer interface [polypeptide binding]; other site 1173022002056 phosphorylation site [posttranslational modification] 1173022002057 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 1173022002058 ATP binding site [chemical binding]; other site 1173022002059 Mg2+ binding site [ion binding]; other site 1173022002060 G-X-G motif; other site 1173022002061 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1173022002062 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 1173022002063 active site 1173022002064 phosphorylation site [posttranslational modification] 1173022002065 intermolecular recognition site; other site 1173022002066 dimerization interface [polypeptide binding]; other site 1173022002067 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 1173022002068 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 1173022002069 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 1173022002070 YcfA-like protein; Region: YcfA; cl00752 1173022002071 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 1173022002072 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 1173022002073 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 1173022002074 active site 1173022002075 dimer interface [polypeptide binding]; other site 1173022002076 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 1173022002077 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 1173022002078 active site 1173022002079 FMN binding site [chemical binding]; other site 1173022002080 substrate binding site [chemical binding]; other site 1173022002081 3Fe-4S cluster binding site [ion binding]; other site 1173022002082 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 1173022002083 domain interface; other site 1173022002084 PIN domain; Region: PIN_3; cl17397 1173022002085 glutamate synthases, NADH/NADPH, small subunit; Region: GOGAT_sm_gam; TIGR01317 1173022002086 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1173022002087 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1173022002088 Predicted membrane protein [Function unknown]; Region: COG4270 1173022002089 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 1173022002090 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022002091 active site 1173022002092 phosphorylation site [posttranslational modification] 1173022002093 intermolecular recognition site; other site 1173022002094 dimerization interface [polypeptide binding]; other site 1173022002095 Domain of unknown function (DUF4349); Region: DUF4349; pfam14257 1173022002096 aspartate aminotransferase; Provisional; Region: PRK05957 1173022002097 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 1173022002098 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1173022002099 homodimer interface [polypeptide binding]; other site 1173022002100 catalytic residue [active] 1173022002101 Transcriptional regulator [Transcription]; Region: LytR; COG1316 1173022002102 Orange carotenoid protein, N-terminal; Region: Carot_N; pfam09150 1173022002103 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1173022002104 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1173022002105 Walker A/P-loop; other site 1173022002106 ATP binding site [chemical binding]; other site 1173022002107 Q-loop/lid; other site 1173022002108 ABC transporter signature motif; other site 1173022002109 Walker B; other site 1173022002110 D-loop; other site 1173022002111 H-loop/switch region; other site 1173022002112 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1173022002113 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1173022002114 FtsX-like permease family; Region: FtsX; pfam02687 1173022002115 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1173022002116 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 1173022002117 HlyD family secretion protein; Region: HlyD_3; pfam13437 1173022002118 PAS fold; Region: PAS_4; pfam08448 1173022002119 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 1173022002120 PAS fold; Region: PAS_3; pfam08447 1173022002121 putative active site [active] 1173022002122 heme pocket [chemical binding]; other site 1173022002123 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1173022002124 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 1173022002125 dimer interface [polypeptide binding]; other site 1173022002126 phosphorylation site [posttranslational modification] 1173022002127 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 1173022002128 ATP binding site [chemical binding]; other site 1173022002129 Mg2+ binding site [ion binding]; other site 1173022002130 G-X-G motif; other site 1173022002131 TPR repeat; Region: TPR_11; pfam13414 1173022002132 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 1173022002133 binding surface 1173022002134 TPR motif; other site 1173022002135 TPR repeat; Region: TPR_11; pfam13414 1173022002136 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 1173022002137 binding surface 1173022002138 TPR repeat; Region: TPR_11; pfam13414 1173022002139 TPR motif; other site 1173022002140 TPR repeat; Region: TPR_11; pfam13414 1173022002141 DNA gyrase subunit A; Validated; Region: PRK05560 1173022002142 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 1173022002143 CAP-like domain; other site 1173022002144 active site 1173022002145 primary dimer interface [polypeptide binding]; other site 1173022002146 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1173022002147 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1173022002148 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1173022002149 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1173022002150 hypothetical protein; Provisional; Region: PRK06185 1173022002151 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1173022002152 Rieske non-heme iron oxygenase (RO) family, Pheophorbide a oxygenase (PaO) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; composed of the oxygenase alpha subunits of a small subfamily of enzymes found in plants as well as oxygenic...; Region: Rieske_RO_Alpha_PaO; cd03480 1173022002153 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1173022002154 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1173022002155 hydrophobic ligand binding site; other site 1173022002156 Pheophorbide a oxygenase; Region: PaO; pfam08417 1173022002157 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1173022002158 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1173022002159 Walker A/P-loop; other site 1173022002160 ATP binding site [chemical binding]; other site 1173022002161 Q-loop/lid; other site 1173022002162 ABC transporter signature motif; other site 1173022002163 Walker B; other site 1173022002164 D-loop; other site 1173022002165 H-loop/switch region; other site 1173022002166 TOBE domain; Region: TOBE_2; pfam08402 1173022002167 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1173022002168 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1173022002169 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1173022002170 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1173022002171 Walker A/P-loop; other site 1173022002172 ATP binding site [chemical binding]; other site 1173022002173 Q-loop/lid; other site 1173022002174 ABC transporter signature motif; other site 1173022002175 Walker B; other site 1173022002176 D-loop; other site 1173022002177 H-loop/switch region; other site 1173022002178 PAS domain S-box; Region: sensory_box; TIGR00229 1173022002179 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 1173022002180 putative active site [active] 1173022002181 heme pocket [chemical binding]; other site 1173022002182 PAS fold; Region: PAS_4; pfam08448 1173022002183 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 1173022002184 putative active site [active] 1173022002185 heme pocket [chemical binding]; other site 1173022002186 PAS domain S-box; Region: sensory_box; TIGR00229 1173022002187 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 1173022002188 putative active site [active] 1173022002189 heme pocket [chemical binding]; other site 1173022002190 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1173022002191 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 1173022002192 dimer interface [polypeptide binding]; other site 1173022002193 phosphorylation site [posttranslational modification] 1173022002194 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 1173022002195 ATP binding site [chemical binding]; other site 1173022002196 Mg2+ binding site [ion binding]; other site 1173022002197 G-X-G motif; other site 1173022002198 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022002199 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 1173022002200 active site 1173022002201 phosphorylation site [posttranslational modification] 1173022002202 intermolecular recognition site; other site 1173022002203 dimerization interface [polypeptide binding]; other site 1173022002204 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022002205 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 1173022002206 active site 1173022002207 phosphorylation site [posttranslational modification] 1173022002208 intermolecular recognition site; other site 1173022002209 dimerization interface [polypeptide binding]; other site 1173022002210 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 1173022002211 putative binding surface; other site 1173022002212 active site 1173022002213 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1173022002214 substrate binding site; other site 1173022002215 dimer interface; other site 1173022002216 Haemolysin XhlA; Region: XhlA; pfam10779 1173022002217 FOG: CBS domain [General function prediction only]; Region: COG0517 1173022002218 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 1173022002219 FOG: CBS domain [General function prediction only]; Region: COG0517 1173022002220 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with a PAS domain, a GGDEF (DiGuanylate-Cyclase (DGC) domain, and a DUF1 domain downstream. PAS domains have been found to bind ligands, and to act...; Region: CBS_pair_PAS_GGDEF_DUF1_assoc; cd04611 1173022002221 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022002222 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1173022002223 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1173022002224 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 1173022002225 dimer interface [polypeptide binding]; other site 1173022002226 phosphorylation site [posttranslational modification] 1173022002227 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 1173022002228 ATP binding site [chemical binding]; other site 1173022002229 Mg2+ binding site [ion binding]; other site 1173022002230 G-X-G motif; other site 1173022002231 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 1173022002232 phosphopeptide binding site; other site 1173022002233 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 1173022002234 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 1173022002235 phosphopeptide binding site; other site 1173022002236 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1173022002237 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 1173022002238 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: cytochrome_b_C; cd00290 1173022002239 interchain domain interface [polypeptide binding]; other site 1173022002240 intrachain domain interface; other site 1173022002241 Qi binding site; other site 1173022002242 Qo binding site; other site 1173022002243 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 1173022002244 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 1173022002245 Qi binding site; other site 1173022002246 intrachain domain interface; other site 1173022002247 interchain domain interface [polypeptide binding]; other site 1173022002248 heme bH binding site [chemical binding]; other site 1173022002249 heme bL binding site [chemical binding]; other site 1173022002250 Qo binding site; other site 1173022002251 carboxyl-terminal processing protease; Provisional; Region: PLN00049 1173022002252 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1173022002253 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 1173022002254 protein binding site [polypeptide binding]; other site 1173022002255 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1173022002256 Catalytic dyad [active] 1173022002257 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1173022002258 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_2; cd06160 1173022002259 Peptidase family M50; Region: Peptidase_M50; pfam02163 1173022002260 active site 1173022002261 putative substrate binding region [chemical binding]; other site 1173022002262 Bacterial SH3 domain; Region: SH3_3; pfam08239 1173022002263 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 1173022002264 Glucose inhibited division protein A; Region: GIDA; pfam01134 1173022002265 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1173022002266 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1173022002267 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 1173022002268 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 1173022002269 polyphosphate:nucleotide phosphotransferase, PPK2 family; Region: PPK2_rel_1; TIGR03709 1173022002270 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 1173022002271 Amidinotransferase; Region: Amidinotransf; cl12043 1173022002272 Uncharacterized conserved protein [Function unknown]; Region: COG1915 1173022002273 Saccharopine dehydrogenase N-terminal domain; Region: SDH_N_domain; cd12144 1173022002274 homodimer interface [polypeptide binding]; other site 1173022002275 Predicted NAD/FAD-dependent oxidoreductase [General function prediction only]; Region: COG3380 1173022002276 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1173022002277 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4735 1173022002278 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 1173022002279 O-Antigen ligase; Region: Wzy_C; pfam04932 1173022002280 Tryptophan-rich sensory protein (mitochondrial benzodiazepine receptor homolog) [Signal transduction mechanisms]; Region: COG3476 1173022002281 Domain of unknown function (DUF4385); Region: DUF4385; pfam14328 1173022002282 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1173022002283 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 1173022002284 active site 1173022002285 metal binding site [ion binding]; metal-binding site 1173022002286 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1173022002287 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1173022002288 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 1173022002289 motif II; other site 1173022002290 Uncharacterized protein conserved in bacteria (DUF2237); Region: DUF2237; pfam09996 1173022002291 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1173022002292 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 1173022002293 iron-sulfur cluster [ion binding]; other site 1173022002294 [2Fe-2S] cluster binding site [ion binding]; other site 1173022002295 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1173022002296 Pheophorbide a oxygenase; Region: PaO; pfam08417 1173022002297 Agmatinase and related proteins; Region: Agmatinase-like_2; cd11593 1173022002298 putative active site [active] 1173022002299 Mn binding site [ion binding]; other site 1173022002300 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 1173022002301 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1173022002302 Coenzyme A binding pocket [chemical binding]; other site 1173022002303 Putative addiction module component; Region: Unstab_antitox; pfam09720 1173022002304 Prophage maintenance system killer protein [General function prediction only]; Region: Doc; COG3654 1173022002305 L,L-diaminopimelate aminotransferase; Validated; Region: PRK07590 1173022002306 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 1173022002307 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1173022002308 homodimer interface [polypeptide binding]; other site 1173022002309 catalytic residue [active] 1173022002310 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 1173022002311 MltA specific insert domain; Region: MltA; pfam03562 1173022002312 3D domain; Region: 3D; pfam06725 1173022002313 Protein of unknown function (DUF3754); Region: DUF3754; pfam12576 1173022002314 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 1173022002315 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1173022002316 nucleotide binding site [chemical binding]; other site 1173022002317 Mitochondrial biogenesis AIM24; Region: AIM24; pfam01987 1173022002318 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1173022002319 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1173022002320 active site 1173022002321 ATP binding site [chemical binding]; other site 1173022002322 substrate binding site [chemical binding]; other site 1173022002323 activation loop (A-loop); other site 1173022002324 prefoldin subunit beta; Provisional; Region: PRK09343 1173022002325 RNA 3'-terminal-phosphate cyclase; Provisional; Region: PRK04204 1173022002326 RNA 3' phosphate cyclase domain (class II). These proteins function as RNA cyclase to catalyze the ATP-dependent conversion of 3'-phosphate to a 2'.3'-cyclic phosphodiester at the end of RNA molecule. A conserved catalytic histidine...; Region: RNA_Cyclase_Class_II; cd00874 1173022002327 putative active site [active] 1173022002328 adenylation catalytic residue [active] 1173022002329 Protein of unknown function (DUF1092); Region: DUF1092; pfam06485 1173022002330 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 1173022002331 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1173022002332 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 1173022002333 Cl- selectivity filter; other site 1173022002334 Cl- binding residues [ion binding]; other site 1173022002335 pore gating glutamate residue; other site 1173022002336 dimer interface [polypeptide binding]; other site 1173022002337 H+/Cl- coupling transport residue; other site 1173022002338 FOG: CBS domain [General function prediction only]; Region: COG0517 1173022002339 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with either the SpoIVFB domain (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) or the chloride channel protein EriC; Region: CBS_pair_SpoIVFB_EriC_assoc; cd04612 1173022002340 The C-terminal domain of a subfamily of Na+ /H+ antiporter existed in bacteria and archea . Na+/H+ exchange proteins eject protons from cells, effectively eliminating excess acid from actively metabolising cells. Na+ /H+ exchange activity is also crucial...; Region: Na_H_Antiporter_C; cd01988 1173022002341 Ligand Binding Site [chemical binding]; other site 1173022002342 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 1173022002343 Ligand Binding Site [chemical binding]; other site 1173022002344 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1173022002345 catalytic site [active] 1173022002346 putative active site [active] 1173022002347 putative substrate binding site [chemical binding]; other site 1173022002348 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1173022002349 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022002350 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1173022002351 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022002352 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 1173022002353 active site 1173022002354 dimer interface [polypeptide binding]; other site 1173022002355 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1173022002356 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1173022002357 active site 1173022002358 HIGH motif; other site 1173022002359 dimer interface [polypeptide binding]; other site 1173022002360 KMSKS motif; other site 1173022002361 S4 domain; Region: S4; pfam01479 1173022002362 Transglycosylase; Region: Transgly; pfam00912 1173022002363 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1173022002364 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1173022002365 Domain of unknown function (DUF1825); Region: DUF1825; pfam08855 1173022002366 Predicted membrane protein [Function unknown]; Region: XynA; COG2314 1173022002367 DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]; Region: ComEA; COG1555 1173022002368 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1173022002369 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 1173022002370 Catalytic site [active] 1173022002371 S-layer homology domain; Region: SLH; pfam00395 1173022002372 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1173022002373 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 1173022002374 M42 glutamyl aminopeptidase; Region: Peptidase_M42; pfam05343 1173022002375 FOG: CBS domain [General function prediction only]; Region: COG0517 1173022002376 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the BON (bacterial OsmY and nodulation domain) domain. BON is a putative phospholipid-binding domain found in a family of osmotic shock protection...; Region: CBS_pair_BON_assoc; cd04586 1173022002377 HEAT repeats; Region: HEAT_2; pfam13646 1173022002378 HEAT repeats; Region: HEAT_2; pfam13646 1173022002379 WYL domain; Region: WYL; pfam13280 1173022002380 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 1173022002381 CRISPR-associated helicase Cas3, subtype CYANO; Region: cas3_cyano; TIGR03158 1173022002382 CRISPR/Cas system-associated protein Cas10d; Region: Cas10d_I-D; cd09712 1173022002383 CRISPR type I-D/CYANO-associated protein Csc3/Cas10d; Region: cas_Csc3; TIGR03174 1173022002384 CRISPR/Cas system-associated protein Csc2; Region: Csc2_I-D; cl11869 1173022002385 CRISPR/Cas system-associated protein Csc1; Region: Csc1_I-D; cd09711 1173022002386 CRISPR type I-D/CYANO-associated protein Csc1; Region: cas_Csc1; TIGR03159 1173022002387 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cd09652 1173022002388 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cd09637 1173022002389 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 1173022002390 HEAT repeats; Region: HEAT_2; pfam13646 1173022002391 HEAT repeats; Region: HEAT_2; pfam13646 1173022002392 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 1173022002393 Histone acetyltransferase HPA2 and related acetyltransferases [Transcription / General function prediction only]; Region: WecD; COG0454 1173022002394 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1173022002395 Coenzyme A binding pocket [chemical binding]; other site 1173022002396 AmpG-like permease; Region: 2A0125; TIGR00901 1173022002397 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 1173022002398 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 1173022002399 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 1173022002400 Catalytic site [active] 1173022002401 ornithine carbamoyltransferase; Provisional; Region: PRK00779 1173022002402 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1173022002403 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1173022002404 Alpha/beta hydrolase of unknown function (DUF1400); Region: DUF1400; pfam07176 1173022002405 Predicted dienelactone hydrolase [General function prediction only]; Region: COG4188 1173022002406 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1173022002407 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1173022002408 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 1173022002409 binding surface 1173022002410 TPR motif; other site 1173022002411 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1173022002412 RimM N-terminal domain; Region: RimM; pfam01782 1173022002413 PRC-barrel domain; Region: PRC; pfam05239 1173022002414 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1173022002415 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1173022002416 Probable transposase; Region: OrfB_IS605; pfam01385 1173022002417 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1173022002418 BsuBI/PstI restriction endonuclease C-terminus; Region: BsuBI_PstI_RE; pfam06616 1173022002419 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1173022002420 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 1173022002421 binding surface 1173022002422 TPR motif; other site 1173022002423 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1173022002424 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 1173022002425 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 1173022002426 ATP binding site [chemical binding]; other site 1173022002427 Mg2+ binding site [ion binding]; other site 1173022002428 G-X-G motif; other site 1173022002429 Predicted permeases [General function prediction only]; Region: COG0701 1173022002430 TIGR03943 family protein; Region: TIGR03943 1173022002431 Bacterial Ig-like domain; Region: Big_5; pfam13205 1173022002432 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 1173022002433 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 1173022002434 PAS fold; Region: PAS_3; pfam08447 1173022002435 putative active site [active] 1173022002436 heme pocket [chemical binding]; other site 1173022002437 PAS domain S-box; Region: sensory_box; TIGR00229 1173022002438 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 1173022002439 putative active site [active] 1173022002440 heme pocket [chemical binding]; other site 1173022002441 PAS fold; Region: PAS_4; pfam08448 1173022002442 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 1173022002443 PAS fold; Region: PAS_3; pfam08447 1173022002444 putative active site [active] 1173022002445 heme pocket [chemical binding]; other site 1173022002446 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1173022002447 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 1173022002448 dimer interface [polypeptide binding]; other site 1173022002449 phosphorylation site [posttranslational modification] 1173022002450 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 1173022002451 ATP binding site [chemical binding]; other site 1173022002452 Mg2+ binding site [ion binding]; other site 1173022002453 G-X-G motif; other site 1173022002454 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1173022002455 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 1173022002456 active site 1173022002457 phosphorylation site [posttranslational modification] 1173022002458 intermolecular recognition site; other site 1173022002459 dimerization interface [polypeptide binding]; other site 1173022002460 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 1173022002461 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 1173022002462 birA, biotin-[acetyl-CoA-carboxylase] ligase region; Region: birA_ligase; TIGR00121 1173022002463 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 1173022002464 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1173022002465 Peptidase family M23; Region: Peptidase_M23; pfam01551 1173022002466 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 1173022002467 Lumazine binding domain; Region: Lum_binding; pfam00677 1173022002468 Lumazine binding domain; Region: Lum_binding; pfam00677 1173022002469 Bifunctional nuclease; Region: DNase-RNase; pfam02577 1173022002470 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 1173022002471 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 1173022002472 active site 1173022002473 catalytic tetrad [active] 1173022002474 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1173022002475 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 1173022002476 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 1173022002477 putative dimer interface [polypeptide binding]; other site 1173022002478 active site pocket [active] 1173022002479 Predicted membrane protein (DUF2232); Region: DUF2232; cl01728 1173022002480 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 1173022002481 Ligand Binding Site [chemical binding]; other site 1173022002482 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1173022002483 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 1173022002484 ligand binding site [chemical binding]; other site 1173022002485 flexible hinge region; other site 1173022002486 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 1173022002487 putative switch regulator; other site 1173022002488 non-specific DNA interactions [nucleotide binding]; other site 1173022002489 DNA binding site [nucleotide binding] 1173022002490 sequence specific DNA binding site [nucleotide binding]; other site 1173022002491 putative cAMP binding site [chemical binding]; other site 1173022002492 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1173022002493 active site 1173022002494 ATP binding site [chemical binding]; other site 1173022002495 substrate binding site [chemical binding]; other site 1173022002496 activation loop (A-loop); other site 1173022002497 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1173022002498 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1173022002499 atypical (a) SDRs, subgroup 1; Region: SDR_a1; cd05265 1173022002500 putative NAD(P) binding site [chemical binding]; other site 1173022002501 active site 1173022002502 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 1173022002503 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 1173022002504 putative active site [active] 1173022002505 Repair protein; Region: Repair_PSII; pfam04536 1173022002506 Dihydropteroate synthase and related enzymes [Coenzyme metabolism]; Region: FolP; COG0294 1173022002507 Domain of unknown function (DUF4346); Region: DUF4346; pfam14251 1173022002508 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3146 1173022002509 Protein of unknown function, DUF482; Region: DUF482; pfam04339 1173022002510 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 1173022002511 RibD C-terminal domain; Region: RibD_C; cl17279 1173022002512 ribonuclease III; Reviewed; Region: rnc; PRK00102 1173022002513 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 1173022002514 dimerization interface [polypeptide binding]; other site 1173022002515 active site 1173022002516 metal binding site [ion binding]; metal-binding site 1173022002517 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 1173022002518 dsRNA binding site [nucleotide binding]; other site 1173022002519 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 1173022002520 putative active site [active] 1173022002521 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1173022002522 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1173022002523 The C-terminal domain of a subfamily of Na+ /H+ antiporter existed in bacteria and archea . Na+/H+ exchange proteins eject protons from cells, effectively eliminating excess acid from actively metabolising cells. Na+ /H+ exchange activity is also crucial...; Region: Na_H_Antiporter_C; cd01988 1173022002524 Ligand Binding Site [chemical binding]; other site 1173022002525 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 1173022002526 Ligand Binding Site [chemical binding]; other site 1173022002527 Protein of unknown function (DUF3252); Region: DUF3252; pfam11623 1173022002528 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 1173022002529 Domain of unknown function DUF59; Region: DUF59; pfam01883 1173022002530 antiporter inner membrane protein; Provisional; Region: PRK11670 1173022002531 MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions...; Region: MRP-like; cd02037 1173022002532 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 1173022002533 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 1173022002534 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 1173022002535 anti sigma factor interaction site; other site 1173022002536 regulatory phosphorylation site [posttranslational modification]; other site 1173022002537 CpeT/CpcT family (DUF1001); Region: CpeT; pfam06206 1173022002538 Thf1-like protein; Reviewed; Region: PRK13266 1173022002539 photosystem II biogenesis protein Psp29; Region: PS_II_psb29; TIGR03060 1173022002540 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 1173022002541 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1173022002542 catalytic residues [active] 1173022002543 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1173022002544 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1173022002545 NAD(P) binding site [chemical binding]; other site 1173022002546 homotetramer interface [polypeptide binding]; other site 1173022002547 homodimer interface [polypeptide binding]; other site 1173022002548 active site 1173022002549 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1173022002550 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 1173022002551 ring oligomerisation interface [polypeptide binding]; other site 1173022002552 ATP/Mg binding site [chemical binding]; other site 1173022002553 stacking interactions; other site 1173022002554 hinge regions; other site 1173022002555 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 1173022002556 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1173022002557 Thermotoga maritima CorA_like subfamily; Region: TmCorA-like_1; cd12828 1173022002558 oligomer interface [polypeptide binding]; other site 1173022002559 metal binding site [ion binding]; metal-binding site 1173022002560 metal binding site [ion binding]; metal-binding site 1173022002561 Cl binding site [ion binding]; other site 1173022002562 aspartate ring; other site 1173022002563 basic sphincter; other site 1173022002564 putative hydrophobic gate; other site 1173022002565 periplasmic entrance; other site 1173022002566 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 1173022002567 Phosphoenolpyruvate carboxylase; Region: PEPcase; pfam00311 1173022002568 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 1173022002569 Lipase (class 3). 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...; Region: Lipase_3; cd00519 1173022002570 active site flap/lid [active] 1173022002571 nucleophilic elbow; other site 1173022002572 catalytic triad [active] 1173022002573 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 1173022002574 putative active site [active] 1173022002575 Protein of unknown function (DUF2993); Region: DUF2993; pfam11209 1173022002576 hydrolase, alpha/beta fold family protein; Region: PLN02824 1173022002577 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 1173022002578 catalytic site [active] 1173022002579 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 1173022002580 CAAX protease self-immunity; Region: Abi; pfam02517 1173022002581 Domain of unknown function DUF29; Region: DUF29; pfam01724 1173022002582 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1173022002583 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022002584 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022002585 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1173022002586 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022002587 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022002588 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022002589 Sensory domain found in DIguanylate Cyclases & Two-component systems; Region: DICT; cl01731 1173022002590 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1173022002591 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 1173022002592 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 1173022002593 FeS/SAM binding site; other site 1173022002594 Domain of unknown function (DUF1830); Region: DUF1830; pfam08865 1173022002595 Protein of unknown function (DUF4079); Region: DUF4079; pfam13301 1173022002596 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 1173022002597 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1173022002598 Haemolysin XhlA; Region: XhlA; pfam10779 1173022002599 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 1173022002600 ThiS interaction site; other site 1173022002601 putative active site [active] 1173022002602 tetramer interface [polypeptide binding]; other site 1173022002603 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1173022002604 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 1173022002605 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 1173022002606 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 1173022002607 Domain of unknown function (DUF4070); Region: DUF4070; pfam13282 1173022002608 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 1173022002609 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1173022002610 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1173022002611 active site 1173022002612 Domain of unknown function (DUF1816); Region: DUF1816; pfam08846 1173022002613 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1173022002614 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1173022002615 Circadian oscillating protein COP23; Region: COP23; pfam14218 1173022002616 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1173022002617 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 1173022002618 active site 1173022002619 ATP binding site [chemical binding]; other site 1173022002620 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1173022002621 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1173022002622 active site 1173022002623 ATP binding site [chemical binding]; other site 1173022002624 substrate binding site [chemical binding]; other site 1173022002625 activation loop (A-loop); other site 1173022002626 Domain of unknown function (DUF1795); Region: DUF1795; cl02256 1173022002627 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 1173022002628 ATP-binding site [chemical binding]; other site 1173022002629 Gluconate-6-phosphate binding site [chemical binding]; other site 1173022002630 Shikimate kinase; Region: SKI; pfam01202 1173022002631 TPR repeat; Region: TPR_11; pfam13414 1173022002632 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 1173022002633 binding surface 1173022002634 TPR motif; other site 1173022002635 TPR repeat; Region: TPR_11; pfam13414 1173022002636 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 1173022002637 binding surface 1173022002638 TPR motif; other site 1173022002639 TPR repeat; Region: TPR_11; pfam13414 1173022002640 PsbP; Region: PsbP; pfam01789 1173022002641 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 1173022002642 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1173022002643 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1173022002644 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 1173022002645 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1173022002646 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 1173022002647 NAD binding site [chemical binding]; other site 1173022002648 putative substrate binding site 2 [chemical binding]; other site 1173022002649 putative substrate binding site 1 [chemical binding]; other site 1173022002650 active site 1173022002651 GTP-binding protein LepA; Provisional; Region: PRK05433 1173022002652 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1173022002653 G1 box; other site 1173022002654 putative GEF interaction site [polypeptide binding]; other site 1173022002655 GTP/Mg2+ binding site [chemical binding]; other site 1173022002656 Switch I region; other site 1173022002657 G2 box; other site 1173022002658 G3 box; other site 1173022002659 Switch II region; other site 1173022002660 G4 box; other site 1173022002661 G5 box; other site 1173022002662 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 1173022002663 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 1173022002664 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1173022002665 Protein of unknown function (DUF3386); Region: DUF3386; pfam11866 1173022002666 NifU-like domain; Region: NifU; pfam01106 1173022002667 Alpha-amylase/alpha-mannosidase [Carbohydrate transport and metabolism]; Region: COG1449 1173022002668 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 1173022002669 N-terminal catalytic domain of thermoactive amylopullulanases; glycoside hydrolase family 57 (GH57); Region: GH57N_APU; cd10796 1173022002670 putative active site [active] 1173022002671 catalytic site [active] 1173022002672 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 1173022002673 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1173022002674 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII; cd09992 1173022002675 active site 1173022002676 Zn binding site [ion binding]; other site 1173022002677 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1173022002678 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 1173022002679 binding surface 1173022002680 TPR motif; other site 1173022002681 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 1173022002682 TPR motif; other site 1173022002683 TPR repeat; Region: TPR_11; pfam13414 1173022002684 binding surface 1173022002685 Tetratricopeptide repeat; Region: TPR_9; pfam13371 1173022002686 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 1173022002687 binding surface 1173022002688 TPR motif; other site 1173022002689 TPR repeat; Region: TPR_11; pfam13414 1173022002690 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 1173022002691 binding surface 1173022002692 TPR motif; other site 1173022002693 TPR repeat; Region: TPR_11; pfam13414 1173022002694 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022002695 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 1173022002696 active site 1173022002697 phosphorylation site [posttranslational modification] 1173022002698 intermolecular recognition site; other site 1173022002699 dimerization interface [polypeptide binding]; other site 1173022002700 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 1173022002701 catalytic core [active] 1173022002702 Uncharacterized conserved protein [Function unknown]; Region: COG5464 1173022002703 Protein of unknown function (DUF2887); Region: DUF2887; pfam11103 1173022002704 Domain of unknown function (DUF4351); Region: DUF4351; pfam14261 1173022002705 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 1173022002706 putative active site [active] 1173022002707 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022002708 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1173022002709 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022002710 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022002711 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022002712 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022002713 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022002714 iron-sulfur cluster biosynthesis transcriptional regulator SufR; Region: SufR_cyano; TIGR02702 1173022002715 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 1173022002716 putative DNA binding site [nucleotide binding]; other site 1173022002717 putative Zn2+ binding site [ion binding]; other site 1173022002718 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 1173022002719 putative ABC transporter; Region: ycf24; CHL00085 1173022002720 sulfate ABC transporter protein; Validated; Region: ycf16; CHL00131 1173022002721 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 1173022002722 Walker A/P-loop; other site 1173022002723 ATP binding site [chemical binding]; other site 1173022002724 Q-loop/lid; other site 1173022002725 ABC transporter signature motif; other site 1173022002726 Walker B; other site 1173022002727 D-loop; other site 1173022002728 H-loop/switch region; other site 1173022002729 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 1173022002730 FeS assembly protein SufD; Region: sufD; TIGR01981 1173022002731 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1173022002732 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 1173022002733 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1173022002734 catalytic residue [active] 1173022002735 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; pfam09907 1173022002736 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 1173022002737 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 1173022002738 putative active site [active] 1173022002739 catalytic triad [active] 1173022002740 putative dimer interface [polypeptide binding]; other site 1173022002741 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 1173022002742 ATP-dependent Clp protease adaptor; Reviewed; Region: clpS; PRK13019 1173022002743 Predicted metal-binding protein (DUF2103); Region: DUF2103; cl01651 1173022002744 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 1173022002745 MoaE homodimer interface [polypeptide binding]; other site 1173022002746 MoaD interaction [polypeptide binding]; other site 1173022002747 active site residues [active] 1173022002748 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022002749 GAF domain; Region: GAF; pfam01590 1173022002750 PAS domain S-box; Region: sensory_box; TIGR00229 1173022002751 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 1173022002752 putative active site [active] 1173022002753 heme pocket [chemical binding]; other site 1173022002754 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 1173022002755 PAS fold; Region: PAS_3; pfam08447 1173022002756 putative active site [active] 1173022002757 heme pocket [chemical binding]; other site 1173022002758 PAS domain S-box; Region: sensory_box; TIGR00229 1173022002759 PAS fold; Region: PAS_4; pfam08448 1173022002760 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 1173022002761 putative active site [active] 1173022002762 heme pocket [chemical binding]; other site 1173022002763 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022002764 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1173022002765 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 1173022002766 dimer interface [polypeptide binding]; other site 1173022002767 phosphorylation site [posttranslational modification] 1173022002768 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 1173022002769 ATP binding site [chemical binding]; other site 1173022002770 Mg2+ binding site [ion binding]; other site 1173022002771 G-X-G motif; other site 1173022002772 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 1173022002773 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022002774 active site 1173022002775 phosphorylation site [posttranslational modification] 1173022002776 intermolecular recognition site; other site 1173022002777 dimerization interface [polypeptide binding]; other site 1173022002778 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1173022002779 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 1173022002780 active site 1173022002781 phosphorylation site [posttranslational modification] 1173022002782 intermolecular recognition site; other site 1173022002783 dimerization interface [polypeptide binding]; other site 1173022002784 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1173022002785 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 1173022002786 putative active site [active] 1173022002787 heme pocket [chemical binding]; other site 1173022002788 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 1173022002789 dimer interface [polypeptide binding]; other site 1173022002790 phosphorylation site [posttranslational modification] 1173022002791 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 1173022002792 ATP binding site [chemical binding]; other site 1173022002793 Mg2+ binding site [ion binding]; other site 1173022002794 G-X-G motif; other site 1173022002795 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022002796 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 1173022002797 active site 1173022002798 phosphorylation site [posttranslational modification] 1173022002799 intermolecular recognition site; other site 1173022002800 dimerization interface [polypeptide binding]; other site 1173022002801 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 1173022002802 putative active site [active] 1173022002803 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 1173022002804 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1173022002805 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1173022002806 HPP family; Region: HPP; pfam04982 1173022002807 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 1173022002808 MgtE intracellular N domain; Region: MgtE_N; smart00924 1173022002809 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 1173022002810 Divalent cation transporter; Region: MgtE; cl00786 1173022002811 Sporulation and spore germination; Region: Germane; pfam10646 1173022002812 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 1173022002813 active site 1173022002814 DNA binding site [nucleotide binding] 1173022002815 NDF6 (NDH-dependent flow 6); Provisional; Region: PLN00180 1173022002816 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 1173022002817 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1173022002818 Aldose 1-epimerase, similar to Synechocystis Slr1438; Region: Aldose_epim_Slr1438; cd09025 1173022002819 active site 1173022002820 catalytic residues [active] 1173022002821 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 1173022002822 intersubunit interface [polypeptide binding]; other site 1173022002823 active site 1173022002824 zinc binding site [ion binding]; other site 1173022002825 Na+ binding site [ion binding]; other site 1173022002826 Tryptophan-rich sensory protein (mitochondrial benzodiazepine receptor homolog) [Signal transduction mechanisms]; Region: COG3476 1173022002827 DNA gyrase subunit A; Validated; Region: PRK05560 1173022002828 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 1173022002829 CAP-like domain; other site 1173022002830 active site 1173022002831 primary dimer interface [polypeptide binding]; other site 1173022002832 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1173022002833 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1173022002834 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1173022002835 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1173022002836 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1173022002837 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1173022002838 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 1173022002839 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 1173022002840 GTPase Era; Reviewed; Region: era; PRK00089 1173022002841 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1173022002842 G1 box; other site 1173022002843 GTP/Mg2+ binding site [chemical binding]; other site 1173022002844 Switch I region; other site 1173022002845 G2 box; other site 1173022002846 Switch II region; other site 1173022002847 G3 box; other site 1173022002848 G4 box; other site 1173022002849 G5 box; other site 1173022002850 KH domain; Region: KH_2; pfam07650 1173022002851 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1173022002852 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 1173022002853 active site 1173022002854 dimer interface [polypeptide binding]; other site 1173022002855 metal binding site [ion binding]; metal-binding site 1173022002856 Permease; Region: Permease; cl00510 1173022002857 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1173022002858 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 1173022002859 nitrilase; Region: PLN02798 1173022002860 putative active site [active] 1173022002861 catalytic triad [active] 1173022002862 dimer interface [polypeptide binding]; other site 1173022002863 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 1173022002864 Protein of unknown function (DUF3370); Region: DUF3370; pfam11850 1173022002865 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; cl00237 1173022002866 putative substrate binding pocket [chemical binding]; other site 1173022002867 catalytic triad [active] 1173022002868 AB domain interface; other site 1173022002869 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 1173022002870 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 1173022002871 putative active site [active] 1173022002872 oxyanion strand; other site 1173022002873 catalytic triad [active] 1173022002874 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 1173022002875 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 1173022002876 S-adenosylmethionine binding site [chemical binding]; other site 1173022002877 Cytochrome c; Region: Cytochrom_C; pfam00034 1173022002878 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1173022002879 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1173022002880 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1173022002881 Walker A/P-loop; other site 1173022002882 ATP binding site [chemical binding]; other site 1173022002883 Q-loop/lid; other site 1173022002884 ABC transporter signature motif; other site 1173022002885 Walker B; other site 1173022002886 D-loop; other site 1173022002887 H-loop/switch region; other site 1173022002888 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022002889 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 1173022002890 active site 1173022002891 phosphorylation site [posttranslational modification] 1173022002892 intermolecular recognition site; other site 1173022002893 dimerization interface [polypeptide binding]; other site 1173022002894 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022002895 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1173022002896 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1173022002897 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 1173022002898 dimer interface [polypeptide binding]; other site 1173022002899 phosphorylation site [posttranslational modification] 1173022002900 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 1173022002901 ATP binding site [chemical binding]; other site 1173022002902 Mg2+ binding site [ion binding]; other site 1173022002903 G-X-G motif; other site 1173022002904 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 1173022002905 Glycosyl transferase family 1; Region: Glyco_trans_1_3; pfam13528 1173022002906 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1173022002907 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 1173022002908 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1173022002909 catalytic residue [active] 1173022002910 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 1173022002911 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 1173022002912 homotetramer interface [polypeptide binding]; other site 1173022002913 ligand binding site [chemical binding]; other site 1173022002914 catalytic site [active] 1173022002915 NAD binding site [chemical binding]; other site 1173022002916 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1173022002917 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 1173022002918 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1173022002919 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS; cl00338 1173022002920 L-lysine 6-monooxygenase (NADPH-requiring); Region: K_oxygenase; pfam13434 1173022002921 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 1173022002922 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1173022002923 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1173022002924 Nuclease-related domain; Region: NERD; pfam08378 1173022002925 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3972 1173022002926 Family description; Region: UvrD_C_2; pfam13538 1173022002927 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 1173022002928 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022002929 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022002930 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022002931 Protein of unknown function (DUF4231); Region: DUF4231; pfam14015 1173022002932 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 1173022002933 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 1173022002934 Domain of unknown function (DUF4070); Region: DUF4070; pfam13282 1173022002935 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1173022002936 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1173022002937 Nitrogen fixation protein of unknown function; Region: Nif11; pfam07862 1173022002938 hypothetical protein; Provisional; Region: PRK02724 1173022002939 haloacid dehalogenase superfamily, subfamily IA hydrolase, TIGR01548; Region: HAD-SF-IA-hyp1 1173022002940 haloacid dehalogenase superfamily, subfamily IA, variant 1 with third motif having Dx(3-4)D or Dx(3-4)E; Region: HAD-SF-IA-v1; TIGR01549 1173022002941 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1173022002942 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1173022002943 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1173022002944 ATP-binding cassette domain of the lipid transporters, subfamily A; Region: ABC_subfamily_A; cd03263 1173022002945 Walker A/P-loop; other site 1173022002946 ATP binding site [chemical binding]; other site 1173022002947 Q-loop/lid; other site 1173022002948 ABC transporter signature motif; other site 1173022002949 Walker B; other site 1173022002950 D-loop; other site 1173022002951 H-loop/switch region; other site 1173022002952 Domain of unknown function DUF11; Region: DUF11; pfam01345 1173022002953 Right handed beta helix region; Region: Beta_helix; pfam13229 1173022002954 conserved repeat domain; Region: B_ant_repeat; TIGR01451 1173022002955 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4719 1173022002956 Uncharacterized conserved protein [Function unknown]; Region: COG3339 1173022002957 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 1173022002958 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1173022002959 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1173022002960 Predicted membrane protein [Function unknown]; Region: COG1950 1173022002961 aspartate kinase; Provisional; Region: PRK07431 1173022002962 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 1173022002963 putative nucleotide binding site [chemical binding]; other site 1173022002964 putative catalytic residues [active] 1173022002965 putative Mg ion binding site [ion binding]; other site 1173022002966 putative aspartate binding site [chemical binding]; other site 1173022002967 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 1173022002968 putative allosteric regulatory site; other site 1173022002969 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 1173022002970 putative allosteric regulatory residue; other site 1173022002971 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 1173022002972 putative allosteric regulatory site; other site 1173022002973 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AK-LysC-DapG-like_2; cd04923 1173022002974 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 1173022002975 active site 1173022002976 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1173022002977 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 1173022002978 putative active site [active] 1173022002979 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1173022002980 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1173022002981 H-loop/switch region; other site 1173022002982 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1173022002983 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1173022002984 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 1173022002985 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 1173022002986 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 1173022002987 putative active site [active] 1173022002988 Uncharacterized metal-binding protein (DUF2227); Region: DUF2227; pfam09988 1173022002989 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 1173022002990 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 1173022002991 homodimer interface [polypeptide binding]; other site 1173022002992 metal binding site [ion binding]; metal-binding site 1173022002993 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 1173022002994 homodimer interface [polypeptide binding]; other site 1173022002995 active site 1173022002996 putative chemical substrate binding site [chemical binding]; other site 1173022002997 metal binding site [ion binding]; metal-binding site 1173022002998 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1173022002999 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 1173022003000 putative catalytic cysteine [active] 1173022003001 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 1173022003002 homooctamer interface [polypeptide binding]; other site 1173022003003 active site 1173022003004 patatin-related protein; Region: TIGR03607 1173022003005 Patatin-like phospholipase; Region: Patatin; pfam01734 1173022003006 nucleophile elbow; other site 1173022003007 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 1173022003008 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 1173022003009 catalytic triad [active] 1173022003010 glycogen synthase; Provisional; Region: glgA; PRK00654 1173022003011 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 1173022003012 ADP-binding pocket [chemical binding]; other site 1173022003013 homodimer interface [polypeptide binding]; other site 1173022003014 EcsC protein family; Region: EcsC; pfam12787 1173022003015 Protein of unknown function (DUF4255); Region: DUF4255; pfam14065 1173022003016 T4-like virus tail tube protein gp19; Region: Phage_T4_gp19; pfam06841 1173022003017 Phage tail sheath protein; Region: Phage_sheath_1; pfam04984 1173022003018 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 1173022003019 conserved hypothetical protein, phage tail-like region; Region: TIGR02243 1173022003020 conserved hypothetical protein, phage tail-like region; Region: TIGR02243 1173022003021 conserved hypothetical protein, phage tail-like region; Region: TIGR02243 1173022003022 conserved hypothetical protein, phage tail-like region; Region: TIGR02243 1173022003023 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 1173022003024 Domain of unknown function (DUF4280); Region: DUF4280; pfam14107 1173022003025 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1173022003026 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 1173022003027 XisH protein; Region: XisH; pfam08814 1173022003028 XisI protein; Region: XisI; pfam08869 1173022003029 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 1173022003030 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1173022003031 Walker A motif; other site 1173022003032 ATP binding site [chemical binding]; other site 1173022003033 Walker B motif; other site 1173022003034 arginine finger; other site 1173022003035 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 1173022003036 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 1173022003037 active site 1173022003038 Zn binding site [ion binding]; other site 1173022003039 Predicted metal-binding protein [Function unknown]; Region: COG5469 1173022003040 Predicted ATPase of the ABC class; Region: ABC_ATPase; pfam09818 1173022003041 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 1173022003042 RNA binding surface [nucleotide binding]; other site 1173022003043 EVE domain; Region: EVE; cl00728 1173022003044 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 1173022003045 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1173022003046 putative active site [active] 1173022003047 heme pocket [chemical binding]; other site 1173022003048 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 1173022003049 putative active site [active] 1173022003050 heme pocket [chemical binding]; other site 1173022003051 PAS domain; Region: PAS_9; pfam13426 1173022003052 PAS fold; Region: PAS_4; pfam08448 1173022003053 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 1173022003054 dimer interface [polypeptide binding]; other site 1173022003055 phosphorylation site [posttranslational modification] 1173022003056 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 1173022003057 ATP binding site [chemical binding]; other site 1173022003058 Mg2+ binding site [ion binding]; other site 1173022003059 G-X-G motif; other site 1173022003060 PRC-barrel domain; Region: PRC; pfam05239 1173022003061 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3861 1173022003062 PRC-barrel domain containing protein [General function prediction only]; Region: COG3881 1173022003063 PRC-barrel domain; Region: PRC; pfam05239 1173022003064 PRC-barrel domain; Region: PRC; pfam05239 1173022003065 Protein of unknown function (DUF1517); Region: DUF1517; cl01807 1173022003066 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 1173022003067 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1173022003068 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 1173022003069 active site 1173022003070 phosphorylation site [posttranslational modification] 1173022003071 intermolecular recognition site; other site 1173022003072 dimerization interface [polypeptide binding]; other site 1173022003073 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 1173022003074 DNA binding site [nucleotide binding] 1173022003075 geranylgeranyl reductase; Region: ChlP; TIGR02028 1173022003076 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1173022003077 hypothetical protein; Provisional; Region: PRK07236 1173022003078 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1173022003079 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 1173022003080 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 1173022003081 Walker A/P-loop; other site 1173022003082 ATP binding site [chemical binding]; other site 1173022003083 Q-loop/lid; other site 1173022003084 ABC transporter signature motif; other site 1173022003085 Walker B; other site 1173022003086 D-loop; other site 1173022003087 H-loop/switch region; other site 1173022003088 TOBE-like domain; Region: TOBE_3; pfam12857 1173022003089 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_20; cd08519 1173022003090 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1173022003091 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1173022003092 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 1173022003093 dimer interface [polypeptide binding]; other site 1173022003094 conserved gate region; other site 1173022003095 ABC-ATPase subunit interface; other site 1173022003096 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022003097 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 1173022003098 active site 1173022003099 phosphorylation site [posttranslational modification] 1173022003100 intermolecular recognition site; other site 1173022003101 dimerization interface [polypeptide binding]; other site 1173022003102 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1173022003103 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 1173022003104 TPR motif; other site 1173022003105 binding surface 1173022003106 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1173022003107 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4246 1173022003108 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 1173022003109 CpeT/CpcT family (DUF1001); Region: CpeT; pfam06206 1173022003110 UDP_sulfoquinovose_synthase (Arabidopsis thaliana SQD1 and related proteins), extended (e) SDRs; Region: SQD1_like_SDR_e; cd05255 1173022003111 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1173022003112 NAD binding site [chemical binding]; other site 1173022003113 substrate binding site [chemical binding]; other site 1173022003114 active site 1173022003115 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1173022003116 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 1173022003117 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 1173022003118 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 1173022003119 ATP binding site [chemical binding]; other site 1173022003120 active site 1173022003121 substrate binding site [chemical binding]; other site 1173022003122 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1173022003123 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 1173022003124 Surface antigen; Region: Bac_surface_Ag; pfam01103 1173022003125 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 1173022003126 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 1173022003127 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 1173022003128 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 1173022003129 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 1173022003130 active site 1173022003131 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 1173022003132 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 1173022003133 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 1173022003134 PAS domain; Region: PAS_9; pfam13426 1173022003135 putative active site [active] 1173022003136 heme pocket [chemical binding]; other site 1173022003137 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 1173022003138 PAS fold; Region: PAS_3; pfam08447 1173022003139 putative active site [active] 1173022003140 heme pocket [chemical binding]; other site 1173022003141 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022003142 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1173022003143 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1173022003144 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 1173022003145 dimer interface [polypeptide binding]; other site 1173022003146 phosphorylation site [posttranslational modification] 1173022003147 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 1173022003148 ATP binding site [chemical binding]; other site 1173022003149 Mg2+ binding site [ion binding]; other site 1173022003150 G-X-G motif; other site 1173022003151 Domain of unknown function (DUF1768); Region: DUF1768; pfam08719 1173022003152 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 1173022003153 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 1173022003154 Walker A motif; other site 1173022003155 ATP binding site [chemical binding]; other site 1173022003156 Walker B motif; other site 1173022003157 arginine finger; other site 1173022003158 RNA 2'-phosphotransferase; Reviewed; Region: PRK00819 1173022003159 RNA:NAD 2'-phosphotransferase [Translation, ribosomal structure and biogenesis]; Region: KptA; COG1859 1173022003160 Phosphate transporter family; Region: PHO4; cl00396 1173022003161 Pirin-related protein [General function prediction only]; Region: COG1741 1173022003162 Pirin; Region: Pirin; pfam02678 1173022003163 Predicted thiol-disulfide oxidoreductase [General function prediction only]; Region: COG3011 1173022003164 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1173022003165 photosystem II protein PsbQ; Region: PS_II_psbQ_bact; TIGR03042 1173022003166 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 1173022003167 putative active site [active] 1173022003168 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1173022003169 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cl17196 1173022003170 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 1173022003171 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1173022003172 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 1173022003173 putative binding surface; other site 1173022003174 active site 1173022003175 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1173022003176 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1173022003177 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 1173022003178 ATP binding site [chemical binding]; other site 1173022003179 Mg2+ binding site [ion binding]; other site 1173022003180 G-X-G motif; other site 1173022003181 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 1173022003182 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022003183 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 1173022003184 active site 1173022003185 phosphorylation site [posttranslational modification] 1173022003186 intermolecular recognition site; other site 1173022003187 dimerization interface [polypeptide binding]; other site 1173022003188 TPR repeat; Region: TPR_11; pfam13414 1173022003189 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 1173022003190 binding surface 1173022003191 TPR motif; other site 1173022003192 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 1173022003193 dimerization interface [polypeptide binding]; other site 1173022003194 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1173022003195 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1173022003196 dimer interface [polypeptide binding]; other site 1173022003197 putative CheW interface [polypeptide binding]; other site 1173022003198 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 1173022003199 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022003200 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 1173022003201 active site 1173022003202 phosphorylation site [posttranslational modification] 1173022003203 intermolecular recognition site; other site 1173022003204 dimerization interface [polypeptide binding]; other site 1173022003205 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 1173022003206 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022003207 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 1173022003208 active site 1173022003209 phosphorylation site [posttranslational modification] 1173022003210 intermolecular recognition site; other site 1173022003211 dimerization interface [polypeptide binding]; other site 1173022003212 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 1173022003213 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1173022003214 putative metal binding site [ion binding]; other site 1173022003215 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1173022003216 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 1173022003217 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1173022003218 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 1173022003219 TM-ABC transporter signature motif; other site 1173022003220 PsaX family; Region: PsaX; pfam08078 1173022003221 lipoyl synthase; Provisional; Region: PRK12928 1173022003222 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 1173022003223 FeS/SAM binding site; other site 1173022003224 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1173022003225 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 1173022003226 active site 1173022003227 phosphorylation site [posttranslational modification] 1173022003228 intermolecular recognition site; other site 1173022003229 dimerization interface [polypeptide binding]; other site 1173022003230 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1173022003231 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1173022003232 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1173022003233 Probable transposase; Region: OrfB_IS605; pfam01385 1173022003234 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1173022003235 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 1173022003236 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1173022003237 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1173022003238 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1173022003239 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 1173022003240 putative active site [active] 1173022003241 catalytic residue [active] 1173022003242 protoporphyrinogen oxidase; Region: PLN02576 1173022003243 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1173022003244 Protein of unknown function (DUF2811); Region: DUF2811; pfam10929 1173022003245 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022003246 GAF domain; Region: GAF; pfam01590 1173022003247 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1173022003248 Zn2+ binding site [ion binding]; other site 1173022003249 Mg2+ binding site [ion binding]; other site 1173022003250 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1173022003251 Protein of unknown function (DUF3082); Region: DUF3082; pfam11282 1173022003252 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK02534 1173022003253 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1173022003254 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1173022003255 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 1173022003256 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 1173022003257 Domain of unknown function (DUF4070); Region: DUF4070; pfam13282 1173022003258 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1173022003259 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 1173022003260 Predicted NTPase (NACHT family) [Signal transduction mechanisms]; Region: COG5635 1173022003261 Mitochondrial biogenesis AIM24; Region: AIM24; cl00884 1173022003262 Mitochondrial biogenesis AIM24; Region: AIM24; pfam01987 1173022003263 Mitochondrial biogenesis AIM24; Region: AIM24; pfam01987 1173022003264 Peptidase family M48; Region: Peptidase_M48; cl12018 1173022003265 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022003266 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 1173022003267 active site 1173022003268 phosphorylation site [posttranslational modification] 1173022003269 intermolecular recognition site; other site 1173022003270 dimerization interface [polypeptide binding]; other site 1173022003271 adenylosuccinate lyase; Provisional; Region: PRK07380 1173022003272 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 1173022003273 tetramer interface [polypeptide binding]; other site 1173022003274 active site 1173022003275 Adenylosuccinate lyase C-terminus; Region: ADSL_C; smart00998 1173022003276 GTPase CgtA; Reviewed; Region: obgE; PRK12299 1173022003277 GTP1/OBG; Region: GTP1_OBG; pfam01018 1173022003278 Obg GTPase; Region: Obg; cd01898 1173022003279 G1 box; other site 1173022003280 GTP/Mg2+ binding site [chemical binding]; other site 1173022003281 Switch I region; other site 1173022003282 G2 box; other site 1173022003283 G3 box; other site 1173022003284 Switch II region; other site 1173022003285 G4 box; other site 1173022003286 G5 box; other site 1173022003287 tellurium resistance terB-like protein; Region: terB_like; cd07177 1173022003288 metal binding site [ion binding]; metal-binding site 1173022003289 Mo-dependent nitrogenase C-terminus; Region: Mo-nitro_C; pfam06967 1173022003290 Uncharacterized protein family UPF0546; Region: UPF0546; pfam10639 1173022003291 comF family protein; Region: comF; TIGR00201 1173022003292 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1173022003293 active site 1173022003294 PAS domain S-box; Region: sensory_box; TIGR00229 1173022003295 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 1173022003296 putative active site [active] 1173022003297 heme pocket [chemical binding]; other site 1173022003298 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1173022003299 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1173022003300 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 1173022003301 dimer interface [polypeptide binding]; other site 1173022003302 phosphorylation site [posttranslational modification] 1173022003303 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 1173022003304 ATP binding site [chemical binding]; other site 1173022003305 Mg2+ binding site [ion binding]; other site 1173022003306 G-X-G motif; other site 1173022003307 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022003308 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 1173022003309 active site 1173022003310 phosphorylation site [posttranslational modification] 1173022003311 intermolecular recognition site; other site 1173022003312 dimerization interface [polypeptide binding]; other site 1173022003313 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1173022003314 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 1173022003315 active site 1173022003316 phosphorylation site [posttranslational modification] 1173022003317 intermolecular recognition site; other site 1173022003318 PAS fold; Region: PAS; pfam00989 1173022003319 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 1173022003320 putative active site [active] 1173022003321 heme pocket [chemical binding]; other site 1173022003322 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 1173022003323 dimer interface [polypeptide binding]; other site 1173022003324 phosphorylation site [posttranslational modification] 1173022003325 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 1173022003326 ATP binding site [chemical binding]; other site 1173022003327 Mg2+ binding site [ion binding]; other site 1173022003328 G-X-G motif; other site 1173022003329 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022003330 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 1173022003331 active site 1173022003332 phosphorylation site [posttranslational modification] 1173022003333 intermolecular recognition site; other site 1173022003334 dimerization interface [polypeptide binding]; other site 1173022003335 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022003336 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 1173022003337 active site 1173022003338 phosphorylation site [posttranslational modification] 1173022003339 intermolecular recognition site; other site 1173022003340 dimerization interface [polypeptide binding]; other site 1173022003341 PAS fold; Region: PAS; pfam00989 1173022003342 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022003343 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1173022003344 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1173022003345 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 1173022003346 dimer interface [polypeptide binding]; other site 1173022003347 phosphorylation site [posttranslational modification] 1173022003348 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 1173022003349 ATP binding site [chemical binding]; other site 1173022003350 Mg2+ binding site [ion binding]; other site 1173022003351 G-X-G motif; other site 1173022003352 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1173022003353 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 1173022003354 active site 1173022003355 phosphorylation site [posttranslational modification] 1173022003356 intermolecular recognition site; other site 1173022003357 dimerization interface [polypeptide binding]; other site 1173022003358 Protein of unknown function (DUF1361); Region: DUF1361; cl01784 1173022003359 NYN domain; Region: NYN; pfam01936 1173022003360 3-polyprenyl-4-hydroxybenzoate decarboxylase and related decarboxylases [Coenzyme metabolism]; Region: UbiD; COG0043 1173022003361 Tryptophan 2,3-dioxygenase; Region: Trp_dioxygenase; cl03994 1173022003362 FtsH Extracellular; Region: FtsH_ext; pfam06480 1173022003363 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1173022003364 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 1173022003365 Walker A motif; other site 1173022003366 ATP binding site [chemical binding]; other site 1173022003367 Walker B motif; other site 1173022003368 arginine finger; other site 1173022003369 Peptidase family M41; Region: Peptidase_M41; pfam01434 1173022003370 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1173022003371 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1173022003372 Domain of unknown function DUF39; Region: DUF39; pfam01837 1173022003373 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 1173022003374 binding surface 1173022003375 TPR motif; other site 1173022003376 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1173022003377 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 1173022003378 binding surface 1173022003379 TPR motif; other site 1173022003380 TPR repeat; Region: TPR_11; pfam13414 1173022003381 Predicted membrane protein [Function unknown]; Region: COG2119 1173022003382 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 1173022003383 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 1173022003384 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1173022003385 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 1173022003386 non-specific DNA binding site [nucleotide binding]; other site 1173022003387 salt bridge; other site 1173022003388 sequence-specific DNA binding site [nucleotide binding]; other site 1173022003389 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 1173022003390 DNA protecting protein DprA; Region: dprA; TIGR00732 1173022003391 Uncharacterized integral membrane protein (DUF2301); Region: DUF2301; cl02241 1173022003392 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 1173022003393 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 1173022003394 S-adenosylmethionine binding site [chemical binding]; other site 1173022003395 2-isopropylmalate synthase; Validated; Region: PRK00915 1173022003396 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 1173022003397 active site 1173022003398 catalytic residues [active] 1173022003399 metal binding site [ion binding]; metal-binding site 1173022003400 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 1173022003401 LabA_like proteins; Region: LabA; cd10911 1173022003402 Uncharacterized conserved protein [Function unknown]; Region: COG1432 1173022003403 putative metal binding site [ion binding]; other site 1173022003404 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 1173022003405 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 1173022003406 active site residue [active] 1173022003407 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 1173022003408 active site residue [active] 1173022003409 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1649 1173022003410 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 1173022003411 S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_30; cl17711 1173022003412 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 1173022003413 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 1173022003414 active site 1173022003415 phosphorylation site [posttranslational modification] 1173022003416 intermolecular recognition site; other site 1173022003417 dimerization interface [polypeptide binding]; other site 1173022003418 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1173022003419 Zn2+ binding site [ion binding]; other site 1173022003420 Mg2+ binding site [ion binding]; other site 1173022003421 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14360 1173022003422 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1173022003423 Substrate binding site; other site 1173022003424 Mg++ binding site; other site 1173022003425 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 1173022003426 active site 1173022003427 substrate binding site [chemical binding]; other site 1173022003428 CoA binding site [chemical binding]; other site 1173022003429 hypothetical protein; Provisional; Region: PRK02237 1173022003430 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1173022003431 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 1173022003432 active site 1173022003433 phosphorylation site [posttranslational modification] 1173022003434 intermolecular recognition site; other site 1173022003435 dimerization interface [polypeptide binding]; other site 1173022003436 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 1173022003437 DNA binding residues [nucleotide binding] 1173022003438 dimerization interface [polypeptide binding]; other site 1173022003439 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1173022003440 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 1173022003441 dimer interface [polypeptide binding]; other site 1173022003442 phosphorylation site [posttranslational modification] 1173022003443 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 1173022003444 ATP binding site [chemical binding]; other site 1173022003445 Mg2+ binding site [ion binding]; other site 1173022003446 G-X-G motif; other site 1173022003447 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 1173022003448 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 1173022003449 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1173022003450 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1173022003451 K+-transporting ATPase, c chain; Region: KdpC; cl00944 1173022003452 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 1173022003453 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 1173022003454 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 1173022003455 Ligand Binding Site [chemical binding]; other site 1173022003456 Taspase1_like domains; Taspase1 catalyzes the cleavage of the mix lineage leukemia (MLL) nuclear protein and transcription factor TFIIA. Taspase1 is a threonine aspartase, a member of the Ntn hydrolase superfamily and the type 2 asparaginase family. A...; Region: Taspase1_like; cd04514 1173022003457 active site 1173022003458 dimer interface [polypeptide binding]; other site 1173022003459 catalytic nucleophile [active] 1173022003460 Uncharacterized protein conserved in bacteria (DUF2256); Region: DUF2256; pfam10013 1173022003461 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 1173022003462 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1173022003463 Beta-lactamase class A [Defense mechanisms]; Region: PenP; COG2367 1173022003464 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 1173022003465 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1173022003466 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 1173022003467 Protein of unknown function (DUF3353); Region: DUF3353; pfam11833 1173022003468 twin arginine translocase protein A; Provisional; Region: tatA; PRK14857 1173022003469 photosystem II reaction center protein H; Provisional; Region: psbH; PRK02624 1173022003470 Photosystem II reaction centre N protein (psbN); Region: PsbN; pfam02468 1173022003471 Alpha-mannosidase [Carbohydrate transport and metabolism]; Region: AMS1; COG0383 1173022003472 N-terminal catalytic domain of endoplasmic reticulum(ER)/cytosolic class II alpha-mannosidases; glycoside hydrolase family 38 (GH38); Region: GH38N_AMII_ER_cytosolic; cd10789 1173022003473 active site 1173022003474 catalytic site [active] 1173022003475 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; smart00872 1173022003476 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 1173022003477 4-aminobutyrate aminotransferase; Provisional; Region: PRK05769 1173022003478 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 1173022003479 inhibitor-cofactor binding pocket; inhibition site 1173022003480 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1173022003481 catalytic residue [active] 1173022003482 Uncharacterized Candidatus kuenenia aldehyde dehydrogenase AldH (CAJ73105)-like; Region: ALDH_AldH-CAJ73105; cd07131 1173022003483 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1173022003484 NAD binding site [chemical binding]; other site 1173022003485 catalytic residues [active] 1173022003486 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022003487 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 1173022003488 active site 1173022003489 phosphorylation site [posttranslational modification] 1173022003490 intermolecular recognition site; other site 1173022003491 dimerization interface [polypeptide binding]; other site 1173022003492 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 1173022003493 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022003494 active site 1173022003495 phosphorylation site [posttranslational modification] 1173022003496 intermolecular recognition site; other site 1173022003497 dimerization interface [polypeptide binding]; other site 1173022003498 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1173022003499 HAMP domain; Region: HAMP; pfam00672 1173022003500 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022003501 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1173022003502 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022003503 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1173022003504 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022003505 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1173022003506 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022003507 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1173022003508 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022003509 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1173022003510 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022003511 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1173022003512 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022003513 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1173022003514 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022003515 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1173022003516 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022003517 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1173022003518 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022003519 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1173022003520 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022003521 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1173022003522 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1173022003523 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1173022003524 dimer interface [polypeptide binding]; other site 1173022003525 putative CheW interface [polypeptide binding]; other site 1173022003526 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 1173022003527 putative binding surface; other site 1173022003528 active site 1173022003529 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1173022003530 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1173022003531 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 1173022003532 ATP binding site [chemical binding]; other site 1173022003533 Mg2+ binding site [ion binding]; other site 1173022003534 G-X-G motif; other site 1173022003535 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 1173022003536 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022003537 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 1173022003538 active site 1173022003539 phosphorylation site [posttranslational modification] 1173022003540 intermolecular recognition site; other site 1173022003541 dimerization interface [polypeptide binding]; other site 1173022003542 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 1173022003543 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 1173022003544 putative active site [active] 1173022003545 Stage II sporulation protein; Region: SpoIID; pfam08486 1173022003546 Predicted nucleotidyltransferase; Region: Nuc-transf; cl01417 1173022003547 hydrolase, alpha/beta fold family protein; Region: PLN02824 1173022003548 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1173022003549 S-layer homology domain; Region: SLH; pfam00395 1173022003550 S-layer homology domain; Region: SLH; pfam00395 1173022003551 S-layer homology domain; Region: SLH; pfam00395 1173022003552 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 1173022003553 intersubunit interface [polypeptide binding]; other site 1173022003554 active site 1173022003555 Zn2+ binding site [ion binding]; other site 1173022003556 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1173022003557 PHP domain; Region: PHP; pfam02811 1173022003558 active site 1173022003559 Domain of unknown function (DUF3598); Region: DUF3598; pfam12204 1173022003560 Domain of unknown function (DUF3598); Region: DUF3598; pfam12204 1173022003561 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1173022003562 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 1173022003563 putative NAD(P) binding site [chemical binding]; other site 1173022003564 Cupin domain; Region: Cupin_2; cl17218 1173022003565 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1173022003566 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 1173022003567 putative active site [active] 1173022003568 heme pocket [chemical binding]; other site 1173022003569 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 1173022003570 putative active site [active] 1173022003571 heme pocket [chemical binding]; other site 1173022003572 PAS domain; Region: PAS; smart00091 1173022003573 PAS fold; Region: PAS_4; pfam08448 1173022003574 Coenzyme B12-dependent glutamate mutase epsilon subunit-like family; contains proteins similar to Clostridium cochlearium glutamate mutase (Glm) and Streptomyces tendae Tu901 NikV. Glm catalyzes a carbon-skeleton rearrangement of L-glutamate to...; Region: Glm_e; cl02025 1173022003575 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1173022003576 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 1173022003577 dimer interface [polypeptide binding]; other site 1173022003578 phosphorylation site [posttranslational modification] 1173022003579 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 1173022003580 ATP binding site [chemical binding]; other site 1173022003581 Mg2+ binding site [ion binding]; other site 1173022003582 G-X-G motif; other site 1173022003583 exopolyphosphatase; Region: exo_poly_only; TIGR03706 1173022003584 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1173022003585 4-hydroxybenzoate polyprenyltransferase; Reviewed; Region: ubiA; PRK12870 1173022003586 UbiA prenyltransferase family; Region: UbiA; pfam01040 1173022003587 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 1173022003588 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 1173022003589 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1173022003590 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1173022003591 polyphosphate kinase; Provisional; Region: PRK05443 1173022003592 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 1173022003593 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 1173022003594 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 1173022003595 putative domain interface [polypeptide binding]; other site 1173022003596 putative active site [active] 1173022003597 catalytic site [active] 1173022003598 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 1173022003599 putative domain interface [polypeptide binding]; other site 1173022003600 putative active site [active] 1173022003601 catalytic site [active] 1173022003602 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1173022003603 PAP_fibrillin; Region: PAP_fibrillin; pfam04755 1173022003604 Protein of unknown function (DUF3134); Region: DUF3134; pfam11332 1173022003605 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1173022003606 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 1173022003607 Mg++ binding site [ion binding]; other site 1173022003608 putative catalytic motif [active] 1173022003609 putative substrate binding site [chemical binding]; other site 1173022003610 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1173022003611 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 1173022003612 active site 1173022003613 phosphorylation site [posttranslational modification] 1173022003614 intermolecular recognition site; other site 1173022003615 dimerization interface [polypeptide binding]; other site 1173022003616 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 1173022003617 DNA binding residues [nucleotide binding] 1173022003618 dimerization interface [polypeptide binding]; other site 1173022003619 acetate--CoA ligase; Provisional; Region: PLN03052 1173022003620 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 1173022003621 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1173022003622 acyl-activating enzyme (AAE) consensus motif; other site 1173022003623 AMP binding site [chemical binding]; other site 1173022003624 active site 1173022003625 CoA binding site [chemical binding]; other site 1173022003626 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 1173022003627 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4398 1173022003628 FIST N domain; Region: FIST; pfam08495 1173022003629 FIST C domain; Region: FIST_C; pfam10442 1173022003630 CP12 domain; Region: CP12; pfam02672 1173022003631 Protein of unknown function (DUF3177); Region: DUF3177; pfam11375 1173022003632 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 1173022003633 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 1173022003634 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 1173022003635 dimerization interface [polypeptide binding]; other site 1173022003636 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 1173022003637 dimer interface [polypeptide binding]; other site 1173022003638 phosphorylation site [posttranslational modification] 1173022003639 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 1173022003640 ATP binding site [chemical binding]; other site 1173022003641 Mg2+ binding site [ion binding]; other site 1173022003642 G-X-G motif; other site 1173022003643 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 1173022003644 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 1173022003645 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 1173022003646 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 1173022003647 beta-phosphoglucomutase; Region: bPGM; TIGR01990 1173022003648 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 1173022003649 active site 1173022003650 motif I; other site 1173022003651 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1173022003652 Cytochrome P450; Region: p450; pfam00067 1173022003653 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1173022003654 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1173022003655 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 1173022003656 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1173022003657 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1173022003658 catalytic loop [active] 1173022003659 iron binding site [ion binding]; other site 1173022003660 S-layer homology domain; Region: SLH; pfam00395 1173022003661 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 1173022003662 cyanophycin synthetase; Provisional; Region: PRK14016 1173022003663 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1173022003664 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1173022003665 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; cl00047 1173022003666 ligand binding site [chemical binding]; other site 1173022003667 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 1173022003668 putative switch regulator; other site 1173022003669 non-specific DNA interactions [nucleotide binding]; other site 1173022003670 DNA binding site [nucleotide binding] 1173022003671 sequence specific DNA binding site [nucleotide binding]; other site 1173022003672 putative cAMP binding site [chemical binding]; other site 1173022003673 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 1173022003674 active site clefts [active] 1173022003675 zinc binding site [ion binding]; other site 1173022003676 dimer interface [polypeptide binding]; other site 1173022003677 H+ Antiporter protein; Region: 2A0121; TIGR00900 1173022003678 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 1173022003679 putative substrate translocation pore; other site 1173022003680 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 1173022003681 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 1173022003682 catalytic site [active] 1173022003683 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022003684 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1173022003685 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022003686 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1173022003687 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022003688 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 1173022003689 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022003690 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022003691 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022003692 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022003693 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 1173022003694 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022003695 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022003696 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022003697 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022003698 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022003699 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1173022003700 Probable transposase; Region: OrfB_IS605; pfam01385 1173022003701 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1173022003702 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 1173022003703 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 1173022003704 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022003705 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022003706 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022003707 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022003708 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022003709 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022003710 Predicted RNA binding protein (dsRBD-like fold), HicA family [General function prediction only]; Region: COG1724 1173022003711 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 1173022003712 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1173022003713 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 1173022003714 ring oligomerisation interface [polypeptide binding]; other site 1173022003715 ATP/Mg binding site [chemical binding]; other site 1173022003716 stacking interactions; other site 1173022003717 hinge regions; other site 1173022003718 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 1173022003719 oligomerisation interface [polypeptide binding]; other site 1173022003720 mobile loop; other site 1173022003721 roof hairpin; other site 1173022003722 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 1173022003723 dimer interface [polypeptide binding]; other site 1173022003724 [2Fe-2S] cluster binding site [ion binding]; other site 1173022003725 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1173022003726 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1173022003727 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1173022003728 Peptidase family M23; Region: Peptidase_M23; pfam01551 1173022003729 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 1173022003730 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 1173022003731 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1173022003732 Histone deacetylase class IV also known as histone deacetylase 11; Region: HDAC_classIV; cd09993 1173022003733 putative active site [active] 1173022003734 Zn binding site [ion binding]; other site 1173022003735 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 1173022003736 MPT binding site; other site 1173022003737 trimer interface [polypeptide binding]; other site 1173022003738 photosystem II reaction center protein Psb28; Provisional; Region: PRK13612 1173022003739 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 1173022003740 putative active site [active] 1173022003741 dimerization interface [polypeptide binding]; other site 1173022003742 putative tRNAtyr binding site [nucleotide binding]; other site 1173022003743 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1173022003744 Coenzyme A binding pocket [chemical binding]; other site 1173022003745 Predicted membrane protein [Function unknown]; Region: COG2324 1173022003746 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 1173022003747 active site 1173022003748 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 1173022003749 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1173022003750 RNA/DNA hybrid binding site [nucleotide binding]; other site 1173022003751 active site 1173022003752 BioD-like N-terminal domain of phosphotransacetylase [General function prediction only]; Region: Pta; COG0857 1173022003753 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 1173022003754 DRTGG domain; Region: DRTGG; pfam07085 1173022003755 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 1173022003756 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 1173022003757 DXD motif; other site 1173022003758 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14948 1173022003759 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 1173022003760 Walker A motif; other site 1173022003761 ATP binding site [chemical binding]; other site 1173022003762 Walker B motif; other site 1173022003763 arginine finger; other site 1173022003764 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1173022003765 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1173022003766 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 1173022003767 ABC-ATPase subunit interface; other site 1173022003768 dimer interface [polypeptide binding]; other site 1173022003769 putative PBP binding regions; other site 1173022003770 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1173022003771 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1173022003772 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 1173022003773 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 1173022003774 intersubunit interface [polypeptide binding]; other site 1173022003775 DNA photolyase; Region: DNA_photolyase; pfam00875 1173022003776 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1173022003777 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1173022003778 pyruvate kinase; Provisional; Region: PRK06354 1173022003779 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 1173022003780 domain interfaces; other site 1173022003781 active site 1173022003782 Phosphohistidine swiveling domain [Signal transduction mechanisms]; Region: COG3848 1173022003783 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022003784 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022003785 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1173022003786 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022003787 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 1173022003788 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1173022003789 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1173022003790 Walker A/P-loop; other site 1173022003791 ATP binding site [chemical binding]; other site 1173022003792 Q-loop/lid; other site 1173022003793 ABC transporter signature motif; other site 1173022003794 Walker B; other site 1173022003795 D-loop; other site 1173022003796 H-loop/switch region; other site 1173022003797 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1173022003798 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1173022003799 RNase E interface [polypeptide binding]; other site 1173022003800 trimer interface [polypeptide binding]; other site 1173022003801 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1173022003802 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1173022003803 RNase E interface [polypeptide binding]; other site 1173022003804 trimer interface [polypeptide binding]; other site 1173022003805 active site 1173022003806 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 1173022003807 putative nucleic acid binding region [nucleotide binding]; other site 1173022003808 G-X-X-G motif; other site 1173022003809 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 1173022003810 RNA binding site [nucleotide binding]; other site 1173022003811 domain interface; other site 1173022003812 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 1173022003813 SNF2 Helicase protein; Region: DUF3670; pfam12419 1173022003814 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 1173022003815 thioester formation/cholesterol transfer; other site 1173022003816 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 1173022003817 protein-splicing catalytic site; other site 1173022003818 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 1173022003819 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 1173022003820 putative Mg++ binding site [ion binding]; other site 1173022003821 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 1173022003822 nucleotide binding region [chemical binding]; other site 1173022003823 ATP-binding site [chemical binding]; other site 1173022003824 Uncharacterized conserved protein [Function unknown]; Region: COG4279 1173022003825 SWIM zinc finger; Region: SWIM; pfam04434 1173022003826 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 1173022003827 HSP70 interaction site [polypeptide binding]; other site 1173022003828 Extensin-like region; Region: Extensin_2; pfam04554 1173022003829 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022003830 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1173022003831 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022003832 Proto-chlorophyllide reductase 57 kD subunit; Region: PCP_red; pfam08369 1173022003833 photosystem II 44 kDa protein; Region: psbC; CHL00035 1173022003834 photosystem II 44 kDa subunit reaction center protein (also called P6 protein, CP43), bacterial and chloroplast; Region: psbC; TIGR01153 1173022003835 D2 subunit of photosystem II (PS II); Region: Photosystem-II_D2; cd09288 1173022003836 D1 interface; other site 1173022003837 chlorophyll binding site; other site 1173022003838 pheophytin binding site; other site 1173022003839 beta carotene binding site; other site 1173022003840 cytochrome b559 beta interface; other site 1173022003841 quinone binding site; other site 1173022003842 cytochrome b559 alpha interface; other site 1173022003843 protein J interface; other site 1173022003844 protein H interface; other site 1173022003845 protein X interface; other site 1173022003846 core light harvesting protein interface; other site 1173022003847 protein L interface; other site 1173022003848 CP43 interface; other site 1173022003849 protein T interface; other site 1173022003850 Fe binding site [ion binding]; other site 1173022003851 protein M interface; other site 1173022003852 Mn-stabilizing polypeptide interface; other site 1173022003853 bromide binding site; other site 1173022003854 cytochrome c-550 interface; other site 1173022003855 photosystem I assembly protein Ycf4; Provisional; Region: PRK02542 1173022003856 cyclophilin_TLP40_like: cyclophilin-type peptidylprolyl cis- trans isomerases (cyclophilins) similar ot the Spinach thylakoid lumen protein TLP40. Compared to the archetypal cyclophilin Human cyclophilin A, these proteins have similar peptidylprolyl...; Region: cyclophilin_TLP40_like; cd01924 1173022003857 active site 1173022003858 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK05952 1173022003859 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 1173022003860 dimer interface [polypeptide binding]; other site 1173022003861 active site 1173022003862 Uncharacterized conserved protein [Function unknown]; Region: COG2912 1173022003863 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 1173022003864 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 1173022003865 binding surface 1173022003866 TPR motif; other site 1173022003867 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 1173022003868 hydrophobic ligand binding site; other site 1173022003869 Conserved TM helix; Region: TM_helix; pfam05552 1173022003870 Conserved TM helix; Region: TM_helix; pfam05552 1173022003871 Dynamin family; Region: Dynamin_N; pfam00350 1173022003872 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 1173022003873 G1 box; other site 1173022003874 GTP/Mg2+ binding site [chemical binding]; other site 1173022003875 Switch I region; other site 1173022003876 G2 box; other site 1173022003877 Switch II region; other site 1173022003878 G3 box; other site 1173022003879 G4 box; other site 1173022003880 G5 box; other site 1173022003881 Domain of unknown function (DUF697); Region: DUF697; pfam05128 1173022003882 Protein of unknown function (DUF3146); Region: DUF3146; pfam11344 1173022003883 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 1173022003884 Uncharacterized protein conserved in bacteria with the myosin-like domain [Function unknown]; Region: COG4372 1173022003885 Protein of unknown function (DUF3084); Region: DUF3084; pfam11283 1173022003886 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 1173022003887 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 1173022003888 ligand binding site [chemical binding]; other site 1173022003889 flexible hinge region; other site 1173022003890 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 1173022003891 putative switch regulator; other site 1173022003892 non-specific DNA interactions [nucleotide binding]; other site 1173022003893 DNA binding site [nucleotide binding] 1173022003894 sequence specific DNA binding site [nucleotide binding]; other site 1173022003895 putative cAMP binding site [chemical binding]; other site 1173022003896 enoyl-(acyl carrier protein) reductase; Validated; Region: PRK07370 1173022003897 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1173022003898 NAD binding site [chemical binding]; other site 1173022003899 homotetramer interface [polypeptide binding]; other site 1173022003900 homodimer interface [polypeptide binding]; other site 1173022003901 substrate binding site [chemical binding]; other site 1173022003902 active site 1173022003903 imidazoleglycerol-phosphate dehydratase; Region: PLN02800 1173022003904 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 1173022003905 putative active site pocket [active] 1173022003906 4-fold oligomerization interface [polypeptide binding]; other site 1173022003907 metal binding residues [ion binding]; metal-binding site 1173022003908 3-fold/trimer interface [polypeptide binding]; other site 1173022003909 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 1173022003910 putative active site [active] 1173022003911 Protein of unknown function (DUF4090); Region: DUF4090; pfam13319 1173022003912 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 1173022003913 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1173022003914 G1 box; other site 1173022003915 putative GEF interaction site [polypeptide binding]; other site 1173022003916 GTP/Mg2+ binding site [chemical binding]; other site 1173022003917 Switch I region; other site 1173022003918 G2 box; other site 1173022003919 G3 box; other site 1173022003920 Switch II region; other site 1173022003921 G4 box; other site 1173022003922 G5 box; other site 1173022003923 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 1173022003924 Tic20-like protein; Region: Tic20; pfam09685 1173022003925 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1173022003926 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 1173022003927 [2Fe-2S] cluster binding site [ion binding]; other site 1173022003928 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1173022003929 hydrophobic ligand binding site; other site 1173022003930 pyruvate dehydrogenase E1 component beta subunit; Validated; Region: odpB; CHL00144 1173022003931 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 1173022003932 alpha subunit interface [polypeptide binding]; other site 1173022003933 TPP binding site [chemical binding]; other site 1173022003934 heterodimer interface [polypeptide binding]; other site 1173022003935 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1173022003936 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 1173022003937 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1173022003938 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1173022003939 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 1173022003940 Protein export membrane protein; Region: SecD_SecF; pfam02355 1173022003941 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK12305 1173022003942 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1173022003943 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 1173022003944 active site 1173022003945 dimer interface [polypeptide binding]; other site 1173022003946 motif 1; other site 1173022003947 motif 2; other site 1173022003948 motif 3; other site 1173022003949 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 1173022003950 anticodon binding site; other site 1173022003951 Protein of unknown function (DUF2605); Region: DUF2605; pfam10792 1173022003952 Protein of unknown function (DUF2973); Region: DUF2973; pfam11189 1173022003953 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14317 1173022003954 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 1173022003955 active site 1173022003956 substrate binding site [chemical binding]; other site 1173022003957 metal binding site [ion binding]; metal-binding site 1173022003958 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 1173022003959 UbiA prenyltransferase family; Region: UbiA; pfam01040 1173022003960 Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: ArsA; COG0003 1173022003961 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 1173022003962 Switch I; other site 1173022003963 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 1173022003964 putative dimer interface [polypeptide binding]; other site 1173022003965 Protein of unknown function (DUF2862); Region: DUF2862; pfam11061 1173022003966 hypothetical protein; Provisional; Region: PRK04323 1173022003967 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1173022003968 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 1173022003969 catalytic site [active] 1173022003970 G-X2-G-X-G-K; other site 1173022003971 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 1173022003972 ABC1 family; Region: ABC1; cl17513 1173022003973 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1173022003974 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 1173022003975 putative NAD(P) binding site [chemical binding]; other site 1173022003976 putative substrate binding site [chemical binding]; other site 1173022003977 catalytic Zn binding site [ion binding]; other site 1173022003978 structural Zn binding site [ion binding]; other site 1173022003979 dimer interface [polypeptide binding]; other site 1173022003980 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 1173022003981 putative active site [active] 1173022003982 Aminopeptidase N [Amino acid transport and metabolism]; Region: PepN; COG0308 1173022003983 Peptidase M1 family Aminopeptidase N; Region: M1_APN_4; cd09603 1173022003984 Zn binding site [ion binding]; other site 1173022003985 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 1173022003986 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1173022003987 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 1173022003988 ATP binding site [chemical binding]; other site 1173022003989 putative Mg++ binding site [ion binding]; other site 1173022003990 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 1173022003991 nucleotide binding region [chemical binding]; other site 1173022003992 ATP-binding site [chemical binding]; other site 1173022003993 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1173022003994 PemK-like protein; Region: PemK; pfam02452 1173022003995 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 1173022003996 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 1173022003997 putative active site [active] 1173022003998 Plasmid encoded toxin Txe; Region: Plasmid_Txe; cl17389 1173022003999 Topoisomerase IA [DNA replication, recombination, and repair]; Region: TopA; COG0550 1173022004000 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 1173022004001 active site 1173022004002 interdomain interaction site; other site 1173022004003 putative metal-binding site [ion binding]; other site 1173022004004 nucleotide binding site [chemical binding]; other site 1173022004005 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 1173022004006 domain I; other site 1173022004007 DNA binding groove [nucleotide binding] 1173022004008 phosphate binding site [ion binding]; other site 1173022004009 domain II; other site 1173022004010 domain III; other site 1173022004011 nucleotide binding site [chemical binding]; other site 1173022004012 catalytic site [active] 1173022004013 domain IV; other site 1173022004014 Predicted flavoprotein [General function prediction only]; Region: COG0431 1173022004015 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1173022004016 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 1173022004017 PAS domain; Region: PAS_9; pfam13426 1173022004018 putative active site [active] 1173022004019 heme pocket [chemical binding]; other site 1173022004020 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022004021 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1173022004022 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1173022004023 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1173022004024 metal binding site [ion binding]; metal-binding site 1173022004025 active site 1173022004026 I-site; other site 1173022004027 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 1173022004028 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 1173022004029 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 1173022004030 phosphate binding site [ion binding]; other site 1173022004031 putative substrate binding pocket [chemical binding]; other site 1173022004032 dimer interface [polypeptide binding]; other site 1173022004033 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 1173022004034 active site 1173022004035 putative DNA-binding cleft [nucleotide binding]; other site 1173022004036 dimer interface [polypeptide binding]; other site 1173022004037 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1173022004038 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1173022004039 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1173022004040 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1173022004041 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 1173022004042 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1173022004043 active site 1173022004044 intersubunit interface [polypeptide binding]; other site 1173022004045 catalytic residue [active] 1173022004046 PRC-barrel domain; Region: PRC; pfam05239 1173022004047 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3861 1173022004048 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1173022004049 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1173022004050 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 1173022004051 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 1173022004052 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1173022004053 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 1173022004054 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 1173022004055 catalytic triad [active] 1173022004056 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 1173022004057 S-adenosylmethionine binding site [chemical binding]; other site 1173022004058 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1173022004059 Domain of unknown function DUF21; Region: DUF21; pfam01595 1173022004060 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 1173022004061 Transporter associated domain; Region: CorC_HlyC; smart01091 1173022004062 PAS domain S-box; Region: sensory_box; TIGR00229 1173022004063 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 1173022004064 putative active site [active] 1173022004065 heme pocket [chemical binding]; other site 1173022004066 PAS fold; Region: PAS_4; pfam08448 1173022004067 PAS domain S-box; Region: sensory_box; TIGR00229 1173022004068 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 1173022004069 putative active site [active] 1173022004070 heme pocket [chemical binding]; other site 1173022004071 PAS domain S-box; Region: sensory_box; TIGR00229 1173022004072 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 1173022004073 putative active site [active] 1173022004074 heme pocket [chemical binding]; other site 1173022004075 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1173022004076 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 1173022004077 putative active site [active] 1173022004078 heme pocket [chemical binding]; other site 1173022004079 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 1173022004080 dimer interface [polypeptide binding]; other site 1173022004081 phosphorylation site [posttranslational modification] 1173022004082 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 1173022004083 ATP binding site [chemical binding]; other site 1173022004084 Mg2+ binding site [ion binding]; other site 1173022004085 G-X-G motif; other site 1173022004086 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1173022004087 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 1173022004088 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 1173022004089 NB-ARC domain; Region: NB-ARC; pfam00931 1173022004090 Walker A motif; other site 1173022004091 ATP binding site [chemical binding]; other site 1173022004092 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1173022004093 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 1173022004094 binding surface 1173022004095 TPR motif; other site 1173022004096 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1173022004097 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 1173022004098 binding surface 1173022004099 TPR motif; other site 1173022004100 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1173022004101 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1173022004102 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 1173022004103 binding surface 1173022004104 TPR motif; other site 1173022004105 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1173022004106 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1173022004107 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 1173022004108 binding surface 1173022004109 TPR motif; other site 1173022004110 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1173022004111 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 1173022004112 binding surface 1173022004113 TPR motif; other site 1173022004114 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1173022004115 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 1173022004116 MreB/Mbl protein; Region: MreB_Mbl; pfam06723 1173022004117 nucleotide binding site [chemical binding]; other site 1173022004118 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1173022004119 SBD interface [polypeptide binding]; other site 1173022004120 homoserine kinase; Provisional; Region: PRK01212 1173022004121 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1173022004122 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022004123 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 1173022004124 active site 1173022004125 phosphorylation site [posttranslational modification] 1173022004126 intermolecular recognition site; other site 1173022004127 dimerization interface [polypeptide binding]; other site 1173022004128 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 1173022004129 putative rRNA binding site [nucleotide binding]; other site 1173022004130 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1173022004131 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 1173022004132 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1173022004133 catalytic residue [active] 1173022004134 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 1173022004135 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 1173022004136 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 1173022004137 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1173022004138 catalytic site [active] 1173022004139 putative active site [active] 1173022004140 putative substrate binding site [chemical binding]; other site 1173022004141 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 1173022004142 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 1173022004143 Ligand binding site; other site 1173022004144 metal-binding site 1173022004145 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 1173022004146 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1173022004147 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1173022004148 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1173022004149 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1173022004150 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1173022004151 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 1173022004152 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 1173022004153 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1173022004154 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1173022004155 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1649 1173022004156 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 1173022004157 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1173022004158 putative acyltransferase; Provisional; Region: PRK05790 1173022004159 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 1173022004160 dimer interface [polypeptide binding]; other site 1173022004161 active site 1173022004162 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 1173022004163 active site residue [active] 1173022004164 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 1173022004165 non-specific DNA binding site [nucleotide binding]; other site 1173022004166 salt bridge; other site 1173022004167 sequence-specific DNA binding site [nucleotide binding]; other site 1173022004168 Cfr10I/Bse634I restriction endonuclease; Region: Bse634I; pfam07832 1173022004169 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 1173022004170 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 1173022004171 cofactor binding site; other site 1173022004172 DNA binding site [nucleotide binding] 1173022004173 substrate interaction site [chemical binding]; other site 1173022004174 putative alpha-glucosidase; Provisional; Region: PRK10658 1173022004175 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 1173022004176 Alpha-glucosidase II (alpha-D-glucoside glucohydrolase) is a glycosyl hydrolase family 31 (GH31) enzyme, found in bacteria and plants, which has exo-alpha-1,4-glucosidase and oligo-1,6-glucosidase activities. Alpha-glucosidase II has been characterized...; Region: GH31_glucosidase_II_MalA; cd06604 1173022004177 trimer interface [polypeptide binding]; other site 1173022004178 active site 1173022004179 homohexamer (dimer of homotrimer) interface [polypeptide binding]; other site 1173022004180 catalytic site [active] 1173022004181 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 1173022004182 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 1173022004183 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1173022004184 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 1173022004185 putative active site [active] 1173022004186 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional; Region: PLN00020 1173022004187 Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit and related proteins. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of...; Region: RuBisCO_small_like; cd00307 1173022004188 putative multimerization interface [polypeptide binding]; other site 1173022004189 Uncharacterized conserved protein [Function unknown]; Region: COG5464 1173022004190 Protein of unknown function (DUF2887); Region: DUF2887; pfam11103 1173022004191 Protein of unknown function (DUF3071); Region: DUF3071; pfam11268 1173022004192 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]; Region: LigT; COG1514 1173022004193 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 1173022004194 YCII-related domain; Region: YCII; cl00999 1173022004195 short chain dehydrogenase; Validated; Region: PRK06182 1173022004196 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 1173022004197 NADP binding site [chemical binding]; other site 1173022004198 active site 1173022004199 steroid binding site; other site 1173022004200 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1173022004201 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 1173022004202 inhibitor-cofactor binding pocket; inhibition site 1173022004203 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1173022004204 catalytic residue [active] 1173022004205 Protein of unknown function (DUF561); Region: DUF561; pfam04481 1173022004206 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_a; cd00913 1173022004207 aromatic arch; other site 1173022004208 DCoH dimer interaction site [polypeptide binding]; other site 1173022004209 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 1173022004210 DCoH tetramer interaction site [polypeptide binding]; other site 1173022004211 substrate binding site [chemical binding]; other site 1173022004212 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 1173022004213 Protein of unknown function (DUF3891); Region: DUF3891; pfam13030 1173022004214 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; pfam02660 1173022004215 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1173022004216 phosphoenolpyruvate synthase; Validated; Region: PRK06241 1173022004217 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1173022004218 DNA phosphorothioation-associated putative methyltransferase; Region: dnd_rel_methyl; TIGR04096 1173022004219 Domain of unknown function (DUF1832); Region: DUF1832; pfam08870 1173022004220 GxxExxY protein; Region: GxxExxY; TIGR04256 1173022004221 DNA sulfur modification protein DndD; Region: DNA_S_dndD; TIGR03185 1173022004222 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1173022004223 Walker A/P-loop; other site 1173022004224 ATP binding site [chemical binding]; other site 1173022004225 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1173022004226 Q-loop/lid; other site 1173022004227 ABC transporter signature motif; other site 1173022004228 Walker B; other site 1173022004229 D-loop; other site 1173022004230 H-loop/switch region; other site 1173022004231 hypothetical protein; Provisional; Region: PRK06850 1173022004232 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 1173022004233 Active Sites [active] 1173022004234 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3440 1173022004235 HNH endonuclease; Region: HNH_2; pfam13391 1173022004236 DNA-sulfur modification-associated; Region: DndB; cl17621 1173022004237 DGQHR domain; Region: DGQHR; TIGR03187 1173022004238 DGQHR domain; Region: DGQHR; TIGR03187 1173022004239 DNA-sulfur modification-associated; Region: DndB; cl17621 1173022004240 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 1173022004241 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1173022004242 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1173022004243 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 1173022004244 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1173022004245 dnd system-associated protein 4; Region: dnd_assoc_4; TIGR04062 1173022004246 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 1173022004247 putative active site [active] 1173022004248 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 1173022004249 Retinal pigment epithelial membrane protein; Region: RPE65; pfam03055 1173022004250 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 1173022004251 putative active site [active] 1173022004252 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1173022004253 AAA domain; Region: AAA_23; pfam13476 1173022004254 Walker A/P-loop; other site 1173022004255 ATP binding site [chemical binding]; other site 1173022004256 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1173022004257 DNA phosphorothioation system restriction enzyme; Region: dnd_restrict_1; TIGR04095 1173022004258 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 1173022004259 ATP binding site [chemical binding]; other site 1173022004260 putative Mg++ binding site [ion binding]; other site 1173022004261 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 1173022004262 nucleotide binding region [chemical binding]; other site 1173022004263 ATP-binding site [chemical binding]; other site 1173022004264 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 1173022004265 putative active site [active] 1173022004266 Myxococcus xanthus DevT and related proteins, metallophosphatase domain; Region: MPP_DevT; cd07397 1173022004267 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1173022004268 putative active site [active] 1173022004269 putative metal binding site [ion binding]; other site 1173022004270 quinolinate synthetase; Provisional; Region: PRK09375 1173022004271 GDSL-like Lipase/Acylhydrolase family; Region: Lipase_GDSL_2; pfam13472 1173022004272 active site 1173022004273 catalytic triad [active] 1173022004274 oxyanion hole [active] 1173022004275 transferase 1, rSAM/selenodomain-associated; Region: glyco_like_cofC; TIGR04282 1173022004276 GT_2_like_a represents a glycosyltransferase family-2 subfamily with unknown function; Region: GT_2_like_a; cd02522 1173022004277 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 1173022004278 Probable Catalytic site; other site 1173022004279 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 1173022004280 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 1173022004281 PDZ domain associated with archaeal and bacterial M61 glycyl-aminopeptidases. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) polypeptides and even to...; Region: PDZ_glycyl_aminopeptidase; cd00990 1173022004282 protein binding site [polypeptide binding]; other site 1173022004283 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1173022004284 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 1173022004285 ligand binding site [chemical binding]; other site 1173022004286 flexible hinge region; other site 1173022004287 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 1173022004288 S-layer homology domain; Region: SLH; pfam00395 1173022004289 S-layer homology domain; Region: SLH; pfam00395 1173022004290 Ycf48-like protein; Provisional; Region: PRK13684 1173022004291 VPS10 domain; Region: VPS10; smart00602 1173022004292 Predicted flavoprotein [General function prediction only]; Region: COG0431 1173022004293 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1173022004294 RRXRR protein; Region: RRXRR; pfam14239 1173022004295 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 1173022004296 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 1173022004297 active site 1173022004298 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 1173022004299 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1173022004300 Protein of unknown function (DUF2839); Region: DUF2839; pfam10999 1173022004301 Domain of unknown function (DUF1815); Region: DUF1815; pfam08844 1173022004302 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1173022004303 Protein of unknown function (DUF1565); Region: DUF1565; pfam07602 1173022004304 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 1173022004305 S-layer homology domain; Region: SLH; pfam00395 1173022004306 S-layer homology domain; Region: SLH; pfam00395 1173022004307 Alpha/beta hydrolase of unknown function (DUF1400); Region: DUF1400; pfam07176 1173022004308 translation initiation factor IF-2; Region: IF-2; TIGR00487 1173022004309 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1173022004310 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1173022004311 G1 box; other site 1173022004312 putative GEF interaction site [polypeptide binding]; other site 1173022004313 GTP/Mg2+ binding site [chemical binding]; other site 1173022004314 Switch I region; other site 1173022004315 G2 box; other site 1173022004316 G3 box; other site 1173022004317 Switch II region; other site 1173022004318 G4 box; other site 1173022004319 G5 box; other site 1173022004320 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 1173022004321 Translation-initiation factor 2; Region: IF-2; pfam11987 1173022004322 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 1173022004323 Protein of unknown function (DUF448); Region: DUF448; pfam04296 1173022004324 putative RNA binding cleft [nucleotide binding]; other site 1173022004325 NusA N-terminal domain; Region: NusA_N; pfam08529 1173022004326 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 1173022004327 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 1173022004328 RNA binding site [nucleotide binding]; other site 1173022004329 homodimer interface [polypeptide binding]; other site 1173022004330 NusA-like KH domain; Region: KH_5; pfam13184 1173022004331 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 1173022004332 G-X-X-G motif; other site 1173022004333 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1173022004334 Sm and related proteins; Region: Sm_like; cl00259 1173022004335 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1173022004336 putative oligomer interface [polypeptide binding]; other site 1173022004337 putative RNA binding site [nucleotide binding]; other site 1173022004338 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1173022004339 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 1173022004340 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1173022004341 Serine dehydrogenase proteinase; Region: SDH_sah; pfam01972 1173022004342 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 1173022004343 active site 1173022004344 AMIN domain; Region: AMIN; pfam11741 1173022004345 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 1173022004346 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1173022004347 N-terminal plug; other site 1173022004348 ligand-binding site [chemical binding]; other site 1173022004349 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 1173022004350 Predicted transcriptional regulator [Transcription]; Region: COG3682 1173022004351 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1173022004352 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 1173022004353 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1173022004354 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1173022004355 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1173022004356 GLTT repeat (6 copies); Region: GLTT; pfam01744 1173022004357 Protein of unknown function DUF86; Region: DUF86; cl01031 1173022004358 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 1173022004359 active site 1173022004360 NTP binding site [chemical binding]; other site 1173022004361 metal binding triad [ion binding]; metal-binding site 1173022004362 antibiotic binding site [chemical binding]; other site 1173022004363 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 1173022004364 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 1173022004365 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1173022004366 putative active site [active] 1173022004367 putative NTP binding site [chemical binding]; other site 1173022004368 putative nucleic acid binding site [nucleotide binding]; other site 1173022004369 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1173022004370 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 1173022004371 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 1173022004372 active site 1173022004373 Orange carotenoid protein, N-terminal; Region: Carot_N; pfam09150 1173022004374 Haem utilisation ChuX/HutX; Region: ChuX_HutX; cl01509 1173022004375 S-layer homology domain; Region: SLH; pfam00395 1173022004376 S-layer homology domain; Region: SLH; pfam00395 1173022004377 KWG Leptospira; Region: KWG; pfam07656 1173022004378 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 1173022004379 KWG Leptospira; Region: KWG; pfam07656 1173022004380 KWG Leptospira; Region: KWG; pfam07656 1173022004381 PemK-like protein; Region: PemK; pfam02452 1173022004382 Protein of unknown function DUF104; Region: DUF104; pfam01954 1173022004383 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 1173022004384 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1173022004385 Walker A/P-loop; other site 1173022004386 ATP binding site [chemical binding]; other site 1173022004387 Q-loop/lid; other site 1173022004388 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1173022004389 ABC transporter signature motif; other site 1173022004390 Walker B; other site 1173022004391 D-loop; other site 1173022004392 H-loop/switch region; other site 1173022004393 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 1173022004394 ABC1 family; Region: ABC1; cl17513 1173022004395 S-layer homology domain; Region: SLH; pfam00395 1173022004396 Carbohydrate-selective porin, OprB family; Region: OprB; cl17816 1173022004397 CO2 hydration protein (ChpXY); Region: ChpXY; pfam10216 1173022004398 NAD(P)H-quinone oxidoreductase subunit D4; Validated; Region: PRK06473 1173022004399 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1173022004400 NAD(P)H-quinone oxidoreductase subunit F; Validated; Region: PRK07390 1173022004401 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1173022004402 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 1173022004403 Carbon dioxide concentrating mechanism (CcmK); Bacterial Micro-Compartment (BCM) domain; Region: BMC_CcmK; cd07057 1173022004404 Hexamer interface [polypeptide binding]; other site 1173022004405 Hexagonal pore residue; other site 1173022004406 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 1173022004407 Carbon dioxide concentrating mechanism (CcmK); Bacterial Micro-Compartment (BCM) domain; Region: BMC_CcmK; cd07057 1173022004408 Hexamer interface [polypeptide binding]; other site 1173022004409 Hexagonal pore residue; other site 1173022004410 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 1173022004411 Hexamer/Pentamer interface [polypeptide binding]; other site 1173022004412 central pore; other site 1173022004413 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1173022004414 Gamma carbonic anhydrases (CA): Carbonic anhydrases are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism, involving the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide, followed...; Region: LbH_gamma_CA; cd00710 1173022004415 trimer interface [polypeptide binding]; other site 1173022004416 active site 1173022004417 Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit and related proteins. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of...; Region: RuBisCO_small_like; cd00307 1173022004418 putative multimerization interface [polypeptide binding]; other site 1173022004419 Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit and related proteins. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of...; Region: RuBisCO_small_like; cd00307 1173022004420 putative multimerization interface [polypeptide binding]; other site 1173022004421 Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit and related proteins. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of...; Region: RuBisCO_small_like; cd00307 1173022004422 putative multimerization interface [polypeptide binding]; other site 1173022004423 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 1173022004424 putative trimer interface [polypeptide binding]; other site 1173022004425 putative CoA binding site [chemical binding]; other site 1173022004426 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 1173022004427 Carbon dioxide concentrating mechanism (CcmK); Bacterial Micro-Compartment (BCM) domain; Region: BMC_CcmK; cd07057 1173022004428 Hexamer interface [polypeptide binding]; other site 1173022004429 Hexagonal pore residue; other site 1173022004430 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 1173022004431 Carbon dioxide concentrating mechanism (CcmK); Bacterial Micro-Compartment (BCM) domain; Region: BMC_CcmK; cd07057 1173022004432 Hexamer interface [polypeptide binding]; other site 1173022004433 Hexagonal pore residue; other site 1173022004434 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 1173022004435 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 1173022004436 substrate binding site [chemical binding]; other site 1173022004437 catalytic Zn binding site [ion binding]; other site 1173022004438 NAD binding site [chemical binding]; other site 1173022004439 structural Zn binding site [ion binding]; other site 1173022004440 dimer interface [polypeptide binding]; other site 1173022004441 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1173022004442 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1173022004443 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1173022004444 ATP-binding cassette domain of the lipid transporters, subfamily A; Region: ABC_subfamily_A; cd03263 1173022004445 Walker A/P-loop; other site 1173022004446 ATP binding site [chemical binding]; other site 1173022004447 Q-loop/lid; other site 1173022004448 ABC transporter signature motif; other site 1173022004449 Walker B; other site 1173022004450 D-loop; other site 1173022004451 H-loop/switch region; other site 1173022004452 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1173022004453 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 1173022004454 acyl-activating enzyme (AAE) consensus motif; other site 1173022004455 AMP binding site [chemical binding]; other site 1173022004456 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 1173022004457 S-adenosylmethionine binding site [chemical binding]; other site 1173022004458 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1173022004459 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1173022004460 Condensation domain; Region: Condensation; pfam00668 1173022004461 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1173022004462 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1173022004463 The adenylation domain of nonribosomal peptide synthetases (NRPS), including salinosporamide A polyketide synthase; Region: A_NRPS_Ta1_like; cd12116 1173022004464 acyl-activating enzyme (AAE) consensus motif; other site 1173022004465 AMP binding site [chemical binding]; other site 1173022004466 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1173022004467 Condensation domain; Region: Condensation; pfam00668 1173022004468 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1173022004469 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1173022004470 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1173022004471 acyl-activating enzyme (AAE) consensus motif; other site 1173022004472 AMP binding site [chemical binding]; other site 1173022004473 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1173022004474 Condensation domain; Region: Condensation; pfam00668 1173022004475 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1173022004476 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1173022004477 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1173022004478 acyl-activating enzyme (AAE) consensus motif; other site 1173022004479 AMP binding site [chemical binding]; other site 1173022004480 PilZ domain; Region: PilZ; pfam07238 1173022004481 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1173022004482 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1173022004483 Condensation domain; Region: Condensation; pfam00668 1173022004484 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1173022004485 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1173022004486 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1173022004487 acyl-activating enzyme (AAE) consensus motif; other site 1173022004488 AMP binding site [chemical binding]; other site 1173022004489 PilZ domain; Region: PilZ; pfam07238 1173022004490 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1173022004491 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1173022004492 thioester reductase domain; Region: Thioester-redct; TIGR01746 1173022004493 extended (e) SDRs, subgroup 1; Region: SDR_e1; cd05235 1173022004494 putative NAD(P) binding site [chemical binding]; other site 1173022004495 active site 1173022004496 putative substrate binding site [chemical binding]; other site 1173022004497 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 1173022004498 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 1173022004499 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1173022004500 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1173022004501 active site 1173022004502 ATP binding site [chemical binding]; other site 1173022004503 substrate binding site [chemical binding]; other site 1173022004504 activation loop (A-loop); other site 1173022004505 AAA ATPase domain; Region: AAA_16; pfam13191 1173022004506 Predicted ATPase [General function prediction only]; Region: COG3899 1173022004507 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1173022004508 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022004509 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1173022004510 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 1173022004511 dimer interface [polypeptide binding]; other site 1173022004512 phosphorylation site [posttranslational modification] 1173022004513 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 1173022004514 ATP binding site [chemical binding]; other site 1173022004515 Mg2+ binding site [ion binding]; other site 1173022004516 G-X-G motif; other site 1173022004517 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 1173022004518 active site 1173022004519 metal binding site [ion binding]; metal-binding site 1173022004520 interdomain interaction site; other site 1173022004521 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1173022004522 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1173022004523 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1173022004524 PLD-like domain; Region: PLDc_2; pfam13091 1173022004525 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1173022004526 putative active site [active] 1173022004527 putative active site [active] 1173022004528 catalytic site [active] 1173022004529 catalytic site [active] 1173022004530 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1173022004531 putative active site [active] 1173022004532 catalytic site [active] 1173022004533 AAA domain; Region: AAA_30; pfam13604 1173022004534 Domain of unknown function (DUF2357); Region: DUF2357; pfam09823 1173022004535 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 1173022004536 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 1173022004537 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1173022004538 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 1173022004539 DNA binding residues [nucleotide binding] 1173022004540 bacteriophage N4 adsorption protein B; Provisional; Region: nfrB; PRK15489 1173022004541 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1173022004542 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022004543 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022004544 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022004545 hypothetical protein; Reviewed; Region: PRK12497 1173022004546 TraX protein; Region: TraX; pfam05857 1173022004547 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 1173022004548 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1173022004549 TPR repeat; Region: TPR_11; pfam13414 1173022004550 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 1173022004551 binding surface 1173022004552 TPR motif; other site 1173022004553 TPR repeat; Region: TPR_11; pfam13414 1173022004554 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 1173022004555 binding surface 1173022004556 TPR motif; other site 1173022004557 TPR repeat; Region: TPR_11; pfam13414 1173022004558 TPR repeat; Region: TPR_11; pfam13414 1173022004559 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 1173022004560 binding surface 1173022004561 TPR motif; other site 1173022004562 TPR repeat; Region: TPR_11; pfam13414 1173022004563 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1173022004564 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 1173022004565 binding surface 1173022004566 TPR motif; other site 1173022004567 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 1173022004568 TrkA-N domain; Region: TrkA_N; pfam02254 1173022004569 TrkA-C domain; Region: TrkA_C; pfam02080 1173022004570 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 1173022004571 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1173022004572 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 1173022004573 S-adenosylmethionine binding site [chemical binding]; other site 1173022004574 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 1173022004575 tocopherol phytyltransferase; Reviewed; Region: ubiA; PRK12887 1173022004576 UbiA prenyltransferase family; Region: UbiA; pfam01040 1173022004577 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1173022004578 active site 1173022004579 SAM binding site [chemical binding]; other site 1173022004580 homodimer interface [polypeptide binding]; other site 1173022004581 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 1173022004582 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 1173022004583 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 1173022004584 active site 1173022004585 dephospho-CoA kinase; Region: TIGR00152 1173022004586 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 1173022004587 CoA-binding site [chemical binding]; other site 1173022004588 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1173022004589 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1173022004590 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 1173022004591 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 1173022004592 FMN binding site [chemical binding]; other site 1173022004593 active site 1173022004594 catalytic residues [active] 1173022004595 substrate binding site [chemical binding]; other site 1173022004596 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1173022004597 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 1173022004598 nucleotide binding site [chemical binding]; other site 1173022004599 NEF interaction site [polypeptide binding]; other site 1173022004600 SBD interface [polypeptide binding]; other site 1173022004601 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 1173022004602 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1173022004603 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 1173022004604 protein binding site [polypeptide binding]; other site 1173022004605 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 1173022004606 FOG: CBS domain [General function prediction only]; Region: COG0517 1173022004607 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1173022004608 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 1173022004609 dimer interface [polypeptide binding]; other site 1173022004610 phosphorylation site [posttranslational modification] 1173022004611 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 1173022004612 ATP binding site [chemical binding]; other site 1173022004613 Mg2+ binding site [ion binding]; other site 1173022004614 G-X-G motif; other site 1173022004615 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 1173022004616 dimerization interface [polypeptide binding]; other site 1173022004617 putative DNA binding site [nucleotide binding]; other site 1173022004618 putative Zn2+ binding site [ion binding]; other site 1173022004619 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 1173022004620 arsenical-resistance protein; Region: acr3; TIGR00832 1173022004621 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1173022004622 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1173022004623 active site 1173022004624 arsenical resistance protein ArsH; Region: resist_ArsH; TIGR02690 1173022004625 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1173022004626 Exopolysaccharide synthesis, ExoD; Region: ExoD; cl01617 1173022004627 Uncharacterized conserved protein [Function unknown]; Region: COG2361 1173022004628 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 1173022004629 active site 1173022004630 NTP binding site [chemical binding]; other site 1173022004631 metal binding triad [ion binding]; metal-binding site 1173022004632 antibiotic binding site [chemical binding]; other site 1173022004633 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 1173022004634 Double zinc ribbon; Region: DZR; pfam12773 1173022004635 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1173022004636 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1173022004637 active site 1173022004638 ATP binding site [chemical binding]; other site 1173022004639 substrate binding site [chemical binding]; other site 1173022004640 activation loop (A-loop); other site 1173022004641 GUN4-like; Region: GUN4; pfam05419 1173022004642 recombination protein F; Reviewed; Region: recF; PRK00064 1173022004643 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 1173022004644 Walker A/P-loop; other site 1173022004645 ATP binding site [chemical binding]; other site 1173022004646 Q-loop/lid; other site 1173022004647 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1173022004648 ABC transporter signature motif; other site 1173022004649 Walker B; other site 1173022004650 D-loop; other site 1173022004651 H-loop/switch region; other site 1173022004652 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1173022004653 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 1173022004654 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1173022004655 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1173022004656 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 1173022004657 motif II; other site 1173022004658 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1173022004659 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1173022004660 putative lipid kinase; Reviewed; Region: PRK13057 1173022004661 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 1173022004662 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 1173022004663 putative active site [active] 1173022004664 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 1173022004665 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1173022004666 HflX GTPase family; Region: HflX; cd01878 1173022004667 G1 box; other site 1173022004668 GTP/Mg2+ binding site [chemical binding]; other site 1173022004669 Switch I region; other site 1173022004670 G2 box; other site 1173022004671 G3 box; other site 1173022004672 Switch II region; other site 1173022004673 G4 box; other site 1173022004674 G5 box; other site 1173022004675 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 1173022004676 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 1173022004677 TPR motif; other site 1173022004678 binding surface 1173022004679 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 1173022004680 binding surface 1173022004681 TPR motif; other site 1173022004682 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 1173022004683 binding surface 1173022004684 TPR motif; other site 1173022004685 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 1173022004686 binding surface 1173022004687 TPR motif; other site 1173022004688 Tetratricopeptide repeat; Region: TPR_1; pfam00515 1173022004689 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 1173022004690 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 1173022004691 binding surface 1173022004692 TPR motif; other site 1173022004693 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 1173022004694 binding surface 1173022004695 TPR motif; other site 1173022004696 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 1173022004697 binding surface 1173022004698 TPR motif; other site 1173022004699 phosphoribulokinase; Provisional; Region: PRK07429 1173022004700 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 1173022004701 active site 1173022004702 FO synthase subunit 1; Reviewed; Region: cofG; PRK06245 1173022004703 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 1173022004704 FeS/SAM binding site; other site 1173022004705 D1 subunit of photosystem II (PS II); Region: Photosystem-II_D1; cd09289 1173022004706 protein I interface; other site 1173022004707 D2 interface; other site 1173022004708 protein T interface; other site 1173022004709 chlorophyll binding site; other site 1173022004710 beta carotene binding site; other site 1173022004711 pheophytin binding site; other site 1173022004712 manganese-stabilizing polypeptide interface; other site 1173022004713 CP43 interface; other site 1173022004714 protein L interface; other site 1173022004715 oxygen evolving complex binding site; other site 1173022004716 bromide binding site; other site 1173022004717 quinone binding site; other site 1173022004718 Fe binding site [ion binding]; other site 1173022004719 core light harvesting interface; other site 1173022004720 cytochrome b559 alpha subunit interface; other site 1173022004721 cytochrome c-550 interface; other site 1173022004722 protein J interface; other site 1173022004723 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 1173022004724 Retinal pigment epithelial membrane protein; Region: RPE65; pfam03055 1173022004725 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 1173022004726 BT1 family; Region: BT1; pfam03092 1173022004727 putative substrate translocation pore; other site 1173022004728 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1173022004729 Probable transposase; Region: OrfB_IS605; pfam01385 1173022004730 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1173022004731 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 1173022004732 Ligand Binding Site [chemical binding]; other site 1173022004733 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 1173022004734 Ligand Binding Site [chemical binding]; other site 1173022004735 Photosystem II reaction centre M protein (PsbM); Region: PsbM; cl11459 1173022004736 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1173022004737 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1173022004738 catalytic loop [active] 1173022004739 iron binding site [ion binding]; other site 1173022004740 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1173022004741 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 1173022004742 putative FeS-containing Cyanobacterial-specific oxidoreductase; Region: cyano_FeS_chp; TIGR03279 1173022004743 Protein of unknown function (DUF512); Region: DUF512; pfam04459 1173022004744 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1173022004745 Glutathione S-transferase, N-terminal domain; Region: GST_N_3; pfam13417 1173022004746 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 1173022004747 N-terminal domain interface [polypeptide binding]; other site 1173022004748 dimer interface [polypeptide binding]; other site 1173022004749 substrate binding pocket (H-site) [chemical binding]; other site 1173022004750 bifunctional orotidine 5'-phosphate decarboxylase/orotate phosphoribosyltransferase protein; Validated; Region: PRK05500 1173022004751 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 1173022004752 active site 1173022004753 dimer interface [polypeptide binding]; other site 1173022004754 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1173022004755 active site 1173022004756 light-dependent protochlorophyllide reductase; Region: LPOR; TIGR01289 1173022004757 light-dependent protochlorophyllide reductase (LPOR)-like, classical (c)-like SDRs; Region: LPOR_like_SDR_c_like; cd09810 1173022004758 putative NAD(P) binding site [chemical binding]; other site 1173022004759 active site 1173022004760 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 1173022004761 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 1173022004762 HSP70 interaction site [polypeptide binding]; other site 1173022004763 Protein of unknown function (DUF3143); Region: DUF3143; pfam11341 1173022004764 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1173022004765 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1173022004766 putative active site [active] 1173022004767 substrate binding site [chemical binding]; other site 1173022004768 putative cosubstrate binding site; other site 1173022004769 catalytic site [active] 1173022004770 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1173022004771 substrate binding site [chemical binding]; other site 1173022004772 circadian clock protein KaiC; Region: circ_KaiC; TIGR02655 1173022004773 KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs. A related protein is found in archaea; Region: KaiC; cd01124 1173022004774 Walker A motif; other site 1173022004775 ATP binding site [chemical binding]; other site 1173022004776 Walker B motif; other site 1173022004777 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 1173022004778 ATP binding site [chemical binding]; other site 1173022004779 Walker B motif; other site 1173022004780 KaiB-like family; composed of the circadian clock proteins, KaiB and the N-terminal KaiB-like sensory domain of SasA. KaiB is an essential protein in maintaining circadian rhythm. It was originally discovered from the cyanobacterium Synechococcus as part...; Region: KaiB_like; cd02978 1173022004781 tetramer interface [polypeptide binding]; other site 1173022004782 dimer interface [polypeptide binding]; other site 1173022004783 KaiA domain; Region: KaiA; pfam07688 1173022004784 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1173022004785 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 1173022004786 dimer interface [polypeptide binding]; other site 1173022004787 phosphorylation site [posttranslational modification] 1173022004788 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 1173022004789 ATP binding site [chemical binding]; other site 1173022004790 Mg2+ binding site [ion binding]; other site 1173022004791 G-X-G motif; other site 1173022004792 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022004793 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 1173022004794 active site 1173022004795 phosphorylation site [posttranslational modification] 1173022004796 intermolecular recognition site; other site 1173022004797 dimerization interface [polypeptide binding]; other site 1173022004798 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 1173022004799 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 1173022004800 Aerobic Cyclase System Fe-containing subunit (ACSF), ferritin-like diiron-binding domain; Region: ACSF; cd01047 1173022004801 diiron binding motif [ion binding]; other site 1173022004802 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1173022004803 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022004804 GAF domain; Region: GAF; pfam01590 1173022004805 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1173022004806 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 1173022004807 dimer interface [polypeptide binding]; other site 1173022004808 phosphorylation site [posttranslational modification] 1173022004809 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 1173022004810 ATP binding site [chemical binding]; other site 1173022004811 Mg2+ binding site [ion binding]; other site 1173022004812 G-X-G motif; other site 1173022004813 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022004814 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 1173022004815 active site 1173022004816 phosphorylation site [posttranslational modification] 1173022004817 intermolecular recognition site; other site 1173022004818 dimerization interface [polypeptide binding]; other site 1173022004819 TM2 domain; Region: TM2; cl00984 1173022004820 Protein of unknown function (DUF2996); Region: DUF2996; pfam11210 1173022004821 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 1173022004822 MoaE interaction surface [polypeptide binding]; other site 1173022004823 MoeB interaction surface [polypeptide binding]; other site 1173022004824 thiocarboxylated glycine; other site 1173022004825 threonine synthase; Validated; Region: PRK07591 1173022004826 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 1173022004827 homodimer interface [polypeptide binding]; other site 1173022004828 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1173022004829 catalytic residue [active] 1173022004830 Heme NO binding; Region: HNOB; pfam07700 1173022004831 Heme NO binding associated; Region: HNOBA; pfam07701 1173022004832 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 1173022004833 dimer interface [polypeptide binding]; other site 1173022004834 phosphorylation site [posttranslational modification] 1173022004835 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 1173022004836 ATP binding site [chemical binding]; other site 1173022004837 Mg2+ binding site [ion binding]; other site 1173022004838 G-X-G motif; other site 1173022004839 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 1173022004840 MoaE interaction surface [polypeptide binding]; other site 1173022004841 MoeB interaction surface [polypeptide binding]; other site 1173022004842 thiocarboxylated glycine; other site 1173022004843 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 1173022004844 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 1173022004845 HSP70 interaction site [polypeptide binding]; other site 1173022004846 Clp protease; Region: CLP_protease; pfam00574 1173022004847 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1173022004848 oligomer interface [polypeptide binding]; other site 1173022004849 active site residues [active] 1173022004850 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1173022004851 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1173022004852 oligomer interface [polypeptide binding]; other site 1173022004853 active site residues [active] 1173022004854 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 1173022004855 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; cl00057 1173022004856 metal ion-dependent adhesion site (MIDAS); other site 1173022004857 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 1173022004858 coproporphyrinogen III oxidase; Provisional; Region: PRK07379 1173022004859 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 1173022004860 FeS/SAM binding site; other site 1173022004861 HemN C-terminal domain; Region: HemN_C; pfam06969 1173022004862 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 1173022004863 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 1173022004864 putative active site [active] 1173022004865 heat shock protein 90; Provisional; Region: PRK05218 1173022004866 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 1173022004867 ATP binding site [chemical binding]; other site 1173022004868 Mg2+ binding site [ion binding]; other site 1173022004869 G-X-G motif; other site 1173022004870 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 1173022004871 putative active site [active] 1173022004872 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1173022004873 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 1173022004874 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 1173022004875 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1173022004876 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 1173022004877 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 1173022004878 glycogen branching enzyme; Provisional; Region: PRK05402 1173022004879 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 1173022004880 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 1173022004881 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 1173022004882 active site 1173022004883 catalytic site [active] 1173022004884 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 1173022004885 Protein of unknown function (DUF3493); Region: DUF3493; pfam11998 1173022004886 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1173022004887 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 1173022004888 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 1173022004889 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 1173022004890 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 1173022004891 active site 1173022004892 motif I; other site 1173022004893 motif II; other site 1173022004894 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 1173022004895 hypothetical protein; Provisional; Region: PRK07236 1173022004896 hypothetical protein; Provisional; Region: PRK07236 1173022004897 recombinase A; Provisional; Region: recA; PRK09354 1173022004898 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 1173022004899 hexamer interface [polypeptide binding]; other site 1173022004900 Walker A motif; other site 1173022004901 ATP binding site [chemical binding]; other site 1173022004902 Walker B motif; other site 1173022004903 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1173022004904 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 1173022004905 generic binding surface II; other site 1173022004906 generic binding surface I; other site 1173022004907 Exonuclease VII small subunit; Region: Exonuc_VII_S; pfam02609 1173022004908 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 1173022004909 putative active site [active] 1173022004910 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1173022004911 NAD(P) binding site [chemical binding]; other site 1173022004912 short chain dehydrogenase; Provisional; Region: PRK06181 1173022004913 active site 1173022004914 NurA nuclease; Region: NurA; smart00933 1173022004915 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1173022004916 ncharacterized protein conserved in bacteria [Function unknown]; Region: SpoIIIAA; COG3854 1173022004917 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 1173022004918 Walker A motif; other site 1173022004919 ATP binding site [chemical binding]; other site 1173022004920 Walker B motif; other site 1173022004921 R3H domain of a group of proteins with unknown function, who also contain a AAA-ATPase (AAA) domain. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is...; Region: R3H_AAA; cd02645 1173022004922 RxxxH motif; other site 1173022004923 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 1173022004924 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1173022004925 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 1173022004926 Iron-Sulfur binding protein C terminal; Region: LdpA_C; pfam12617 1173022004927 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1173022004928 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1173022004929 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1173022004930 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022004931 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 1173022004932 active site 1173022004933 phosphorylation site [posttranslational modification] 1173022004934 intermolecular recognition site; other site 1173022004935 dimerization interface [polypeptide binding]; other site 1173022004936 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1173022004937 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1173022004938 metal binding site [ion binding]; metal-binding site 1173022004939 active site 1173022004940 I-site; other site 1173022004941 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 1173022004942 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 1173022004943 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1173022004944 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1173022004945 PAS domain S-box; Region: sensory_box; TIGR00229 1173022004946 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 1173022004947 PAS fold; Region: PAS_3; pfam08447 1173022004948 putative active site [active] 1173022004949 heme pocket [chemical binding]; other site 1173022004950 PAS domain S-box; Region: sensory_box; TIGR00229 1173022004951 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 1173022004952 putative active site [active] 1173022004953 heme pocket [chemical binding]; other site 1173022004954 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022004955 GAF domain; Region: GAF; pfam01590 1173022004956 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 1173022004957 dimer interface [polypeptide binding]; other site 1173022004958 phosphorylation site [posttranslational modification] 1173022004959 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 1173022004960 ATP binding site [chemical binding]; other site 1173022004961 Mg2+ binding site [ion binding]; other site 1173022004962 G-X-G motif; other site 1173022004963 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022004964 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 1173022004965 active site 1173022004966 phosphorylation site [posttranslational modification] 1173022004967 intermolecular recognition site; other site 1173022004968 dimerization interface [polypeptide binding]; other site 1173022004969 S-layer homology domain; Region: SLH; pfam00395 1173022004970 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 1173022004971 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 1173022004972 dimerization interface [polypeptide binding]; other site 1173022004973 putative DNA binding site [nucleotide binding]; other site 1173022004974 putative Zn2+ binding site [ion binding]; other site 1173022004975 Prokaryotic metallothionein; Region: Metallothio_Pro; pfam02069 1173022004976 Archaea-specific RecJ-like exonuclease, contains DnaJ-type Zn finger domain [DNA replication, recombination, and repair]; Region: COG1107 1173022004977 chaperone protein DnaJ; Provisional; Region: PRK14285 1173022004978 gp58-like protein; Region: Gp58; pfam07902 1173022004979 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1173022004980 AAA domain; Region: AAA_25; pfam13481 1173022004981 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; cd01120 1173022004982 Walker A motif; other site 1173022004983 ATP binding site [chemical binding]; other site 1173022004984 Walker B motif; other site 1173022004985 Transcription factor IIA, alpha/beta subunit; Region: TFIIA; pfam03153 1173022004986 Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452 1173022004987 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 1173022004988 DNA binding residues [nucleotide binding] 1173022004989 Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of...; Region: SR_IS607_transposase_like; cd03769 1173022004990 catalytic residues [active] 1173022004991 catalytic nucleophile [active] 1173022004992 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1173022004993 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1173022004994 Probable transposase; Region: OrfB_IS605; pfam01385 1173022004995 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1173022004996 KGK domain; Region: KGK; pfam08872 1173022004997 Gas vesicle protein [General function prediction only]; Region: GvpP; COG4980 1173022004998 Repair protein; Region: Repair_PSII; pfam04536 1173022004999 precorrin-8X methylmutase; Validated; Region: PRK05953 1173022005000 Precorrin-8X methylmutase; Region: CbiC; pfam02570 1173022005001 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1173022005002 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1173022005003 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1173022005004 Probable transposase; Region: OrfB_IS605; pfam01385 1173022005005 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1173022005006 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1173022005007 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1173022005008 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2343 1173022005009 Ferritin-like domain; Region: Ferritin_2; pfam13668 1173022005010 Ferritin-like domain; Region: Ferritin_2; pfam13668 1173022005011 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1173022005012 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1173022005013 Ion transport protein; Region: Ion_trans; pfam00520 1173022005014 Ion channel; Region: Ion_trans_2; pfam07885 1173022005015 Electron transfer DM13; Region: DM13; pfam10517 1173022005016 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 1173022005017 transketolase; Region: PLN02790 1173022005018 TPP-binding site [chemical binding]; other site 1173022005019 dimer interface [polypeptide binding]; other site 1173022005020 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 1173022005021 PYR/PP interface [polypeptide binding]; other site 1173022005022 dimer interface [polypeptide binding]; other site 1173022005023 TPP binding site [chemical binding]; other site 1173022005024 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1173022005025 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 1173022005026 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 1173022005027 dimer interface [polypeptide binding]; other site 1173022005028 active site 1173022005029 acyl carrier protein; Provisional; Region: acpP; PRK00982 1173022005030 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 1173022005031 Cysteine-rich domain; Region: CCG; pfam02754 1173022005032 Cysteine-rich domain; Region: CCG; pfam02754 1173022005033 Putative esterase; Region: Esterase; pfam00756 1173022005034 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4947 1173022005035 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 1173022005036 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1173022005037 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 1173022005038 active site 1173022005039 phosphorylation site [posttranslational modification] 1173022005040 intermolecular recognition site; other site 1173022005041 dimerization interface [polypeptide binding]; other site 1173022005042 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 1173022005043 DNA binding site [nucleotide binding] 1173022005044 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1173022005045 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 1173022005046 dimerization interface [polypeptide binding]; other site 1173022005047 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 1173022005048 dimer interface [polypeptide binding]; other site 1173022005049 phosphorylation site [posttranslational modification] 1173022005050 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 1173022005051 ATP binding site [chemical binding]; other site 1173022005052 Mg2+ binding site [ion binding]; other site 1173022005053 G-X-G motif; other site 1173022005054 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 1173022005055 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1173022005056 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 1173022005057 protein binding site [polypeptide binding]; other site 1173022005058 arogenate dehydrogenase; Reviewed; Region: PRK07417 1173022005059 prephenate dehydrogenase; Validated; Region: PRK08507 1173022005060 Domain of unknown function (DUF4308); Region: DUF4308; pfam14159 1173022005061 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1173022005062 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 1173022005063 TPR motif; other site 1173022005064 binding surface 1173022005065 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1173022005066 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1173022005067 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 1173022005068 binding surface 1173022005069 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1173022005070 TPR motif; other site 1173022005071 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1173022005072 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 1173022005073 active site 1173022005074 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 1173022005075 active site 1173022005076 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 1173022005077 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 1173022005078 HSP70 interaction site [polypeptide binding]; other site 1173022005079 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1173022005080 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 1173022005081 dimer interface [polypeptide binding]; other site 1173022005082 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1173022005083 catalytic residue [active] 1173022005084 Predicted transcriptional regulator [Transcription]; Region: COG1959 1173022005085 Transcriptional regulator; Region: Rrf2; pfam02082 1173022005086 Transcriptional regulator; Region: Rrf2; cl17282 1173022005087 S-layer homology domain; Region: SLH; pfam00395 1173022005088 Subunit 21 of Mediator complex; Region: Med21; pfam11221 1173022005089 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 1173022005090 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1173022005091 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1173022005092 Walker A/P-loop; other site 1173022005093 ATP binding site [chemical binding]; other site 1173022005094 Q-loop/lid; other site 1173022005095 ABC transporter signature motif; other site 1173022005096 Walker B; other site 1173022005097 D-loop; other site 1173022005098 H-loop/switch region; other site 1173022005099 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 1173022005100 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 1173022005101 Succinyl-CoA synthetase, alpha subunit [Energy production and conversion]; Region: SucD; COG0074 1173022005102 CoA binding domain; Region: CoA_binding; smart00881 1173022005103 CoA-ligase; Region: Ligase_CoA; pfam00549 1173022005104 Succinyl-CoA synthetase, beta subunit [Energy production and conversion]; Region: SucC; COG0045 1173022005105 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 1173022005106 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 1173022005107 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 1173022005108 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 1173022005109 NADP binding site [chemical binding]; other site 1173022005110 active site 1173022005111 putative substrate binding site [chemical binding]; other site 1173022005112 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1173022005113 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1173022005114 Coenzyme A binding pocket [chemical binding]; other site 1173022005115 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 1173022005116 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 1173022005117 putative dimer interface [polypeptide binding]; other site 1173022005118 putative anticodon binding site; other site 1173022005119 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 1173022005120 homodimer interface [polypeptide binding]; other site 1173022005121 motif 1; other site 1173022005122 motif 2; other site 1173022005123 active site 1173022005124 motif 3; other site 1173022005125 Protein of unknown function (DUF342); Region: DUF342; pfam03961 1173022005126 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 1173022005127 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 1173022005128 Mg2+ binding site [ion binding]; other site 1173022005129 G-X-G motif; other site 1173022005130 TRAM domain; Region: TRAM; pfam01938 1173022005131 23S rRNA (uracil-5-)-methyltransferase RumA; Region: rumA; TIGR00479 1173022005132 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 1173022005133 S-adenosylmethionine binding site [chemical binding]; other site 1173022005134 Phycobilisome protein; Region: Phycobilisome; cl08227 1173022005135 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 1173022005136 binding surface 1173022005137 TPR motif; other site 1173022005138 TPR repeat; Region: TPR_11; pfam13414 1173022005139 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 1173022005140 binding surface 1173022005141 TPR motif; other site 1173022005142 TPR repeat; Region: TPR_11; pfam13414 1173022005143 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 1173022005144 binding surface 1173022005145 TPR motif; other site 1173022005146 GAF domain; Region: GAF; cl17456 1173022005147 GAF domain; Region: GAF_2; pfam13185 1173022005148 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1173022005149 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 1173022005150 Walker A motif; other site 1173022005151 ATP binding site [chemical binding]; other site 1173022005152 Walker B motif; other site 1173022005153 arginine finger; other site 1173022005154 Phosphoinositide 3-kinase family, accessory domain (PIK domain); PIK domain is conserved in PI3 and PI4-kinases. Its role is unclear, but it has been suggested to be involved in substrate presentation. Phosphoinositide 3-kinases play an important role in...; Region: PI3Ka; cl00271 1173022005155 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1173022005156 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 1173022005157 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1173022005158 substrate binding site [chemical binding]; other site 1173022005159 glutamase interaction surface [polypeptide binding]; other site 1173022005160 YacP-like NYN domain; Region: NYN_YacP; pfam05991 1173022005161 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1173022005162 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1173022005163 Walker A/P-loop; other site 1173022005164 ATP binding site [chemical binding]; other site 1173022005165 Q-loop/lid; other site 1173022005166 ABC transporter signature motif; other site 1173022005167 Walker B; other site 1173022005168 D-loop; other site 1173022005169 H-loop/switch region; other site 1173022005170 hypothetical protein; Provisional; Region: PRK13683 1173022005171 D2 subunit of photosystem II (PS II); Region: Photosystem-II_D2; cd09288 1173022005172 D1 interface; other site 1173022005173 chlorophyll binding site; other site 1173022005174 pheophytin binding site; other site 1173022005175 beta carotene binding site; other site 1173022005176 cytochrome b559 beta interface; other site 1173022005177 quinone binding site; other site 1173022005178 cytochrome b559 alpha interface; other site 1173022005179 protein J interface; other site 1173022005180 protein H interface; other site 1173022005181 protein X interface; other site 1173022005182 core light harvesting protein interface; other site 1173022005183 protein L interface; other site 1173022005184 CP43 interface; other site 1173022005185 protein T interface; other site 1173022005186 Fe binding site [ion binding]; other site 1173022005187 protein M interface; other site 1173022005188 Mn-stabilizing polypeptide interface; other site 1173022005189 bromide binding site; other site 1173022005190 cytochrome c-550 interface; other site 1173022005191 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 1173022005192 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 1173022005193 RNA binding surface [nucleotide binding]; other site 1173022005194 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1173022005195 active site 1173022005196 phycocyanin beta subunit; Reviewed; Region: cpcB; CHL00171 1173022005197 phycocyanin, alpha subunit; Region: phycocy_alpha; TIGR01338 1173022005198 Phycobilisome Linker polypeptide; Region: PBS_linker_poly; pfam00427 1173022005199 CpcD/allophycocyanin linker domain; Region: CpcD; pfam01383 1173022005200 CpcD/allophycocyanin linker domain; Region: CpcD; pfam01383 1173022005201 HEAT repeats; Region: HEAT_2; pfam13646 1173022005202 HEAT repeats; Region: HEAT_2; pfam13646 1173022005203 HEAT repeats; Region: HEAT_2; pfam13646 1173022005204 HEAT repeats; Region: HEAT_2; pfam13646 1173022005205 Phycobilisome Linker polypeptide; Region: PBS_linker_poly; pfam00427 1173022005206 Phycobilisome Linker polypeptide; Region: PBS_linker_poly; pfam00427 1173022005207 Phycobilisome Linker polypeptide; Region: PBS_linker_poly; pfam00427 1173022005208 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 1173022005209 putative active site [active] 1173022005210 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 1173022005211 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 1173022005212 S-adenosylmethionine binding site [chemical binding]; other site 1173022005213 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 1173022005214 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 1173022005215 ligand binding site [chemical binding]; other site 1173022005216 NAD binding site [chemical binding]; other site 1173022005217 dimerization interface [polypeptide binding]; other site 1173022005218 catalytic site [active] 1173022005219 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 1173022005220 putative L-serine binding site [chemical binding]; other site 1173022005221 photosystem II S4 domain protein; Region: PS_II_S4; TIGR03069 1173022005222 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 1173022005223 RNA binding surface [nucleotide binding]; other site 1173022005224 Sensory domain found in DIguanylate Cyclases & Two-component systems; Region: DICT; cl01731 1173022005225 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022005226 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1173022005227 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 1173022005228 dimer interface [polypeptide binding]; other site 1173022005229 phosphorylation site [posttranslational modification] 1173022005230 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 1173022005231 ATP binding site [chemical binding]; other site 1173022005232 Mg2+ binding site [ion binding]; other site 1173022005233 G-X-G motif; other site 1173022005234 PsaD; Region: PsaD; pfam02531 1173022005235 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 1173022005236 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1173022005237 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1173022005238 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 1173022005239 heme-binding site [chemical binding]; other site 1173022005240 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 1173022005241 heme-binding site [chemical binding]; other site 1173022005242 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 1173022005243 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022005244 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1173022005245 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1173022005246 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1173022005247 EamA-like transporter family; Region: EamA; pfam00892 1173022005248 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 1173022005249 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1173022005250 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1173022005251 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 1173022005252 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1173022005253 NAD(P) binding site [chemical binding]; other site 1173022005254 active site 1173022005255 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cd00051 1173022005256 EF-hand domain pair; Region: EF_hand_5; pfam13499 1173022005257 Ca2+ binding site [ion binding]; other site 1173022005258 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1173022005259 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1173022005260 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 1173022005261 FAD binding pocket [chemical binding]; other site 1173022005262 conserved FAD binding motif [chemical binding]; other site 1173022005263 phosphate binding motif [ion binding]; other site 1173022005264 beta-alpha-beta structure motif; other site 1173022005265 NAD binding pocket [chemical binding]; other site 1173022005266 Nitric oxide synthase (NOS) produces nitric oxide (NO) by catalyzing a five-electron heme-based oxidation of a guanidine nitrogen of L-arginine to L-citrulline via two successive monooxygenation reactions producing N(omega)-hydroxy-L-arginine (NHA) as an...; Region: NOS_oxygenase; cd00575 1173022005267 active site 1173022005268 dimer interface [polypeptide binding]; other site 1173022005269 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 1173022005270 anti sigma factor interaction site; other site 1173022005271 regulatory phosphorylation site [posttranslational modification]; other site 1173022005272 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5381 1173022005273 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 1173022005274 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1173022005275 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1173022005276 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 1173022005277 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 1173022005278 Probable transposase; Region: OrfB_IS605; pfam01385 1173022005279 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1173022005280 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 1173022005281 putative catalytic cysteine [active] 1173022005282 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-I; Region: Lumazine_synthase-I; cd09209 1173022005283 homopentamer interface [polypeptide binding]; other site 1173022005284 active site 1173022005285 photosystem II reaction center protein Z; Provisional; Region: psbZ; PRK02576 1173022005286 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 1173022005287 DHH family; Region: DHH; pfam01368 1173022005288 FOG: CBS domain [General function prediction only]; Region: COG0517 1173022005289 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with an upstream DHH domain which performs a phosphoesterase function and a downstream polyA polymerase domain. CBS is a small domain originally...; Region: CBS_pair_DHH_polyA_Pol_assoc; cd04595 1173022005290 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 1173022005291 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1173022005292 active site 1173022005293 NTP binding site [chemical binding]; other site 1173022005294 metal binding triad [ion binding]; metal-binding site 1173022005295 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1173022005296 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1173022005297 active site 1173022005298 ATP binding site [chemical binding]; other site 1173022005299 substrate binding site [chemical binding]; other site 1173022005300 activation loop (A-loop); other site 1173022005301 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 1173022005302 ABC1 family; Region: ABC1; cl17513 1173022005303 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 1173022005304 active site 1173022005305 Phycobilisome degradation protein nblA; Region: NblA; pfam04485 1173022005306 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1173022005307 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1173022005308 active site 1173022005309 ATP binding site [chemical binding]; other site 1173022005310 substrate binding site [chemical binding]; other site 1173022005311 activation loop (A-loop); other site 1173022005312 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 1173022005313 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 1173022005314 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 1173022005315 phosphopeptide binding site; other site 1173022005316 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1173022005317 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 1173022005318 dimer interface [polypeptide binding]; other site 1173022005319 phosphorylation site [posttranslational modification] 1173022005320 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 1173022005321 ATP binding site [chemical binding]; other site 1173022005322 Mg2+ binding site [ion binding]; other site 1173022005323 G-X-G motif; other site 1173022005324 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 1173022005325 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1173022005326 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1173022005327 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1173022005328 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1173022005329 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 1173022005330 Walker A/P-loop; other site 1173022005331 ATP binding site [chemical binding]; other site 1173022005332 Q-loop/lid; other site 1173022005333 ABC transporter signature motif; other site 1173022005334 Walker B; other site 1173022005335 D-loop; other site 1173022005336 H-loop/switch region; other site 1173022005337 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 1173022005338 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 1173022005339 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1173022005340 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 1173022005341 active site 1173022005342 phosphorylation site [posttranslational modification] 1173022005343 intermolecular recognition site; other site 1173022005344 dimerization interface [polypeptide binding]; other site 1173022005345 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 1173022005346 DNA binding site [nucleotide binding] 1173022005347 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1173022005348 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: MGAT-like; Region: LPLAT_MGAT-like; cd07987 1173022005349 putative acyl-acceptor binding pocket; other site 1173022005350 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 1173022005351 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1173022005352 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1173022005353 Probable transposase; Region: OrfB_IS605; pfam01385 1173022005354 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1173022005355 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 1173022005356 PAS domain S-box; Region: sensory_box; TIGR00229 1173022005357 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 1173022005358 putative active site [active] 1173022005359 heme pocket [chemical binding]; other site 1173022005360 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1173022005361 GAF domain; Region: GAF_2; pfam13185 1173022005362 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1173022005363 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 1173022005364 dimer interface [polypeptide binding]; other site 1173022005365 phosphorylation site [posttranslational modification] 1173022005366 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 1173022005367 ATP binding site [chemical binding]; other site 1173022005368 Mg2+ binding site [ion binding]; other site 1173022005369 G-X-G motif; other site 1173022005370 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 1173022005371 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 1173022005372 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 1173022005373 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 1173022005374 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022005375 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 1173022005376 active site 1173022005377 phosphorylation site [posttranslational modification] 1173022005378 intermolecular recognition site; other site 1173022005379 dimerization interface [polypeptide binding]; other site 1173022005380 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 1173022005381 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 1173022005382 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 1173022005383 anti sigma factor interaction site; other site 1173022005384 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1173022005385 regulatory phosphorylation site [posttranslational modification]; other site 1173022005386 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 1173022005387 active site 1173022005388 Glycosyl transferase family 21; Region: Glyco_transf_21; pfam13506 1173022005389 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 1173022005390 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 1173022005391 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 1173022005392 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 1173022005393 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 1173022005394 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1173022005395 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 1173022005396 GDP-binding site [chemical binding]; other site 1173022005397 ACT binding site; other site 1173022005398 IMP binding site; other site 1173022005399 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1173022005400 5S rRNA interface [nucleotide binding]; other site 1173022005401 CTC domain interface [polypeptide binding]; other site 1173022005402 L16 interface [polypeptide binding]; other site 1173022005403 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 1173022005404 Predicted kinase [General function prediction only]; Region: COG0645 1173022005405 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 1173022005406 ATP-binding site [chemical binding]; other site 1173022005407 Gluconate-6-phosphate binding site [chemical binding]; other site 1173022005408 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1173022005409 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 1173022005410 putative active site [active] 1173022005411 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 1173022005412 ligand binding site [chemical binding]; other site 1173022005413 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 1173022005414 Ferredoxin thioredoxin reductase variable alpha chain; Region: FeThRed_A; pfam02941 1173022005415 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1173022005416 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1173022005417 Probable transposase; Region: OrfB_IS605; pfam01385 1173022005418 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 1173022005419 active site 1173022005420 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 1173022005421 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1173022005422 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 1173022005423 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 1173022005424 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 1173022005425 Mg++ binding site [ion binding]; other site 1173022005426 putative catalytic motif [active] 1173022005427 substrate binding site [chemical binding]; other site 1173022005428 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1173022005429 metal binding site 2 [ion binding]; metal-binding site 1173022005430 putative DNA binding helix; other site 1173022005431 metal binding site 1 [ion binding]; metal-binding site 1173022005432 dimer interface [polypeptide binding]; other site 1173022005433 structural Zn2+ binding site [ion binding]; other site 1173022005434 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; pfam02700 1173022005435 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 1173022005436 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1173022005437 putative active site [active] 1173022005438 catalytic triad [active] 1173022005439 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022005440 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1173022005441 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1173022005442 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1173022005443 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 1173022005444 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1173022005445 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 1173022005446 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1173022005447 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1173022005448 tRNA synthetases class I (C) catalytic domain; Region: tRNA-synt_1e; pfam01406 1173022005449 active site 1173022005450 HIGH motif; other site 1173022005451 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1173022005452 KMSKS motif; other site 1173022005453 Domain of unknown function (DUF4308); Region: DUF4308; pfam14159 1173022005454 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 1173022005455 tRNA binding surface [nucleotide binding]; other site 1173022005456 anticodon binding site; other site 1173022005457 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1173022005458 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1173022005459 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 1173022005460 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1173022005461 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1173022005462 Peptidase family M23; Region: Peptidase_M23; pfam01551 1173022005463 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1173022005464 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14948 1173022005465 Maf-like protein; Region: Maf; pfam02545 1173022005466 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 1173022005467 active site 1173022005468 dimer interface [polypeptide binding]; other site 1173022005469 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1173022005470 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1173022005471 Tetramer interface [polypeptide binding]; other site 1173022005472 active site 1173022005473 FMN-binding site [chemical binding]; other site 1173022005474 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 1173022005475 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1173022005476 Cytochrome P450; Region: p450; cl12078 1173022005477 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 1173022005478 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1173022005479 active site 1173022005480 ATP binding site [chemical binding]; other site 1173022005481 substrate binding site [chemical binding]; other site 1173022005482 activation loop (A-loop); other site 1173022005483 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022005484 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 1173022005485 active site 1173022005486 phosphorylation site [posttranslational modification] 1173022005487 intermolecular recognition site; other site 1173022005488 dimerization interface [polypeptide binding]; other site 1173022005489 PAS fold; Region: PAS_3; pfam08447 1173022005490 PAS domain S-box; Region: sensory_box; TIGR00229 1173022005491 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 1173022005492 putative active site [active] 1173022005493 heme pocket [chemical binding]; other site 1173022005494 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1173022005495 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 1173022005496 dimer interface [polypeptide binding]; other site 1173022005497 phosphorylation site [posttranslational modification] 1173022005498 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 1173022005499 ATP binding site [chemical binding]; other site 1173022005500 Mg2+ binding site [ion binding]; other site 1173022005501 G-X-G motif; other site 1173022005502 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022005503 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 1173022005504 active site 1173022005505 phosphorylation site [posttranslational modification] 1173022005506 intermolecular recognition site; other site 1173022005507 dimerization interface [polypeptide binding]; other site 1173022005508 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022005509 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 1173022005510 active site 1173022005511 phosphorylation site [posttranslational modification] 1173022005512 intermolecular recognition site; other site 1173022005513 dimerization interface [polypeptide binding]; other site 1173022005514 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 1173022005515 putative binding surface; other site 1173022005516 active site 1173022005517 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1173022005518 hypothetical protein; Reviewed; Region: PRK00024 1173022005519 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1173022005520 MPN+ (JAMM) motif; other site 1173022005521 Zinc-binding site [ion binding]; other site 1173022005522 Uncharacterized conserved protein [Function unknown]; Region: COG3937 1173022005523 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 1173022005524 c-type cytochrome biogenensis protein; Validated; Region: ccs1; CHL00177 1173022005525 ResB-like family; Region: ResB; pfam05140 1173022005526 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 1173022005527 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 1173022005528 Cell cycle protein; Region: FTSW_RODA_SPOVE; pfam01098 1173022005529 CpcD/allophycocyanin linker domain; Region: CpcD; pfam01383 1173022005530 Phycobilisome protein; Region: Phycobilisome; cl08227 1173022005531 Phycobilisome protein; Region: Phycobilisome; cl08227 1173022005532 phycobillisome linker protein; Region: apcE; CHL00091 1173022005533 Phycobilisome protein; Region: Phycobilisome; cl08227 1173022005534 Phycobilisome Linker polypeptide; Region: PBS_linker_poly; pfam00427 1173022005535 Phycobilisome Linker polypeptide; Region: PBS_linker_poly; pfam00427 1173022005536 Phycobilisome Linker polypeptide; Region: PBS_linker_poly; pfam00427 1173022005537 Phycobilisome Linker polypeptide; Region: PBS_linker_poly; pfam00427 1173022005538 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1173022005539 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 1173022005540 S-adenosylmethionine binding site [chemical binding]; other site 1173022005541 ATP synthase I chain; Region: ATP_synt_I; pfam03899 1173022005542 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1173022005543 ATP synthase CF0 A subunit; Region: atpI; CHL00046 1173022005544 F0F1 ATP synthase subunit C; Validated; Region: PRK07354 1173022005545 F0F1 ATP synthase subunit B'; Validated; Region: PRK07353 1173022005546 ATP synthase B/B' CF(0); Region: ATP-synt_B; pfam00430 1173022005547 F0F1 ATP synthase subunit B; Validated; Region: PRK07352 1173022005548 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 1173022005549 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1173022005550 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1173022005551 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1173022005552 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1173022005553 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 1173022005554 beta subunit interaction interface [polypeptide binding]; other site 1173022005555 Walker A motif; other site 1173022005556 ATP binding site [chemical binding]; other site 1173022005557 Walker B motif; other site 1173022005558 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1173022005559 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1173022005560 core domain interface [polypeptide binding]; other site 1173022005561 delta subunit interface [polypeptide binding]; other site 1173022005562 epsilon subunit interface [polypeptide binding]; other site 1173022005563 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1173022005564 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1173022005565 catalytic loop [active] 1173022005566 iron binding site [ion binding]; other site 1173022005567 Protein of unknown function (DUF3326); Region: DUF3326; pfam11805 1173022005568 CAAX protease self-immunity; Region: Abi; pfam02517 1173022005569 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 1173022005570 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1173022005571 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 1173022005572 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1173022005573 active site 1173022005574 substrate binding site [chemical binding]; other site 1173022005575 cosubstrate binding site; other site 1173022005576 catalytic site [active] 1173022005577 Type IV pilin PilA; Region: Pilin_PilA; pfam14245 1173022005578 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 1173022005579 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 1173022005580 dimer interface [polypeptide binding]; other site 1173022005581 conserved gate region; other site 1173022005582 putative PBP binding loops; other site 1173022005583 ABC-ATPase subunit interface; other site 1173022005584 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1173022005585 Glycoprotease family; Region: Peptidase_M22; pfam00814 1173022005586 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 1173022005587 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1173022005588 This PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily and is found in both archaea and bacteria. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible...; Region: PGM_like2; cd05800 1173022005589 active site 1173022005590 substrate binding site [chemical binding]; other site 1173022005591 metal binding site [ion binding]; metal-binding site 1173022005592 Staphylococcal nuclease homologues; Region: SNc; smart00318 1173022005593 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 1173022005594 Catalytic site; other site 1173022005595 DNA polymerase I; Provisional; Region: PRK05755 1173022005596 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1173022005597 active site 1173022005598 metal binding site 1 [ion binding]; metal-binding site 1173022005599 putative 5' ssDNA interaction site; other site 1173022005600 metal binding site 3; metal-binding site 1173022005601 metal binding site 2 [ion binding]; metal-binding site 1173022005602 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1173022005603 putative DNA binding site [nucleotide binding]; other site 1173022005604 putative metal binding site [ion binding]; other site 1173022005605 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 1173022005606 active site 1173022005607 catalytic site [active] 1173022005608 substrate binding site [chemical binding]; other site 1173022005609 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1173022005610 active site 1173022005611 DNA binding site [nucleotide binding] 1173022005612 catalytic site [active] 1173022005613 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 1173022005614 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1173022005615 active site 1173022005616 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1173022005617 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 1173022005618 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1173022005619 putative substrate translocation pore; other site 1173022005620 sucrose-6F-phosphate phosphohydrolase; Region: SPP_plant-cyano; TIGR01485 1173022005621 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 1173022005622 active site 1173022005623 motif I; other site 1173022005624 motif II; other site 1173022005625 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1173022005626 RuvA N terminal domain; Region: RuvA_N; pfam01330 1173022005627 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1173022005628 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1173022005629 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 1173022005630 dimerization interface [polypeptide binding]; other site 1173022005631 glycine dehydrogenase; Provisional; Region: PRK05367 1173022005632 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 1173022005633 tetramer interface [polypeptide binding]; other site 1173022005634 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1173022005635 catalytic residue [active] 1173022005636 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 1173022005637 tetramer interface [polypeptide binding]; other site 1173022005638 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1173022005639 catalytic residue [active] 1173022005640 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 1173022005641 lipoyl attachment site [posttranslational modification]; other site 1173022005642 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 1173022005643 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1173022005644 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 1173022005645 active site 1173022005646 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 1173022005647 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 1173022005648 phosphopeptide binding site; other site 1173022005649 Double zinc ribbon; Region: DZR; pfam12773 1173022005650 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 1173022005651 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 1173022005652 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 1173022005653 phosphopeptide binding site; other site 1173022005654 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1173022005655 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 1173022005656 putative active site [active] 1173022005657 Uncharacterized conserved protein [Function unknown]; Region: COG2928 1173022005658 transcription antitermination protein NusB; Provisional; Region: nusB; PRK09634 1173022005659 putative RNA binding site [nucleotide binding]; other site 1173022005660 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1173022005661 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 1173022005662 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 1173022005663 P loop; other site 1173022005664 GTP binding site [chemical binding]; other site 1173022005665 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1173022005666 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 1173022005667 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 1173022005668 argininosuccinate lyase; Provisional; Region: PRK00855 1173022005669 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1173022005670 active sites [active] 1173022005671 tetramer interface [polypeptide binding]; other site 1173022005672 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 1173022005673 nudix motif; other site 1173022005674 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1173022005675 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 1173022005676 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 1173022005677 nucleophilic elbow; other site 1173022005678 catalytic site [active] 1173022005679 catalytic triad; other site 1173022005680 pantothenate kinase; Reviewed; Region: PRK13331 1173022005681 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 1173022005682 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1173022005683 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 1173022005684 GxxExxY protein; Region: GxxExxY; TIGR04256 1173022005685 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 1173022005686 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1173022005687 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1173022005688 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 1173022005689 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1173022005690 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1173022005691 active site 1173022005692 ATP binding site [chemical binding]; other site 1173022005693 substrate binding site [chemical binding]; other site 1173022005694 activation loop (A-loop); other site 1173022005695 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1173022005696 AAA ATPase domain; Region: AAA_16; pfam13191 1173022005697 Predicted ATPase [General function prediction only]; Region: COG3899 1173022005698 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022005699 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1173022005700 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 1173022005701 dimer interface [polypeptide binding]; other site 1173022005702 phosphorylation site [posttranslational modification] 1173022005703 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 1173022005704 ATP binding site [chemical binding]; other site 1173022005705 Mg2+ binding site [ion binding]; other site 1173022005706 G-X-G motif; other site 1173022005707 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022005708 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 1173022005709 active site 1173022005710 phosphorylation site [posttranslational modification] 1173022005711 intermolecular recognition site; other site 1173022005712 dimerization interface [polypeptide binding]; other site 1173022005713 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 1173022005714 putative binding surface; other site 1173022005715 active site 1173022005716 KWG Leptospira; Region: KWG; pfam07656 1173022005717 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1173022005718 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 1173022005719 PAS domain; Region: PAS_9; pfam13426 1173022005720 putative active site [active] 1173022005721 heme pocket [chemical binding]; other site 1173022005722 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1173022005723 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 1173022005724 dimer interface [polypeptide binding]; other site 1173022005725 phosphorylation site [posttranslational modification] 1173022005726 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 1173022005727 ATP binding site [chemical binding]; other site 1173022005728 Mg2+ binding site [ion binding]; other site 1173022005729 G-X-G motif; other site 1173022005730 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 1173022005731 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 1173022005732 PRC-barrel domain; Region: PRC; pfam05239 1173022005733 PRC-barrel domain; Region: PRC; pfam05239 1173022005734 fumarylacetoacetase; Region: PLN02856 1173022005735 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 1173022005736 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1173022005737 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1173022005738 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 1173022005739 Predicted membrane protein (DUF2127); Region: DUF2127; cl01785 1173022005740 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 1173022005741 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 1173022005742 structural tetrad; other site 1173022005743 PQQ-like domain; Region: PQQ_2; pfam13360 1173022005744 HEAT repeats; Region: HEAT_2; pfam13646 1173022005745 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 1173022005746 structural tetrad; other site 1173022005747 PQQ-like domain; Region: PQQ_2; pfam13360 1173022005748 Protein of unknown function (DUF2997); Region: DUF2997; pfam11211 1173022005749 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; cl03075 1173022005750 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1173022005751 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 1173022005752 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 1173022005753 nucleotide binding site [chemical binding]; other site 1173022005754 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1173022005755 SBD interface [polypeptide binding]; other site 1173022005756 Protein of unknown function (DUF1257); Region: DUF1257; pfam06868 1173022005757 Ycf46; Provisional; Region: ycf46; CHL00195 1173022005758 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 1173022005759 Walker A motif; other site 1173022005760 ATP binding site [chemical binding]; other site 1173022005761 Walker B motif; other site 1173022005762 arginine finger; other site 1173022005763 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022005764 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 1173022005765 active site 1173022005766 phosphorylation site [posttranslational modification] 1173022005767 intermolecular recognition site; other site 1173022005768 dimerization interface [polypeptide binding]; other site 1173022005769 Protein of unknown function (DUF3685); Region: DUF3685; pfam12452 1173022005770 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1173022005771 metal binding site 2 [ion binding]; metal-binding site 1173022005772 putative DNA binding helix; other site 1173022005773 metal binding site 1 [ion binding]; metal-binding site 1173022005774 dimer interface [polypeptide binding]; other site 1173022005775 structural Zn2+ binding site [ion binding]; other site 1173022005776 Domain of unknown function (DUF1817); Region: DUF1817; pfam08847 1173022005777 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1173022005778 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1173022005779 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 1173022005780 dimer interface [polypeptide binding]; other site 1173022005781 motif 1; other site 1173022005782 active site 1173022005783 motif 2; other site 1173022005784 motif 3; other site 1173022005785 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1173022005786 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1173022005787 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 1173022005788 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1173022005789 catalytic residues [active] 1173022005790 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 1173022005791 putative binding surface; other site 1173022005792 active site 1173022005793 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1173022005794 PGAP1-like protein; Region: PGAP1; pfam07819 1173022005795 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 1173022005796 active site 1173022005797 dimerization interface [polypeptide binding]; other site 1173022005798 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1173022005799 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1173022005800 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1173022005801 metal binding site [ion binding]; metal-binding site 1173022005802 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 1173022005803 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1173022005804 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1173022005805 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1173022005806 nucleotide binding site [chemical binding]; other site 1173022005807 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 1173022005808 Part of AAA domain; Region: AAA_19; pfam13245 1173022005809 Hint (Hedgehog/Intein) domain C-terminal region; Region: HintC; smart00305 1173022005810 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 1173022005811 Family description; Region: UvrD_C_2; pfam13538 1173022005812 Uncharacterized conserved protein [Function unknown]; Region: COG2968 1173022005813 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 1173022005814 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 1173022005815 30S subunit binding site; other site 1173022005816 cell division protein; Validated; Region: ftsH; CHL00176 1173022005817 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 1173022005818 Walker A motif; other site 1173022005819 ATP binding site [chemical binding]; other site 1173022005820 Walker B motif; other site 1173022005821 arginine finger; other site 1173022005822 Peptidase family M41; Region: Peptidase_M41; pfam01434 1173022005823 CpcD/allophycocyanin linker domain; Region: CpcD; pfam01383 1173022005824 ferredoxin--NADP+ reductase; Provisional; Region: PLN03116 1173022005825 These ferredoxin reductases are related to the NADPH cytochrome p450 reductases (CYPOR), but lack the FAD-binding region connecting sub-domain. Ferredoxin-NADP+ reductase (FNR) is an FAD-containing enzyme that catalyzes the reversible electron transfer...; Region: CYPOR_like_FNR; cd06208 1173022005826 dimerization interface [polypeptide binding]; other site 1173022005827 FAD binding pocket [chemical binding]; other site 1173022005828 FAD binding motif [chemical binding]; other site 1173022005829 catalytic residues [active] 1173022005830 NAD binding pocket [chemical binding]; other site 1173022005831 phosphate binding motif [ion binding]; other site 1173022005832 beta-alpha-beta structure motif; other site 1173022005833 Phosphoribulokinase (PRK) is an enzyme involved in the Benson-Calvin cycle in chloroplasts or photosynthetic prokaryotes. This enzyme catalyzes the phosphorylation of D-ribulose 5-phosphate to form D-ribulose 1, 5-biphosphate, using ATP and NADPH...; Region: PRK; cd02026 1173022005834 active site 1173022005835 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 1173022005836 cobalamin synthase; Reviewed; Region: cobS; PRK00235 1173022005837 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1173022005838 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1173022005839 Photosystem II 4 kDa reaction centre component; Region: PsbK; cl03641 1173022005840 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1173022005841 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 1173022005842 putative C-terminal domain interface [polypeptide binding]; other site 1173022005843 putative GSH binding site (G-site) [chemical binding]; other site 1173022005844 putative dimer interface [polypeptide binding]; other site 1173022005845 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1173022005846 N-terminal domain interface [polypeptide binding]; other site 1173022005847 dimer interface [polypeptide binding]; other site 1173022005848 substrate binding pocket (H-site) [chemical binding]; other site 1173022005849 Photosystem I protein M (PsaM); Region: PsaM; pfam07465 1173022005850 Integral membrane protein TerC family; Region: TerC; cl10468 1173022005851 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 1173022005852 active site 1173022005853 multimer interface [polypeptide binding]; other site 1173022005854 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 1173022005855 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1173022005856 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 1173022005857 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1173022005858 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1173022005859 Probable transposase; Region: OrfB_IS605; pfam01385 1173022005860 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1173022005861 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14333 1173022005862 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1173022005863 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 1173022005864 FeS/SAM binding site; other site 1173022005865 TRAM domain; Region: TRAM; pfam01938 1173022005866 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 1173022005867 Retinal pigment epithelial membrane protein; Region: RPE65; pfam03055 1173022005868 PAS domain; Region: PAS; smart00091 1173022005869 PAS domain; Region: PAS_9; pfam13426 1173022005870 PAS fold; Region: PAS_4; pfam08448 1173022005871 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 1173022005872 putative active site [active] 1173022005873 heme pocket [chemical binding]; other site 1173022005874 PAS fold; Region: PAS_4; pfam08448 1173022005875 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 1173022005876 putative active site [active] 1173022005877 heme pocket [chemical binding]; other site 1173022005878 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1173022005879 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 1173022005880 putative active site [active] 1173022005881 heme pocket [chemical binding]; other site 1173022005882 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 1173022005883 dimer interface [polypeptide binding]; other site 1173022005884 phosphorylation site [posttranslational modification] 1173022005885 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 1173022005886 ATP binding site [chemical binding]; other site 1173022005887 Mg2+ binding site [ion binding]; other site 1173022005888 G-X-G motif; other site 1173022005889 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022005890 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 1173022005891 active site 1173022005892 phosphorylation site [posttranslational modification] 1173022005893 intermolecular recognition site; other site 1173022005894 dimerization interface [polypeptide binding]; other site 1173022005895 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1173022005896 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1173022005897 dimer interface [polypeptide binding]; other site 1173022005898 active site 1173022005899 metal binding site [ion binding]; metal-binding site 1173022005900 glutathione binding site [chemical binding]; other site 1173022005901 enolase; Provisional; Region: eno; PRK00077 1173022005902 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 1173022005903 dimer interface [polypeptide binding]; other site 1173022005904 metal binding site [ion binding]; metal-binding site 1173022005905 substrate binding pocket [chemical binding]; other site 1173022005906 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1173022005907 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1173022005908 Probable transposase; Region: OrfB_IS605; pfam01385 1173022005909 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 1173022005910 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1173022005911 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II/unknown domain fusion protein; Provisional; Region: PRK09319 1173022005912 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 1173022005913 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 1173022005914 dimerization interface [polypeptide binding]; other site 1173022005915 active site 1173022005916 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 1173022005917 binding surface 1173022005918 TPR motif; other site 1173022005919 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 1173022005920 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 1173022005921 binding surface 1173022005922 TPR motif; other site 1173022005923 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 1173022005924 binding surface 1173022005925 TPR motif; other site 1173022005926 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 1173022005927 active site 1173022005928 hydrophilic channel; other site 1173022005929 dimerization interface [polypeptide binding]; other site 1173022005930 catalytic residues [active] 1173022005931 active site lid [active] 1173022005932 Protein of unknown function (DUF2488); Region: Ycf54; pfam10674 1173022005933 Divergent PAP2 family; Region: DUF212; pfam02681 1173022005934 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1173022005935 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1173022005936 substrate binding pocket [chemical binding]; other site 1173022005937 chain length determination region; other site 1173022005938 substrate-Mg2+ binding site; other site 1173022005939 catalytic residues [active] 1173022005940 aspartate-rich region 1; other site 1173022005941 active site lid residues [active] 1173022005942 aspartate-rich region 2; other site 1173022005943 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14186 1173022005944 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1173022005945 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1173022005946 homodimer interface [polypeptide binding]; other site 1173022005947 NADP binding site [chemical binding]; other site 1173022005948 substrate binding site [chemical binding]; other site 1173022005949 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_23; cd04682 1173022005950 nudix motif; other site 1173022005951 Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]; Region: RPL43A; COG1997 1173022005952 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1173022005953 MutS domain I; Region: MutS_I; pfam01624 1173022005954 MutS domain II; Region: MutS_II; pfam05188 1173022005955 MutS domain III; Region: MutS_III; pfam05192 1173022005956 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1173022005957 Walker A/P-loop; other site 1173022005958 ATP binding site [chemical binding]; other site 1173022005959 Q-loop/lid; other site 1173022005960 ABC transporter signature motif; other site 1173022005961 Walker B; other site 1173022005962 D-loop; other site 1173022005963 H-loop/switch region; other site 1173022005964 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 1173022005965 clan AA aspartic protease, AF_0612 family; Region: clan_AA_DTGF; TIGR03698 1173022005966 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1173022005967 active site 1173022005968 ATP binding site [chemical binding]; other site 1173022005969 substrate binding site [chemical binding]; other site 1173022005970 activation loop (A-loop); other site 1173022005971 Acetyltransferase (GNAT) domain; Region: Acetyltransf_9; pfam13527 1173022005972 Predicted acetyltransferase involved in intracellular survival and related acetyltransferases [General function prediction only]; Region: Eis; COG4552 1173022005973 SCP-2 sterol transfer family; Region: SCP2; cl01225 1173022005974 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1173022005975 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1173022005976 Probable transposase; Region: OrfB_IS605; pfam01385 1173022005977 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1173022005978 sialate_O-acetylesterase_like subfamily of the SGNH-hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: sialate_O-acetylesterase_like2; cd01828 1173022005979 active site 1173022005980 catalytic triad [active] 1173022005981 oxyanion hole [active] 1173022005982 photosystem I P700 chlorophyll a apoprotein A2; Provisional; Region: psaB; PRK13199 1173022005983 photosystem I P700 chlorophyll a apoprotein A1; Region: psaA; CHL00056 1173022005984 Potato leaf roll virus readthrough protein; Region: PLRV_ORF5; pfam01690 1173022005985 KaiB-like family; composed of the circadian clock proteins, KaiB and the N-terminal KaiB-like sensory domain of SasA. KaiB is an essential protein in maintaining circadian rhythm. It was originally discovered from the cyanobacterium Synechococcus as part...; Region: KaiB_like; cd02978 1173022005986 tetramer interface [polypeptide binding]; other site 1173022005987 dimer interface [polypeptide binding]; other site 1173022005988 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 1173022005989 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 1173022005990 Walker A motif; other site 1173022005991 ATP binding site [chemical binding]; other site 1173022005992 Walker B motif; other site 1173022005993 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 1173022005994 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 1173022005995 active site 1173022005996 homodimer interface [polypeptide binding]; other site 1173022005997 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 1173022005998 structural tetrad; other site 1173022005999 PQQ-like domain; Region: PQQ_2; pfam13360 1173022006000 Domain of unknown function DUF29; Region: DUF29; pfam01724 1173022006001 NAD(P)H-quinone oxidoreductase subunit 4; Provisional; Region: PRK02546 1173022006002 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1173022006003 NAD(P)H-quinone oxidoreductase subunit F; Validated; Region: PRK07376 1173022006004 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 1173022006005 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1173022006006 NADH-Ubiquinone oxidoreductase (complex I) subunit C-terminus; Region: Oxidored_q1_C; pfam01010 1173022006007 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 1173022006008 catalytic residues [active] 1173022006009 Predicted membrane protein [Function unknown]; Region: COG4094 1173022006010 LysR transcriptional regulator; Provisional; Region: rbcR; CHL00180 1173022006011 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1173022006012 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 1173022006013 putative dimerization interface [polypeptide binding]; other site 1173022006014 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 1173022006015 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1173022006016 active site 1173022006017 ATP binding site [chemical binding]; other site 1173022006018 substrate binding site [chemical binding]; other site 1173022006019 activation loop (A-loop); other site 1173022006020 TPR repeat; Region: TPR_11; pfam13414 1173022006021 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1173022006022 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_9; cd06344 1173022006023 putative ligand binding site [chemical binding]; other site 1173022006024 PBP superfamily domain; Region: PBP_like_2; pfam12849 1173022006025 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 1173022006026 DALR anticodon binding domain; Region: DALR_1; smart00836 1173022006027 DALR anticodon binding domain; Region: DALR_1; smart00836 1173022006028 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 1173022006029 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 1173022006030 active site 1173022006031 motif I; other site 1173022006032 motif II; other site 1173022006033 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 1173022006034 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 1173022006035 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 1173022006036 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 1173022006037 metal binding site [ion binding]; metal-binding site 1173022006038 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 1173022006039 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 1173022006040 inhibitor-cofactor binding pocket; inhibition site 1173022006041 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1173022006042 catalytic residue [active] 1173022006043 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 1173022006044 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 1173022006045 MAPEG family; Region: MAPEG; cl09190 1173022006046 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 1173022006047 Competence protein CoiA-like family; Region: CoiA; cl11541 1173022006048 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 1173022006049 Protein of unknown function (DUF497); Region: DUF497; pfam04365 1173022006050 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1173022006051 classical (c) SDRs; Region: SDR_c; cd05233 1173022006052 NAD(P) binding site [chemical binding]; other site 1173022006053 active site 1173022006054 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 1173022006055 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 1173022006056 putative active site [active] 1173022006057 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 1173022006058 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 1173022006059 tRNA; other site 1173022006060 putative tRNA binding site [nucleotide binding]; other site 1173022006061 putative NADP binding site [chemical binding]; other site 1173022006062 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 1173022006063 Protein of unknown function (DUF1565); Region: DUF1565; pfam07602 1173022006064 hypothetical protein; Provisional; Region: PRK02509 1173022006065 Uncharacterized conserved protein [Function unknown]; Region: COG1615 1173022006066 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1173022006067 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022006068 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022006069 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 1173022006070 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022006071 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022006072 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022006073 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022006074 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022006075 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1173022006076 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1173022006077 Walker A/P-loop; other site 1173022006078 ATP binding site [chemical binding]; other site 1173022006079 Q-loop/lid; other site 1173022006080 ABC transporter signature motif; other site 1173022006081 Walker B; other site 1173022006082 D-loop; other site 1173022006083 H-loop/switch region; other site 1173022006084 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 1173022006085 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1173022006086 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 1173022006087 TM-ABC transporter signature motif; other site 1173022006088 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14096 1173022006089 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 1173022006090 active site 1173022006091 dimer interface [polypeptide binding]; other site 1173022006092 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 1173022006093 dimer interface [polypeptide binding]; other site 1173022006094 active site 1173022006095 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 1173022006096 TRX-like protein A (TxlA) family; TxlA was originally isolated from the cyanobacterium Synechococcus. It is found only in oxygenic photosynthetic organisms. TRX is a small enzyme that participate in redox reactions, via the reversible oxidation of an...; Region: TxlA; cd02950 1173022006097 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1173022006098 catalytic residues [active] 1173022006099 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 1173022006100 4Fe-4S binding domain; Region: Fer4; pfam00037 1173022006101 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1173022006102 Protein of unknown function (DUF3616); Region: DUF3616; pfam12275 1173022006103 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA; cl00391 1173022006104 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1173022006105 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 1173022006106 motif II; other site 1173022006107 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DinB; COG2318 1173022006108 DinB superfamily; Region: DinB_2; pfam12867 1173022006109 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 1173022006110 rRNA interaction site [nucleotide binding]; other site 1173022006111 S8 interaction site; other site 1173022006112 putative laminin-1 binding site; other site 1173022006113 elongation factor Ts; Reviewed; Region: tsf; PRK12332 1173022006114 UBA/TS-N domain; Region: UBA; pfam00627 1173022006115 Elongation factor TS; Region: EF_TS; pfam00889 1173022006116 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 1173022006117 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 1173022006118 generic binding surface II; other site 1173022006119 ssDNA binding site; other site 1173022006120 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 1173022006121 ATP binding site [chemical binding]; other site 1173022006122 putative Mg++ binding site [ion binding]; other site 1173022006123 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 1173022006124 nucleotide binding region [chemical binding]; other site 1173022006125 ATP-binding site [chemical binding]; other site 1173022006126 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 1173022006127 Domain of unknown function (DUF3474); Region: DUF3474; pfam11960 1173022006128 The Delta12 Fatty Acid Desaturase (Delta12-FADS)-like CD includes the integral-membrane enzymes, delta-12 acyl-lipid desaturases, oleate 12-hydroxylases, omega3 and omega6 fatty acid desaturases, and other related proteins, found in a wide range of...; Region: Delta12-FADS-like; cd03507 1173022006129 putative di-iron ligands [ion binding]; other site 1173022006130 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1173022006131 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 1173022006132 catalytic triad [active] 1173022006133 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK12461 1173022006134 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 1173022006135 active site 1173022006136 Plastocyanin domain containing protein [General function prediction only]; Region: COG4633 1173022006137 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 1173022006138 metal-binding site [ion binding] 1173022006139 ATP synthase CF1 epsilon subunit; Region: atpE; CHL00063 1173022006140 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1173022006141 gamma subunit interface [polypeptide binding]; other site 1173022006142 epsilon subunit interface [polypeptide binding]; other site 1173022006143 LBP interface [polypeptide binding]; other site 1173022006144 ATP synthase CF1 beta subunit; Region: atpB; CHL00060 1173022006145 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1173022006146 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 1173022006147 alpha subunit interaction interface [polypeptide binding]; other site 1173022006148 Walker A motif; other site 1173022006149 ATP binding site [chemical binding]; other site 1173022006150 Walker B motif; other site 1173022006151 inhibitor binding site; inhibition site 1173022006152 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1173022006153 cell division topological specificity factor MinE; Provisional; Region: PRK13988 1173022006154 septum-site determining protein; Validated; Region: minD; CHL00175 1173022006155 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 1173022006156 Switch I; other site 1173022006157 Switch II; other site 1173022006158 septum formation inhibitor; Reviewed; Region: minC; PRK00513 1173022006159 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 1173022006160 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 1173022006161 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 1173022006162 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1173022006163 Phosphoketolase [Carbohydrate transport and metabolism]; Region: COG3957 1173022006164 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 1173022006165 TPP-binding site [chemical binding]; other site 1173022006166 Transketolase, pyrimidine binding domain; Region: Transket_pyr; smart00861 1173022006167 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 1173022006168 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1173022006169 Thioesterase domain; Region: Thioesterase; pfam00975 1173022006170 MbtH-like protein; Region: MbtH; cl01279 1173022006171 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 1173022006172 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1173022006173 Walker A/P-loop; other site 1173022006174 ATP binding site [chemical binding]; other site 1173022006175 Q-loop/lid; other site 1173022006176 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 1173022006177 Fibrinogen alpha/beta chain family; Region: Fib_alpha; pfam08702 1173022006178 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1173022006179 ABC transporter signature motif; other site 1173022006180 Walker B; other site 1173022006181 D-loop; other site 1173022006182 H-loop/switch region; other site 1173022006183 NgoPII restriction endonuclease; Region: RE_NgoPII; pfam09521 1173022006184 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 1173022006185 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 1173022006186 dimer interface [polypeptide binding]; other site 1173022006187 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 1173022006188 active site 1173022006189 Fe binding site [ion binding]; other site 1173022006190 homogentisate 1,2-dioxygenase; Region: HgmA; cl17306 1173022006191 S-formylglutathione hydrolase; Region: PLN02442 1173022006192 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 1173022006193 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1173022006194 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1173022006195 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1173022006196 N-terminal domain interface [polypeptide binding]; other site 1173022006197 dimer interface [polypeptide binding]; other site 1173022006198 substrate binding pocket (H-site) [chemical binding]; other site 1173022006199 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 1173022006200 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1173022006201 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 1173022006202 dimer interface [polypeptide binding]; other site 1173022006203 conserved gate region; other site 1173022006204 putative PBP binding loops; other site 1173022006205 ABC-ATPase subunit interface; other site 1173022006206 TniQ; Region: TniQ; pfam06527 1173022006207 Tocopherol cyclase; Region: Tocopherol_cycl; pfam14249 1173022006208 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1173022006209 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 1173022006210 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 1173022006211 Ycf66 protein N-terminus; Region: Ycf66_N; pfam07444 1173022006212 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 1173022006213 catalytic triad [active] 1173022006214 dimer interface [polypeptide binding]; other site 1173022006215 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1173022006216 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 1173022006217 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 1173022006218 dimer interface [polypeptide binding]; other site 1173022006219 active site 1173022006220 heme binding site [chemical binding]; other site 1173022006221 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 1173022006222 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 1173022006223 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1173022006224 putative active site [active] 1173022006225 putative metal binding site [ion binding]; other site 1173022006226 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 1173022006227 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1173022006228 HIGH motif; other site 1173022006229 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1173022006230 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1173022006231 active site 1173022006232 KMSKS motif; other site 1173022006233 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1173022006234 tRNA binding surface [nucleotide binding]; other site 1173022006235 anticodon binding site; other site 1173022006236 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1173022006237 Cupin domain; Region: Cupin_2; cl17218 1173022006238 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1173022006239 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1173022006240 Probable transposase; Region: OrfB_IS605; pfam01385 1173022006241 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1173022006242 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 1173022006243 P-loop; other site 1173022006244 Magnesium ion binding site [ion binding]; other site 1173022006245 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 1173022006246 Magnesium ion binding site [ion binding]; other site 1173022006247 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 1173022006248 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1173022006249 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 1173022006250 P-loop; other site 1173022006251 Magnesium ion binding site [ion binding]; other site 1173022006252 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 1173022006253 Magnesium ion binding site [ion binding]; other site 1173022006254 PV-1 protein (PLVAP); Region: PV-1; pfam06637 1173022006255 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1173022006256 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 1173022006257 metal-binding site [ion binding] 1173022006258 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1173022006259 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 1173022006260 active site 1173022006261 motif I; other site 1173022006262 motif II; other site 1173022006263 patatin-related protein; Region: TIGR03607 1173022006264 CAAX protease self-immunity; Region: Abi; pfam02517 1173022006265 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 1173022006266 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 1173022006267 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1173022006268 putative active site [active] 1173022006269 putative NTP binding site [chemical binding]; other site 1173022006270 putative nucleic acid binding site [nucleotide binding]; other site 1173022006271 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1173022006272 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 1173022006273 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 1173022006274 active site 1173022006275 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 1173022006276 catalytic core [active] 1173022006277 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 1173022006278 catalytic core [active] 1173022006279 dihydroorotase; Provisional; Region: PRK07369 1173022006280 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 1173022006281 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 1173022006282 active site 1173022006283 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1173022006284 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 1173022006285 Catalytic site [active] 1173022006286 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 1173022006287 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 1173022006288 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 1173022006289 active site 1173022006290 TDP-binding site; other site 1173022006291 acceptor substrate-binding pocket; other site 1173022006292 homodimer interface [polypeptide binding]; other site 1173022006293 Sulfotransferase family; Region: Sulfotransfer_3; pfam13469 1173022006294 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1173022006295 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1173022006296 Walker A/P-loop; other site 1173022006297 ATP binding site [chemical binding]; other site 1173022006298 Q-loop/lid; other site 1173022006299 ABC transporter signature motif; other site 1173022006300 Walker B; other site 1173022006301 D-loop; other site 1173022006302 H-loop/switch region; other site 1173022006303 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1173022006304 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1173022006305 Walker A/P-loop; other site 1173022006306 ATP binding site [chemical binding]; other site 1173022006307 Q-loop/lid; other site 1173022006308 ABC transporter signature motif; other site 1173022006309 Walker B; other site 1173022006310 D-loop; other site 1173022006311 H-loop/switch region; other site 1173022006312 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1173022006313 Transcription factor zinc-finger; Region: zf-TFIIB; pfam13453 1173022006314 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 1173022006315 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1173022006316 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1173022006317 Zn2+ binding site [ion binding]; other site 1173022006318 Mg2+ binding site [ion binding]; other site 1173022006319 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1173022006320 synthetase active site [active] 1173022006321 NTP binding site [chemical binding]; other site 1173022006322 metal binding site [ion binding]; metal-binding site 1173022006323 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 1173022006324 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1173022006325 putative lipid kinase; Reviewed; Region: PRK00861 1173022006326 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1173022006327 PEGA domain; Region: PEGA; pfam08308 1173022006328 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022006329 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 1173022006330 active site 1173022006331 phosphorylation site [posttranslational modification] 1173022006332 intermolecular recognition site; other site 1173022006333 dimerization interface [polypeptide binding]; other site 1173022006334 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022006335 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 1173022006336 active site 1173022006337 phosphorylation site [posttranslational modification] 1173022006338 intermolecular recognition site; other site 1173022006339 dimerization interface [polypeptide binding]; other site 1173022006340 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1173022006341 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1173022006342 metal binding site [ion binding]; metal-binding site 1173022006343 active site 1173022006344 I-site; other site 1173022006345 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 1173022006346 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 1173022006347 active site 1173022006348 metal binding site [ion binding]; metal-binding site 1173022006349 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 1173022006350 acetylornithine aminotransferase; Provisional; Region: PRK02627 1173022006351 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 1173022006352 inhibitor-cofactor binding pocket; inhibition site 1173022006353 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1173022006354 catalytic residue [active] 1173022006355 Ion channel; Region: Ion_trans_2; pfam07885 1173022006356 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 1173022006357 TrkA-N domain; Region: TrkA_N; pfam02254 1173022006358 TrkA-C domain; Region: TrkA_C; pfam02080 1173022006359 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 1173022006360 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1173022006361 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1173022006362 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1173022006363 PAS domain; Region: PAS; smart00091 1173022006364 PAS domain; Region: PAS_9; pfam13426 1173022006365 putative active site [active] 1173022006366 heme pocket [chemical binding]; other site 1173022006367 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 1173022006368 PAS fold; Region: PAS_3; pfam08447 1173022006369 putative active site [active] 1173022006370 heme pocket [chemical binding]; other site 1173022006371 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022006372 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1173022006373 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1173022006374 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 1173022006375 dimer interface [polypeptide binding]; other site 1173022006376 phosphorylation site [posttranslational modification] 1173022006377 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 1173022006378 ATP binding site [chemical binding]; other site 1173022006379 Mg2+ binding site [ion binding]; other site 1173022006380 G-X-G motif; other site 1173022006381 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1173022006382 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1173022006383 Coenzyme A binding pocket [chemical binding]; other site 1173022006384 GH3 auxin-responsive promoter; Region: GH3; pfam03321 1173022006385 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 1173022006386 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 1173022006387 putative trimer interface [polypeptide binding]; other site 1173022006388 putative CoA binding site [chemical binding]; other site 1173022006389 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 1173022006390 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1173022006391 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 1173022006392 [2Fe-2S] cluster binding site [ion binding]; other site 1173022006393 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1173022006394 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1173022006395 catalytic loop [active] 1173022006396 iron binding site [ion binding]; other site 1173022006397 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1173022006398 dinuclear metal binding motif [ion binding]; other site 1173022006399 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1173022006400 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 1173022006401 [2Fe-2S] cluster binding site [ion binding]; other site 1173022006402 XisI protein; Region: XisI; pfam08869 1173022006403 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1173022006404 Walker A/P-loop; other site 1173022006405 ATP binding site [chemical binding]; other site 1173022006406 AAA domain; Region: AAA_21; pfam13304 1173022006407 Clp protease ATP binding subunit; Region: clpC; CHL00095 1173022006408 Clp amino terminal domain; Region: Clp_N; pfam02861 1173022006409 Clp amino terminal domain; Region: Clp_N; pfam02861 1173022006410 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 1173022006411 Walker A motif; other site 1173022006412 ATP binding site [chemical binding]; other site 1173022006413 Walker B motif; other site 1173022006414 arginine finger; other site 1173022006415 UvrB/uvrC motif; Region: UVR; pfam02151 1173022006416 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 1173022006417 Walker A motif; other site 1173022006418 ATP binding site [chemical binding]; other site 1173022006419 Walker B motif; other site 1173022006420 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1173022006421 Glycosyl hydrolase family 43; Region: GH43_bXyl_2; cd08991 1173022006422 active site 1173022006423 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 1173022006424 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 1173022006425 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 1173022006426 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1173022006427 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 1173022006428 dimer interface [polypeptide binding]; other site 1173022006429 phosphorylation site [posttranslational modification] 1173022006430 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 1173022006431 ATP binding site [chemical binding]; other site 1173022006432 Mg2+ binding site [ion binding]; other site 1173022006433 G-X-G motif; other site 1173022006434 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1173022006435 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 1173022006436 active site 1173022006437 phosphorylation site [posttranslational modification] 1173022006438 intermolecular recognition site; other site 1173022006439 dimerization interface [polypeptide binding]; other site 1173022006440 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022006441 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 1173022006442 active site 1173022006443 phosphorylation site [posttranslational modification] 1173022006444 intermolecular recognition site; other site 1173022006445 dimerization interface [polypeptide binding]; other site 1173022006446 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 1173022006447 putative binding surface; other site 1173022006448 active site 1173022006449 Uncharacterized subfamily of glycoside hydrolase family 57 (GH57); Region: GH57N_like_1; cd10798 1173022006450 active site 1173022006451 catalytic site [active] 1173022006452 Uncharacterized protein conserved in bacteria [General function prediction only]; Region: OraA; COG2137 1173022006453 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 1173022006454 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 1173022006455 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily. Adenine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_I; cd01990 1173022006456 Ligand Binding Site [chemical binding]; other site 1173022006457 thymidylate kinase; Validated; Region: tmk; PRK00698 1173022006458 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 1173022006459 TMP-binding site; other site 1173022006460 ATP-binding site [chemical binding]; other site 1173022006461 DNA polymerase III subunit delta'; Validated; Region: PRK07399 1173022006462 AAA ATPase domain; Region: AAA_16; pfam13191 1173022006463 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1173022006464 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1173022006465 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 1173022006466 putative binding surface; other site 1173022006467 active site 1173022006468 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1173022006469 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 1173022006470 ATP binding site [chemical binding]; other site 1173022006471 Mg2+ binding site [ion binding]; other site 1173022006472 G-X-G motif; other site 1173022006473 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 1173022006474 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022006475 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 1173022006476 active site 1173022006477 phosphorylation site [posttranslational modification] 1173022006478 intermolecular recognition site; other site 1173022006479 dimerization interface [polypeptide binding]; other site 1173022006480 CHASE3 domain; Region: CHASE3; cl05000 1173022006481 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1173022006482 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1173022006483 dimer interface [polypeptide binding]; other site 1173022006484 putative CheW interface [polypeptide binding]; other site 1173022006485 CHASE3 domain; Region: CHASE3; pfam05227 1173022006486 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1173022006487 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1173022006488 dimer interface [polypeptide binding]; other site 1173022006489 putative CheW interface [polypeptide binding]; other site 1173022006490 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1173022006491 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 1173022006492 [2Fe-2S] cluster binding site [ion binding]; other site 1173022006493 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1173022006494 RNA polymerase sigma factor, cyanobacterial RpoD-like family; Region: Sig70-cyanoRpoD; TIGR02997 1173022006495 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1173022006496 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1173022006497 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 1173022006498 DNA binding residues [nucleotide binding] 1173022006499 primosome assembly protein PriA; Validated; Region: PRK05580 1173022006500 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 1173022006501 ATP binding site [chemical binding]; other site 1173022006502 putative Mg++ binding site [ion binding]; other site 1173022006503 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1173022006504 ATP-binding site [chemical binding]; other site 1173022006505 Uncharacterized conserved protein [Function unknown]; Region: COG5464 1173022006506 Protein of unknown function (DUF2887); Region: DUF2887; pfam11103 1173022006507 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1173022006508 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 1173022006509 active site 1173022006510 homodimer interface [polypeptide binding]; other site 1173022006511 SnoaL-like domain; Region: SnoaL_2; pfam12680 1173022006512 RDD family; Region: RDD; pfam06271 1173022006513 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1173022006514 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022006515 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022006516 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022006517 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022006518 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1173022006519 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1173022006520 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 1173022006521 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1173022006522 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 1173022006523 binding surface 1173022006524 TPR motif; other site 1173022006525 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 1173022006526 CHASE2 domain; Region: CHASE2; pfam05226 1173022006527 AAA ATPase domain; Region: AAA_16; pfam13191 1173022006528 Double zinc ribbon; Region: DZR; pfam12773 1173022006529 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 1173022006530 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1173022006531 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1173022006532 active site 1173022006533 ATP binding site [chemical binding]; other site 1173022006534 substrate binding site [chemical binding]; other site 1173022006535 activation loop (A-loop); other site 1173022006536 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 1173022006537 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1173022006538 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022006539 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022006540 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022006541 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 1173022006542 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 1173022006543 S-adenosylmethionine binding site [chemical binding]; other site 1173022006544 phycocyanobilin:ferredoxin oxidoreductase; Validated; Region: PRK02816 1173022006545 XisI protein; Region: XisI; pfam08869 1173022006546 XisH protein; Region: XisH; pfam08814 1173022006547 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 1173022006548 cyanophycin synthetase; Region: cya_phycin_syn; TIGR02068 1173022006549 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 1173022006550 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1173022006551 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1173022006552 Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase; Region: GAT1_cyanophycinase; cd03145 1173022006553 proposed catalytic triad [active] 1173022006554 active site nucleophile [active] 1173022006555 FtsH Extracellular; Region: FtsH_ext; pfam06480 1173022006556 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1173022006557 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 1173022006558 Walker A motif; other site 1173022006559 ATP binding site [chemical binding]; other site 1173022006560 Walker B motif; other site 1173022006561 arginine finger; other site 1173022006562 Peptidase family M41; Region: Peptidase_M41; pfam01434 1173022006563 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1173022006564 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1173022006565 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1173022006566 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1173022006567 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 1173022006568 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1173022006569 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 1173022006570 ABC-ATPase subunit interface; other site 1173022006571 dimer interface [polypeptide binding]; other site 1173022006572 putative PBP binding regions; other site 1173022006573 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1173022006574 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1173022006575 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 1173022006576 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 1173022006577 metal binding site [ion binding]; metal-binding site 1173022006578 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 1173022006579 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 1173022006580 cofactor binding site; other site 1173022006581 DNA binding site [nucleotide binding] 1173022006582 substrate interaction site [chemical binding]; other site 1173022006583 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 1173022006584 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 1173022006585 intersubunit interface [polypeptide binding]; other site 1173022006586 active site 1173022006587 catalytic residue [active] 1173022006588 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 1173022006589 Recombination protein O N terminal; Region: RecO_N; pfam11967 1173022006590 Recombination protein O C terminal; Region: RecO_C; pfam02565 1173022006591 H+ Antiporter protein; Region: 2A0121; TIGR00900 1173022006592 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1173022006593 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 1173022006594 Zinc-dependent metalloprotease; MMP_like sub-family 1. A group of bacterial, archaeal, and fungal metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_1; cd04279 1173022006595 active site 1173022006596 preprotein translocase subunit SecG; Reviewed; Region: secG; PRK06870 1173022006597 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 1173022006598 phosphoglyceromutase; Provisional; Region: PRK05434 1173022006599 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1173022006600 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1173022006601 Walker A/P-loop; other site 1173022006602 ATP binding site [chemical binding]; other site 1173022006603 Q-loop/lid; other site 1173022006604 ABC transporter signature motif; other site 1173022006605 Walker B; other site 1173022006606 D-loop; other site 1173022006607 H-loop/switch region; other site 1173022006608 ABC transporter; Region: ABC_tran_2; pfam12848 1173022006609 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1173022006610 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1173022006611 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1173022006612 RF-1 domain; Region: RF-1; pfam00472 1173022006613 ribosomal protein L31; Validated; Region: rpl31; CHL00136 1173022006614 ribosomal protein S9; Region: rps9; CHL00079 1173022006615 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 1173022006616 23S rRNA interface [nucleotide binding]; other site 1173022006617 L3 interface [polypeptide binding]; other site 1173022006618 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1173022006619 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1173022006620 dimerization interface 3.5A [polypeptide binding]; other site 1173022006621 active site 1173022006622 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 1173022006623 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1173022006624 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1173022006625 alphaNTD homodimer interface [polypeptide binding]; other site 1173022006626 alphaNTD - beta interaction site [polypeptide binding]; other site 1173022006627 alphaNTD - beta' interaction site [polypeptide binding]; other site 1173022006628 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1173022006629 30S ribosomal protein S11; Validated; Region: PRK05309 1173022006630 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 1173022006631 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1173022006632 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 1173022006633 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 1173022006634 rRNA binding site [nucleotide binding]; other site 1173022006635 predicted 30S ribosome binding site; other site 1173022006636 adenylate kinase; Provisional; Region: adk; PRK02496 1173022006637 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 1173022006638 AMP-binding site [chemical binding]; other site 1173022006639 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1173022006640 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1173022006641 SecY translocase; Region: SecY; pfam00344 1173022006642 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1173022006643 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1173022006644 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1173022006645 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1173022006646 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 1173022006647 23S rRNA interface [nucleotide binding]; other site 1173022006648 5S rRNA interface [nucleotide binding]; other site 1173022006649 L27 interface [polypeptide binding]; other site 1173022006650 L5 interface [polypeptide binding]; other site 1173022006651 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1173022006652 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1173022006653 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1173022006654 ribosomal protein S8; Region: rps8; CHL00042 1173022006655 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1173022006656 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1173022006657 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1173022006658 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1173022006659 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1173022006660 RNA binding site [nucleotide binding]; other site 1173022006661 ribosomal protein L14; Region: rpl14; CHL00057 1173022006662 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1173022006663 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 1173022006664 23S rRNA interface [nucleotide binding]; other site 1173022006665 putative translocon interaction site; other site 1173022006666 signal recognition particle (SRP54) interaction site; other site 1173022006667 L23 interface [polypeptide binding]; other site 1173022006668 trigger factor interaction site; other site 1173022006669 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 1173022006670 23S rRNA interface [nucleotide binding]; other site 1173022006671 5S rRNA interface [nucleotide binding]; other site 1173022006672 putative antibiotic binding site [chemical binding]; other site 1173022006673 L25 interface [polypeptide binding]; other site 1173022006674 L27 interface [polypeptide binding]; other site 1173022006675 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1173022006676 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 1173022006677 G-X-X-G motif; other site 1173022006678 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1173022006679 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 1173022006680 putative translocon binding site; other site 1173022006681 protein-rRNA interface [nucleotide binding]; other site 1173022006682 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1173022006683 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1173022006684 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1173022006685 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1173022006686 ribosomal protein L23; Region: rpl23; CHL00030 1173022006687 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1173022006688 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1173022006689 NADH-quinone oxidoreductase cyanobacterial subunit N; Region: NdhN; pfam11909 1173022006690 VWA ORF176 type: 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...; Region: vWA_ORF176_type; cd01457 1173022006691 metal ion-dependent adhesion site (MIDAS); other site 1173022006692 VWA ORF176 type: 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...; Region: vWA_ORF176_type; cd01457 1173022006693 metal ion-dependent adhesion site (MIDAS); other site 1173022006694 VWA ORF176 type: 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...; Region: vWA_ORF176_type; cd01457 1173022006695 metal ion-dependent adhesion site (MIDAS); other site 1173022006696 Protein of unknown function, DUF393; Region: DUF393; pfam04134 1173022006697 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 1173022006698 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1173022006699 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022006700 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022006701 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1173022006702 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022006703 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022006704 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1173022006705 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022006706 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022006707 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 1173022006708 DNA-binding interface [nucleotide binding]; DNA binding site 1173022006709 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1173022006710 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 1173022006711 active site 1173022006712 phosphorylation site [posttranslational modification] 1173022006713 intermolecular recognition site; other site 1173022006714 dimerization interface [polypeptide binding]; other site 1173022006715 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 1173022006716 DNA binding residues [nucleotide binding] 1173022006717 dimerization interface [polypeptide binding]; other site 1173022006718 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1173022006719 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1173022006720 active site 1173022006721 hypothetical protein; Validated; Region: PRK00153 1173022006722 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 1173022006723 FAD binding domain; Region: FAD_binding_4; pfam01565 1173022006724 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1173022006725 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1173022006726 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1173022006727 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1173022006728 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1173022006729 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK07403 1173022006730 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 1173022006731 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1173022006732 thiamine monophosphate kinase; Provisional; Region: PRK05731 1173022006733 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 1173022006734 ATP binding site [chemical binding]; other site 1173022006735 dimerization interface [polypeptide binding]; other site 1173022006736 cyclophilin_TLP40_like: cyclophilin-type peptidylprolyl cis- trans isomerases (cyclophilins) similar ot the Spinach thylakoid lumen protein TLP40. Compared to the archetypal cyclophilin Human cyclophilin A, these proteins have similar peptidylprolyl...; Region: cyclophilin_TLP40_like; cd01924 1173022006737 active site 1173022006738 elongation factor P; Validated; Region: PRK00529 1173022006739 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1173022006740 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 1173022006741 RNA binding site [nucleotide binding]; other site 1173022006742 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 1173022006743 RNA binding site [nucleotide binding]; other site 1173022006744 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 1173022006745 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 1173022006746 carboxyltransferase (CT) interaction site; other site 1173022006747 biotinylation site [posttranslational modification]; other site 1173022006748 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 1173022006749 dimerization interface [polypeptide binding]; other site 1173022006750 putative DNA binding site [nucleotide binding]; other site 1173022006751 putative Zn2+ binding site [ion binding]; other site 1173022006752 Sporulation and spore germination; Region: Germane; pfam10646 1173022006753 Protein of unknown function (DUF2993); Region: DUF2993; pfam11209 1173022006754 prolyl-tRNA synthetase; Provisional; Region: PRK09194 1173022006755 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 1173022006756 dimer interface [polypeptide binding]; other site 1173022006757 motif 1; other site 1173022006758 active site 1173022006759 motif 2; other site 1173022006760 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 1173022006761 putative deacylase active site [active] 1173022006762 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 1173022006763 active site 1173022006764 motif 3; other site 1173022006765 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 1173022006766 anticodon binding site; other site 1173022006767 Acetoacetate decarboxylase (ADC); Region: ADC; cl01919 1173022006768 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 1173022006769 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 1173022006770 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 1173022006771 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 1173022006772 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1173022006773 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 1173022006774 active site 1173022006775 Protein of unknown function, DUF399; Region: DUF399; pfam04187 1173022006776 Bacterial family of Mg++ dependent phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate inositol monophosphate or similar substrates; Region: Bacterial_IMPase_like_2; cd01643 1173022006777 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1173022006778 active site 1173022006779 tellurium resistance terB-like protein; Region: terB_like; cd07177 1173022006780 metal binding site [ion binding]; metal-binding site 1173022006781 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1173022006782 Dynamin family; Region: Dynamin_N; pfam00350 1173022006783 G1 box; other site 1173022006784 GTP/Mg2+ binding site [chemical binding]; other site 1173022006785 G2 box; other site 1173022006786 Switch I region; other site 1173022006787 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 1173022006788 G3 box; other site 1173022006789 Switch II region; other site 1173022006790 GTP/Mg2+ binding site [chemical binding]; other site 1173022006791 G4 box; other site 1173022006792 G5 box; other site 1173022006793 PUCC protein; Region: PUCC; pfam03209 1173022006794 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 1173022006795 putative substrate translocation pore; other site 1173022006796 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 1173022006797 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1173022006798 active site 1173022006799 catalytic tetrad [active] 1173022006800 Predicted membrane protein [Function unknown]; Region: COG1808 1173022006801 Ion transport protein; Region: Ion_trans; pfam00520 1173022006802 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1173022006803 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1173022006804 Predicted membrane protein [Function unknown]; Region: COG4325 1173022006805 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 1173022006806 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1173022006807 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1173022006808 Predicted membrane protein [Function unknown]; Region: COG1808 1173022006809 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1173022006810 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 1173022006811 The Delta12 Fatty Acid Desaturase (Delta12-FADS)-like CD includes the integral-membrane enzymes, delta-12 acyl-lipid desaturases, oleate 12-hydroxylases, omega3 and omega6 fatty acid desaturases, and other related proteins, found in a wide range of...; Region: Delta12-FADS-like; cd03507 1173022006812 putative di-iron ligands [ion binding]; other site 1173022006813 signal recognition particle protein; Provisional; Region: PRK10867 1173022006814 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1173022006815 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 1173022006816 GTP binding site [chemical binding]; other site 1173022006817 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1173022006818 ribosomal protein S16; Region: rps16; CHL00005 1173022006819 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 1173022006820 KH domain; Region: KH_4; pfam13083 1173022006821 G-X-X-G motif; other site 1173022006822 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1173022006823 PhoH-like protein; Region: PhoH; pfam02562 1173022006824 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022006825 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1173022006826 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022006827 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1173022006828 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 1173022006829 PAS domain; Region: PAS_9; pfam13426 1173022006830 putative active site [active] 1173022006831 heme pocket [chemical binding]; other site 1173022006832 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1173022006833 cyclase homology domain; Region: CHD; cd07302 1173022006834 nucleotidyl binding site; other site 1173022006835 metal binding site [ion binding]; metal-binding site 1173022006836 dimer interface [polypeptide binding]; other site 1173022006837 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 1173022006838 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1173022006839 hypothetical protein; Provisional; Region: PRK06849 1173022006840 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1173022006841 hypothetical protein; Provisional; Region: PRK06849 1173022006842 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1173022006843 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 1173022006844 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 1173022006845 S-adenosylmethionine binding site [chemical binding]; other site 1173022006846 2-epi-5-epi-valiolone synthase (EEVS); Region: EEVS; cd08199 1173022006847 active site 1173022006848 metal binding site [ion binding]; metal-binding site 1173022006849 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022006850 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 1173022006851 active site 1173022006852 phosphorylation site [posttranslational modification] 1173022006853 intermolecular recognition site; other site 1173022006854 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1173022006855 dimerization interface [polypeptide binding]; other site 1173022006856 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 1173022006857 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 1173022006858 ATP binding site [chemical binding]; other site 1173022006859 Mg2+ binding site [ion binding]; other site 1173022006860 G-X-G motif; other site 1173022006861 Mg-protoporyphyrin IX chelatase; Region: chlI; CHL00081 1173022006862 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 1173022006863 Walker A motif; other site 1173022006864 ATP binding site [chemical binding]; other site 1173022006865 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 1173022006866 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 1173022006867 Walker A/P-loop; other site 1173022006868 ATP binding site [chemical binding]; other site 1173022006869 Q-loop/lid; other site 1173022006870 ABC transporter signature motif; other site 1173022006871 Walker B; other site 1173022006872 D-loop; other site 1173022006873 H-loop/switch region; other site 1173022006874 mce related protein; Region: MCE; pfam02470 1173022006875 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 1173022006876 catalytic motif [active] 1173022006877 Catalytic residue [active] 1173022006878 Protein of unknown function (DUF3288); Region: DUF3288; pfam11691 1173022006879 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 1173022006880 dimerization interface [polypeptide binding]; other site 1173022006881 putative DNA binding site [nucleotide binding]; other site 1173022006882 putative Zn2+ binding site [ion binding]; other site 1173022006883 Putative phosphatase (DUF442); Region: DUF442; cl17385 1173022006884 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1173022006885 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 1173022006886 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 1173022006887 active site residue [active] 1173022006888 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 1173022006889 active site residue [active] 1173022006890 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1173022006891 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1173022006892 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 1173022006893 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022006894 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022006895 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022006896 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022006897 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 1173022006898 AIR carboxylase; Region: AIRC; smart01001 1173022006899 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1173022006900 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_4; cd08500 1173022006901 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_4; cd08500 1173022006902 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1173022006903 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 1173022006904 homotrimer interaction site [polypeptide binding]; other site 1173022006905 zinc binding site [ion binding]; other site 1173022006906 CDP-binding sites; other site 1173022006907 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1173022006908 lipid-A-disaccharide synthase; Region: lpxB; TIGR00215 1173022006909 Lipid A disaccharide synthetase [Cell envelope biogenesis, outer membrane]; Region: LpxB; COG0763 1173022006910 PemK-like protein; Region: PemK; pfam02452 1173022006911 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain and a metal-binding domain [Transcription]; Region: NikR; COG0864 1173022006912 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 1173022006913 magnesium chelatase subunit H; Provisional; Region: PRK12493 1173022006914 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 1173022006915 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 1173022006916 AIPR protein; Region: AIPR; pfam10592 1173022006917 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl17483 1173022006918 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 1173022006919 putative active site [active] 1173022006920 Domain of unknown function (DUF3598); Region: DUF3598; pfam12204 1173022006921 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 1173022006922 active site 1173022006923 catalytic residues [active] 1173022006924 metal binding site [ion binding]; metal-binding site 1173022006925 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 1173022006926 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 1173022006927 phosphopeptide binding site; other site 1173022006928 Membrane proteinase, regulator of anti-sigma factor [Posttranslational modification, protein turnover, chaperones]; Region: prsW; COG2339 1173022006929 CHAT domain; Region: CHAT; cl17868 1173022006930 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 1173022006931 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 1173022006932 phosphopeptide binding site; other site 1173022006933 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 1173022006934 active site 1173022006935 Cyanobacterial and plastid NDH-1 subunit M; Region: NdhM; pfam10664 1173022006936 3-isopropylmalate dehydratase small subunit; Reviewed; Region: leuD; PRK00439 1173022006937 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 1173022006938 substrate binding site [chemical binding]; other site 1173022006939 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022006940 GAF domain; Region: GAF_3; pfam13492 1173022006941 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1173022006942 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 1173022006943 dimer interface [polypeptide binding]; other site 1173022006944 phosphorylation site [posttranslational modification] 1173022006945 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 1173022006946 ATP binding site [chemical binding]; other site 1173022006947 Mg2+ binding site [ion binding]; other site 1173022006948 G-X-G motif; other site 1173022006949 Uncharacterized membrane protein [Function unknown]; Region: SpoIIM; COG1300 1173022006950 Predicted membrane protein/domain [Function unknown]; Region: COG1714 1173022006951 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 1173022006952 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1173022006953 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1173022006954 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 1173022006955 purine monophosphate binding site [chemical binding]; other site 1173022006956 dimer interface [polypeptide binding]; other site 1173022006957 putative catalytic residues [active] 1173022006958 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1173022006959 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 1173022006960 Photosystem I reaction centre subunit XI; Region: PsaL; pfam02605 1173022006961 Photosystem I reaction centre subunit IX / PsaJ; Region: PSI_PsaJ; cl03320 1173022006962 Photosystem I reaction centre subunit III; Region: PSI_PsaF; cl03627 1173022006963 UGMP family protein; Validated; Region: PRK09604 1173022006964 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 1173022006965 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1173022006966 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 1173022006967 catalytic site [active] 1173022006968 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1173022006969 Coenzyme A binding pocket [chemical binding]; other site 1173022006970 Tic22-like family; Region: Tic22; pfam04278 1173022006971 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 1173022006972 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 1173022006973 S-adenosylmethionine binding site [chemical binding]; other site 1173022006974 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 1173022006975 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1173022006976 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1173022006977 Coenzyme A binding pocket [chemical binding]; other site 1173022006978 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS; cd00384 1173022006979 dimer interface [polypeptide binding]; other site 1173022006980 active site 1173022006981 Schiff base residues; other site 1173022006982 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1173022006983 Probable transposase; Region: OrfB_IS605; pfam01385 1173022006984 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1173022006985 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 1173022006986 Protein of unknown function DUF58; Region: DUF58; pfam01882 1173022006987 von Willebrand factor (vWF) type A domain; Region: VWA; smart00327 1173022006988 MoxR-like ATPases [General function prediction only]; Region: COG0714 1173022006989 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 1173022006990 ATP binding site [chemical binding]; other site 1173022006991 Walker A motif; other site 1173022006992 Walker B motif; other site 1173022006993 arginine finger; other site 1173022006994 Domain of unknown function (DUF4350); Region: DUF4350; pfam14258 1173022006995 LysE type translocator; Region: LysE; cl00565 1173022006996 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 1173022006997 Domain of unknown function (DUF1768); Region: DUF1768; pfam08719 1173022006998 Caspase domain; Region: Peptidase_C14; pfam00656 1173022006999 cytoskeletal protein RodZ; Provisional; Region: PRK10856 1173022007000 ribosomal protein L32; Validated; Region: rpl32; CHL00152 1173022007001 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 1173022007002 bacterial and archael members of the sulfite oxidase (SO) family of molybdopterin binding domains. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and...; Region: arch_bact_SO_family_Moco; cd02109 1173022007003 Moco binding site; other site 1173022007004 metal coordination site [ion binding]; other site 1173022007005 Bacillus subtilis aldehyde dehydrogenase ywdH-like; Region: ALDH_YwdH-P39616; cd07136 1173022007006 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 1173022007007 NAD(P) binding site [chemical binding]; other site 1173022007008 catalytic residues [active] 1173022007009 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 1173022007010 active site 1173022007011 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1173022007012 phosphorylation site [posttranslational modification] 1173022007013 intermolecular recognition site; other site 1173022007014 dimerization interface [polypeptide binding]; other site 1173022007015 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 1173022007016 dimer interface [polypeptide binding]; other site 1173022007017 phosphorylation site [posttranslational modification] 1173022007018 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 1173022007019 ATP binding site [chemical binding]; other site 1173022007020 Mg2+ binding site [ion binding]; other site 1173022007021 G-X-G motif; other site 1173022007022 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1173022007023 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1173022007024 HlyD family secretion protein; Region: HlyD_3; pfam13437 1173022007025 Predicted transcriptional regulators [Transcription]; Region: COG1695 1173022007026 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1173022007027 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022007028 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1173022007029 S-layer homology domain; Region: SLH; pfam00395 1173022007030 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 1173022007031 Predicted integral membrane protein [Function unknown]; Region: COG5637 1173022007032 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_8; cd07817 1173022007033 putative hydrophobic ligand binding site [chemical binding]; other site 1173022007034 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 1173022007035 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1173022007036 NAD binding site [chemical binding]; other site 1173022007037 catalytic Zn binding site [ion binding]; other site 1173022007038 structural Zn binding site [ion binding]; other site 1173022007039 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 1173022007040 S-adenosylmethionine binding site [chemical binding]; other site 1173022007041 Domain of unknown function (DUF4168); Region: DUF4168; pfam13767 1173022007042 DNA polymerase III subunit delta; Validated; Region: PRK07452 1173022007043 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1173022007044 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 1173022007045 precorrin-8X methylmutase; Provisional; Region: PRK05954 1173022007046 Precorrin-8X methylmutase; Region: CbiC; pfam02570 1173022007047 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 1173022007048 active site 1173022007049 putative homodimer interface [polypeptide binding]; other site 1173022007050 SAM binding site [chemical binding]; other site 1173022007051 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 1173022007052 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 1173022007053 S-adenosylmethionine binding site [chemical binding]; other site 1173022007054 CAAX protease self-immunity; Region: Abi; pfam02517 1173022007055 AbrB-like transcriptional regulator; Region: AbrB-like; pfam14250 1173022007056 succinate dehydrogenase iron-sulfur subunit; Provisional; Region: PRK12577 1173022007057 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1173022007058 Chlorophyll A-B binding protein; Region: Chloroa_b-bind; cl02879 1173022007059 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1173022007060 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1173022007061 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 1173022007062 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1173022007063 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 1173022007064 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1173022007065 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 1173022007066 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1173022007067 Ycf66 protein N-terminus; Region: Ycf66_N; pfam07444 1173022007068 Photosystem II reaction centre X protein (PsbX); Region: PsbX; pfam06596 1173022007069 Predicted integral membrane protein [Function unknown]; Region: COG0762 1173022007070 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1173022007071 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1173022007072 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1173022007073 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1173022007074 Protein of unknown function (DUF98); Region: DUF98; pfam01947 1173022007075 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 1173022007076 putative active site [active] 1173022007077 amidophosphoribosyltransferase; Provisional; Region: PRK07349 1173022007078 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 1173022007079 active site 1173022007080 tetramer interface [polypeptide binding]; other site 1173022007081 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1173022007082 active site 1173022007083 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 1173022007084 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 1173022007085 dimerization interface [polypeptide binding]; other site 1173022007086 ATP binding site [chemical binding]; other site 1173022007087 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 1173022007088 dimerization interface [polypeptide binding]; other site 1173022007089 ATP binding site [chemical binding]; other site 1173022007090 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 1173022007091 putative active site [active] 1173022007092 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 1173022007093 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1173022007094 active site 1173022007095 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1173022007096 active site 1173022007097 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 1173022007098 Fe-S cluster binding site [ion binding]; other site 1173022007099 active site 1173022007100 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1173022007101 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1173022007102 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1173022007103 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1173022007104 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1173022007105 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 1173022007106 active site 1173022007107 FMN binding site [chemical binding]; other site 1173022007108 substrate binding site [chemical binding]; other site 1173022007109 homotetramer interface [polypeptide binding]; other site 1173022007110 catalytic residue [active] 1173022007111 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1173022007112 short chain dehydrogenase; Validated; Region: PRK07069 1173022007113 NAD(P) binding site [chemical binding]; other site 1173022007114 active site 1173022007115 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 1173022007116 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 1173022007117 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1173022007118 homodimer interface [polypeptide binding]; other site 1173022007119 catalytic residue [active] 1173022007120 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 1173022007121 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 1173022007122 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 1173022007123 putative dimer interface [polypeptide binding]; other site 1173022007124 N-terminal domain interface [polypeptide binding]; other site 1173022007125 putative substrate binding pocket (H-site) [chemical binding]; other site 1173022007126 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1173022007127 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 1173022007128 C-terminal domain interface [polypeptide binding]; other site 1173022007129 GSH binding site (G-site) [chemical binding]; other site 1173022007130 dimer interface [polypeptide binding]; other site 1173022007131 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1173022007132 Putative phosphatase (DUF442); Region: DUF442; cl17385 1173022007133 1,4-alpha-glucan branching enzyme [Carbohydrate transport and metabolism]; Region: GlgB; COG0296 1173022007134 N-terminal Early set domain, a glycogen binding domain, associated with the catalytic domain of AMP-activated protein kinase beta subunit; Region: E_set_AMPKbeta_like_N; cd02859 1173022007135 glycogen binding site [chemical binding]; other site 1173022007136 Alpha amylase catalytic domain found in an uncharacterized protein family; Region: AmyAc_4; cd11350 1173022007137 active site 1173022007138 catalytic site [active] 1173022007139 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 1173022007140 N-terminal Early set domain, a glycogen binding domain, associated with the catalytic domain of AMP-activated protein kinase beta subunit; Region: E_set_AMPKbeta_like_N; cd02859 1173022007141 glycogen binding site [chemical binding]; other site 1173022007142 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 1173022007143 Protein of unknown function (DUF1292); Region: DUF1292; pfam06949 1173022007144 Protein of unknown function (DUF3727); Region: DUF3727; pfam12527 1173022007145 YceG-like family; Region: YceG; pfam02618 1173022007146 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1173022007147 dimerization interface [polypeptide binding]; other site 1173022007148 Predicted hydrolase of the HAD superfamily [General function prediction only]; Region: COG2179 1173022007149 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 1173022007150 gamma-glutamyl kinase; Provisional; Region: PRK05429 1173022007151 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 1173022007152 nucleotide binding site [chemical binding]; other site 1173022007153 homotetrameric interface [polypeptide binding]; other site 1173022007154 putative phosphate binding site [ion binding]; other site 1173022007155 putative allosteric binding site; other site 1173022007156 PUA domain; Region: PUA; pfam01472 1173022007157 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 1173022007158 PAS domain; Region: PAS_9; pfam13426 1173022007159 putative active site [active] 1173022007160 heme pocket [chemical binding]; other site 1173022007161 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 1173022007162 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; cl00047 1173022007163 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 1173022007164 non-specific DNA interactions [nucleotide binding]; other site 1173022007165 DNA binding site [nucleotide binding] 1173022007166 sequence specific DNA binding site [nucleotide binding]; other site 1173022007167 putative cAMP binding site [chemical binding]; other site 1173022007168 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 1173022007169 dinuclear metal binding motif [ion binding]; other site 1173022007170 hypothetical protein; Validated; Region: PRK07413 1173022007171 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 1173022007172 Walker A motif; other site 1173022007173 homodimer interface [polypeptide binding]; other site 1173022007174 ATP binding site [chemical binding]; other site 1173022007175 hydroxycobalamin binding site [chemical binding]; other site 1173022007176 Walker B motif; other site 1173022007177 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP; Region: CobA_CobO_BtuR; pfam02572 1173022007178 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 1173022007179 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1173022007180 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1173022007181 PAS domain S-box; Region: sensory_box; TIGR00229 1173022007182 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 1173022007183 putative active site [active] 1173022007184 heme pocket [chemical binding]; other site 1173022007185 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022007186 GAF domain; Region: GAF; pfam01590 1173022007187 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 1173022007188 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1173022007189 putative active site [active] 1173022007190 heme pocket [chemical binding]; other site 1173022007191 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 1173022007192 putative active site [active] 1173022007193 heme pocket [chemical binding]; other site 1173022007194 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1173022007195 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1173022007196 metal binding site [ion binding]; metal-binding site 1173022007197 active site 1173022007198 I-site; other site 1173022007199 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 1173022007200 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1173022007201 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1173022007202 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 1173022007203 dimer interface [polypeptide binding]; other site 1173022007204 conserved gate region; other site 1173022007205 putative PBP binding loops; other site 1173022007206 ABC-ATPase subunit interface; other site 1173022007207 ATP-binding cassette domain of the molybdenum transport system; Region: ABC_ModC_molybdenum_transporter; cd03297 1173022007208 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 1173022007209 Walker A/P-loop; other site 1173022007210 ATP binding site [chemical binding]; other site 1173022007211 Q-loop/lid; other site 1173022007212 ABC transporter signature motif; other site 1173022007213 Walker B; other site 1173022007214 D-loop; other site 1173022007215 H-loop/switch region; other site 1173022007216 2-phosphosulfolactate phosphatase; Provisional; Region: PRK00886 1173022007217 Phosphosulfolactate phosphohydrolase and related enzymes [Coenzyme metabolism / General function prediction only]; Region: COG2045 1173022007218 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4370 1173022007219 conserved hypothetical protein; Region: TIGR03492 1173022007220 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 1173022007221 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1173022007222 Surface antigen; Region: Bac_surface_Ag; pfam01103 1173022007223 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1173022007224 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1173022007225 active site 1173022007226 ATP binding site [chemical binding]; other site 1173022007227 substrate binding site [chemical binding]; other site 1173022007228 activation loop (A-loop); other site 1173022007229 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 1173022007230 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 1173022007231 quinone interaction residues [chemical binding]; other site 1173022007232 active site 1173022007233 catalytic residues [active] 1173022007234 FMN binding site [chemical binding]; other site 1173022007235 substrate binding site [chemical binding]; other site 1173022007236 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022007237 GAF domain; Region: GAF; pfam01590 1173022007238 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022007239 GAF domain; Region: GAF; pfam01590 1173022007240 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12902 1173022007241 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 1173022007242 ATP binding site [chemical binding]; other site 1173022007243 putative Mg++ binding site [ion binding]; other site 1173022007244 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 1173022007245 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 1173022007246 dimer interface [polypeptide binding]; other site 1173022007247 catalytic triad [active] 1173022007248 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 1173022007249 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 1173022007250 substrate binding site [chemical binding]; other site 1173022007251 active site 1173022007252 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1173022007253 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 1173022007254 NAD(P) binding site [chemical binding]; other site 1173022007255 active site 1173022007256 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 1173022007257 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 1173022007258 UreF; Region: UreF; pfam01730 1173022007259 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 1173022007260 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 1173022007261 dimer interface [polypeptide binding]; other site 1173022007262 catalytic residues [active] 1173022007263 Urease accessory protein UreH [Posttranslational modification, protein turnover, chaperones]; Region: UreH; COG0829 1173022007264 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 1173022007265 alpha-gamma subunit interface [polypeptide binding]; other site 1173022007266 beta-gamma subunit interface [polypeptide binding]; other site 1173022007267 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 1173022007268 gamma-beta subunit interface [polypeptide binding]; other site 1173022007269 alpha-beta subunit interface [polypeptide binding]; other site 1173022007270 urease subunit alpha; Reviewed; Region: ureC; PRK13207 1173022007271 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 1173022007272 subunit interactions [polypeptide binding]; other site 1173022007273 active site 1173022007274 flap region; other site 1173022007275 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 1173022007276 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 1173022007277 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1173022007278 active site 1173022007279 ATP binding site [chemical binding]; other site 1173022007280 substrate binding site [chemical binding]; other site 1173022007281 activation loop (A-loop); other site 1173022007282 Bacterial SH3 domain; Region: SH3_3; pfam08239 1173022007283 Bacterial SH3 domain; Region: SH3_3; pfam08239 1173022007284 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 1173022007285 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1173022007286 Walker A/P-loop; other site 1173022007287 ATP binding site [chemical binding]; other site 1173022007288 Q-loop/lid; other site 1173022007289 ABC transporter signature motif; other site 1173022007290 Walker B; other site 1173022007291 D-loop; other site 1173022007292 H-loop/switch region; other site 1173022007293 Protein of unknown function (DUF3747); Region: DUF3747; pfam12565 1173022007294 FOG: WD40 repeat [General function prediction only]; Region: COG2319 1173022007295 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 1173022007296 structural tetrad; other site 1173022007297 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 1173022007298 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1173022007299 Walker A/P-loop; other site 1173022007300 ATP binding site [chemical binding]; other site 1173022007301 Q-loop/lid; other site 1173022007302 ABC transporter signature motif; other site 1173022007303 Walker B; other site 1173022007304 D-loop; other site 1173022007305 H-loop/switch region; other site 1173022007306 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1173022007307 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 1173022007308 TM-ABC transporter signature motif; other site 1173022007309 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1173022007310 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 1173022007311 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1173022007312 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 1173022007313 TM-ABC transporter signature motif; other site 1173022007314 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1173022007315 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 1173022007316 putative ligand binding site [chemical binding]; other site 1173022007317 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 1173022007318 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 1173022007319 Substrate binding site; other site 1173022007320 Cupin domain; Region: Cupin_2; cl17218 1173022007321 Transcriptional regulator [Transcription]; Region: LytR; COG1316 1173022007322 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 1173022007323 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1173022007324 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022007325 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022007326 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_3; cd01835 1173022007327 active site 1173022007328 catalytic triad [active] 1173022007329 oxyanion hole [active] 1173022007330 DNA-directed RNA polymerase subunit omega; Provisional; Region: ycf61; CHL00191 1173022007331 Domain of unknown function (DUF1818); Region: DUF1818; pfam08848 1173022007332 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 1173022007333 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 1173022007334 cofactor binding site; other site 1173022007335 DNA binding site [nucleotide binding] 1173022007336 substrate interaction site [chemical binding]; other site 1173022007337 HindVP restriction endonuclease; Region: RE_HindVP; pfam09519 1173022007338 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 1173022007339 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 1173022007340 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 1173022007341 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1173022007342 putative active site [active] 1173022007343 putative NTP binding site [chemical binding]; other site 1173022007344 putative nucleic acid binding site [nucleotide binding]; other site 1173022007345 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1173022007346 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 1173022007347 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 1173022007348 active site 1173022007349 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1173022007350 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1173022007351 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1173022007352 glutathione synthetase; Provisional; Region: PRK05246 1173022007353 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 1173022007354 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 1173022007355 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 1173022007356 GSH binding site [chemical binding]; other site 1173022007357 catalytic residues [active] 1173022007358 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 1173022007359 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1173022007360 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1173022007361 active site 1173022007362 Riboflavin kinase; Region: Flavokinase; pfam01687 1173022007363 MoxR-like ATPases [General function prediction only]; Region: COG0714 1173022007364 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 1173022007365 Walker A motif; other site 1173022007366 ATP binding site [chemical binding]; other site 1173022007367 Walker B motif; other site 1173022007368 arginine finger; other site 1173022007369 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1173022007370 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 1173022007371 putative ADP-binding pocket [chemical binding]; other site 1173022007372 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1173022007373 HEAT repeats; Region: HEAT_2; pfam13646 1173022007374 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1173022007375 EamA-like transporter family; Region: EamA; pfam00892 1173022007376 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1173022007377 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 1173022007378 tandem repeat interface [polypeptide binding]; other site 1173022007379 oligomer interface [polypeptide binding]; other site 1173022007380 active site residues [active] 1173022007381 Chorismate mutase (AroH) is one of at least five chorismate-utilizing enzymes present in microorganisms that catalyze the rearrangement of chorismate to prephenic acid, the first committed step in the biosynthesis of aromatic amino acids. In prokaryotes; Region: AroH; cd02185 1173022007382 homotrimer interaction site [polypeptide binding]; other site 1173022007383 active site 1173022007384 Beta-carotene hydroxylase (CrtR), the carotenoid zeaxanthin biosynthetic enzyme catalyzes the addition of hydroxyl groups to the beta-ionone rings of beta-carotene to form zeaxanthin and is found in bacteria and red algae. Carotenoids are important...; Region: CrtR_beta-carotene-hydroxylase; cd03514 1173022007385 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1173022007386 putative di-iron ligands [ion binding]; other site 1173022007387 Circadian oscillating protein COP23; Region: COP23; pfam14218 1173022007388 Winged helix-turn helix; Region: HTH_29; pfam13551 1173022007389 Homeodomain-like domain; Region: HTH_32; pfam13565 1173022007390 Integrase core domain; Region: rve; pfam00665 1173022007391 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 1173022007392 Bacterial TniB protein; Region: TniB; pfam05621 1173022007393 AAA domain; Region: AAA_22; pfam13401 1173022007394 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 1173022007395 non-specific DNA binding site [nucleotide binding]; other site 1173022007396 salt bridge; other site 1173022007397 sequence-specific DNA binding site [nucleotide binding]; other site 1173022007398 Domain of unknown function (DUF4325); Region: DUF4325; pfam14213 1173022007399 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1173022007400 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1173022007401 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1173022007402 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1173022007403 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 1173022007404 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 1173022007405 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 1173022007406 putative Mg++ binding site [ion binding]; other site 1173022007407 Helicase conserved C-terminal domain; Region: Helicase_C; pfam00271 1173022007408 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1173022007409 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1173022007410 DNA binding residues [nucleotide binding] 1173022007411 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1173022007412 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1173022007413 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1173022007414 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1173022007415 putative acyl-acceptor binding pocket; other site 1173022007416 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 1173022007417 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1173022007418 active site 1173022007419 HIGH motif; other site 1173022007420 KMSKS motif; other site 1173022007421 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1173022007422 anticodon binding site; other site 1173022007423 tRNA binding surface [nucleotide binding]; other site 1173022007424 Uncharacterized conserved protein [Function unknown]; Region: COG1432 1173022007425 LabA_like proteins; Region: LabA; cd10911 1173022007426 putative metal binding site [ion binding]; other site 1173022007427 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 1173022007428 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 1173022007429 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 1173022007430 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 1173022007431 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 1173022007432 putative phosphate acyltransferase; Provisional; Region: PRK05331 1173022007433 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1173022007434 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 1173022007435 dimer interface [polypeptide binding]; other site 1173022007436 active site 1173022007437 CoA binding pocket [chemical binding]; other site 1173022007438 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1173022007439 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1173022007440 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1173022007441 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1173022007442 putative acyl-acceptor binding pocket; other site 1173022007443 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1173022007444 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1173022007445 Protein of unknown function (DUF2288); Region: DUF2288; pfam10052 1173022007446 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1173022007447 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 1173022007448 putative active site [active] 1173022007449 Mo-dependent nitrogenase C-terminus; Region: Mo-nitro_C; pfam06967 1173022007450 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 1173022007451 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1173022007452 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH2; cd08183 1173022007453 putative active site [active] 1173022007454 metal binding site [ion binding]; metal-binding site 1173022007455 Predicted metalloprotease [General function prediction only]; Region: COG2321 1173022007456 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 1173022007457 Domain of unknown function (DUF4126); Region: DUF4126; pfam13548 1173022007458 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 1173022007459 Restriction endonuclease [Defense mechanisms]; Region: Mrr; COG1715 1173022007460 Mrr N-terminal domain; Region: Mrr_N; pfam14338 1173022007461 Restriction endonuclease; Region: Mrr_cat; pfam04471 1173022007462 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 1173022007463 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 1173022007464 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 1173022007465 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 1173022007466 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 1173022007467 active site 1173022007468 catalytic residues [active] 1173022007469 DNA binding site [nucleotide binding] 1173022007470 Int/Topo IB signature motif; other site 1173022007471 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 1173022007472 PemK-like protein; Region: PemK; cl00995 1173022007473 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4634 1173022007474 Protein of unknown function (DUF433); Region: DUF433; pfam04255 1173022007475 AIPR protein; Region: AIPR; pfam10592 1173022007476 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 1173022007477 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 1173022007478 active site 1173022007479 catalytic site [active] 1173022007480 The family 20 carbohydrate-binding module (CBM20), also known as the starch-binding domain, is found in a large number of starch degrading enzymes including alpha-amylase, beta-amylase, glucoamylase, and CGTase (cyclodextrin glucanotransferase). CBM20 is...; Region: CBM20; cd05467 1173022007481 starch-binding site 2 [chemical binding]; other site 1173022007482 starch-binding site 1 [chemical binding]; other site 1173022007483 NAD(P)H-quinone oxidoreductase subunit 4; Provisional; Region: PRK12561 1173022007484 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1173022007485 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 1173022007486 YcfA-like protein; Region: YcfA; pfam07927 1173022007487 T5orf172 domain; Region: T5orf172; pfam10544 1173022007488 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1173022007489 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1173022007490 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1173022007491 short chain dehydrogenase; Provisional; Region: PRK08303 1173022007492 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1173022007493 NAD(P) binding site [chemical binding]; other site 1173022007494 active site 1173022007495 AbrB-like transcriptional regulator; Region: AbrB-like; pfam14250 1173022007496 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 1173022007497 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1173022007498 active site 1173022007499 catalytic tetrad [active] 1173022007500 FOG: WD40 repeat [General function prediction only]; Region: COG2319 1173022007501 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 1173022007502 PAP_fibrillin; Region: PAP_fibrillin; pfam04755 1173022007503 hypothetical protein; Provisional; Region: PRK09256 1173022007504 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 1173022007505 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 1173022007506 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1173022007507 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 1173022007508 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2929 1173022007509 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 1173022007510 DNA methylase; Region: N6_N4_Mtase; pfam01555 1173022007511 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 1173022007512 non-specific DNA binding site [nucleotide binding]; other site 1173022007513 salt bridge; other site 1173022007514 sequence-specific DNA binding site [nucleotide binding]; other site 1173022007515 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 1173022007516 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1173022007517 C-terminal domain interface [polypeptide binding]; other site 1173022007518 GSH binding site (G-site) [chemical binding]; other site 1173022007519 dimer interface [polypeptide binding]; other site 1173022007520 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 1173022007521 substrate binding pocket (H-site) [chemical binding]; other site 1173022007522 N-terminal domain interface [polypeptide binding]; other site 1173022007523 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 1173022007524 trimer interface [polypeptide binding]; other site 1173022007525 putative Zn binding site [ion binding]; other site 1173022007526 threonine dehydratase; Reviewed; Region: PRK09224 1173022007527 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 1173022007528 tetramer interface [polypeptide binding]; other site 1173022007529 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1173022007530 catalytic residue [active] 1173022007531 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 1173022007532 putative Ile/Val binding site [chemical binding]; other site 1173022007533 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 1173022007534 putative Ile/Val binding site [chemical binding]; other site 1173022007535 Domain of unknown function DUF29; Region: DUF29; pfam01724 1173022007536 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1173022007537 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 1173022007538 S-adenosylmethionine binding site [chemical binding]; other site 1173022007539 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 1173022007540 nucleotide binding site/active site [active] 1173022007541 HIT family signature motif; other site 1173022007542 catalytic residue [active] 1173022007543 PAP_fibrillin; Region: PAP_fibrillin; pfam04755 1173022007544 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 1173022007545 C factor cell-cell signaling protein; Provisional; Region: PRK09009 1173022007546 NADP binding site [chemical binding]; other site 1173022007547 homodimer interface [polypeptide binding]; other site 1173022007548 active site 1173022007549 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 1173022007550 ABC1 family; Region: ABC1; cl17513 1173022007551 Transcriptional regulator [Transcription]; Region: LytR; COG1316 1173022007552 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 1173022007553 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1173022007554 ribosomal protein L21; Region: rpl21; CHL00075 1173022007555 Protein of unknown function (DUF3747); Region: DUF3747; pfam12565 1173022007556 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 1173022007557 metal ion-dependent adhesion site (MIDAS); other site 1173022007558 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1173022007559 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 1173022007560 nucleotide binding pocket [chemical binding]; other site 1173022007561 K-X-D-G motif; other site 1173022007562 catalytic site [active] 1173022007563 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1173022007564 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1173022007565 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 1173022007566 Dimer interface [polypeptide binding]; other site 1173022007567 BRCT sequence motif; other site 1173022007568 EamA-like transporter family; Region: EamA; pfam00892 1173022007569 GAF domain; Region: GAF; pfam01590 1173022007570 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1173022007571 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 1173022007572 dimer interface [polypeptide binding]; other site 1173022007573 phosphorylation site [posttranslational modification] 1173022007574 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 1173022007575 ATP binding site [chemical binding]; other site 1173022007576 Mg2+ binding site [ion binding]; other site 1173022007577 G-X-G motif; other site 1173022007578 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1173022007579 EamA-like transporter family; Region: EamA; pfam00892 1173022007580 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 1173022007581 active site 1173022007582 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 1173022007583 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 1173022007584 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1173022007585 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1173022007586 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 1173022007587 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1173022007588 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1173022007589 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 1173022007590 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1173022007591 Protein of unknown function (DUF4079); Region: DUF4079; pfam13301 1173022007592 Protein of unknown function (DUF1997); Region: DUF1997; pfam09366 1173022007593 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 1173022007594 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1173022007595 NAD(P) binding site [chemical binding]; other site 1173022007596 putative active site [active] 1173022007597 The lysozyme from bacteriophage lambda hydrolyses the beta-1,4-glycosidic bond between N-acetylmuramic acid (MurNAc) and N-acetylglucosamine (GlcNAc), as do other lysozymes. But unlike other lysozymes, bacteriophage lambda does not produce a reducing...; Region: bacteriophage_lambda_lysozyme; cd00736 1173022007598 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1173022007599 catalytic residue [active] 1173022007600 Uncharacterized family 1; belongs to a superfamily containing the transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this family was previously known as part of DUF156; Region: CsoR-like_DUF156_1; cd10158 1173022007601 putative homodimer interface [polypeptide binding]; other site 1173022007602 putative homotetramer interface [polypeptide binding]; other site 1173022007603 putative metal binding site [ion binding]; other site 1173022007604 putative homodimer-homodimer interface [polypeptide binding]; other site 1173022007605 putative allosteric switch controlling residues; other site 1173022007606 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 1173022007607 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1173022007608 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 1173022007609 protein binding site [polypeptide binding]; other site 1173022007610 DNA-directed RNA polymerase subunit beta'; Provisional; Region: rpoC2; PRK02597 1173022007611 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1173022007612 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1173022007613 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1173022007614 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1173022007615 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1173022007616 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1173022007617 DNA binding site [nucleotide binding] 1173022007618 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1173022007619 DNA-directed RNA polymerase subunit gamma; Provisional; Region: rpoC1; PRK02625 1173022007620 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1173022007621 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1173022007622 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1173022007623 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1173022007624 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 1173022007625 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 1173022007626 RPB1 interaction site [polypeptide binding]; other site 1173022007627 RPB10 interaction site [polypeptide binding]; other site 1173022007628 RPB11 interaction site [polypeptide binding]; other site 1173022007629 RPB3 interaction site [polypeptide binding]; other site 1173022007630 RPB12 interaction site [polypeptide binding]; other site 1173022007631 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1173022007632 active site 1173022007633 ribosomal protein S20; Region: rps20; CHL00102 1173022007634 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 1173022007635 histidinol dehydrogenase; Region: hisD; TIGR00069 1173022007636 NAD binding site [chemical binding]; other site 1173022007637 dimerization interface [polypeptide binding]; other site 1173022007638 product binding site; other site 1173022007639 substrate binding site [chemical binding]; other site 1173022007640 zinc binding site [ion binding]; other site 1173022007641 catalytic residues [active] 1173022007642 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 1173022007643 Ligand Binding Site [chemical binding]; other site 1173022007644 C-3',4' desaturase CrtD; Region: desat_CrtD; TIGR02733 1173022007645 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1173022007646 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 1173022007647 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 1173022007648 dimerization interface [polypeptide binding]; other site 1173022007649 domain crossover interface; other site 1173022007650 redox-dependent activation switch; other site 1173022007651 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1173022007652 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1173022007653 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1173022007654 Phosphotransferase enzyme family; Region: APH; pfam01636 1173022007655 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 1173022007656 active site 1173022007657 ATP binding site [chemical binding]; other site 1173022007658 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 1173022007659 active site 1173022007660 ATP binding site [chemical binding]; other site 1173022007661 Cache domain; Region: Cache_1; pfam02743 1173022007662 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1173022007663 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 1173022007664 dimerization interface [polypeptide binding]; other site 1173022007665 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1173022007666 dimer interface [polypeptide binding]; other site 1173022007667 putative CheW interface [polypeptide binding]; other site 1173022007668 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1173022007669 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1173022007670 nucleotide binding site [chemical binding]; other site 1173022007671 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1173022007672 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1173022007673 Domain of unknown function (DUF4330); Region: DUF4330; pfam14221 1173022007674 Peptidase family M48; Region: Peptidase_M48; pfam01435 1173022007675 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 1173022007676 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1173022007677 active site 1173022007678 metal binding site [ion binding]; metal-binding site 1173022007679 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 1173022007680 active site 1173022007681 dinuclear metal binding site [ion binding]; other site 1173022007682 dimerization interface [polypeptide binding]; other site 1173022007683 Domain of unknown function (DUF1995); Region: DUF1995; pfam09353 1173022007684 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 1173022007685 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1173022007686 Ligand binding site; other site 1173022007687 Putative Catalytic site; other site 1173022007688 DXD motif; other site 1173022007689 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 1173022007690 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1173022007691 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1173022007692 catalytic residue [active] 1173022007693 Catalytic domain of EDTA-resistant nuclease Nuc, vertebrate phospholipase D6, and similar proteins; Region: PLDc_Nuc_like; cd09116 1173022007694 PLD-like domain; Region: PLDc_2; pfam13091 1173022007695 putative active site [active] 1173022007696 catalytic site [active] 1173022007697 Putative catalytic domain, repeat 2, of uncharacterized hypothetical proteins similar to Nuc, an endonuclease from Salmonella typhimurium; Region: PLDc_Nuc_like_unchar1_2; cd09173 1173022007698 PLD-like domain; Region: PLDc_2; pfam13091 1173022007699 putative active site [active] 1173022007700 catalytic site [active] 1173022007701 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 1173022007702 Helix-hairpin-helix motif; Region: HHH; pfam00633 1173022007703 Protein of unknown function (DUF2949); Region: DUF2949; pfam11165 1173022007704 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 1173022007705 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1173022007706 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 1173022007707 active site 1173022007708 phosphorylation site [posttranslational modification] 1173022007709 intermolecular recognition site; other site 1173022007710 dimerization interface [polypeptide binding]; other site 1173022007711 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 1173022007712 DNA binding site [nucleotide binding] 1173022007713 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02649 1173022007714 ATP-NAD kinase; Region: NAD_kinase; pfam01513 1173022007715 Ycf39; Provisional; Region: ycf39; CHL00194 1173022007716 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 1173022007717 NAD(P) binding site [chemical binding]; other site 1173022007718 putative active site [active] 1173022007719 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional; Region: pdxA; PRK02746 1173022007720 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 1173022007721 Orbivirus outer capsid protein VP5; Region: Orbi_VP5; pfam00901 1173022007722 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1173022007723 Probable transposase; Region: OrfB_IS605; pfam01385 1173022007724 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1173022007725 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 1173022007726 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 1173022007727 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1173022007728 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022007729 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 1173022007730 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 1173022007731 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 1173022007732 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 1173022007733 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 1173022007734 ligand binding site [chemical binding]; other site 1173022007735 homodimer interface [polypeptide binding]; other site 1173022007736 NAD(P) binding site [chemical binding]; other site 1173022007737 trimer interface B [polypeptide binding]; other site 1173022007738 trimer interface A [polypeptide binding]; other site 1173022007739 Protein of unknown function (DUF2808); Region: DUF2808; pfam10989 1173022007740 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 1173022007741 ribonuclease P; Reviewed; Region: rnpA; PRK03031 1173022007742 Bacterial PH domain; Region: DUF304; pfam03703 1173022007743 putative inner membrane protein translocase component YidC; Provisional; Region: PRK02654 1173022007744 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1173022007745 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 1173022007746 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 1173022007747 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 1173022007748 G-X-X-G motif; other site 1173022007749 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 1173022007750 RxxxH motif; other site 1173022007751 Predicted metal-binding, possibly nucleic acid-binding protein [General function prediction only]; Region: COG1399 1173022007752 Ycf46; Provisional; Region: ycf46; CHL00195 1173022007753 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 1173022007754 Walker A motif; other site 1173022007755 ATP binding site [chemical binding]; other site 1173022007756 Walker B motif; other site 1173022007757 arginine finger; other site 1173022007758 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1173022007759 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 1173022007760 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1173022007761 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1173022007762 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 1173022007763 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1173022007764 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 1173022007765 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1173022007766 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1173022007767 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1173022007768 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1173022007769 metal binding site 2 [ion binding]; metal-binding site 1173022007770 putative DNA binding helix; other site 1173022007771 metal binding site 1 [ion binding]; metal-binding site 1173022007772 dimer interface [polypeptide binding]; other site 1173022007773 structural Zn2+ binding site [ion binding]; other site 1173022007774 RNA polymerase sigma factor SigC; Validated; Region: PRK07598 1173022007775 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1173022007776 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1173022007777 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1173022007778 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 1173022007779 DNA binding residues [nucleotide binding] 1173022007780 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Provisional; Region: PRK14619 1173022007781 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1173022007782 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1173022007783 lipoyl synthase; Provisional; Region: PRK05481 1173022007784 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 1173022007785 FeS/SAM binding site; other site 1173022007786 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1173022007787 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1173022007788 Probable transposase; Region: OrfB_IS605; pfam01385 1173022007789 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1173022007790 Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452 1173022007791 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 1173022007792 DNA binding residues [nucleotide binding] 1173022007793 Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of...; Region: SR_IS607_transposase_like; cd03769 1173022007794 catalytic residues [active] 1173022007795 catalytic nucleophile [active] 1173022007796 HNH endonuclease; Region: HNH_2; pfam13391 1173022007797 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1173022007798 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 1173022007799 catalytic residues [active] 1173022007800 catalytic nucleophile [active] 1173022007801 Recombinase; Region: Recombinase; pfam07508 1173022007802 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 1173022007803 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 1173022007804 Chain length determinant protein; Region: Wzz; cl15801 1173022007805 AAA domain; Region: AAA_31; pfam13614 1173022007806 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 1173022007807 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1173022007808 This family is most closely related to the GT1 family of glycosyltransferases. wbaZ in Salmonella enterica has been shown to possess the mannosyl transferase activity. The members of this family are found in certain bacteria and Archaea; Region: GT1_wbaZ_like; cd03804 1173022007809 putative ADP-binding pocket [chemical binding]; other site 1173022007810 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 1173022007811 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1173022007812 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1173022007813 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 1173022007814 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 1173022007815 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1173022007816 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1173022007817 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 1173022007818 active site 1173022007819 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1173022007820 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 1173022007821 active site 1173022007822 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1173022007823 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 1173022007824 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1173022007825 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 1173022007826 active site 1173022007827 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 1173022007828 active site 1173022007829 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1173022007830 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 1173022007831 active site 1173022007832 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1173022007833 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1173022007834 NAD(P) binding site [chemical binding]; other site 1173022007835 active site 1173022007836 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1173022007837 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 1173022007838 active site 1173022007839 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 1173022007840 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 1173022007841 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 1173022007842 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 1173022007843 putative active site [active] 1173022007844 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1173022007845 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 1173022007846 S-adenosylmethionine binding site [chemical binding]; other site 1173022007847 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1173022007848 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 1173022007849 active site 1173022007850 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1173022007851 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 1173022007852 active site 1173022007853 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 1173022007854 putative active site [active] 1173022007855 putative metal binding site [ion binding]; other site 1173022007856 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 1173022007857 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1173022007858 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 1173022007859 active site 1173022007860 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 1173022007861 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 1173022007862 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 1173022007863 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 1173022007864 Walker A/P-loop; other site 1173022007865 ATP binding site [chemical binding]; other site 1173022007866 Q-loop/lid; other site 1173022007867 ABC transporter signature motif; other site 1173022007868 Walker B; other site 1173022007869 D-loop; other site 1173022007870 H-loop/switch region; other site 1173022007871 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 1173022007872 putative carbohydrate binding site [chemical binding]; other site 1173022007873 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 1173022007874 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1173022007875 Bacterial sugar transferase; Region: Bac_transf; cl00939 1173022007876 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 1173022007877 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1173022007878 Predicted membrane protein [Function unknown]; Region: COG4083; cl15694 1173022007879 Transmembrane exosortase (Exosortase_EpsH); Region: Exosortase_EpsH; pfam09721 1173022007880 cyanosortase-associated protein; Region: cyanosort_assoc; TIGR04153 1173022007881 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 1173022007882 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 1173022007883 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 1173022007884 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 1173022007885 RNA binding site [nucleotide binding]; other site 1173022007886 Isochorismatase family; Region: Isochorismatase; pfam00857 1173022007887 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 1173022007888 catalytic triad [active] 1173022007889 conserved cis-peptide bond; other site 1173022007890 Integral membrane protein DUF92; Region: DUF92; pfam01940 1173022007891 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1173022007892 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 1173022007893 active site 1173022007894 metal binding site [ion binding]; metal-binding site 1173022007895 Lipase (class 2); Region: Lipase_2; pfam01674 1173022007896 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1173022007897 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 1173022007898 binding surface 1173022007899 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1173022007900 TPR motif; other site 1173022007901 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 1173022007902 RNA methyltransferase, RsmE family; Region: TIGR00046 1173022007903 ferredoxin-sulfite reductase; Region: sir; TIGR02042 1173022007904 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1173022007905 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1173022007906 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 1173022007907 Leucine-rich repeats; other site 1173022007908 Leucine rich repeat; Region: LRR_8; pfam13855 1173022007909 Substrate binding site [chemical binding]; other site 1173022007910 Leucine rich repeat; Region: LRR_8; pfam13855 1173022007911 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 1173022007912 Leucine rich repeat; Region: LRR_8; pfam13855 1173022007913 Leucine rich repeat; Region: LRR_8; pfam13855 1173022007914 GTPase SAR1 and related small G proteins [General function prediction only]; Region: COG1100 1173022007915 Ras of complex proteins (Roc) C-terminal of Roc (COR) domain family; Region: RocCOR; cd09914 1173022007916 G1 box; other site 1173022007917 GTP/Mg2+ binding site [chemical binding]; other site 1173022007918 G2 box; other site 1173022007919 Switch I region; other site 1173022007920 G3 box; other site 1173022007921 Switch II region; other site 1173022007922 G4 box; other site 1173022007923 G5 box; other site 1173022007924 XisI protein; Region: XisI; pfam08869 1173022007925 XisH protein; Region: XisH; pfam08814 1173022007926 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4299 1173022007927 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 1173022007928 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1173022007929 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 1173022007930 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 1173022007931 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 1173022007932 magnesium chelatase subunit H; Provisional; Region: PLN03241 1173022007933 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 1173022007934 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 1173022007935 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1173022007936 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 1173022007937 motif II; other site 1173022007938 30S ribosomal protein S1; Reviewed; Region: PRK07400 1173022007939 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 1173022007940 RNA binding site [nucleotide binding]; other site 1173022007941 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 1173022007942 RNA binding site [nucleotide binding]; other site 1173022007943 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 1173022007944 RNA binding site [nucleotide binding]; other site 1173022007945 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 1173022007946 ATP cone domain; Region: ATP-cone; pfam03477 1173022007947 photosystem II reaction center protein T; Reviewed; Region: psbT; PRK11875 1173022007948 photosystem II 47 kDa protein; Region: psbB; CHL00062 1173022007949 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 1173022007950 salt bridge; other site 1173022007951 non-specific DNA binding site [nucleotide binding]; other site 1173022007952 sequence-specific DNA binding site [nucleotide binding]; other site 1173022007953 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: COG2405 1173022007954 Domain of unknown function (DUF3368); Region: DUF3368; pfam11848 1173022007955 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1173022007956 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 1173022007957 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 1173022007958 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1173022007959 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 1173022007960 Domain of unknown function (DUF814); Region: DUF814; pfam05670 1173022007961 Clp protease; Region: CLP_protease; pfam00574 1173022007962 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1173022007963 oligomer interface [polypeptide binding]; other site 1173022007964 active site residues [active] 1173022007965 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1173022007966 Exoribonuclease R [Transcription]; Region: VacB; COG0557 1173022007967 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 1173022007968 RNB domain; Region: RNB; pfam00773 1173022007969 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 1173022007970 RNA binding site [nucleotide binding]; other site 1173022007971 aromatic acid decarboxylase; Validated; Region: PRK05920 1173022007972 Flavoprotein; Region: Flavoprotein; pfam02441 1173022007973 Protein of unknown function (DUF1049); Region: DUF1049; pfam06305 1173022007974 shikimate kinase; Reviewed; Region: aroK; PRK00131 1173022007975 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 1173022007976 ADP binding site [chemical binding]; other site 1173022007977 magnesium binding site [ion binding]; other site 1173022007978 putative shikimate binding site; other site 1173022007979 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 1173022007980 feedback inhibition sensing region; other site 1173022007981 homohexameric interface [polypeptide binding]; other site 1173022007982 nucleotide binding site [chemical binding]; other site 1173022007983 N-acetyl-L-glutamate binding site [chemical binding]; other site 1173022007984 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 1173022007985 Protein of unknown function (DUF3153); Region: DUF3153; pfam11353 1173022007986 Peptidase S8 family domain in Thermitase-like proteins; Region: Peptidases_S8_Thermitase_like; cd07484 1173022007987 active site 1173022007988 catalytic triad [active] 1173022007989 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1173022007990 CHAT domain; Region: CHAT; pfam12770 1173022007991 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1173022007992 arginine decarboxylase; Provisional; Region: PRK05354 1173022007993 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 1173022007994 active site 1173022007995 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1173022007996 catalytic residues [active] 1173022007997 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 1173022007998 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 1173022007999 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 1173022008000 active site 1173022008001 Substrate binding site; other site 1173022008002 Mg++ binding site; other site 1173022008003 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 1173022008004 putative trimer interface [polypeptide binding]; other site 1173022008005 putative CoA binding site [chemical binding]; other site 1173022008006 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 1173022008007 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1173022008008 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1173022008009 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 1173022008010 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1173022008011 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 1173022008012 Orange carotenoid protein, N-terminal; Region: Carot_N; pfam09150 1173022008013 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 1173022008014 intracellular protease, PfpI family; Region: PfpI; TIGR01382 1173022008015 proposed catalytic triad [active] 1173022008016 conserved cys residue [active] 1173022008017 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1173022008018 dinuclear metal binding motif [ion binding]; other site 1173022008019 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 1173022008020 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1173022008021 HD domain; Region: HD_4; pfam13328 1173022008022 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1173022008023 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1173022008024 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1173022008025 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 1173022008026 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 1173022008027 motif II; other site 1173022008028 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; cl01250 1173022008029 MASE1; Region: MASE1; cl17823 1173022008030 PAS fold; Region: PAS_4; pfam08448 1173022008031 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 1173022008032 putative active site [active] 1173022008033 heme pocket [chemical binding]; other site 1173022008034 PAS domain S-box; Region: sensory_box; TIGR00229 1173022008035 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 1173022008036 putative active site [active] 1173022008037 heme pocket [chemical binding]; other site 1173022008038 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022008039 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1173022008040 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022008041 GAF domain; Region: GAF; pfam01590 1173022008042 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1173022008043 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 1173022008044 dimer interface [polypeptide binding]; other site 1173022008045 phosphorylation site [posttranslational modification] 1173022008046 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 1173022008047 ATP binding site [chemical binding]; other site 1173022008048 Mg2+ binding site [ion binding]; other site 1173022008049 G-X-G motif; other site 1173022008050 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1173022008051 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 1173022008052 active site 1173022008053 phosphorylation site [posttranslational modification] 1173022008054 intermolecular recognition site; other site 1173022008055 dimerization interface [polypeptide binding]; other site 1173022008056 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 1173022008057 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1173022008058 DXD motif; other site 1173022008059 PilZ domain; Region: PilZ; pfam07238 1173022008060 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 1173022008061 Plasmid encoded toxin Txe; Region: Plasmid_Txe; pfam06769 1173022008062 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02645 1173022008063 ATP-NAD kinase; Region: NAD_kinase; pfam01513 1173022008064 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1173022008065 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1173022008066 active site 1173022008067 ATP binding site [chemical binding]; other site 1173022008068 substrate binding site [chemical binding]; other site 1173022008069 activation loop (A-loop); other site 1173022008070 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 1173022008071 Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452 1173022008072 DNA binding residues [nucleotide binding] 1173022008073 Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of...; Region: SR_IS607_transposase_like; cd03769 1173022008074 catalytic residues [active] 1173022008075 catalytic nucleophile [active] 1173022008076 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1173022008077 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 1173022008078 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 1173022008079 integral membrane protein MviN; Region: mviN; TIGR01695 1173022008080 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1173022008081 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1173022008082 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022008083 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022008084 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022008085 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1173022008086 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022008087 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1173022008088 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022008089 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022008090 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1173022008091 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022008092 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 1173022008093 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 1173022008094 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1173022008095 Protein of unknown function (DUF1611); Region: DUF1611; pfam07755 1173022008096 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1173022008097 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 1173022008098 active site 1173022008099 Uncharacterized conserved protein [Function unknown]; Region: COG5607 1173022008100 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1173022008101 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 1173022008102 non-specific DNA interactions [nucleotide binding]; other site 1173022008103 DNA binding site [nucleotide binding] 1173022008104 sequence specific DNA binding site [nucleotide binding]; other site 1173022008105 putative cAMP binding site [chemical binding]; other site 1173022008106 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 1173022008107 putative hydrolase; Provisional; Region: PRK11460 1173022008108 Protein of unknown function (DUF2555); Region: DUF2555; pfam10742 1173022008109 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 1173022008110 Flavoprotein; Region: Flavoprotein; pfam02441 1173022008111 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 1173022008112 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic...; Region: PRX_like1; cd02969 1173022008113 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1173022008114 putative catalytic residue [active] 1173022008115 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 1173022008116 active site lid residues [active] 1173022008117 substrate binding pocket [chemical binding]; other site 1173022008118 catalytic residues [active] 1173022008119 substrate-Mg2+ binding site; other site 1173022008120 aspartate-rich region 1; other site 1173022008121 aspartate-rich region 2; other site 1173022008122 phytoene desaturase; Region: phytoene_desat; TIGR02731 1173022008123 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1173022008124 molecular chaperone DnaK; Provisional; Region: PRK13410 1173022008125 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 1173022008126 nucleotide binding site [chemical binding]; other site 1173022008127 NEF interaction site [polypeptide binding]; other site 1173022008128 SBD interface [polypeptide binding]; other site 1173022008129 chaperone protein DnaJ; Provisional; Region: PRK14277 1173022008130 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 1173022008131 HSP70 interaction site [polypeptide binding]; other site 1173022008132 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1173022008133 dimer interface [polypeptide binding]; other site 1173022008134 Orbivirus outer capsid protein VP5; Region: Orbi_VP5; pfam00901 1173022008135 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 1173022008136 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 1173022008137 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 1173022008138 putative active site [active] 1173022008139 putative NTP binding site [chemical binding]; other site 1173022008140 putative nucleic acid binding site [nucleotide binding]; other site 1173022008141 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1173022008142 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 1173022008143 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 1173022008144 active site 1173022008145 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 1173022008146 putative active site [active] 1173022008147 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 1173022008148 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1173022008149 Proline dehydrogenase; Region: Pro_dh; cl03282 1173022008150 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1173022008151 Coenzyme A binding pocket [chemical binding]; other site 1173022008152 Protein of unknown function (DUF1778); Region: DUF1778; pfam08681 1173022008153 antitoxin MqsA for MqsR toxin; Region: MqsA; cd12870 1173022008154 toxin interface [polypeptide binding]; other site 1173022008155 Zn binding site [ion binding]; other site 1173022008156 Domain of unknown function (DUF4258); Region: DUF4258; pfam14076 1173022008157 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 1173022008158 structural tetrad; other site 1173022008159 FOG: WD40 repeat [General function prediction only]; Region: COG2319 1173022008160 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 1173022008161 structural tetrad; other site 1173022008162 Proline dehydrogenase; Region: Pro_dh; pfam01619 1173022008163 Delta(1)-pyrroline-5-carboxylate dehydrogenase, RocA; Region: ALDH_PutA-P5CDH-RocA; cd07124 1173022008164 delta-1-pyrroline-5-carboxylate dehydrogenase, group 2, putative; Region: D1pyr5carbox2; TIGR01237 1173022008165 Glutamate binding site [chemical binding]; other site 1173022008166 homodimer interface [polypeptide binding]; other site 1173022008167 NAD binding site [chemical binding]; other site 1173022008168 catalytic residues [active] 1173022008169 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1173022008170 Coenzyme A binding pocket [chemical binding]; other site 1173022008171 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 1173022008172 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1173022008173 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1173022008174 G1 box; other site 1173022008175 GTP/Mg2+ binding site [chemical binding]; other site 1173022008176 Switch I region; other site 1173022008177 G2 box; other site 1173022008178 Switch II region; other site 1173022008179 G3 box; other site 1173022008180 G4 box; other site 1173022008181 G5 box; other site 1173022008182 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1173022008183 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 1173022008184 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1173022008185 TPR repeat; Region: TPR_11; pfam13414 1173022008186 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 1173022008187 binding surface 1173022008188 TPR motif; other site 1173022008189 TPR repeat; Region: TPR_11; pfam13414 1173022008190 TPR repeat; Region: TPR_11; pfam13414 1173022008191 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 1173022008192 binding surface 1173022008193 TPR motif; other site 1173022008194 TPR repeat; Region: TPR_11; pfam13414 1173022008195 Domain of unknown function (DUF4327); Region: DUF4327; pfam14217 1173022008196 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1173022008197 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 1173022008198 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1173022008199 Protein of unknown function (DUF751); Region: DUF751; pfam05421 1173022008200 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1173022008201 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 1173022008202 Amino acid permease; Region: AA_permease_2; pfam13520 1173022008203 PAS domain; Region: PAS; smart00091 1173022008204 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1173022008205 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1173022008206 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 1173022008207 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 1173022008208 dimer interface [polypeptide binding]; other site 1173022008209 phosphorylation site [posttranslational modification] 1173022008210 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 1173022008211 ATP binding site [chemical binding]; other site 1173022008212 Mg2+ binding site [ion binding]; other site 1173022008213 G-X-G motif; other site 1173022008214 Apolipoprotein A1/A4/E domain; Region: Apolipoprotein; pfam01442 1173022008215 Protein of unknown function (DUF2950); Region: DUF2950; pfam11453 1173022008216 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1173022008217 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 1173022008218 Peptidase family U32; Region: Peptidase_U32; pfam01136 1173022008219 Collagenase; Region: DUF3656; pfam12392 1173022008220 Peptidase family U32; Region: Peptidase_U32; cl03113 1173022008221 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 1173022008222 putative active site [active] 1173022008223 GMP synthase; Reviewed; Region: guaA; PRK00074 1173022008224 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1173022008225 AMP/PPi binding site [chemical binding]; other site 1173022008226 candidate oxyanion hole; other site 1173022008227 catalytic triad [active] 1173022008228 potential glutamine specificity residues [chemical binding]; other site 1173022008229 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 1173022008230 ATP Binding subdomain [chemical binding]; other site 1173022008231 Ligand Binding sites [chemical binding]; other site 1173022008232 Dimerization subdomain; other site 1173022008233 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 1173022008234 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1173022008235 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 1173022008236 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 1173022008237 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1173022008238 putative substrate translocation pore; other site 1173022008239 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 1173022008240 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 1173022008241 FeS/SAM binding site; other site 1173022008242 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1173022008243 ribosomal protein S4; Reviewed; Region: rps4; CHL00113 1173022008244 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1173022008245 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 1173022008246 RNA binding surface [nucleotide binding]; other site 1173022008247 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 1173022008248 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1173022008249 cobalamin binding residues [chemical binding]; other site 1173022008250 putative BtuC binding residues; other site 1173022008251 dimer interface [polypeptide binding]; other site 1173022008252 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1173022008253 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 1173022008254 motif 1; other site 1173022008255 active site 1173022008256 motif 2; other site 1173022008257 motif 3; other site 1173022008258 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1173022008259 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 1173022008260 catalytic residue [active] 1173022008261 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 1173022008262 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 1173022008263 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1173022008264 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1173022008265 Walker A/P-loop; other site 1173022008266 ATP binding site [chemical binding]; other site 1173022008267 Q-loop/lid; other site 1173022008268 ABC transporter signature motif; other site 1173022008269 Walker B; other site 1173022008270 D-loop; other site 1173022008271 H-loop/switch region; other site 1173022008272 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1173022008273 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1173022008274 Walker A/P-loop; other site 1173022008275 ATP binding site [chemical binding]; other site 1173022008276 Q-loop/lid; other site 1173022008277 ABC transporter signature motif; other site 1173022008278 Walker B; other site 1173022008279 D-loop; other site 1173022008280 H-loop/switch region; other site 1173022008281 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1173022008282 Type IV pilin PilA; Region: Pilin_PilA; pfam14245 1173022008283 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 1173022008284 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1173022008285 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 1173022008286 NAD(P) binding site [chemical binding]; other site 1173022008287 Predicted GTPase [General function prediction only]; Region: COG3596 1173022008288 YfjP GTPase; Region: YfjP; cd11383 1173022008289 G1 box; other site 1173022008290 GTP/Mg2+ binding site [chemical binding]; other site 1173022008291 Switch I region; other site 1173022008292 G2 box; other site 1173022008293 Switch II region; other site 1173022008294 G3 box; other site 1173022008295 G4 box; other site 1173022008296 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1173022008297 S-adenosylmethionine binding site [chemical binding]; other site 1173022008298 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 1173022008299 G1 box; other site 1173022008300 GTP/Mg2+ binding site [chemical binding]; other site 1173022008301 G2 box; other site 1173022008302 Switch I region; other site 1173022008303 G3 box; other site 1173022008304 Switch II region; other site 1173022008305 Deoxyhypusine synthase; Region: DS; cl00826 1173022008306 Uncharacterized protein/domain associated with GTPases [Function unknown]; Region: COG3597 1173022008307 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1173022008308 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 1173022008309 S-adenosylmethionine binding site [chemical binding]; other site 1173022008310 ferrochelatase; Reviewed; Region: hemH; PRK00035 1173022008311 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 1173022008312 active site 1173022008313 C-terminal domain interface [polypeptide binding]; other site 1173022008314 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 1173022008315 active site 1173022008316 N-terminal domain interface [polypeptide binding]; other site 1173022008317 Chlorophyll A-B binding protein; Region: Chloroa_b-bind; pfam00504 1173022008318 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1173022008319 Probable transposase; Region: OrfB_IS605; pfam01385 1173022008320 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1173022008321 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1173022008322 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 1173022008323 dimer interface [polypeptide binding]; other site 1173022008324 phosphorylation site [posttranslational modification] 1173022008325 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 1173022008326 ATP binding site [chemical binding]; other site 1173022008327 Mg2+ binding site [ion binding]; other site 1173022008328 G-X-G motif; other site 1173022008329 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022008330 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 1173022008331 active site 1173022008332 phosphorylation site [posttranslational modification] 1173022008333 intermolecular recognition site; other site 1173022008334 dimerization interface [polypeptide binding]; other site 1173022008335 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 1173022008336 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1173022008337 putative active site [active] 1173022008338 heme pocket [chemical binding]; other site 1173022008339 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 1173022008340 putative active site [active] 1173022008341 heme pocket [chemical binding]; other site 1173022008342 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1173022008343 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 1173022008344 dimer interface [polypeptide binding]; other site 1173022008345 phosphorylation site [posttranslational modification] 1173022008346 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 1173022008347 ATP binding site [chemical binding]; other site 1173022008348 Mg2+ binding site [ion binding]; other site 1173022008349 G-X-G motif; other site 1173022008350 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1173022008351 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 1173022008352 active site 1173022008353 phosphorylation site [posttranslational modification] 1173022008354 intermolecular recognition site; other site 1173022008355 dimerization interface [polypeptide binding]; other site 1173022008356 Domain of unknown function (DUF4126); Region: DUF4126; pfam13548 1173022008357 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 1173022008358 Fasciclin domain; Region: Fasciclin; pfam02469 1173022008359 Alpha-amylase/alpha-mannosidase [Carbohydrate transport and metabolism]; Region: COG1449 1173022008360 N-terminal putative catalytic domain of mainly uncharacterized prokaryotic proteins similar to archaeal thermoactive amylopullulanases; glycoside hydrolase family 57 (GH57); Region: GH57N_APU_like_1; cd10797 1173022008361 active site 1173022008362 catalytic site [active] 1173022008363 Domain of unknown function (DUF3536); Region: DUF3536; pfam12055 1173022008364 calcium/proton exchanger (cax); Region: cax; TIGR00378 1173022008365 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1173022008366 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1173022008367 FOG: WD40 repeat [General function prediction only]; Region: COG2319 1173022008368 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 1173022008369 structural tetrad; other site 1173022008370 calcium/proton exchanger (cax); Region: cax; TIGR00378 1173022008371 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1173022008372 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1173022008373 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1173022008374 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1173022008375 active site 1173022008376 ATP binding site [chemical binding]; other site 1173022008377 substrate binding site [chemical binding]; other site 1173022008378 activation loop (A-loop); other site 1173022008379 FOG: WD40 repeat [General function prediction only]; Region: COG2319 1173022008380 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 1173022008381 structural tetrad; other site 1173022008382 sucrose synthase; Region: sucr_synth; TIGR02470 1173022008383 This family is most closely related to the GT1 family of glycosyltransferases. The sucrose-phosphate synthases in this family may be unique to plants and photosynthetic bacteria. This enzyme catalyzes the synthesis of sucrose 6-phosphate from fructose...; Region: GT1_Sucrose_synthase; cd03800 1173022008384 putative ADP-binding pocket [chemical binding]; other site 1173022008385 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 1173022008386 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 1173022008387 active site 1173022008388 Zn binding site [ion binding]; other site 1173022008389 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 1173022008390 TPR repeat; Region: TPR_11; pfam13414 1173022008391 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 1173022008392 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 1173022008393 dimer interface [polypeptide binding]; other site 1173022008394 phosphorylation site [posttranslational modification] 1173022008395 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 1173022008396 ATP binding site [chemical binding]; other site 1173022008397 Mg2+ binding site [ion binding]; other site 1173022008398 G-X-G motif; other site 1173022008399 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 1173022008400 binding surface 1173022008401 TPR motif; other site 1173022008402 TPR repeat; Region: TPR_11; pfam13414 1173022008403 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 1173022008404 binding surface 1173022008405 TPR motif; other site 1173022008406 TPR repeat; Region: TPR_11; pfam13414 1173022008407 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 1173022008408 binding surface 1173022008409 TPR repeat; Region: TPR_11; pfam13414 1173022008410 TPR motif; other site 1173022008411 TPR repeat; Region: TPR_11; pfam13414 1173022008412 TPR repeat; Region: TPR_11; pfam13414 1173022008413 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 1173022008414 binding surface 1173022008415 TPR motif; other site 1173022008416 TPR repeat; Region: TPR_11; pfam13414 1173022008417 PAS domain S-box; Region: sensory_box; TIGR00229 1173022008418 PAS domain S-box; Region: sensory_box; TIGR00229 1173022008419 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1173022008420 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 1173022008421 putative active site [active] 1173022008422 heme pocket [chemical binding]; other site 1173022008423 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1173022008424 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 1173022008425 putative active site [active] 1173022008426 heme pocket [chemical binding]; other site 1173022008427 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 1173022008428 dimer interface [polypeptide binding]; other site 1173022008429 phosphorylation site [posttranslational modification] 1173022008430 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 1173022008431 ATP binding site [chemical binding]; other site 1173022008432 Mg2+ binding site [ion binding]; other site 1173022008433 G-X-G motif; other site 1173022008434 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1173022008435 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 1173022008436 active site 1173022008437 phosphorylation site [posttranslational modification] 1173022008438 intermolecular recognition site; other site 1173022008439 dimerization interface [polypeptide binding]; other site 1173022008440 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022008441 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1173022008442 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1173022008443 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 1173022008444 dimer interface [polypeptide binding]; other site 1173022008445 phosphorylation site [posttranslational modification] 1173022008446 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 1173022008447 ATP binding site [chemical binding]; other site 1173022008448 Mg2+ binding site [ion binding]; other site 1173022008449 G-X-G motif; other site 1173022008450 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022008451 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 1173022008452 active site 1173022008453 phosphorylation site [posttranslational modification] 1173022008454 intermolecular recognition site; other site 1173022008455 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1173022008456 dimerization interface [polypeptide binding]; other site 1173022008457 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 1173022008458 dimer interface [polypeptide binding]; other site 1173022008459 phosphorylation site [posttranslational modification] 1173022008460 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 1173022008461 ATP binding site [chemical binding]; other site 1173022008462 Mg2+ binding site [ion binding]; other site 1173022008463 G-X-G motif; other site 1173022008464 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 1173022008465 Aspartase; Region: Aspartase; cd01357 1173022008466 active sites [active] 1173022008467 tetramer interface [polypeptide binding]; other site 1173022008468 Uncharacterized conserved protein [Function unknown]; Region: COG2006 1173022008469 Domain of unknown function (DUF362); Region: DUF362; pfam04015 1173022008470 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 1173022008471 dimer interface [polypeptide binding]; other site 1173022008472 substrate binding site [chemical binding]; other site 1173022008473 metal binding sites [ion binding]; metal-binding site 1173022008474 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 1173022008475 tetramerization interface [polypeptide binding]; other site 1173022008476 active site 1173022008477 Transposase IS200 like; Region: Y1_Tnp; cl00848 1173022008478 hypothetical protein; Provisional; Region: PRK07394 1173022008479 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1173022008480 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1173022008481 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1173022008482 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1173022008483 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 1173022008484 dimerization interface [polypeptide binding]; other site 1173022008485 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 1173022008486 heme-binding site [chemical binding]; other site 1173022008487 Nitric oxide synthase (NOS) produces nitric oxide (NO) by catalyzing a five-electron heme-based oxidation of a guanidine nitrogen of L-arginine to L-citrulline via two successive monooxygenation reactions producing N(omega)-hydroxy-L-arginine (NHA) as an...; Region: NOS_oxygenase; cd00575 1173022008488 active site 1173022008489 dimer interface [polypeptide binding]; other site 1173022008490 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 1173022008491 Flavodoxin; Region: Flavodoxin_1; pfam00258 1173022008492 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 1173022008493 FAD binding pocket [chemical binding]; other site 1173022008494 conserved FAD binding motif [chemical binding]; other site 1173022008495 phosphate binding motif [ion binding]; other site 1173022008496 beta-alpha-beta structure motif; other site 1173022008497 NAD binding pocket [chemical binding]; other site 1173022008498 HEAT repeats; Region: HEAT_2; pfam13646 1173022008499 HEAT repeats; Region: HEAT_2; pfam13646 1173022008500 HEAT repeats; Region: HEAT_2; pfam13646 1173022008501 HEAT repeats; Region: HEAT_2; pfam13646 1173022008502 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 1173022008503 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 1173022008504 active site 1173022008505 KGK domain; Region: KGK; pfam08872 1173022008506 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 1173022008507 MgtC family; Region: MgtC; pfam02308 1173022008508 Predicted GTPases (dynamin-related) [General function prediction only]; Region: COG0699 1173022008509 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1173022008510 G1 box; other site 1173022008511 GTP/Mg2+ binding site [chemical binding]; other site 1173022008512 G2 box; other site 1173022008513 Switch I region; other site 1173022008514 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1173022008515 G3 box; other site 1173022008516 Switch II region; other site 1173022008517 G4 box; other site 1173022008518 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 1173022008519 NADPH bind site [chemical binding]; other site 1173022008520 putative FMN binding site [chemical binding]; other site 1173022008521 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 1173022008522 putative FMN binding site [chemical binding]; other site 1173022008523 NADPH bind site [chemical binding]; other site 1173022008524 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1173022008525 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1173022008526 metal binding site [ion binding]; metal-binding site 1173022008527 active site 1173022008528 I-site; other site 1173022008529 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 1173022008530 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG2236 1173022008531 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1173022008532 active site 1173022008533 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 1173022008534 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 1173022008535 putative substrate translocation pore; other site 1173022008536 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 1173022008537 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1173022008538 HflX GTPase family; Region: HflX; cd01878 1173022008539 G1 box; other site 1173022008540 GTP/Mg2+ binding site [chemical binding]; other site 1173022008541 Switch I region; other site 1173022008542 G2 box; other site 1173022008543 G3 box; other site 1173022008544 Switch II region; other site 1173022008545 G4 box; other site 1173022008546 G5 box; other site 1173022008547 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 1173022008548 A subgroup of L-lactate dehydrogenases; Region: LDH_2; cd05292 1173022008549 NAD binding site [chemical binding]; other site 1173022008550 dimer interface [polypeptide binding]; other site 1173022008551 substrate binding site [chemical binding]; other site 1173022008552 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1173022008553 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1173022008554 pseudouridine synthase; Region: TIGR00093 1173022008555 active site 1173022008556 Double zinc ribbon; Region: DZR; pfam12773 1173022008557 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 1173022008558 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 1173022008559 Protein phosphatase 2C; Region: PP2C; pfam00481 1173022008560 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 1173022008561 active site 1173022008562 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 1173022008563 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 1173022008564 phosphopeptide binding site; other site 1173022008565 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1173022008566 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1173022008567 active site 1173022008568 ATP binding site [chemical binding]; other site 1173022008569 substrate binding site [chemical binding]; other site 1173022008570 activation loop (A-loop); other site 1173022008571 Domain of unknown function (DUF4327); Region: DUF4327; pfam14217 1173022008572 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1173022008573 putative lipid kinase; Reviewed; Region: PRK13057 1173022008574 DNA methylase; Region: N6_N4_Mtase; cl17433 1173022008575 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 1173022008576 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 1173022008577 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 1173022008578 active site 1173022008579 catalytic residues [active] 1173022008580 metal binding site [ion binding]; metal-binding site 1173022008581 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 1173022008582 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1173022008583 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1173022008584 catalytic loop [active] 1173022008585 iron binding site [ion binding]; other site 1173022008586 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1173022008587 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 1173022008588 active site 1173022008589 phosphorylation site [posttranslational modification] 1173022008590 intermolecular recognition site; other site 1173022008591 dimerization interface [polypeptide binding]; other site 1173022008592 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 1173022008593 DNA binding site [nucleotide binding] 1173022008594 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 1173022008595 putative GSH binding site [chemical binding]; other site 1173022008596 catalytic residues [active] 1173022008597 BolA-like protein; Region: BolA; pfam01722 1173022008598 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 1173022008599 Peptidase S8 family domain, uncharacterized subfamily 15; Region: Peptidases_S8_15; cd07498 1173022008600 active site 1173022008601 catalytic triad [active] 1173022008602 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 1173022008603 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1173022008604 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 1173022008605 putative acyl-acceptor binding pocket; other site 1173022008606 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 1173022008607 nucleoside/Zn binding site; other site 1173022008608 dimer interface [polypeptide binding]; other site 1173022008609 catalytic motif [active] 1173022008610 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 1173022008611 GSH binding site [chemical binding]; other site 1173022008612 catalytic residues [active] 1173022008613 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1173022008614 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 1173022008615 dimerization interface [polypeptide binding]; other site 1173022008616 putative ATP binding site [chemical binding]; other site 1173022008617 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 1173022008618 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1173022008619 bifunctional pantoate ligase/cytidylate kinase; Provisional; Region: PRK13477 1173022008620 Pantoate-beta-alanine ligase; Region: PanC; cd00560 1173022008621 active site 1173022008622 ATP-binding site [chemical binding]; other site 1173022008623 pantoate-binding site; other site 1173022008624 HXXH motif; other site 1173022008625 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 1173022008626 CMP-binding site; other site 1173022008627 The sites determining sugar specificity; other site 1173022008628 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1173022008629 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 1173022008630 NodB motif; other site 1173022008631 active site 1173022008632 catalytic site [active] 1173022008633 metal binding site [ion binding]; metal-binding site 1173022008634 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 1173022008635 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 1173022008636 active site 1173022008637 dimer interface [polypeptide binding]; other site 1173022008638 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 1173022008639 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 1173022008640 active site 1173022008641 FMN binding site [chemical binding]; other site 1173022008642 substrate binding site [chemical binding]; other site 1173022008643 3Fe-4S cluster binding site [ion binding]; other site 1173022008644 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 1173022008645 domain interface; other site 1173022008646 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 1173022008647 Cupin domain; Region: Cupin_2; cl17218 1173022008648 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 1173022008649 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 1173022008650 S17 interaction site [polypeptide binding]; other site 1173022008651 S8 interaction site; other site 1173022008652 16S rRNA interaction site [nucleotide binding]; other site 1173022008653 streptomycin interaction site [chemical binding]; other site 1173022008654 23S rRNA interaction site [nucleotide binding]; other site 1173022008655 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1173022008656 30S ribosomal protein S7; Validated; Region: PRK05302 1173022008657 elongation factor G; Reviewed; Region: PRK00007 1173022008658 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1173022008659 G1 box; other site 1173022008660 putative GEF interaction site [polypeptide binding]; other site 1173022008661 GTP/Mg2+ binding site [chemical binding]; other site 1173022008662 Switch I region; other site 1173022008663 G2 box; other site 1173022008664 G3 box; other site 1173022008665 Switch II region; other site 1173022008666 G4 box; other site 1173022008667 G5 box; other site 1173022008668 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 1173022008669 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 1173022008670 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 1173022008671 elongation factor Tu; Region: tufA; CHL00071 1173022008672 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1173022008673 G1 box; other site 1173022008674 GEF interaction site [polypeptide binding]; other site 1173022008675 GTP/Mg2+ binding site [chemical binding]; other site 1173022008676 Switch I region; other site 1173022008677 G2 box; other site 1173022008678 G3 box; other site 1173022008679 Switch II region; other site 1173022008680 G4 box; other site 1173022008681 G5 box; other site 1173022008682 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 1173022008683 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 1173022008684 Antibiotic Binding Site [chemical binding]; other site 1173022008685 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1173022008686 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 1173022008687 prephenate dehydratase; Provisional; Region: PRK11898 1173022008688 Prephenate dehydratase; Region: PDT; pfam00800 1173022008689 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 1173022008690 putative L-Phe binding site [chemical binding]; other site 1173022008691 Protein of unknown function (DUF1997); Region: DUF1997; pfam09366 1173022008692 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1173022008693 RNA/DNA hybrid binding site [nucleotide binding]; other site 1173022008694 active site 1173022008695 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 1173022008696 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 1173022008697 homodimer interface [polypeptide binding]; other site 1173022008698 oligonucleotide binding site [chemical binding]; other site 1173022008699 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 1173022008700 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1173022008701 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1173022008702 catalytic residue [active] 1173022008703 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cd00483 1173022008704 catalytic center binding site [active] 1173022008705 ATP binding site [chemical binding]; other site 1173022008706 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 1173022008707 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 1173022008708 dimer interface [polypeptide binding]; other site 1173022008709 ADP-ribose binding site [chemical binding]; other site 1173022008710 active site 1173022008711 nudix motif; other site 1173022008712 metal binding site [ion binding]; metal-binding site 1173022008713 deoxyribodipyrimidine photo-lyase, 8-HDF type; Region: photolyase_8HDF; TIGR03556 1173022008714 DNA photolyase; Region: DNA_photolyase; pfam00875 1173022008715 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1173022008716 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1173022008717 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 1173022008718 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1173022008719 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1173022008720 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 1173022008721 dimerization interface [polypeptide binding]; other site 1173022008722 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1173022008723 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 1173022008724 putative active site [active] 1173022008725 heme pocket [chemical binding]; other site 1173022008726 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 1173022008727 dimer interface [polypeptide binding]; other site 1173022008728 phosphorylation site [posttranslational modification] 1173022008729 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 1173022008730 ATP binding site [chemical binding]; other site 1173022008731 Mg2+ binding site [ion binding]; other site 1173022008732 G-X-G motif; other site 1173022008733 Uncharacterized conserved protein [Function unknown]; Region: COG3937 1173022008734 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 1173022008735 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1173022008736 replicative DNA helicase; Region: DnaB; TIGR00665 1173022008737 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1173022008738 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 1173022008739 Walker A motif; other site 1173022008740 ATP binding site [chemical binding]; other site 1173022008741 Walker B motif; other site 1173022008742 DNA binding loops [nucleotide binding] 1173022008743 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1173022008744 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1173022008745 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1173022008746 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 1173022008747 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 1173022008748 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1173022008749 NAD binding site [chemical binding]; other site 1173022008750 homodimer interface [polypeptide binding]; other site 1173022008751 active site 1173022008752 substrate binding site [chemical binding]; other site 1173022008753 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 1173022008754 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022008755 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022008756 TPR repeat; Region: TPR_11; pfam13414 1173022008757 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 1173022008758 binding surface 1173022008759 TPR motif; other site 1173022008760 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 1173022008761 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 1173022008762 active site 1173022008763 substrate binding site [chemical binding]; other site 1173022008764 FMN binding site [chemical binding]; other site 1173022008765 putative catalytic residues [active] 1173022008766 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022008767 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 1173022008768 active site 1173022008769 phosphorylation site [posttranslational modification] 1173022008770 intermolecular recognition site; other site 1173022008771 dimerization interface [polypeptide binding]; other site 1173022008772 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3755 1173022008773 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 1173022008774 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 1173022008775 domain interfaces; other site 1173022008776 active site 1173022008777 glycogen synthase; Provisional; Region: glgA; PRK00654 1173022008778 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 1173022008779 ADP-binding pocket [chemical binding]; other site 1173022008780 homodimer interface [polypeptide binding]; other site 1173022008781 homoserine dehydrogenase; Provisional; Region: PRK06349 1173022008782 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1173022008783 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1173022008784 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 1173022008785 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 1173022008786 Repair protein; Region: Repair_PSII; pfam04536 1173022008787 Repair protein; Region: Repair_PSII; pfam04536 1173022008788 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 1173022008789 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1173022008790 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 1173022008791 dimer interface [polypeptide binding]; other site 1173022008792 conserved gate region; other site 1173022008793 putative PBP binding loops; other site 1173022008794 ABC-ATPase subunit interface; other site 1173022008795 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1173022008796 active site 1173022008797 Protein of unknown function (DUF3038); Region: DUF3038; pfam11237 1173022008798 Domain of unknown function (DUF4335); Region: DUF4335; pfam14233 1173022008799 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 1173022008800 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 1173022008801 phosphopeptide binding site; other site 1173022008802 Transglycosylase; Region: Transgly; pfam00912 1173022008803 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1173022008804 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1173022008805 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 1173022008806 lipoprotein signal peptidase; Provisional; Region: PRK14787 1173022008807 BioY family; Region: BioY; pfam02632 1173022008808 biotin synthase; Region: bioB; TIGR00433 1173022008809 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 1173022008810 FeS/SAM binding site; other site 1173022008811 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 1173022008812 phosphate ABC transporter, phosphate-binding protein; Region: 3a0107s03; TIGR00975 1173022008813 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 1173022008814 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 1173022008815 dimer interface [polypeptide binding]; other site 1173022008816 conserved gate region; other site 1173022008817 putative PBP binding loops; other site 1173022008818 ABC-ATPase subunit interface; other site 1173022008819 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 1173022008820 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 1173022008821 dimer interface [polypeptide binding]; other site 1173022008822 conserved gate region; other site 1173022008823 putative PBP binding loops; other site 1173022008824 ABC-ATPase subunit interface; other site 1173022008825 phosphate transporter ATP-binding protein; Provisional; Region: PRK14243 1173022008826 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1173022008827 Walker A/P-loop; other site 1173022008828 ATP binding site [chemical binding]; other site 1173022008829 Q-loop/lid; other site 1173022008830 ABC transporter signature motif; other site 1173022008831 Walker B; other site 1173022008832 D-loop; other site 1173022008833 H-loop/switch region; other site 1173022008834 photosystem II protein Psb27; Region: PS_II_psb27; TIGR03044 1173022008835 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 1173022008836 Protein of unknown function (DUF1565); Region: DUF1565; pfam07602 1173022008837 S-layer homology domain; Region: SLH; pfam00395 1173022008838 S-layer homology domain; Region: SLH; pfam00395 1173022008839 S-layer homology domain; Region: SLH; pfam00395 1173022008840 S-layer homology domain; Region: SLH; pfam00395 1173022008841 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1173022008842 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1173022008843 Walker A/P-loop; other site 1173022008844 ATP binding site [chemical binding]; other site 1173022008845 Q-loop/lid; other site 1173022008846 ABC transporter signature motif; other site 1173022008847 Walker B; other site 1173022008848 D-loop; other site 1173022008849 H-loop/switch region; other site 1173022008850 gliding motility-associated ABC transporter permease protein GldF; Region: ABC_perm_GldF; TIGR03518 1173022008851 ABC-type uncharacterized transport system involved in gliding motility, auxiliary component [Cell motility and secretion]; Region: GldG; COG3225 1173022008852 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1173022008853 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 1173022008854 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 1173022008855 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1173022008856 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1173022008857 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1173022008858 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 1173022008859 Walker A/P-loop; other site 1173022008860 ATP binding site [chemical binding]; other site 1173022008861 Q-loop/lid; other site 1173022008862 ABC transporter signature motif; other site 1173022008863 Walker B; other site 1173022008864 D-loop; other site 1173022008865 H-loop/switch region; other site 1173022008866 TOBE domain; Region: TOBE_2; pfam08402 1173022008867 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1173022008868 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1173022008869 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1173022008870 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 1173022008871 dimer interface [polypeptide binding]; other site 1173022008872 conserved gate region; other site 1173022008873 putative PBP binding loops; other site 1173022008874 ABC-ATPase subunit interface; other site 1173022008875 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1173022008876 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 1173022008877 dimer interface [polypeptide binding]; other site 1173022008878 conserved gate region; other site 1173022008879 putative PBP binding loops; other site 1173022008880 ABC-ATPase subunit interface; other site 1173022008881 PemK-like protein; Region: PemK; pfam02452 1173022008882 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 1173022008883 Acyl-CoA oxidase; Region: ACOX; pfam01756 1173022008884 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 1173022008885 structural tetrad; other site 1173022008886 FOG: WD40 repeat [General function prediction only]; Region: COG2319 1173022008887 WD40 repeats; Region: WD40; smart00320 1173022008888 WD40 repeats; Region: WD40; smart00320 1173022008889 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 1173022008890 structural tetrad; other site 1173022008891 CHAT domain; Region: CHAT; cl17868 1173022008892 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 1173022008893 Protein of unknown function (DUF1517); Region: DUF1517; pfam07466 1173022008894 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 1173022008895 thiS-thiF/thiG interaction site; other site 1173022008896 thiamine-phosphate pyrophosphorylase; Provisional; Region: PRK02615 1173022008897 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 1173022008898 thiamine phosphate binding site [chemical binding]; other site 1173022008899 active site 1173022008900 pyrophosphate binding site [ion binding]; other site 1173022008901 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4586 1173022008902 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1173022008903 Walker A/P-loop; other site 1173022008904 ATP binding site [chemical binding]; other site 1173022008905 Q-loop/lid; other site 1173022008906 ABC transporter signature motif; other site 1173022008907 Walker B; other site 1173022008908 D-loop; other site 1173022008909 H-loop/switch region; other site 1173022008910 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 1173022008911 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 1173022008912 patatin-related protein; Region: TIGR03607 1173022008913 Patatin-like phospholipase; Region: Patatin; pfam01734 1173022008914 nucleophile elbow; other site 1173022008915 Cation transporter family protein; Region: LIC; TIGR00860 1173022008916 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG3694 1173022008917 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 1173022008918 PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs; Region: PIN_Pae0151; cd09873 1173022008919 putative active site [active] 1173022008920 homotetrameric interface [polypeptide binding]; other site 1173022008921 metal binding site [ion binding]; metal-binding site 1173022008922 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 1173022008923 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1173022008924 active site 1173022008925 catalytic tetrad [active] 1173022008926 NADH dehydrogenase subunit J; Provisional; Region: PRK12494 1173022008927 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 1173022008928 NADH dehydrogenase subunit K; Region: ndhK; CHL00023 1173022008929 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 1173022008930 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 1173022008931 Rubredoxin; Region: Rubredoxin; pfam00301 1173022008932 iron binding site [ion binding]; other site 1173022008933 Ycf48-like protein; Provisional; Region: PRK13684 1173022008934 cytochrome b559 subunit alpha; Provisional; Region: psbE; PRK02557 1173022008935 Cytochrome b559, alpha (gene psbE) and beta (gene psbF)subunits; Region: Cytochrom_B559; pfam00283 1173022008936 Lumenal portion of Cytochrome b559, alpha (gene psbE) subunit; Region: Cytochrom_B559a; pfam00284 1173022008937 cytochrome b559 subunit beta; Provisional; Region: psbF; PRK02561 1173022008938 photosystem II reaction center L; Provisional; Region: psbL; PRK00753 1173022008939 PsbJ; Region: PsbJ; cl09469 1173022008940 photosystem I subunit VIII; Validated; Region: psaI; CHL00186 1173022008941 Domain of unknown function (DUF4327); Region: DUF4327; pfam14217 1173022008942 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1173022008943 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1173022008944 NAD(P) binding site [chemical binding]; other site 1173022008945 heterocyst differentiation control protein; Reviewed; Region: hetR; PRK13245 1173022008946 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1173022008947 L-iditol 2-dehydrogenase; Region: iditol_2_DH_like; cd08235 1173022008948 putative NAD(P) binding site [chemical binding]; other site 1173022008949 catalytic Zn binding site [ion binding]; other site 1173022008950 Uncharacterized conserved protein (DUF2294); Region: DUF2294; cl02390 1173022008951 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1173022008952 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 1173022008953 active site 1173022008954 phosphorylation site [posttranslational modification] 1173022008955 intermolecular recognition site; other site 1173022008956 dimerization interface [polypeptide binding]; other site 1173022008957 Uncharacterized conserved protein (DUF2294); Region: DUF2294; cl02390 1173022008958 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 1173022008959 active site 1173022008960 phosphorylation site [posttranslational modification] 1173022008961 intermolecular recognition site; other site 1173022008962 dimerization interface [polypeptide binding]; other site 1173022008963 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1173022008964 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 1173022008965 NAD(P) binding site [chemical binding]; other site 1173022008966 catalytic residues [active] 1173022008967 acetolactate synthase; Reviewed; Region: PRK08322 1173022008968 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1173022008969 PYR/PP interface [polypeptide binding]; other site 1173022008970 dimer interface [polypeptide binding]; other site 1173022008971 TPP binding site [chemical binding]; other site 1173022008972 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1173022008973 Thiamine pyrophosphate (TPP) family, Acetolactate synthase (ALS) subfamily, TPP-binding module; composed of proteins similar to Klebsiella pneumoniae ALS, a catabolic enzyme required for butanediol fermentation. ALS catalyzes the conversion of 2...; Region: TPP_ALS; cd02010 1173022008974 TPP-binding site [chemical binding]; other site 1173022008975 dimer interface [polypeptide binding]; other site 1173022008976 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 1173022008977 putative catalytic site [active] 1173022008978 putative phosphate binding site [ion binding]; other site 1173022008979 active site 1173022008980 metal binding site A [ion binding]; metal-binding site 1173022008981 DNA binding site [nucleotide binding] 1173022008982 putative AP binding site [nucleotide binding]; other site 1173022008983 putative metal binding site B [ion binding]; other site 1173022008984 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 1173022008985 Ycf39; Provisional; Region: ycf39; CHL00194 1173022008986 NAD(P) binding site [chemical binding]; other site 1173022008987 putative active site [active] 1173022008988 Domain of unknown function DUF29; Region: DUF29; pfam01724 1173022008989 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 1173022008990 catalytic motif [active] 1173022008991 Catalytic residue [active] 1173022008992 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1173022008993 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 1173022008994 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1173022008995 catalytic site [active] 1173022008996 subunit interface [polypeptide binding]; other site 1173022008997 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1173022008998 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 1173022008999 anti sigma factor interaction site; other site 1173022009000 regulatory phosphorylation site [posttranslational modification]; other site 1173022009001 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 1173022009002 active site 1173022009003 metal binding site [ion binding]; metal-binding site 1173022009004 dimerization interface [polypeptide binding]; other site 1173022009005 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 1173022009006 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1173022009007 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1173022009008 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 1173022009009 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 1173022009010 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 1173022009011 putative active site [active] 1173022009012 putative NTP binding site [chemical binding]; other site 1173022009013 putative nucleic acid binding site [nucleotide binding]; other site 1173022009014 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1173022009015 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 1173022009016 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 1173022009017 active site 1173022009018 RRXRR protein; Region: RRXRR; pfam14239 1173022009019 Domain of unknown function (DUF1816); Region: DUF1816; pfam08846 1173022009020 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1173022009021 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1173022009022 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 1173022009023 putative C-terminal domain interface [polypeptide binding]; other site 1173022009024 putative GSH binding site (G-site) [chemical binding]; other site 1173022009025 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1173022009026 putative dimer interface [polypeptide binding]; other site 1173022009027 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1173022009028 N-terminal domain interface [polypeptide binding]; other site 1173022009029 dimer interface [polypeptide binding]; other site 1173022009030 substrate binding pocket (H-site) [chemical binding]; other site 1173022009031 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1173022009032 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1173022009033 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 1173022009034 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK07374 1173022009035 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 1173022009036 active site 1173022009037 PHP Thumb interface [polypeptide binding]; other site 1173022009038 metal binding site [ion binding]; metal-binding site 1173022009039 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 1173022009040 generic binding surface I; other site 1173022009041 generic binding surface II; other site 1173022009042 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1173022009043 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1173022009044 active site 1173022009045 ATP binding site [chemical binding]; other site 1173022009046 substrate binding site [chemical binding]; other site 1173022009047 activation loop (A-loop); other site 1173022009048 Protein of unknown function (DUF3593); Region: DUF3593; pfam12159 1173022009049 Protein of unknown function (DUF2499); Region: DUF2499; pfam10693 1173022009050 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; COG2327 1173022009051 polysaccharide pyruvyl transferase CsaB; Region: S_layer_CsaB; TIGR03609 1173022009052 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1173022009053 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 1173022009054 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 1173022009055 active site 1173022009056 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1173022009057 Protein of unknown function (DUF565); Region: DUF565; pfam04483 1173022009058 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 1173022009059 active site 1173022009060 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 1173022009061 ABC1 family; Region: ABC1; cl17513 1173022009062 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 1173022009063 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 1173022009064 phosphopeptide binding site; other site 1173022009065 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1173022009066 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1173022009067 metal binding site [ion binding]; metal-binding site 1173022009068 active site 1173022009069 I-site; other site 1173022009070 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 1173022009071 2TM domain; Region: 2TM; pfam13239 1173022009072 SpoIVFB Site-2 protease (S2P), a zinc metalloprotease (MEROPS family M50B), regulates intramembrane proteolysis (RIP), and is involved in the pro-sigmaK pathway of bacterial spore formation. In this subgroup, SpoIVFB (sporulation protein, stage IV cell...; Region: S2P-M50_SpoIVFB_CBS; cd06164 1173022009073 Peptidase family M50; Region: Peptidase_M50; pfam02163 1173022009074 active site 1173022009075 putative substrate binding region [chemical binding]; other site 1173022009076 FOG: CBS domain [General function prediction only]; Region: COG0517 1173022009077 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the metalloprotease peptidase M50. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently found in a wide...; Region: CBS_pair_M50_like; cd04801 1173022009078 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 1173022009079 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1173022009080 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 1173022009081 P-loop; other site 1173022009082 Magnesium ion binding site [ion binding]; other site 1173022009083 Fatty acyltransferase-like subfamily of the SGNH hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: fatty_acyltransferase_like; cd01846 1173022009084 active site 1173022009085 catalytic triad [active] 1173022009086 oxyanion hole [active] 1173022009087 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 1173022009088 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 1173022009089 FMN binding site [chemical binding]; other site 1173022009090 active site 1173022009091 catalytic residues [active] 1173022009092 substrate binding site [chemical binding]; other site 1173022009093 Class I aldolases; Region: Aldolase_Class_I; cl17187 1173022009094 catalytic residue [active] 1173022009095 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 1173022009096 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1173022009097 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1173022009098 acyl-activating enzyme (AAE) consensus motif; other site 1173022009099 AMP binding site [chemical binding]; other site 1173022009100 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1173022009101 Phage-related protein [Function unknown]; Region: COG5412 1173022009102 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 1173022009103 active site 1173022009104 NTP binding site [chemical binding]; other site 1173022009105 metal binding triad [ion binding]; metal-binding site 1173022009106 antibiotic binding site [chemical binding]; other site 1173022009107 Protein of unknown function DUF86; Region: DUF86; cl01031 1173022009108 Condensation domain; Region: Condensation; pfam00668 1173022009109 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1173022009110 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1173022009111 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1173022009112 acyl-activating enzyme (AAE) consensus motif; other site 1173022009113 AMP binding site [chemical binding]; other site 1173022009114 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1173022009115 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 1173022009116 S-adenosylmethionine binding site [chemical binding]; other site 1173022009117 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1173022009118 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1173022009119 adenosine deaminase; Provisional; Region: PRK09358 1173022009120 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 1173022009121 active site 1173022009122 OstA-like protein; Region: OstA; cl00844 1173022009123 Protein of unknown function (DUF3769); Region: DUF3769; pfam12600 1173022009124 photosystem II reaction center I protein I; Provisional; Region: psbI; PRK02655 1173022009125 This family is most closely related to the oligosaccharide phosphorylase domain family and other unidentified sequences. Oligosaccharide phosphorylase catalyzes the breakdown of oligosaccharides into glucose-1-phosphate units. They are important...; Region: GT1_Glycogen_Phosphorylase_like; cd04299 1173022009126 putative homodimer interface [polypeptide binding]; other site 1173022009127 putative active site pocket [active] 1173022009128 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 1173022009129 Predicted nuclease (RNAse H fold) [General function prediction only]; Region: COG4328 1173022009130 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 1173022009131 FOG: WD40 repeat [General function prediction only]; Region: COG2319 1173022009132 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 1173022009133 structural tetrad; other site 1173022009134 FOG: WD40 repeat [General function prediction only]; Region: COG2319 1173022009135 WD domain, G-beta repeat; Region: WD40; pfam00400 1173022009136 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 1173022009137 structural tetrad; other site 1173022009138 AAA ATPase domain; Region: AAA_16; pfam13191 1173022009139 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4634 1173022009140 Uncharacterized conserved protein [Function unknown]; Region: COG2442 1173022009141 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1173022009142 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1173022009143 active site 1173022009144 HIGH motif; other site 1173022009145 dimer interface [polypeptide binding]; other site 1173022009146 KMSKS motif; other site 1173022009147 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 1173022009148 FAD binding site [chemical binding]; other site 1173022009149 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1173022009150 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1173022009151 Probable transposase; Region: OrfB_IS605; pfam01385 1173022009152 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1173022009153 conserved hypothetical protein; Region: TIGR02231 1173022009154 N-terminal domain of unknown function (DUF4140); Region: DUF4140; pfam13600 1173022009155 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 1173022009156 Amidases related to nicotinamidase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PncA; COG1335 1173022009157 catalytic triad [active] 1173022009158 conserved cis-peptide bond; other site 1173022009159 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 1173022009160 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4402 1173022009161 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 1173022009162 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 1173022009163 Walker A motif; other site 1173022009164 ATP binding site [chemical binding]; other site 1173022009165 Walker B motif; other site 1173022009166 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 1173022009167 Protein of unknown function DUF58; Region: DUF58; pfam01882 1173022009168 ferredoxin thioreductase subunit beta; Validated; Region: ftrB; CHL00165 1173022009169 Domain of unknown function (DUF309); Region: DUF309; pfam03745 1173022009170 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 1173022009171 OstA-like protein; Region: OstA; pfam03968 1173022009172 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 1173022009173 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 1173022009174 Walker A/P-loop; other site 1173022009175 ATP binding site [chemical binding]; other site 1173022009176 Q-loop/lid; other site 1173022009177 ABC transporter signature motif; other site 1173022009178 Walker B; other site 1173022009179 D-loop; other site 1173022009180 H-loop/switch region; other site 1173022009181 Predicted permeases [General function prediction only]; Region: COG0795 1173022009182 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1173022009183 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 1173022009184 isocitrate dehydrogenase; Validated; Region: PRK07362 1173022009185 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1173022009186 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 1173022009187 active site 1173022009188 phosphorylation site [posttranslational modification] 1173022009189 intermolecular recognition site; other site 1173022009190 dimerization interface [polypeptide binding]; other site 1173022009191 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 1173022009192 DNA binding residues [nucleotide binding] 1173022009193 dimerization interface [polypeptide binding]; other site 1173022009194 GUN4-like; Region: GUN4; pfam05419 1173022009195 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022009196 GAF domain; Region: GAF; pfam01590 1173022009197 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1173022009198 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 1173022009199 dimer interface [polypeptide binding]; other site 1173022009200 phosphorylation site [posttranslational modification] 1173022009201 putative bicarbonate transporter, IctB family; Region: 2A73; TIGR00947 1173022009202 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 1173022009203 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 1173022009204 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1173022009205 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 1173022009206 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 1173022009207 SmpB-tmRNA interface; other site 1173022009208 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1173022009209 Protein kinase domain; Region: Pkinase; pfam00069 1173022009210 active site 1173022009211 ATP binding site [chemical binding]; other site 1173022009212 substrate binding site [chemical binding]; other site 1173022009213 activation loop (A-loop); other site 1173022009214 TPR repeat; Region: TPR_11; pfam13414 1173022009215 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 1173022009216 binding surface 1173022009217 TPR motif; other site 1173022009218 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 1173022009219 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 1173022009220 binding surface 1173022009221 TPR motif; other site 1173022009222 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 1173022009223 binding surface 1173022009224 TPR motif; other site 1173022009225 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 1173022009226 binding surface 1173022009227 TPR motif; other site 1173022009228 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1173022009229 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 1173022009230 TAP-like protein; Region: Abhydrolase_4; pfam08386 1173022009231 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 1173022009232 structural tetrad; other site 1173022009233 PQQ-like domain; Region: PQQ_2; pfam13360 1173022009234 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 1173022009235 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1173022009236 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1173022009237 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1173022009238 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1173022009239 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1173022009240 Coenzyme A binding pocket [chemical binding]; other site 1173022009241 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 1173022009242 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 1173022009243 motif II; other site 1173022009244 GIY-YIG domain found in CAXIP1-like proteins, iron-sulfur cluster assembly proteins, and similar proteins; Region: GIY-YIG_AtGrxS16_like; cd10450 1173022009245 GIY-YIG motif/motif A; other site 1173022009246 DNA adenine methylase (dam); Region: dam; TIGR00571 1173022009247 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 1173022009248 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 1173022009249 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1173022009250 Na binding site [ion binding]; other site 1173022009251 Uncharacterized conserved protein (DUF2358); Region: DUF2358; pfam10184 1173022009252 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1173022009253 This PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily and is found in both archaea and bacteria. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible...; Region: PGM_like2; cd05800 1173022009254 active site 1173022009255 substrate binding site [chemical binding]; other site 1173022009256 metal binding site [ion binding]; metal-binding site 1173022009257 Manganese-stabilising protein / photosystem II polypeptide; Region: MSP; pfam01716 1173022009258 RNA polymerase sigma factor SigF; Reviewed; Region: PRK07408 1173022009259 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1173022009260 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1173022009261 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 1173022009262 DNA binding residues [nucleotide binding] 1173022009263 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1173022009264 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 1173022009265 dimer interface [polypeptide binding]; other site 1173022009266 motif 1; other site 1173022009267 active site 1173022009268 motif 2; other site 1173022009269 motif 3; other site 1173022009270 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 1173022009271 anticodon binding site; other site 1173022009272 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 1173022009273 putative active site [active] 1173022009274 putative cation:proton antiport protein; Provisional; Region: PRK10669 1173022009275 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1173022009276 TrkA-N domain; Region: TrkA_N; pfam02254 1173022009277 TrkA-C domain; Region: TrkA_C; pfam02080 1173022009278 TrkA-C domain; Region: TrkA_C; pfam02080 1173022009279 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1173022009280 Peptidase family M23; Region: Peptidase_M23; pfam01551 1173022009281 Late competence development protein ComFB; Region: ComFB; pfam10719 1173022009282 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1173022009283 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1173022009284 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 1173022009285 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1173022009286 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 1173022009287 DNA binding residues [nucleotide binding] 1173022009288 Putative zinc-finger; Region: zf-HC2; pfam13490 1173022009289 tRNA synthetases class I (I, L, M and V); Region: tRNA-synt_1; pfam00133 1173022009290 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1173022009291 HIGH motif; other site 1173022009292 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1173022009293 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1173022009294 active site 1173022009295 KMSKS motif; other site 1173022009296 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1173022009297 tRNA binding surface [nucleotide binding]; other site 1173022009298 anticodon binding site; other site 1173022009299 Domain of unknown function (DUF4308); Region: DUF4308; pfam14159 1173022009300 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1173022009301 Anticodon-binding domain of tRNA; Region: Anticodon_1; pfam08264 1173022009302 tRNA binding surface [nucleotide binding]; other site 1173022009303 CpeS-like protein; Region: CpeS; pfam09367 1173022009304 HEAT repeats; Region: HEAT_2; pfam13646 1173022009305 HEAT repeats; Region: HEAT_2; pfam13646 1173022009306 E-Z type HEAT repeats; Region: EZ_HEAT; smart00567 1173022009307 HEAT repeats; Region: HEAT_2; pfam13646 1173022009308 C1 Peptidase family (MEROPS database nomenclature), also referred to as the papain family; composed of two subfamilies of cysteine peptidases (CPs), C1A (papain) and C1B (bleomycin hydrolase). Papain-like enzymes are mostly endopeptidases with some...; Region: Peptidase_C1; cd02619 1173022009309 active site 1173022009310 Caspase domain; Region: Peptidase_C14; pfam00656 1173022009311 FOG: WD40 repeat [General function prediction only]; Region: COG2319 1173022009312 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 1173022009313 structural tetrad; other site 1173022009314 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 1173022009315 structural tetrad; other site 1173022009316 FOG: WD40 repeat [General function prediction only]; Region: COG2319 1173022009317 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 1173022009318 structural tetrad; other site 1173022009319 PAS domain S-box; Region: sensory_box; TIGR00229 1173022009320 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 1173022009321 putative active site [active] 1173022009322 heme pocket [chemical binding]; other site 1173022009323 PAS fold; Region: PAS_4; pfam08448 1173022009324 PAS domain S-box; Region: sensory_box; TIGR00229 1173022009325 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 1173022009326 putative active site [active] 1173022009327 heme pocket [chemical binding]; other site 1173022009328 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022009329 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1173022009330 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 1173022009331 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1173022009332 dimer interface [polypeptide binding]; other site 1173022009333 phosphorylation site [posttranslational modification] 1173022009334 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 1173022009335 ATP binding site [chemical binding]; other site 1173022009336 Mg2+ binding site [ion binding]; other site 1173022009337 G-X-G motif; other site 1173022009338 radical SAM/Cys-rich domain protein; Region: rSAM_SeCys; TIGR04167 1173022009339 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 1173022009340 FeS/SAM binding site; other site 1173022009341 Protein of unknown function (DUF3641); Region: DUF3641; pfam12345 1173022009342 Phosphate transporter family; Region: PHO4; pfam01384 1173022009343 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1173022009344 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1173022009345 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 1173022009346 S-adenosylmethionine binding site [chemical binding]; other site 1173022009347 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 1173022009348 dimer interface [polypeptide binding]; other site 1173022009349 [2Fe-2S] cluster binding site [ion binding]; other site 1173022009350 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022009351 GAF domain; Region: GAF; pfam01590 1173022009352 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022009353 GAF domain; Region: GAF; cl17456 1173022009354 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1173022009355 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 1173022009356 dimer interface [polypeptide binding]; other site 1173022009357 phosphorylation site [posttranslational modification] 1173022009358 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 1173022009359 ATP binding site [chemical binding]; other site 1173022009360 Mg2+ binding site [ion binding]; other site 1173022009361 G-X-G motif; other site 1173022009362 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022009363 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 1173022009364 active site 1173022009365 phosphorylation site [posttranslational modification] 1173022009366 intermolecular recognition site; other site 1173022009367 dimerization interface [polypeptide binding]; other site 1173022009368 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1173022009369 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 1173022009370 dimer interface [polypeptide binding]; other site 1173022009371 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1173022009372 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 1173022009373 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1173022009374 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1173022009375 Domain of unknown function DUF21; Region: DUF21; pfam01595 1173022009376 Transporter associated domain; Region: CorC_HlyC; smart01091 1173022009377 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1173022009378 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cd00449 1173022009379 homodimer interface [polypeptide binding]; other site 1173022009380 substrate-cofactor binding pocket; other site 1173022009381 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1173022009382 catalytic residue [active] 1173022009383 Domain of unknown function DUF29; Region: DUF29; pfam01724 1173022009384 FtsH Extracellular; Region: FtsH_ext; pfam06480 1173022009385 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1173022009386 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 1173022009387 Walker A motif; other site 1173022009388 ATP binding site [chemical binding]; other site 1173022009389 Walker B motif; other site 1173022009390 arginine finger; other site 1173022009391 Peptidase family M41; Region: Peptidase_M41; pfam01434 1173022009392 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 1173022009393 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 1173022009394 putative active site [active] 1173022009395 putative UV damage endonuclease; Provisional; Region: uvsE; PRK02308 1173022009396 Protein of unknown function (DUF3611); Region: DUF3611; pfam12263 1173022009397 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 1173022009398 active site 1173022009399 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 1173022009400 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 1173022009401 tetramer interface [polypeptide binding]; other site 1173022009402 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1173022009403 catalytic residue [active] 1173022009404 hypothetical protein; Provisional; Region: PRK09866 1173022009405 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1173022009406 G1 box; other site 1173022009407 GTP/Mg2+ binding site [chemical binding]; other site 1173022009408 G2 box; other site 1173022009409 Switch I region; other site 1173022009410 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 1173022009411 G3 box; other site 1173022009412 Switch II region; other site 1173022009413 GTP/Mg2+ binding site [chemical binding]; other site 1173022009414 G4 box; other site 1173022009415 G5 box; other site 1173022009416 ketol-acid reductoisomerase; Provisional; Region: PRK05479 1173022009417 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1173022009418 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1173022009419 Bacterial EndoU nuclease; Region: EndoU_bacteria; pfam14436 1173022009420 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1173022009421 Amidase; Region: Amidase; pfam01425 1173022009422 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 1173022009423 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1173022009424 methionine aminopeptidase; Provisional; Region: PRK12318 1173022009425 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 1173022009426 active site 1173022009427 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1173022009428 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1173022009429 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1173022009430 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1173022009431 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1173022009432 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1173022009433 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 1173022009434 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 1173022009435 intersubunit interface [polypeptide binding]; other site 1173022009436 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1173022009437 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1173022009438 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1173022009439 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 1173022009440 ABC-ATPase subunit interface; other site 1173022009441 dimer interface [polypeptide binding]; other site 1173022009442 putative PBP binding regions; other site 1173022009443 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1173022009444 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 1173022009445 active site 1173022009446 metal binding site [ion binding]; metal-binding site 1173022009447 Protein of unknown function (DUF2396); Region: DUF2396; pfam09654 1173022009448 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1173022009449 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 1173022009450 trimer interface [polypeptide binding]; other site 1173022009451 putative metal binding site [ion binding]; other site 1173022009452 Photosystem II protein Y (PsbY); Region: PsbY; cl05675 1173022009453 Cyanobacterial and plant NDH-1 subunit O; Region: NdhO; pfam11910 1173022009454 formamidopyrimidine-DNA glycosylase; Provisional; Region: PRK13945 1173022009455 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1173022009456 DNA binding site [nucleotide binding] 1173022009457 catalytic residue [active] 1173022009458 H2TH interface [polypeptide binding]; other site 1173022009459 putative catalytic residues [active] 1173022009460 turnover-facilitating residue; other site 1173022009461 intercalation triad [nucleotide binding]; other site 1173022009462 8OG recognition residue [nucleotide binding]; other site 1173022009463 putative reading head residues; other site 1173022009464 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1173022009465 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1173022009466 photosystem I subunit IV; Reviewed; Region: psaE; CHL00125 1173022009467 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1173022009468 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1173022009469 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 1173022009470 DNA binding residues [nucleotide binding] 1173022009471 dimerization interface [polypeptide binding]; other site 1173022009472 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1173022009473 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 1173022009474 putative substrate binding site [chemical binding]; other site 1173022009475 putative ATP binding site [chemical binding]; other site 1173022009476 Uncharacterized conserved protein [Function unknown]; Region: COG1565 1173022009477 Protein of unknown function DUF262; Region: DUF262; pfam03235 1173022009478 Uncharacterized conserved protein [Function unknown]; Region: COG1479 1173022009479 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 1173022009480 Domain of unknown function DUF29; Region: DUF29; pfam01724 1173022009481 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 1173022009482 putative active site [active] 1173022009483 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1173022009484 classical (c) SDRs; Region: SDR_c; cd05233 1173022009485 NAD(P) binding site [chemical binding]; other site 1173022009486 active site 1173022009487 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 1173022009488 Riboflavin-specific deaminase. Riboflavin biosynthesis protein RibD (Diaminohydroxyphosphoribosylaminopyrimidine deaminase) catalyzes the deamination of 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate, which is an intermediate step in the...; Region: Riboflavin_deaminase-reductase; cd01284 1173022009489 catalytic motif [active] 1173022009490 Zn binding site [ion binding]; other site 1173022009491 RibD C-terminal domain; Region: RibD_C; cl17279 1173022009492 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1173022009493 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 1173022009494 motif II; other site 1173022009495 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 1173022009496 rod shape-determining protein MreC; Provisional; Region: PRK13922 1173022009497 rod shape-determining protein MreC; Region: MreC; pfam04085 1173022009498 rod shape-determining protein MreB; Provisional; Region: PRK13927 1173022009499 MreB and similar proteins; Region: MreB_like; cd10225 1173022009500 nucleotide binding site [chemical binding]; other site 1173022009501 Mg binding site [ion binding]; other site 1173022009502 putative protofilament interaction site [polypeptide binding]; other site 1173022009503 RodZ interaction site [polypeptide binding]; other site 1173022009504 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1173022009505 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 1173022009506 ssDNA binding site [nucleotide binding]; other site 1173022009507 dimer interface [polypeptide binding]; other site 1173022009508 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1173022009509 Uncharacterized conserved protein [Function unknown]; Region: COG2968 1173022009510 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 1173022009511 AMIN domain; Region: AMIN; pfam11741 1173022009512 AMIN domain; Region: AMIN; pfam11741 1173022009513 AMIN domain; Region: AMIN; pfam11741 1173022009514 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 1173022009515 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 1173022009516 active site 1173022009517 metal binding site [ion binding]; metal-binding site 1173022009518 glutamate racemase; Provisional; Region: PRK00865 1173022009519 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1173022009520 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1173022009521 substrate binding pocket [chemical binding]; other site 1173022009522 chain length determination region; other site 1173022009523 substrate-Mg2+ binding site; other site 1173022009524 catalytic residues [active] 1173022009525 aspartate-rich region 1; other site 1173022009526 active site lid residues [active] 1173022009527 aspartate-rich region 2; other site 1173022009528 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 1173022009529 heterotetramer interface [polypeptide binding]; other site 1173022009530 active site pocket [active] 1173022009531 cleavage site 1173022009532 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 1173022009533 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 1173022009534 RNA binding surface [nucleotide binding]; other site 1173022009535 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 1173022009536 Dynamin family; Region: Dynamin_N; pfam00350 1173022009537 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 1173022009538 G1 box; other site 1173022009539 GTP/Mg2+ binding site [chemical binding]; other site 1173022009540 Switch I region; other site 1173022009541 G2 box; other site 1173022009542 Switch II region; other site 1173022009543 G3 box; other site 1173022009544 G4 box; other site 1173022009545 G5 box; other site 1173022009546 Domain of unknown function (DUF697); Region: DUF697; pfam05128 1173022009547 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1173022009548 AAA domain; Region: AAA_21; pfam13304 1173022009549 Walker A/P-loop; other site 1173022009550 ATP binding site [chemical binding]; other site 1173022009551 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1173022009552 ABC transporter signature motif; other site 1173022009553 Walker B; other site 1173022009554 D-loop; other site 1173022009555 H-loop/switch region; other site 1173022009556 Domain of unknown function (DUF305); Region: DUF305; pfam03713 1173022009557 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1173022009558 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 1173022009559 dimer interface [polypeptide binding]; other site 1173022009560 phosphorylation site [posttranslational modification] 1173022009561 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 1173022009562 ATP binding site [chemical binding]; other site 1173022009563 Mg2+ binding site [ion binding]; other site 1173022009564 G-X-G motif; other site 1173022009565 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1173022009566 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 1173022009567 active site 1173022009568 phosphorylation site [posttranslational modification] 1173022009569 intermolecular recognition site; other site 1173022009570 dimerization interface [polypeptide binding]; other site 1173022009571 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 1173022009572 DNA binding site [nucleotide binding] 1173022009573 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1173022009574 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 1173022009575 dimer interface [polypeptide binding]; other site 1173022009576 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1173022009577 catalytic residue [active] 1173022009578 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3544 1173022009579 YcfA-like protein; Region: YcfA; pfam07927 1173022009580 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 1173022009581 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1173022009582 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cd00449 1173022009583 homodimer interface [polypeptide binding]; other site 1173022009584 substrate-cofactor binding pocket; other site 1173022009585 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1173022009586 catalytic residue [active] 1173022009587 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1173022009588 G1 box; other site 1173022009589 GTP/Mg2+ binding site [chemical binding]; other site 1173022009590 G3 box; other site 1173022009591 Switch II region; other site 1173022009592 G4 box; other site 1173022009593 G5 box; other site 1173022009594 Domain of unknown function (DUF697); Region: DUF697; pfam05128 1173022009595 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 1173022009596 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 1173022009597 phosphopeptide binding site; other site 1173022009598 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1173022009599 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 1173022009600 dimer interface [polypeptide binding]; other site 1173022009601 phosphorylation site [posttranslational modification] 1173022009602 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 1173022009603 ATP binding site [chemical binding]; other site 1173022009604 Mg2+ binding site [ion binding]; other site 1173022009605 G-X-G motif; other site 1173022009606 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1173022009607 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 1173022009608 active site 1173022009609 phosphorylation site [posttranslational modification] 1173022009610 intermolecular recognition site; other site 1173022009611 dimerization interface [polypeptide binding]; other site 1173022009612 photochlorophyllide reductase subunit L; Region: chlL; CHL00072 1173022009613 This family of proteins contains bchL and chlL. Protochlorophyllide reductase catalyzes the reductive formation of chlorophyllide from protochlorophyllide during biosynthesis of chlorophylls and bacteriochlorophylls. Three genes, bchL, bchN and bchB, are...; Region: Bchl_like; cd02032 1173022009614 P-loop; other site 1173022009615 Pchlide_reductase_N: N protein of the NB protein complex of Protochlorophyllide (Pchlide)_reductase. Pchlide reductase catalyzes the reductive formation of chlorophyllide (chlide) from protochlorophyllide (pchlide) during biosynthesis of chlorophylls and...; Region: Pchlide_reductase_N; cd01979 1173022009616 light-independent protochlorophyllide reductase, N subunit; Region: DPOR_bchN; TIGR01279 1173022009617 Aspartyl protease; Region: Asp_protease_2; pfam13650 1173022009618 inhibitor binding site; inhibition site 1173022009619 catalytic motif [active] 1173022009620 Catalytic residue [active] 1173022009621 Active site flap [active] 1173022009622 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 1173022009623 putative active site [active] 1173022009624 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1173022009625 Cytochrome P450; Region: p450; pfam00067 1173022009626 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 1173022009627 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 1173022009628 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 1173022009629 putative dimer interface [polypeptide binding]; other site 1173022009630 N-terminal domain interface [polypeptide binding]; other site 1173022009631 putative substrate binding pocket (H-site) [chemical binding]; other site 1173022009632 Protein of unknown function (DUF3318); Region: DUF3318; pfam11780 1173022009633 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1173022009634 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1173022009635 Probable transposase; Region: OrfB_IS605; pfam01385 1173022009636 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 1173022009637 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 1173022009638 FeS/SAM binding site; other site 1173022009639 Predicted HD superfamily hydrolase involved in NAD metabolism [Coenzyme metabolism]; Region: COG1713 1173022009640 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 1173022009641 Protein of unknown function (DUF1230); Region: DUF1230; pfam06799 1173022009642 L-asparaginase II; Region: Asparaginase_II; cl01842 1173022009643 Protein of unknown function (DUF2281); Region: DUF2281; cl02355 1173022009644 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 1173022009645 putative active site [active] 1173022009646 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1173022009647 Clp amino terminal domain; Region: Clp_N; pfam02861 1173022009648 Clp amino terminal domain; Region: Clp_N; pfam02861 1173022009649 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 1173022009650 Walker A motif; other site 1173022009651 ATP binding site [chemical binding]; other site 1173022009652 Walker B motif; other site 1173022009653 arginine finger; other site 1173022009654 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 1173022009655 Walker A motif; other site 1173022009656 ATP binding site [chemical binding]; other site 1173022009657 Walker B motif; other site 1173022009658 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1173022009659 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1173022009660 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1173022009661 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 1173022009662 motif II; other site 1173022009663 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 1173022009664 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 1173022009665 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 1173022009666 Domain of unknown function DUF29; Region: DUF29; pfam01724 1173022009667 Nuclear transport factor 2 (NTF2) domain; Region: NTF2; pfam02136 1173022009668 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 1173022009669 ATP binding site [chemical binding]; other site 1173022009670 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 1173022009671 Mg2+ binding site [ion binding]; other site 1173022009672 G-X-G motif; other site 1173022009673 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022009674 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 1173022009675 active site 1173022009676 phosphorylation site [posttranslational modification] 1173022009677 intermolecular recognition site; other site 1173022009678 dimerization interface [polypeptide binding]; other site 1173022009679 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022009680 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1173022009681 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 1173022009682 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 1173022009683 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1173022009684 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 1173022009685 active site 1173022009686 phosphorylation site [posttranslational modification] 1173022009687 intermolecular recognition site; other site 1173022009688 dimerization interface [polypeptide binding]; other site 1173022009689 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 1173022009690 DNA binding residues [nucleotide binding] 1173022009691 dimerization interface [polypeptide binding]; other site 1173022009692 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 1173022009693 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1173022009694 putative active site [active] 1173022009695 heme pocket [chemical binding]; other site 1173022009696 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 1173022009697 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1173022009698 putative active site [active] 1173022009699 heme pocket [chemical binding]; other site 1173022009700 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 1173022009701 putative active site [active] 1173022009702 heme pocket [chemical binding]; other site 1173022009703 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 1173022009704 PAS fold; Region: PAS_3; pfam08447 1173022009705 putative active site [active] 1173022009706 heme pocket [chemical binding]; other site 1173022009707 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 1173022009708 dimer interface [polypeptide binding]; other site 1173022009709 phosphorylation site [posttranslational modification] 1173022009710 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 1173022009711 ATP binding site [chemical binding]; other site 1173022009712 Mg2+ binding site [ion binding]; other site 1173022009713 G-X-G motif; other site 1173022009714 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1173022009715 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 1173022009716 active site 1173022009717 phosphorylation site [posttranslational modification] 1173022009718 intermolecular recognition site; other site 1173022009719 dimerization interface [polypeptide binding]; other site 1173022009720 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1173022009721 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 1173022009722 active site 1173022009723 phosphorylation site [posttranslational modification] 1173022009724 intermolecular recognition site; other site 1173022009725 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 1173022009726 PAS fold; Region: PAS_3; pfam08447 1173022009727 putative active site [active] 1173022009728 heme pocket [chemical binding]; other site 1173022009729 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1173022009730 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022009731 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 1173022009732 dimer interface [polypeptide binding]; other site 1173022009733 phosphorylation site [posttranslational modification] 1173022009734 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 1173022009735 ATP binding site [chemical binding]; other site 1173022009736 Mg2+ binding site [ion binding]; other site 1173022009737 G-X-G motif; other site 1173022009738 Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]; Region: CheB; COG2201 1173022009739 CheB methylesterase; Region: CheB_methylest; pfam01339 1173022009740 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1173022009741 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1173022009742 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 1173022009743 PAS domain; Region: PAS_9; pfam13426 1173022009744 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 1173022009745 PAS domain; Region: PAS_9; pfam13426 1173022009746 putative active site [active] 1173022009747 heme pocket [chemical binding]; other site 1173022009748 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1173022009749 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 1173022009750 putative active site [active] 1173022009751 heme pocket [chemical binding]; other site 1173022009752 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 1173022009753 dimer interface [polypeptide binding]; other site 1173022009754 phosphorylation site [posttranslational modification] 1173022009755 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 1173022009756 ATP binding site [chemical binding]; other site 1173022009757 Mg2+ binding site [ion binding]; other site 1173022009758 G-X-G motif; other site 1173022009759 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 1173022009760 putative active site [active] 1173022009761 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 1173022009762 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 1173022009763 S-adenosylmethionine binding site [chemical binding]; other site 1173022009764 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 1173022009765 NAD(P)H-quinone oxidoreductase subunit H; Validated; Region: PRK07415 1173022009766 cyanate hydratase; Validated; Region: PRK02866 1173022009767 Cyanase C-terminal domain. Cyanase (Cyanate lyase) is responsible for the hydrolysis of cyanate. It catalyzes the reaction of cyanate with bicarbonate to produce ammonia and carbon dioxide. This allows organisms that possess the enzyme to overcome the...; Region: Cyanase_C; cd00559 1173022009768 oligomer interface [polypeptide binding]; other site 1173022009769 active site 1173022009770 Proto-chlorophyllide reductase 57 kD subunit; Region: PCP_red; pfam08369 1173022009771 Bacterial SH3 domain; Region: SH3_3; cl17532 1173022009772 5'-methylthioadenosine phosphorylase; Provisional; Region: PRK07432 1173022009773 Bacterial SH3 domain; Region: SH3_3; pfam08239 1173022009774 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 1173022009775 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 1173022009776 active site 1173022009777 metal binding site [ion binding]; metal-binding site 1173022009778 CTP synthetase; Validated; Region: pyrG; PRK05380 1173022009779 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 1173022009780 Catalytic site [active] 1173022009781 active site 1173022009782 UTP binding site [chemical binding]; other site 1173022009783 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1173022009784 active site 1173022009785 putative oxyanion hole; other site 1173022009786 catalytic triad [active] 1173022009787 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1173022009788 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1173022009789 nucleotide binding site [chemical binding]; other site 1173022009790 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 1173022009791 TPR motif; other site 1173022009792 TPR repeat; Region: TPR_11; pfam13414 1173022009793 binding surface 1173022009794 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 1173022009795 TPR motif; other site 1173022009796 binding surface 1173022009797 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1173022009798 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 1173022009799 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 1173022009800 binding surface 1173022009801 TPR motif; other site 1173022009802 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 1173022009803 TPR motif; other site 1173022009804 TPR repeat; Region: TPR_11; pfam13414 1173022009805 binding surface 1173022009806 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 1173022009807 binding surface 1173022009808 TPR motif; other site 1173022009809 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 1173022009810 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 1173022009811 binding surface 1173022009812 TPR motif; other site 1173022009813 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 1173022009814 binding surface 1173022009815 TPR motif; other site 1173022009816 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 1173022009817 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 1173022009818 TPR motif; other site 1173022009819 binding surface 1173022009820 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 1173022009821 binding surface 1173022009822 TPR motif; other site 1173022009823 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 1173022009824 binding surface 1173022009825 TPR motif; other site 1173022009826 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 1173022009827 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 1173022009828 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 1173022009829 TPR motif; other site 1173022009830 binding surface 1173022009831 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 1173022009832 binding surface 1173022009833 TPR motif; other site 1173022009834 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 1173022009835 TPR motif; other site 1173022009836 binding surface 1173022009837 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 1173022009838 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1173022009839 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 1173022009840 dimer interface [polypeptide binding]; other site 1173022009841 conserved gate region; other site 1173022009842 ABC-ATPase subunit interface; other site 1173022009843 Type IV pilin PilA; Region: Pilin_PilA; pfam14245 1173022009844 Type IV pilin PilA; Region: Pilin_PilA; pfam14245 1173022009845 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 1173022009846 binding surface 1173022009847 TPR motif; other site 1173022009848 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 1173022009849 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1173022009850 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 1173022009851 active site 1173022009852 Cephalosporin hydroxylase; Region: CmcI; pfam04989 1173022009853 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1173022009854 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1173022009855 NAD(P) binding site [chemical binding]; other site 1173022009856 active site 1173022009857 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 1173022009858 Putative zinc binding domain; Region: Methyltransf_13; pfam08421 1173022009859 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1173022009860 Methyltransferase domain; Region: Methyltransf_12; pfam08242 1173022009861 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 1173022009862 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 1173022009863 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1173022009864 NAD(P) binding site [chemical binding]; other site 1173022009865 active site 1173022009866 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 1173022009867 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 1173022009868 substrate binding site; other site 1173022009869 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 1173022009870 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 1173022009871 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 1173022009872 putative CoA binding site [chemical binding]; other site 1173022009873 trimer interface [polypeptide binding]; other site 1173022009874 active site 1173022009875 UDP-GlcNAc binding site [chemical binding]; other site 1173022009876 lipid binding site [chemical binding]; lipid-binding site 1173022009877 flavoprotein, HI0933 family; Region: TIGR00275 1173022009878 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 1173022009879 Rubredoxin; Region: Rubredoxin; pfam00301 1173022009880 iron binding site [ion binding]; other site 1173022009881 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1173022009882 hydrophobic ligand binding site; other site 1173022009883 methionine sulfoxide reductase A; Provisional; Region: PRK00058 1173022009884 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 1173022009885 Mg2+ transporter (mgtE); Region: mgtE; TIGR00400 1173022009886 MgtE intracellular N domain; Region: MgtE_N; smart00924 1173022009887 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 1173022009888 Divalent cation transporter; Region: MgtE; pfam01769 1173022009889 FOG: WD40 repeat [General function prediction only]; Region: COG2319 1173022009890 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 1173022009891 structural tetrad; other site 1173022009892 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1173022009893 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 1173022009894 Probable Catalytic site; other site 1173022009895 metal-binding site 1173022009896 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1173022009897 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 1173022009898 metal binding site [ion binding]; metal-binding site 1173022009899 dimer interface [polypeptide binding]; other site 1173022009900 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 1173022009901 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 1173022009902 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 1173022009903 TIR domain; Region: TIR_2; pfam13676 1173022009904 Protein of unknown function, DUF547; Region: DUF547; pfam04784 1173022009905 GT_2_like_a represents a glycosyltransferase family-2 subfamily with unknown function; Region: GT_2_like_a; cd02522 1173022009906 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 1173022009907 Probable Catalytic site; other site 1173022009908 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1173022009909 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1173022009910 active site 1173022009911 ATP binding site [chemical binding]; other site 1173022009912 substrate binding site [chemical binding]; other site 1173022009913 activation loop (A-loop); other site 1173022009914 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 1173022009915 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 1173022009916 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 1173022009917 putative active site [active] 1173022009918 putative NTP binding site [chemical binding]; other site 1173022009919 putative nucleic acid binding site [nucleotide binding]; other site 1173022009920 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1173022009921 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 1173022009922 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 1173022009923 active site 1173022009924 Protein of unknown function (DUF3285); Region: DUF3285; pfam11688 1173022009925 metal-binding heat shock protein; Provisional; Region: PRK00016 1173022009926 Interleukin-1 homologes; Cytokines with various biological functions. Interleukin 1 alpha and beta are also known as hematopoietin and catabolin. This family also contains interleukin-1 receptor antagonists (inhibitors); Region: IL1; cl00094 1173022009927 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 1173022009928 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 1173022009929 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1173022009930 glutamine binding [chemical binding]; other site 1173022009931 catalytic triad [active] 1173022009932 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1173022009933 Beta-lactamase superfamily domain; Region: Lactamase_B_3; pfam13483 1173022009934 proline aminopeptidase P II; Provisional; Region: PRK10879 1173022009935 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 1173022009936 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 1173022009937 active site 1173022009938 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1173022009939 RNA polymerase sigma factor SigF; Reviewed; Region: PRK07408 1173022009940 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1173022009941 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1173022009942 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 1173022009943 DNA binding residues [nucleotide binding] 1173022009944 Inhibitor of apoptosis-promoting Bax1; Region: Bax1-I; pfam01027 1173022009945 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 1173022009946 magnesium chelatase ATPase subunit D; Region: BchD-ChlD; TIGR02031 1173022009947 Magnesium chelatase: Mg-chelatase catalyses the insertion of Mg into protoporphyrin IX (Proto). In chlorophyll biosynthesis, insertion of Mg2+ into protoporphyrin IX is catalysed by magnesium chelatase in an ATP-dependent reaction. Magnesium chelatase is...; Region: vWA_Magnesium_chelatase; cd01451 1173022009948 metal ion-dependent adhesion site (MIDAS); other site 1173022009949 LabA_like proteins; Region: LabA_like; cd06167 1173022009950 putative metal binding site [ion binding]; other site 1173022009951 PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs; Region: PIN_Pae0151; cd09873 1173022009952 putative active site [active] 1173022009953 homotetrameric interface [polypeptide binding]; other site 1173022009954 metal binding site [ion binding]; metal-binding site 1173022009955 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 1173022009956 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 1173022009957 dimerization interface [polypeptide binding]; other site 1173022009958 active site 1173022009959 metal binding site [ion binding]; metal-binding site 1173022009960 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 1173022009961 dsRNA binding site [nucleotide binding]; other site 1173022009962 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 1173022009963 RsbT co-antagonist protein rsbRD N-terminal domain; Region: RsbRD_N; pfam14361 1173022009964 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1173022009965 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 1173022009966 dimer interface [polypeptide binding]; other site 1173022009967 phosphorylation site [posttranslational modification] 1173022009968 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 1173022009969 ATP binding site [chemical binding]; other site 1173022009970 Mg2+ binding site [ion binding]; other site 1173022009971 G-X-G motif; other site 1173022009972 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 1173022009973 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1173022009974 Transmembrane proteins 14C; Region: Tmemb_14; pfam03647 1173022009975 Protein of unknown function (DUF760); Region: DUF760; pfam05542 1173022009976 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 1173022009977 Tryptophan-rich protein (DUF2389); Region: DUF2389; pfam09493 1173022009978 Rhomboid family; Region: Rhomboid; pfam01694 1173022009979 Domain of unknown function DUF29; Region: DUF29; pfam01724 1173022009980 chemotaxis-specific methylesterase; Provisional; Region: PRK12555 1173022009981 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 1173022009982 active site 1173022009983 phosphorylation site [posttranslational modification] 1173022009984 intermolecular recognition site; other site 1173022009985 CheB methylesterase; Region: CheB_methylest; pfam01339 1173022009986 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 1173022009987 putative binding surface; other site 1173022009988 active site 1173022009989 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1173022009990 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 1173022009991 ATP binding site [chemical binding]; other site 1173022009992 Mg2+ binding site [ion binding]; other site 1173022009993 G-X-G motif; other site 1173022009994 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 1173022009995 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022009996 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 1173022009997 active site 1173022009998 phosphorylation site [posttranslational modification] 1173022009999 intermolecular recognition site; other site 1173022010000 dimerization interface [polypeptide binding]; other site 1173022010001 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cd00588 1173022010002 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1173022010003 HAMP domain; Region: HAMP; pfam00672 1173022010004 dimerization interface [polypeptide binding]; other site 1173022010005 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1173022010006 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1173022010007 dimer interface [polypeptide binding]; other site 1173022010008 putative CheW interface [polypeptide binding]; other site 1173022010009 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1173022010010 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 1173022010011 S-adenosylmethionine binding site [chemical binding]; other site 1173022010012 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 1173022010013 dimerization interface [polypeptide binding]; other site 1173022010014 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1173022010015 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1173022010016 dimer interface [polypeptide binding]; other site 1173022010017 putative CheW interface [polypeptide binding]; other site 1173022010018 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1173022010019 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1173022010020 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1173022010021 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1173022010022 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022010023 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022010024 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK02755 1173022010025 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1173022010026 RNA binding site [nucleotide binding]; other site 1173022010027 active site 1173022010028 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 1173022010029 valine--pyruvate transaminase; Provisional; Region: avtA; PRK09440 1173022010030 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 1173022010031 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1173022010032 homodimer interface [polypeptide binding]; other site 1173022010033 catalytic residue [active] 1173022010034 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 1173022010035 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 1173022010036 Protein of unknown function (DUF1092); Region: DUF1092; pfam06485 1173022010037 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 1173022010038 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 1173022010039 putative active site [active] 1173022010040 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1173022010041 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1173022010042 substrate binding site [chemical binding]; other site 1173022010043 ligand binding site [chemical binding]; other site 1173022010044 NADH dehydrogenase subunit 4L; Region: ndhE; CHL00015 1173022010045 NADH dehydrogenase subunit 6; Region: ndhG; CHL00016 1173022010046 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 1173022010047 NADH-plastoquinone oxidoreductase subunit I protein; Region: ndhI; TIGR00403 1173022010048 4Fe-4S binding domain; Region: Fer4; pfam00037 1173022010049 NADH dehydrogenase subunit 1; Region: ndhA; CHL00032 1173022010050 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 1173022010051 Endo-N-acetylmuramidases (muramidases) are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues; Region: GH25_muramidase; cl10448 1173022010052 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 1173022010053 active site 1173022010054 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1173022010055 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 1173022010056 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 1173022010057 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 1173022010058 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 1173022010059 substrate binding site; other site 1173022010060 tetramer interface; other site 1173022010061 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 1173022010062 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1173022010063 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 1173022010064 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1173022010065 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 1173022010066 S-adenosylmethionine binding site [chemical binding]; other site 1173022010067 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1173022010068 This family is most closely related to the GT1 family of glycosyltransferases. AmSD in Erwinia amylovora has been shown to be involved in the biosynthesis of amylovoran, the acidic exopolysaccharide acting as a virulence factor. This enzyme may be...; Region: GT1_amsD_like; cd03820 1173022010069 putative ADP-binding pocket [chemical binding]; other site 1173022010070 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 1173022010071 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 1173022010072 S-adenosylmethionine binding site [chemical binding]; other site 1173022010073 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1173022010074 This family is most closely related to the GT1 family of glycosyltransferases. WbnK in Shigella dysenteriae has been shown to be involved in the type 7 O-antigen biosynthesis; Region: GT1_WbnK_like; cd03807 1173022010075 putative ADP-binding pocket [chemical binding]; other site 1173022010076 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1173022010077 This family is most closely related to the GT1 family of glycosyltransferases. WbnK in Shigella dysenteriae has been shown to be involved in the type 7 O-antigen biosynthesis; Region: GT1_WbnK_like; cd03807 1173022010078 putative ADP-binding pocket [chemical binding]; other site 1173022010079 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 1173022010080 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 1173022010081 active site 1173022010082 dimer interface [polypeptide binding]; other site 1173022010083 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 1173022010084 Ligand Binding Site [chemical binding]; other site 1173022010085 Molecular Tunnel; other site 1173022010086 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 1173022010087 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1173022010088 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1173022010089 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1173022010090 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1173022010091 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 1173022010092 putative NAD(P) binding site [chemical binding]; other site 1173022010093 active site 1173022010094 putative substrate binding site [chemical binding]; other site 1173022010095 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1173022010096 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 1173022010097 putative ADP-binding pocket [chemical binding]; other site 1173022010098 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1173022010099 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1173022010100 NAD(P) binding site [chemical binding]; other site 1173022010101 active site 1173022010102 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1173022010103 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1173022010104 Methyltransferase domain; Region: Methyltransf_11; pfam08241 1173022010105 The members of this subfamily catalyze the formation of a phosphodiester bond between a membrane-associated undecaprenyl-phosphate (Und-P) molecule and N-acetylhexosamine 1-phosphate, which is usually donated by a soluble UDP-N-acetylhexosamine precursor; Region: GT_WbpL_WbcO_like; cd06854 1173022010106 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 1173022010107 Mg++ binding site [ion binding]; other site 1173022010108 putative catalytic motif [active] 1173022010109 putative substrate binding site [chemical binding]; other site 1173022010110 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 1173022010111 Chain length determinant protein; Region: Wzz; pfam02706 1173022010112 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 1173022010113 AAA domain; Region: AAA_31; pfam13614 1173022010114 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 1173022010115 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 1173022010116 dimer interface [polypeptide binding]; other site 1173022010117 catalytic triad [active] 1173022010118 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 1173022010119 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 1173022010120 substrate binding site [chemical binding]; other site 1173022010121 active site 1173022010122 catalytic residues [active] 1173022010123 heterodimer interface [polypeptide binding]; other site 1173022010124 Protein of unknown function (DUF3007); Region: DUF3007; pfam11460 1173022010125 NADH dehydrogenase transmembrane subunit; Region: NdhL; pfam10716 1173022010126 Caspase domain; Region: Peptidase_C14; pfam00656 1173022010127 Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase; Region: GAT1_cyanophycinase; cd03145 1173022010128 proposed catalytic triad [active] 1173022010129 active site nucleophile [active] 1173022010130 CsbD-like; Region: CsbD; cl17424 1173022010131 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 1173022010132 iron-sulfur cluster [ion binding]; other site 1173022010133 [2Fe-2S] cluster binding site [ion binding]; other site 1173022010134 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 1173022010135 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 1173022010136 active site 1173022010137 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 1173022010138 DHH family; Region: DHH; pfam01368 1173022010139 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 1173022010140 catalytic core [active] 1173022010141 citrate synthase; Provisional; Region: PRK14036 1173022010142 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 1173022010143 oxalacetate binding site [chemical binding]; other site 1173022010144 citrylCoA binding site [chemical binding]; other site 1173022010145 coenzyme A binding site [chemical binding]; other site 1173022010146 catalytic triad [active] 1173022010147 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1173022010148 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 1173022010149 Cl- selectivity filter; other site 1173022010150 Cl- binding residues [ion binding]; other site 1173022010151 pore gating glutamate residue; other site 1173022010152 dimer interface [polypeptide binding]; other site 1173022010153 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022010154 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 1173022010155 active site 1173022010156 phosphorylation site [posttranslational modification] 1173022010157 intermolecular recognition site; other site 1173022010158 dimerization interface [polypeptide binding]; other site 1173022010159 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1173022010160 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 1173022010161 putative binding surface; other site 1173022010162 active site 1173022010163 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1173022010164 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 1173022010165 ATP binding site [chemical binding]; other site 1173022010166 Mg2+ binding site [ion binding]; other site 1173022010167 G-X-G motif; other site 1173022010168 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 1173022010169 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 1173022010170 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1173022010171 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1173022010172 dimer interface [polypeptide binding]; other site 1173022010173 putative CheW interface [polypeptide binding]; other site 1173022010174 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1173022010175 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1173022010176 dimer interface [polypeptide binding]; other site 1173022010177 putative CheW interface [polypeptide binding]; other site 1173022010178 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1173022010179 PAS domain; Region: PAS_9; pfam13426 1173022010180 HEAT repeats; Region: HEAT_2; pfam13646 1173022010181 Armadillo/beta-catenin-like repeats. An approximately 40 amino acid long tandemly repeated sequence motif first identified in the Drosophila segment polarity gene armadillo; these repeats were also found in the mammalian armadillo homolog beta-catenin; Region: ARM; cd00020 1173022010182 protein binding surface [polypeptide binding]; other site 1173022010183 HEAT repeats; Region: HEAT_2; pfam13646 1173022010184 HEAT repeats; Region: HEAT_2; pfam13646 1173022010185 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 1173022010186 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1173022010187 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 1173022010188 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 1173022010189 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 1173022010190 active site 1173022010191 phosphorylation site [posttranslational modification] 1173022010192 intermolecular recognition site; other site 1173022010193 dimerization interface [polypeptide binding]; other site 1173022010194 CheB methylesterase; Region: CheB_methylest; pfam01339 1173022010195 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022010196 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 1173022010197 active site 1173022010198 phosphorylation site [posttranslational modification] 1173022010199 intermolecular recognition site; other site 1173022010200 dimerization interface [polypeptide binding]; other site 1173022010201 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 1173022010202 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 1173022010203 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1173022010204 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 1173022010205 putative active site [active] 1173022010206 heme pocket [chemical binding]; other site 1173022010207 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1173022010208 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 1173022010209 putative active site [active] 1173022010210 heme pocket [chemical binding]; other site 1173022010211 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1173022010212 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 1173022010213 putative active site [active] 1173022010214 heme pocket [chemical binding]; other site 1173022010215 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 1173022010216 dimer interface [polypeptide binding]; other site 1173022010217 phosphorylation site [posttranslational modification] 1173022010218 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 1173022010219 ATP binding site [chemical binding]; other site 1173022010220 Mg2+ binding site [ion binding]; other site 1173022010221 G-X-G motif; other site 1173022010222 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1173022010223 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 1173022010224 active site 1173022010225 phosphorylation site [posttranslational modification] 1173022010226 intermolecular recognition site; other site 1173022010227 dimerization interface [polypeptide binding]; other site 1173022010228 Lipoxygenase; Region: Lipoxygenase; pfam00305 1173022010229 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1173022010230 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 1173022010231 S-adenosylmethionine binding site [chemical binding]; other site 1173022010232 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 1173022010233 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1173022010234 NAD(P) binding site [chemical binding]; other site 1173022010235 putative active site [active] 1173022010236 Domain of unknown function DUF29; Region: DUF29; pfam01724 1173022010237 PetN; Region: PetN; pfam03742 1173022010238 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: GT1_like_1; cd04950 1173022010239 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1173022010240 putative homodimer interface [polypeptide binding]; other site 1173022010241 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 1173022010242 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1173022010243 UDP-galactopyranose mutase; Region: GLF; pfam03275 1173022010244 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 1173022010245 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 1173022010246 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 1173022010247 NADP binding site [chemical binding]; other site 1173022010248 active site 1173022010249 putative substrate binding site [chemical binding]; other site 1173022010250 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 1173022010251 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1173022010252 NAD binding site [chemical binding]; other site 1173022010253 homodimer interface [polypeptide binding]; other site 1173022010254 active site 1173022010255 substrate binding site [chemical binding]; other site 1173022010256 putative anti-sigmaE protein; Provisional; Region: PRK13920 1173022010257 Anti-sigma-K factor rskA; Region: RskA; pfam10099 1173022010258 RNA polymerase sigma factor; Provisional; Region: PRK12519 1173022010259 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1173022010260 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 1173022010261 DNA binding residues [nucleotide binding] 1173022010262 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 1173022010263 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1173022010264 TlpA-like family, DipZ-like subfamily; composed uncharacterized proteins containing a TlpA-like TRX domain. Some members show domain architectures similar to that of E. coli DipZ protein (also known as DsbD). The only eukaryotic members of the TlpA...; Region: TlpA_like_DipZ_like; cd03012 1173022010265 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1173022010266 catalytic residues [active] 1173022010267 Thiosulfate reductase cytochrome B subunit (membrane anchoring protein) [Energy production and conversion]; Region: COG4117 1173022010268 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 1173022010269 Moco binding site; other site 1173022010270 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 1173022010271 metal coordination site [ion binding]; other site 1173022010272 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1173022010273 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 1173022010274 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1173022010275 Di-iron ligands [ion binding]; other site 1173022010276 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1173022010277 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1173022010278 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 1173022010279 Galactokinase [Carbohydrate transport and metabolism]; Region: GalK; COG0153 1173022010280 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 1173022010281 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1173022010282 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1173022010283 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 1173022010284 active site 1173022010285 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1173022010286 AAA domain; Region: AAA_21; pfam13304 1173022010287 Walker A/P-loop; other site 1173022010288 ATP binding site [chemical binding]; other site 1173022010289 Galactose-1-phosphate uridylyltransferase [Energy production and conversion]; Region: GalT; COG1085 1173022010290 Galactose-1-phosphate uridyl transferase (GalT): This enzyme plays a key role in galactose metabolism by catalysing the transfer of a uridine 5'-phosphoryl group from UDP-galactose 1-phosphate. The structure of E.coli GalT reveals that the enzyme...; Region: GalT; cd00608 1173022010291 dimer interface [polypeptide binding]; other site 1173022010292 active site 1173022010293 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 1173022010294 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 1173022010295 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 1173022010296 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1173022010297 dinuclear metal binding motif [ion binding]; other site 1173022010298 Ferritin-like domain; Region: Ferritin_2; pfam13668 1173022010299 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 1173022010300 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1173022010301 acyl-activating enzyme (AAE) consensus motif; other site 1173022010302 CoA binding site [chemical binding]; other site 1173022010303 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 1173022010304 Double zinc ribbon; Region: DZR; pfam12773 1173022010305 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1173022010306 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1173022010307 active site 1173022010308 ATP binding site [chemical binding]; other site 1173022010309 substrate binding site [chemical binding]; other site 1173022010310 activation loop (A-loop); other site 1173022010311 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1173022010312 putative metal binding site [ion binding]; other site 1173022010313 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1173022010314 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 1173022010315 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1173022010316 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1173022010317 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 1173022010318 hinge; other site 1173022010319 active site 1173022010320 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 1173022010321 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 1173022010322 putative NAD(P) binding site [chemical binding]; other site 1173022010323 putative active site [active] 1173022010324 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 1173022010325 Double zinc ribbon; Region: DZR; pfam12773 1173022010326 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1173022010327 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1173022010328 active site 1173022010329 ATP binding site [chemical binding]; other site 1173022010330 substrate binding site [chemical binding]; other site 1173022010331 activation loop (A-loop); other site 1173022010332 Protein of unknown function (DUF497); Region: DUF497; pfam04365 1173022010333 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 1173022010334 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1173022010335 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1173022010336 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 1173022010337 active site 1173022010338 ribulose/triose binding site [chemical binding]; other site 1173022010339 phosphate binding site [ion binding]; other site 1173022010340 substrate (anthranilate) binding pocket [chemical binding]; other site 1173022010341 product (indole) binding pocket [chemical binding]; other site 1173022010342 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1173022010343 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 1173022010344 homodimer interface [polypeptide binding]; other site 1173022010345 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1173022010346 catalytic residue [active] 1173022010347 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022010348 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1173022010349 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022010350 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_9; cd07245 1173022010351 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1173022010352 dimer interface [polypeptide binding]; other site 1173022010353 putative metal binding site [ion binding]; other site 1173022010354 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1173022010355 Resolvase, N terminal domain; Region: Resolvase; smart00857 1173022010356 Recombinase; Region: Recombinase; pfam07508 1173022010357 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 1173022010358 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1173022010359 reticulocyte binding protein 2-like protein; Provisional; Region: PTZ00440 1173022010360 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 1173022010361 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 1173022010362 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1173022010363 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 1173022010364 active site 1173022010365 phosphorylation site [posttranslational modification] 1173022010366 intermolecular recognition site; other site 1173022010367 dimerization interface [polypeptide binding]; other site 1173022010368 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1173022010369 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 1173022010370 dimer interface [polypeptide binding]; other site 1173022010371 phosphorylation site [posttranslational modification] 1173022010372 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 1173022010373 ATP binding site [chemical binding]; other site 1173022010374 Mg2+ binding site [ion binding]; other site 1173022010375 G-X-G motif; other site 1173022010376 GAF domain; Region: GAF; pfam01590 1173022010377 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022010378 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 1173022010379 PAS domain; Region: PAS_9; pfam13426 1173022010380 putative active site [active] 1173022010381 heme pocket [chemical binding]; other site 1173022010382 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 1173022010383 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1173022010384 putative active site [active] 1173022010385 heme pocket [chemical binding]; other site 1173022010386 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 1173022010387 putative active site [active] 1173022010388 heme pocket [chemical binding]; other site 1173022010389 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 1173022010390 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1173022010391 Histidine kinase; Region: HisKA_2; pfam07568 1173022010392 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 1173022010393 ATP binding site [chemical binding]; other site 1173022010394 Mg2+ binding site [ion binding]; other site 1173022010395 G-X-G motif; other site 1173022010396 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1173022010397 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 1173022010398 Cl- selectivity filter; other site 1173022010399 Cl- binding residues [ion binding]; other site 1173022010400 pore gating glutamate residue; other site 1173022010401 dimer interface [polypeptide binding]; other site 1173022010402 FOG: CBS domain [General function prediction only]; Region: COG0517 1173022010403 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the EriC CIC-type chloride channels in bacteria and archaea. These ion channels are proteins with a seemingly simple task of allowing the passive flow of...; Region: CBS_pair_EriC_assoc_bac_arch; cd04593 1173022010404 AbrB-like transcriptional regulator; Region: AbrB-like; pfam14250 1173022010405 Rrf2 family protein; Region: rrf2_super; TIGR00738 1173022010406 Transcriptional regulator; Region: Rrf2; cl17282 1173022010407 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1173022010408 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 1173022010409 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 1173022010410 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1173022010411 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1173022010412 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 1173022010413 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1173022010414 active site 1173022010415 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 1173022010416 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 1173022010417 homotetramer interface [polypeptide binding]; other site 1173022010418 FMN binding site [chemical binding]; other site 1173022010419 homodimer contacts [polypeptide binding]; other site 1173022010420 putative active site [active] 1173022010421 putative substrate binding site [chemical binding]; other site 1173022010422 signal peptide peptidase SppA, 67K type; Region: SppA_67K; TIGR00705 1173022010423 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 1173022010424 tandem repeat interface [polypeptide binding]; other site 1173022010425 oligomer interface [polypeptide binding]; other site 1173022010426 active site residues [active] 1173022010427 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1173022010428 tandem repeat interface [polypeptide binding]; other site 1173022010429 oligomer interface [polypeptide binding]; other site 1173022010430 active site residues [active] 1173022010431 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1173022010432 diaminopimelate epimerase; Region: PLN02536 1173022010433 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1173022010434 Sm and related proteins; Region: Sm_like; cl00259 1173022010435 heptamer interface [polypeptide binding]; other site 1173022010436 Sm1 motif; other site 1173022010437 hexamer interface [polypeptide binding]; other site 1173022010438 RNA binding site [nucleotide binding]; other site 1173022010439 Sm2 motif; other site 1173022010440 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 1173022010441 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 1173022010442 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 1173022010443 catalytic triad [active] 1173022010444 glucose-6-phosphate dehydrogenase assembly protein OpcA; Region: OpcA; TIGR00534 1173022010445 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1173022010446 Glucose-6-phosphate dehydrogenase subunit; Region: OpcA_G6PD_assem; cl01359 1173022010447 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1173022010448 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1173022010449 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1173022010450 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 1173022010451 putative active site [active] 1173022010452 transaldolase; Provisional; Region: PRK03903 1173022010453 catalytic residue [active] 1173022010454 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 1173022010455 AMP binding site [chemical binding]; other site 1173022010456 metal binding site [ion binding]; metal-binding site 1173022010457 active site 1173022010458 6-phosphofructokinase; Provisional; Region: PRK14071 1173022010459 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 1173022010460 active site 1173022010461 ADP/pyrophosphate binding site [chemical binding]; other site 1173022010462 dimerization interface [polypeptide binding]; other site 1173022010463 allosteric effector site; other site 1173022010464 fructose-1,6-bisphosphate binding site; other site 1173022010465 Protein kinase domain; Region: Pkinase; pfam00069 1173022010466 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1173022010467 active site 1173022010468 ATP binding site [chemical binding]; other site 1173022010469 substrate binding site [chemical binding]; other site 1173022010470 activation loop (A-loop); other site 1173022010471 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1173022010472 AAA ATPase domain; Region: AAA_16; pfam13191 1173022010473 Predicted ATPase [General function prediction only]; Region: COG3899 1173022010474 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022010475 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1173022010476 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022010477 GAF domain; Region: GAF; pfam01590 1173022010478 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1173022010479 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 1173022010480 putative active site [active] 1173022010481 heme pocket [chemical binding]; other site 1173022010482 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 1173022010483 dimer interface [polypeptide binding]; other site 1173022010484 phosphorylation site [posttranslational modification] 1173022010485 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 1173022010486 ATP binding site [chemical binding]; other site 1173022010487 Mg2+ binding site [ion binding]; other site 1173022010488 G-X-G motif; other site 1173022010489 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022010490 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 1173022010491 active site 1173022010492 phosphorylation site [posttranslational modification] 1173022010493 intermolecular recognition site; other site 1173022010494 dimerization interface [polypeptide binding]; other site 1173022010495 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 1173022010496 putative binding surface; other site 1173022010497 active site 1173022010498 Retinal pigment epithelial membrane protein; Region: RPE65; cl10080 1173022010499 Retinal pigment epithelial membrane protein; Region: RPE65; cl10080 1173022010500 PPOX class probable FMN-dependent enzyme, alr4036 family; Region: PPOX_FMN_cyano; TIGR04026 1173022010501 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxase_2; pfam12766 1173022010502 Serine acetyltransferase [Amino acid transport and metabolism]; Region: CysE; COG1045 1173022010503 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 1173022010504 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 1173022010505 trimer interface [polypeptide binding]; other site 1173022010506 active site 1173022010507 substrate binding site [chemical binding]; other site 1173022010508 CoA binding site [chemical binding]; other site 1173022010509 Alternative oxidase, ferritin-like diiron-binding domain; Region: AOX; cd01053 1173022010510 diiron binding motif [ion binding]; other site 1173022010511 Protein of unknown function (DUF3352); Region: DUF3352; pfam11832 1173022010512 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 1173022010513 active site residue [active] 1173022010514 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 1173022010515 Vault protein inter-alpha-trypsin domain; Region: VIT; cl02699 1173022010516 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 1173022010517 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_3; cd07820 1173022010518 putative hydrophobic ligand binding site [chemical binding]; other site 1173022010519 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 1173022010520 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 1173022010521 B12 binding site [chemical binding]; other site 1173022010522 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 1173022010523 FeS/SAM binding site; other site 1173022010524 Transglycosylase; Region: Transgly; pfam00912 1173022010525 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1173022010526 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1173022010527 Putative integral membrane protein (DUF2391); Region: DUF2391; pfam09622 1173022010528 Protein of unknown function (DUF2393); Region: DUF2393; pfam09624 1173022010529 TIGR02588 family protein; Region: TIGR02588 1173022010530 short chain dehydrogenase; Provisional; Region: PRK06701 1173022010531 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 1173022010532 NAD binding site [chemical binding]; other site 1173022010533 metal binding site [ion binding]; metal-binding site 1173022010534 active site 1173022010535 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1173022010536 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1173022010537 Probable transposase; Region: OrfB_IS605; pfam01385 1173022010538 Hemerythrin-like domain; Region: Hr-like; cd12108 1173022010539 Hemerythrin-like domain; Region: Hr-like; cd12108 1173022010540 Protein of unknown function (DUF2993); Region: DUF2993; pfam11209 1173022010541 Predicted membrane protein [Function unknown]; Region: COG4244 1173022010542 Protein of unknown function (DUF2809); Region: DUF2809; pfam10990 1173022010543 Homo sapiens acid phosphatase 5 and related proteins, metallophosphatase domain; Region: MPP_ACP5; cd07378 1173022010544 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1173022010545 active site 1173022010546 metal binding site [ion binding]; metal-binding site 1173022010547 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 1173022010548 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 1173022010549 putative active site cavity [active] 1173022010550 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 1173022010551 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 1173022010552 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 1173022010553 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 1173022010554 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1173022010555 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1173022010556 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 1173022010557 dimerization interface [polypeptide binding]; other site 1173022010558 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 1173022010559 dimer interface [polypeptide binding]; other site 1173022010560 phosphorylation site [posttranslational modification] 1173022010561 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 1173022010562 ATP binding site [chemical binding]; other site 1173022010563 Mg2+ binding site [ion binding]; other site 1173022010564 G-X-G motif; other site 1173022010565 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 1173022010566 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 1173022010567 substrate binding pocket [chemical binding]; other site 1173022010568 membrane-bound complex binding site; other site 1173022010569 hinge residues; other site 1173022010570 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 1173022010571 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 1173022010572 active site 1173022010573 DNA binding site [nucleotide binding] 1173022010574 Int/Topo IB signature motif; other site 1173022010575 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1173022010576 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 1173022010577 non-specific DNA binding site [nucleotide binding]; other site 1173022010578 salt bridge; other site 1173022010579 sequence-specific DNA binding site [nucleotide binding]; other site 1173022010580 Double zinc ribbon; Region: DZR; pfam12773 1173022010581 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1173022010582 Probable transposase; Region: OrfB_IS605; pfam01385 1173022010583 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 1173022010584 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 1173022010585 dimer interface [polypeptide binding]; other site 1173022010586 phosphorylation site [posttranslational modification] 1173022010587 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 1173022010588 ATP binding site [chemical binding]; other site 1173022010589 Mg2+ binding site [ion binding]; other site 1173022010590 G-X-G motif; other site 1173022010591 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 1173022010592 AAA domain; Region: AAA_23; pfam13476 1173022010593 Walker A/P-loop; other site 1173022010594 ATP binding site [chemical binding]; other site 1173022010595 Q-loop/lid; other site 1173022010596 exonuclease SbcC; Region: sbcc; TIGR00618 1173022010597 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 1173022010598 ABC transporter signature motif; other site 1173022010599 Walker B; other site 1173022010600 D-loop; other site 1173022010601 H-loop/switch region; other site 1173022010602 Glycosyl hydrolase family 9; Region: Glyco_hydro_9; cl02959 1173022010603 Conserved nitrate reductase-associated protein (Nitr_red_assoc); Region: Nitr_red_assoc; pfam09655 1173022010604 Predicted membrane protein [Function unknown]; Region: COG3431 1173022010605 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 1173022010606 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 1173022010607 [4Fe-4S] binding site [ion binding]; other site 1173022010608 molybdopterin cofactor binding site; other site 1173022010609 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 1173022010610 molybdopterin cofactor binding site; other site 1173022010611 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 1173022010612 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 1173022010613 ferredoxin-nitrite reductase; Reviewed; Region: nirA; PRK09566 1173022010614 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1173022010615 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1173022010616 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1173022010617 catalytic loop [active] 1173022010618 iron binding site [ion binding]; other site 1173022010619 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1173022010620 NMT1-like family; Region: NMT1_2; pfam13379 1173022010621 Uncharacterized conserved protein [Function unknown]; Region: COG5464 1173022010622 Domain of unknown function (DUF4351); Region: DUF4351; pfam14261 1173022010623 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1173022010624 nitrate transport ATP-binding subunits C and D; Region: ntrCD; TIGR01184 1173022010625 Walker A/P-loop; other site 1173022010626 ATP binding site [chemical binding]; other site 1173022010627 Q-loop/lid; other site 1173022010628 ABC transporter signature motif; other site 1173022010629 Walker B; other site 1173022010630 D-loop; other site 1173022010631 H-loop/switch region; other site 1173022010632 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1173022010633 nitrate transport ATP-binding subunits C and D; Region: ntrCD; TIGR01184 1173022010634 Walker A/P-loop; other site 1173022010635 ATP binding site [chemical binding]; other site 1173022010636 Q-loop/lid; other site 1173022010637 ABC transporter signature motif; other site 1173022010638 Walker B; other site 1173022010639 D-loop; other site 1173022010640 H-loop/switch region; other site 1173022010641 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1173022010642 NMT1-like family; Region: NMT1_2; pfam13379 1173022010643 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1173022010644 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 1173022010645 dimer interface [polypeptide binding]; other site 1173022010646 conserved gate region; other site 1173022010647 putative PBP binding loops; other site 1173022010648 ABC-ATPase subunit interface; other site 1173022010649 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1173022010650 NMT1-like family; Region: NMT1_2; pfam13379 1173022010651 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1173022010652 Permease; Region: Permease; cl00510 1173022010653 tRNA threonylcarbamoyl adenosine modification protein, Sua5/YciO/YrdC/YwlC family; Region: TIGR00057 1173022010654 hypothetical protein; Provisional; Region: PRK04194 1173022010655 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 1173022010656 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 1173022010657 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1173022010658 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1173022010659 G1 box; other site 1173022010660 putative GEF interaction site [polypeptide binding]; other site 1173022010661 GTP/Mg2+ binding site [chemical binding]; other site 1173022010662 Switch I region; other site 1173022010663 G2 box; other site 1173022010664 G3 box; other site 1173022010665 Switch II region; other site 1173022010666 G4 box; other site 1173022010667 G5 box; other site 1173022010668 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 1173022010669 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 1173022010670 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1173022010671 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1173022010672 active site 1173022010673 ATP binding site [chemical binding]; other site 1173022010674 substrate binding site [chemical binding]; other site 1173022010675 activation loop (A-loop); other site 1173022010676 putative pectinesterase; Region: PLN02432; cl01911 1173022010677 Right handed beta helix region; Region: Beta_helix; pfam13229 1173022010678 Right handed beta helix region; Region: Beta_helix; pfam13229 1173022010679 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 1173022010680 Double zinc ribbon; Region: DZR; pfam12773 1173022010681 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 1173022010682 metal ion-dependent adhesion site (MIDAS); other site 1173022010683 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1173022010684 active site 1173022010685 ATP binding site [chemical binding]; other site 1173022010686 substrate binding site [chemical binding]; other site 1173022010687 activation loop (A-loop); other site 1173022010688 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 1173022010689 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 1173022010690 phosphopeptide binding site; other site 1173022010691 Serine/threonine protein phosphatase [Signal transduction mechanisms]; Region: PTC1; COG0631 1173022010692 active site 1173022010693 Predicted transcriptional regulators [Transcription]; Region: COG1733 1173022010694 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1173022010695 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1173022010696 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 1173022010697 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK07364 1173022010698 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1173022010699 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022010700 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 1173022010701 active site 1173022010702 phosphorylation site [posttranslational modification] 1173022010703 intermolecular recognition site; other site 1173022010704 dimerization interface [polypeptide binding]; other site 1173022010705 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1173022010706 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 1173022010707 putative active site [active] 1173022010708 heme pocket [chemical binding]; other site 1173022010709 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 1173022010710 dimer interface [polypeptide binding]; other site 1173022010711 phosphorylation site [posttranslational modification] 1173022010712 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 1173022010713 ATP binding site [chemical binding]; other site 1173022010714 Mg2+ binding site [ion binding]; other site 1173022010715 G-X-G motif; other site 1173022010716 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1173022010717 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 1173022010718 active site 1173022010719 phosphorylation site [posttranslational modification] 1173022010720 intermolecular recognition site; other site 1173022010721 dimerization interface [polypeptide binding]; other site 1173022010722 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022010723 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 1173022010724 active site 1173022010725 phosphorylation site [posttranslational modification] 1173022010726 intermolecular recognition site; other site 1173022010727 dimerization interface [polypeptide binding]; other site 1173022010728 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022010729 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1173022010730 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 1173022010731 PAS fold; Region: PAS_3; pfam08447 1173022010732 putative active site [active] 1173022010733 heme pocket [chemical binding]; other site 1173022010734 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1173022010735 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 1173022010736 dimer interface [polypeptide binding]; other site 1173022010737 phosphorylation site [posttranslational modification] 1173022010738 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 1173022010739 ATP binding site [chemical binding]; other site 1173022010740 Mg2+ binding site [ion binding]; other site 1173022010741 G-X-G motif; other site 1173022010742 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1173022010743 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1173022010744 active site 1173022010745 ATP binding site [chemical binding]; other site 1173022010746 substrate binding site [chemical binding]; other site 1173022010747 activation loop (A-loop); other site 1173022010748 AAA ATPase domain; Region: AAA_16; pfam13191 1173022010749 Predicted ATPase [General function prediction only]; Region: COG3899 1173022010750 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022010751 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1173022010752 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 1173022010753 dimer interface [polypeptide binding]; other site 1173022010754 phosphorylation site [posttranslational modification] 1173022010755 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 1173022010756 ATP binding site [chemical binding]; other site 1173022010757 Mg2+ binding site [ion binding]; other site 1173022010758 G-X-G motif; other site 1173022010759 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1173022010760 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 1173022010761 active site 1173022010762 phosphorylation site [posttranslational modification] 1173022010763 intermolecular recognition site; other site 1173022010764 dimerization interface [polypeptide binding]; other site 1173022010765 hypothetical protein; Validated; Region: PRK00110 1173022010766 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022010767 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 1173022010768 active site 1173022010769 phosphorylation site [posttranslational modification] 1173022010770 intermolecular recognition site; other site 1173022010771 dimerization interface [polypeptide binding]; other site 1173022010772 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1173022010773 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1173022010774 metal binding site [ion binding]; metal-binding site 1173022010775 active site 1173022010776 I-site; other site 1173022010777 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 1173022010778 GAF domain; Region: GAF; pfam01590 1173022010779 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022010780 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1173022010781 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 1173022010782 dimer interface [polypeptide binding]; other site 1173022010783 phosphorylation site [posttranslational modification] 1173022010784 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 1173022010785 ATP binding site [chemical binding]; other site 1173022010786 Mg2+ binding site [ion binding]; other site 1173022010787 G-X-G motif; other site 1173022010788 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022010789 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1173022010790 PAS fold; Region: PAS_4; pfam08448 1173022010791 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 1173022010792 putative active site [active] 1173022010793 heme pocket [chemical binding]; other site 1173022010794 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022010795 GAF domain; Region: GAF; pfam01590 1173022010796 PAS domain S-box; Region: sensory_box; TIGR00229 1173022010797 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 1173022010798 putative active site [active] 1173022010799 heme pocket [chemical binding]; other site 1173022010800 PAS domain S-box; Region: sensory_box; TIGR00229 1173022010801 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 1173022010802 putative active site [active] 1173022010803 heme pocket [chemical binding]; other site 1173022010804 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1173022010805 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 1173022010806 putative active site [active] 1173022010807 heme pocket [chemical binding]; other site 1173022010808 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 1173022010809 dimer interface [polypeptide binding]; other site 1173022010810 phosphorylation site [posttranslational modification] 1173022010811 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 1173022010812 ATP binding site [chemical binding]; other site 1173022010813 Mg2+ binding site [ion binding]; other site 1173022010814 G-X-G motif; other site 1173022010815 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1173022010816 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1173022010817 glucokinase; Provisional; Region: glk; PRK00292 1173022010818 glucokinase, proteobacterial type; Region: glk; TIGR00749 1173022010819 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 1173022010820 catalytic core [active] 1173022010821 RNA polymerase sigma factor SigD; Validated; Region: PRK07405 1173022010822 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1173022010823 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1173022010824 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1173022010825 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 1173022010826 DNA binding residues [nucleotide binding] 1173022010827 Protein of unknown function (DUF760); Region: DUF760; pfam05542 1173022010828 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 1173022010829 active site 1173022010830 8-oxo-dGMP binding site [chemical binding]; other site 1173022010831 nudix motif; other site 1173022010832 metal binding site [ion binding]; metal-binding site 1173022010833 adaptive-response sensory kinase; Validated; Region: PRK09303 1173022010834 KaiB-like family; composed of the circadian clock proteins, KaiB and the N-terminal KaiB-like sensory domain of SasA. KaiB is an essential protein in maintaining circadian rhythm. It was originally discovered from the cyanobacterium Synechococcus as part...; Region: KaiB_like; cd02978 1173022010835 tetramer interface [polypeptide binding]; other site 1173022010836 dimer interface [polypeptide binding]; other site 1173022010837 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 1173022010838 dimer interface [polypeptide binding]; other site 1173022010839 phosphorylation site [posttranslational modification] 1173022010840 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 1173022010841 ATP binding site [chemical binding]; other site 1173022010842 Mg2+ binding site [ion binding]; other site 1173022010843 G-X-G motif; other site 1173022010844 Uncharacterized conserved protein [Function unknown]; Region: COG1543 1173022010845 N-terminal catalytic domain of alpha-amylase ( AmyC ) and similar proteins; Region: GH57N_AmyC_like; cd10792 1173022010846 active site 1173022010847 substrate binding site [chemical binding]; other site 1173022010848 catalytic site [active] 1173022010849 Domain of unknown function (DUF1957); Region: DUF1957; pfam09210 1173022010850 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1173022010851 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1173022010852 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 1173022010853 putative dimerization interface [polypeptide binding]; other site 1173022010854 NAD(P)H-quinone oxidoreductase subunit F; Validated; Region: PRK07390 1173022010855 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 1173022010856 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1173022010857 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeC; cd03378 1173022010858 active site clefts [active] 1173022010859 zinc binding site [ion binding]; other site 1173022010860 dimer interface [polypeptide binding]; other site 1173022010861 NAD(P)H-quinone oxidoreductase subunit M; Validated; Region: PRK07363 1173022010862 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1173022010863 CO2 hydration protein (ChpXY); Region: ChpXY; cl10905 1173022010864 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 1173022010865 Fasciclin domain; Region: Fasciclin; pfam02469 1173022010866 apocytochrome f; Reviewed; Region: PRK02693 1173022010867 cytochrome f; Region: petA; CHL00037 1173022010868 cytochrome b6-f complex iron-sulfur subunit; Provisional; Region: PRK13474 1173022010869 Cytochrome B6-F complex Fe-S subunit; Region: CytB6-F_Fe-S; pfam08802 1173022010870 Iron-sulfur protein (ISP) component of the b6f complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The cytochrome b6f complex from Mastigocladus laminosus, a thermophilic cyanobacterium; Region: Rieske_cytochrome_b6f; cd03471 1173022010871 cytochrome b subunit interaction site [polypeptide binding]; other site 1173022010872 [2Fe-2S] cluster binding site [ion binding]; other site 1173022010873 Protein of unknown function (DUF3067); Region: DUF3067; pfam11267 1173022010874 Sec-independent translocase component C; Provisional; Region: tatC; CHL00182 1173022010875 Alpha/beta hydrolase of unknown function (DUF1400); Region: DUF1400; pfam07176 1173022010876 Predicted dienelactone hydrolase [General function prediction only]; Region: COG4188 1173022010877 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1173022010878 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 1173022010879 trimer interface [polypeptide binding]; other site 1173022010880 dimer interface [polypeptide binding]; other site 1173022010881 putative active site [active] 1173022010882 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 1173022010883 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1173022010884 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 1173022010885 putative substrate translocation pore; other site 1173022010886 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 1173022010887 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1173022010888 Putative Catalytic site; other site 1173022010889 DXD motif; other site 1173022010890 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1173022010891 NlpC/P60 family; Region: NLPC_P60; pfam00877 1173022010892 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 1173022010893 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 1173022010894 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1173022010895 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_11; cd06346 1173022010896 putative ligand binding site [chemical binding]; other site 1173022010897 Protein of unknown function (DUF1012); Region: DUF1012; pfam06241 1173022010898 This family is most closely related to the GT1 family of glycosyltransferases. The sucrose-phosphate synthases in this family may be unique to plants and photosynthetic bacteria. This enzyme catalyzes the synthesis of sucrose 6-phosphate from fructose...; Region: GT1_Sucrose_synthase; cd03800 1173022010899 D-inositol-3-phosphate glycosyltransferase; Region: mycothiol_MshA; TIGR03449 1173022010900 putative ADP-binding pocket [chemical binding]; other site 1173022010901 alanine racemase; Reviewed; Region: alr; PRK00053 1173022010902 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 1173022010903 active site 1173022010904 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1173022010905 dimer interface [polypeptide binding]; other site 1173022010906 substrate binding site [chemical binding]; other site 1173022010907 catalytic residues [active] 1173022010908 Biofilm formation and stress response factor; Region: BsmA; cl01794 1173022010909 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 1173022010910 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022010911 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 1173022010912 active site 1173022010913 phosphorylation site [posttranslational modification] 1173022010914 intermolecular recognition site; other site 1173022010915 dimerization interface [polypeptide binding]; other site 1173022010916 DNA primase; Validated; Region: dnaG; PRK05667 1173022010917 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1173022010918 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1173022010919 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 1173022010920 active site 1173022010921 metal binding site [ion binding]; metal-binding site 1173022010922 interdomain interaction site; other site 1173022010923 phosphoenolpyruvate synthase; Validated; Region: PRK06464 1173022010924 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1173022010925 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1173022010926 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1173022010927 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 1173022010928 Divergent AAA domain; Region: AAA_4; pfam04326 1173022010929 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 1173022010930 ribbon-helix-helix domain containing protein; Region: PHA00617 1173022010931 short chain dehydrogenase; Provisional; Region: PRK07109 1173022010932 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 1173022010933 putative NAD(P) binding site [chemical binding]; other site 1173022010934 active site 1173022010935 Domain of unknown function (DUF4336); Region: DUF4336; pfam14234 1173022010936 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 1173022010937 S-adenosylmethionine binding site [chemical binding]; other site 1173022010938 elongation factor G; Reviewed; Region: PRK00007 1173022010939 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1173022010940 G1 box; other site 1173022010941 putative GEF interaction site [polypeptide binding]; other site 1173022010942 GTP/Mg2+ binding site [chemical binding]; other site 1173022010943 Switch I region; other site 1173022010944 G2 box; other site 1173022010945 G3 box; other site 1173022010946 Switch II region; other site 1173022010947 G4 box; other site 1173022010948 G5 box; other site 1173022010949 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 1173022010950 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 1173022010951 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 1173022010952 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1173022010953 AAA ATPase domain; Region: AAA_16; pfam13191 1173022010954 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 1173022010955 FOG: WD40 repeat [General function prediction only]; Region: COG2319 1173022010956 structural tetrad; other site 1173022010957 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 1173022010958 structural tetrad; other site 1173022010959 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 1173022010960 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1173022010961 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1173022010962 Protein of unknown function (DUF3119); Region: DUF3119; pfam11317 1173022010963 Protein of unknown function (DUF3086); Region: DUF3086; pfam11285 1173022010964 membrane protein; Provisional; Region: PRK14419 1173022010965 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 1173022010966 pyrroline-5-carboxylate reductase; Region: PLN02688 1173022010967 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1799 1173022010968 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 1173022010969 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1173022010970 catalytic residue [active] 1173022010971 Protein of unknown function (DUF3539); Region: DUF3539; pfam12058 1173022010972 anthranilate synthase component I-like protein; Validated; Region: PRK05940 1173022010973 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1173022010974 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1173022010975 Cobalt transport protein; Region: CbiQ; cl00463 1173022010976 GTP-binding protein Der; Reviewed; Region: PRK00093 1173022010977 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1173022010978 G1 box; other site 1173022010979 GTP/Mg2+ binding site [chemical binding]; other site 1173022010980 Switch I region; other site 1173022010981 G2 box; other site 1173022010982 Switch II region; other site 1173022010983 G3 box; other site 1173022010984 G4 box; other site 1173022010985 G5 box; other site 1173022010986 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1173022010987 G1 box; other site 1173022010988 GTP/Mg2+ binding site [chemical binding]; other site 1173022010989 Switch I region; other site 1173022010990 G2 box; other site 1173022010991 G3 box; other site 1173022010992 Switch II region; other site 1173022010993 G4 box; other site 1173022010994 G5 box; other site 1173022010995 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1173022010996 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 1173022010997 active site 1173022010998 catalytic site [active] 1173022010999 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1173022011000 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 1173022011001 ATP binding site [chemical binding]; other site 1173022011002 putative Mg++ binding site [ion binding]; other site 1173022011003 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 1173022011004 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 1173022011005 nucleotide binding region [chemical binding]; other site 1173022011006 ATP-binding site [chemical binding]; other site 1173022011007 RDD family; Region: RDD; pfam06271 1173022011008 ribosomal protein L33; Region: rpl33; CHL00104 1173022011009 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 1173022011010 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 1173022011011 RNB domain; Region: RNB; pfam00773 1173022011012 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 1173022011013 anti sigma factor interaction site; other site 1173022011014 regulatory phosphorylation site [posttranslational modification]; other site 1173022011015 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 1173022011016 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 1173022011017 B12 binding site [chemical binding]; other site 1173022011018 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 1173022011019 FeS/SAM binding site; other site 1173022011020 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; cl02090 1173022011021 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 1173022011022 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 1173022011023 putative active site [active] 1173022011024 Uncharacterized protein family (UPF0175); Region: UPF0175; pfam03683 1173022011025 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1173022011026 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 1173022011027 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1173022011028 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 1173022011029 dimer interface [polypeptide binding]; other site 1173022011030 putative functional site; other site 1173022011031 putative MPT binding site; other site 1173022011032 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1173022011033 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1173022011034 active site 1173022011035 ATP binding site [chemical binding]; other site 1173022011036 substrate binding site [chemical binding]; other site 1173022011037 activation loop (A-loop); other site 1173022011038 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022011039 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1173022011040 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022011041 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022011042 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1173022011043 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 1173022011044 putative tRNA-binding site [nucleotide binding]; other site 1173022011045 B3/4 domain; Region: B3_4; pfam03483 1173022011046 tRNA synthetase B5 domain; Region: B5; smart00874 1173022011047 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 1173022011048 dimer interface [polypeptide binding]; other site 1173022011049 motif 1; other site 1173022011050 motif 3; other site 1173022011051 motif 2; other site 1173022011052 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 1173022011053 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 1173022011054 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1173022011055 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 1173022011056 YciI-like protein; Reviewed; Region: PRK12864 1173022011057 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 1173022011058 cobalt-precorrin-6x reductase; Reviewed; Region: PRK08057 1173022011059 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 1173022011060 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 1173022011061 active site 1173022011062 Substrate binding site; other site 1173022011063 Mg++ binding site; other site 1173022011064 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 1173022011065 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1173022011066 GTP-mannose-1-phosphate guanyltransferase (MPG1 transferase), also known as GDP-mannose pyrophosphorylase, is a bifunctional enzyme with both phosphomannose isomerase (PMI) activity and GDP-mannose phosphorylase (GMP) activity. The protein contains an...; Region: MPG1_transferase; cd05805 1173022011067 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1173022011068 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 1173022011069 dimer interface [polypeptide binding]; other site 1173022011070 ssDNA binding site [nucleotide binding]; other site 1173022011071 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1173022011072 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR_like; cd08242 1173022011073 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1173022011074 putative NAD(P) binding site [chemical binding]; other site 1173022011075 catalytic Zn binding site [ion binding]; other site 1173022011076 structural Zn binding site [ion binding]; other site 1173022011077 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 1173022011078 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 1173022011079 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 1173022011080 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1173022011081 active site 1173022011082 dimer interface [polypeptide binding]; other site 1173022011083 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 1173022011084 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 1173022011085 active site 1173022011086 catalytic tetrad [active] 1173022011087 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 1173022011088 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 1173022011089 S-adenosylmethionine binding site [chemical binding]; other site 1173022011090 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The...; Region: SANT; cl17250 1173022011091 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1173022011092 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1173022011093 Walker A/P-loop; other site 1173022011094 ATP binding site [chemical binding]; other site 1173022011095 Q-loop/lid; other site 1173022011096 ABC transporter signature motif; other site 1173022011097 Walker B; other site 1173022011098 D-loop; other site 1173022011099 H-loop/switch region; other site 1173022011100 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 1173022011101 binding surface 1173022011102 TPR motif; other site 1173022011103 Protein of unknown function (DUF3531); Region: DUF3531; pfam12049 1173022011104 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 1173022011105 four helix bundle protein; Region: TIGR02436 1173022011106 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 1173022011107 PAS domain S-box; Region: sensory_box; TIGR00229 1173022011108 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 1173022011109 putative active site [active] 1173022011110 heme pocket [chemical binding]; other site 1173022011111 PAS domain S-box; Region: sensory_box; TIGR00229 1173022011112 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 1173022011113 putative active site [active] 1173022011114 heme pocket [chemical binding]; other site 1173022011115 PAS domain S-box; Region: sensory_box; TIGR00229 1173022011116 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 1173022011117 putative active site [active] 1173022011118 heme pocket [chemical binding]; other site 1173022011119 PAS domain; Region: PAS_8; pfam13188 1173022011120 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1173022011121 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 1173022011122 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1173022011123 putative active site [active] 1173022011124 heme pocket [chemical binding]; other site 1173022011125 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 1173022011126 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1173022011127 putative active site [active] 1173022011128 heme pocket [chemical binding]; other site 1173022011129 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 1173022011130 putative active site [active] 1173022011131 heme pocket [chemical binding]; other site 1173022011132 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022011133 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1173022011134 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 1173022011135 dimer interface [polypeptide binding]; other site 1173022011136 phosphorylation site [posttranslational modification] 1173022011137 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 1173022011138 ATP binding site [chemical binding]; other site 1173022011139 Mg2+ binding site [ion binding]; other site 1173022011140 G-X-G motif; other site 1173022011141 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1173022011142 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 1173022011143 active site 1173022011144 phosphorylation site [posttranslational modification] 1173022011145 intermolecular recognition site; other site 1173022011146 dimerization interface [polypeptide binding]; other site 1173022011147 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 1173022011148 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 1173022011149 ATP binding site [chemical binding]; other site 1173022011150 putative Mg++ binding site [ion binding]; other site 1173022011151 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 1173022011152 nucleotide binding region [chemical binding]; other site 1173022011153 ATP-binding site [chemical binding]; other site 1173022011154 Protein of unknown function (DUF1565); Region: DUF1565; pfam07602 1173022011155 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 1173022011156 S-layer homology domain; Region: SLH; pfam00395 1173022011157 S-layer homology domain; Region: SLH; pfam00395 1173022011158 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022011159 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 1173022011160 active site 1173022011161 phosphorylation site [posttranslational modification] 1173022011162 intermolecular recognition site; other site 1173022011163 dimerization interface [polypeptide binding]; other site 1173022011164 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1173022011165 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 1173022011166 dimer interface [polypeptide binding]; other site 1173022011167 phosphorylation site [posttranslational modification] 1173022011168 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 1173022011169 ATP binding site [chemical binding]; other site 1173022011170 Mg2+ binding site [ion binding]; other site 1173022011171 G-X-G motif; other site 1173022011172 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022011173 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1173022011174 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022011175 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1173022011176 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 1173022011177 PAS domain; Region: PAS_9; pfam13426 1173022011178 putative active site [active] 1173022011179 heme pocket [chemical binding]; other site 1173022011180 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1173022011181 Histidine kinase; Region: HisKA_2; pfam07568 1173022011182 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 1173022011183 ATP binding site [chemical binding]; other site 1173022011184 Mg2+ binding site [ion binding]; other site 1173022011185 G-X-G motif; other site 1173022011186 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 1173022011187 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 1173022011188 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1173022011189 RNA polymerase sigma factor, cyanobacterial RpoD-like family; Region: Sig70-cyanoRpoD; TIGR02997 1173022011190 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1173022011191 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1173022011192 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 1173022011193 DNA binding residues [nucleotide binding] 1173022011194 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1173022011195 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 1173022011196 NodB motif; other site 1173022011197 active site 1173022011198 catalytic site [active] 1173022011199 metal binding site [ion binding]; metal-binding site 1173022011200 30S ribosomal protein S1; Reviewed; Region: PRK07400 1173022011201 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 1173022011202 RNA binding site [nucleotide binding]; other site 1173022011203 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 1173022011204 RNA binding site [nucleotide binding]; other site 1173022011205 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; cd00164 1173022011206 RNA binding site [nucleotide binding]; other site 1173022011207 Dienelactone hydrolase family; Region: DLH; pfam01738 1173022011208 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 1173022011209 Predicted transcriptional regulators [Transcription]; Region: COG1725 1173022011210 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1173022011211 DNA-binding site [nucleotide binding]; DNA binding site 1173022011212 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK02812 1173022011213 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1173022011214 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1173022011215 active site 1173022011216 TPR repeat; Region: TPR_11; pfam13414 1173022011217 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 1173022011218 binding surface 1173022011219 TPR motif; other site 1173022011220 TPR repeat; Region: TPR_11; pfam13414 1173022011221 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1173022011222 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 1173022011223 substrate binding pocket [chemical binding]; other site 1173022011224 membrane-bound complex binding site; other site 1173022011225 hinge residues; other site 1173022011226 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1173022011227 23S rRNA binding site [nucleotide binding]; other site 1173022011228 L21 binding site [polypeptide binding]; other site 1173022011229 L13 binding site [polypeptide binding]; other site 1173022011230 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1173022011231 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 1173022011232 Family description; Region: UvrD_C_2; pfam13538 1173022011233 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 1173022011234 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1173022011235 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 1173022011236 S-adenosylmethionine binding site [chemical binding]; other site 1173022011237 MEKHLA domain; Region: MEKHLA; pfam08670 1173022011238 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 1173022011239 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022011240 active site 1173022011241 phosphorylation site [posttranslational modification] 1173022011242 intermolecular recognition site; other site 1173022011243 dimerization interface [polypeptide binding]; other site 1173022011244 GAF domain; Region: GAF_2; pfam13185 1173022011245 GAF domain; Region: GAF; pfam01590 1173022011246 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 1173022011247 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 1173022011248 binding surface 1173022011249 TPR motif; other site 1173022011250 TPR repeat; Region: TPR_11; pfam13414 1173022011251 GTPase RsgA; Reviewed; Region: PRK12289 1173022011252 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 1173022011253 RNA binding site [nucleotide binding]; other site 1173022011254 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1173022011255 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1173022011256 GTP/Mg2+ binding site [chemical binding]; other site 1173022011257 G4 box; other site 1173022011258 G5 box; other site 1173022011259 G1 box; other site 1173022011260 Switch I region; other site 1173022011261 G2 box; other site 1173022011262 G3 box; other site 1173022011263 Switch II region; other site 1173022011264 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 1173022011265 CPxP motif; other site 1173022011266 chaperone protein DnaJ; Provisional; Region: PRK14293 1173022011267 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 1173022011268 HSP70 interaction site [polypeptide binding]; other site 1173022011269 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1173022011270 Zn binding sites [ion binding]; other site 1173022011271 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1173022011272 dimer interface [polypeptide binding]; other site 1173022011273 molecular chaperone DnaK; Provisional; Region: PRK13411 1173022011274 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 1173022011275 nucleotide binding site [chemical binding]; other site 1173022011276 NEF interaction site [polypeptide binding]; other site 1173022011277 SBD interface [polypeptide binding]; other site 1173022011278 GrpE; Region: GrpE; pfam01025 1173022011279 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 1173022011280 dimer interface [polypeptide binding]; other site 1173022011281 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1173022011282 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1173022011283 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 1173022011284 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 1173022011285 Walker A motif; other site 1173022011286 ATP binding site [chemical binding]; other site 1173022011287 Walker B motif; other site 1173022011288 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 1173022011289 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 1173022011290 Walker A motif; other site 1173022011291 ATP binding site [chemical binding]; other site 1173022011292 Walker B motif; other site 1173022011293 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 1173022011294 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1173022011295 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1173022011296 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14457 1173022011297 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 1173022011298 FeS/SAM binding site; other site 1173022011299 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 1173022011300 PAS domain; Region: PAS_9; pfam13426 1173022011301 putative active site [active] 1173022011302 heme pocket [chemical binding]; other site 1173022011303 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022011304 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1173022011305 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 1173022011306 PAS fold; Region: PAS_3; pfam08447 1173022011307 putative active site [active] 1173022011308 heme pocket [chemical binding]; other site 1173022011309 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1173022011310 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 1173022011311 dimer interface [polypeptide binding]; other site 1173022011312 phosphorylation site [posttranslational modification] 1173022011313 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 1173022011314 ATP binding site [chemical binding]; other site 1173022011315 Mg2+ binding site [ion binding]; other site 1173022011316 G-X-G motif; other site 1173022011317 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1173022011318 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: MGAT-like; Region: LPLAT_MGAT-like; cd07987 1173022011319 putative acyl-acceptor binding pocket; other site 1173022011320 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1173022011321 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1173022011322 active site 1173022011323 ATP binding site [chemical binding]; other site 1173022011324 substrate binding site [chemical binding]; other site 1173022011325 activation loop (A-loop); other site 1173022011326 GUN4-like; Region: GUN4; pfam05419 1173022011327 GUN4-like; Region: GUN4; pfam05419 1173022011328 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 1173022011329 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 1173022011330 homodimer interface [polypeptide binding]; other site 1173022011331 substrate-cofactor binding pocket; other site 1173022011332 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1173022011333 catalytic residue [active] 1173022011334 Cystatin-like domain; Cystatins are a family of cysteine protease inhibitors that occur mainly as single domain proteins. However some extracellular proteins such as kininogen, His-rich glycoprotein and fetuin also contain these domains; Region: CY; cl09238 1173022011335 putative proteinase inhibition site; other site 1173022011336 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1173022011337 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1173022011338 GIY-YIG motif/motif A; other site 1173022011339 active site 1173022011340 catalytic site [active] 1173022011341 putative DNA binding site [nucleotide binding]; other site 1173022011342 metal binding site [ion binding]; metal-binding site 1173022011343 UvrB/uvrC motif; Region: UVR; pfam02151 1173022011344 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1173022011345 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1173022011346 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1173022011347 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 1173022011348 succinyldiaminopimelate transaminase; Validated; Region: PRK07366 1173022011349 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 1173022011350 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1173022011351 homodimer interface [polypeptide binding]; other site 1173022011352 catalytic residue [active] 1173022011353 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 1173022011354 catalytic residues [active] 1173022011355 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 1173022011356 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 1173022011357 Protein of unknown function (DUF721); Region: DUF721; cl02324 1173022011358 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1173022011359 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 1173022011360 substrate binding site [chemical binding]; other site 1173022011361 oxyanion hole (OAH) forming residues; other site 1173022011362 trimer interface [polypeptide binding]; other site 1173022011363 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1173022011364 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1173022011365 active site 1173022011366 ATP binding site [chemical binding]; other site 1173022011367 substrate binding site [chemical binding]; other site 1173022011368 activation loop (A-loop); other site 1173022011369 Right handed beta helix region; Region: Beta_helix; pfam13229 1173022011370 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 1173022011371 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 1173022011372 dimer interface [polypeptide binding]; other site 1173022011373 tetramer interface [polypeptide binding]; other site 1173022011374 PYR/PP interface [polypeptide binding]; other site 1173022011375 TPP binding site [chemical binding]; other site 1173022011376 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key...; Region: TPP_SHCHC_synthase; cd02009 1173022011377 TPP-binding site; other site 1173022011378 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 1173022011379 putative active site [active] 1173022011380 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 1173022011381 chorismate binding enzyme; Region: Chorismate_bind; cl10555 1173022011382 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Provisional; Region: PRK07419 1173022011383 UbiA prenyltransferase family; Region: UbiA; pfam01040 1173022011384 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1173022011385 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 1173022011386 S-adenosylmethionine binding site [chemical binding]; other site 1173022011387 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1173022011388 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Region: menH_SHCHC; TIGR03695 1173022011389 O-succinylbenzoate synthase; Provisional; Region: PRK02714 1173022011390 o-Succinylbenzoate synthase (OSBS) catalyzes the conversion of 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate (SHCHC) to 4-(2'-carboxyphenyl)-4-oxobutyrate (o-succinylbenzoate or OSB), a reaction in the menaquinone biosynthetic pathway; Region: OSBS; cd03320 1173022011391 active site 1173022011392 O-succinylbenzoic acid--CoA ligase; Reviewed; Region: PRK07445 1173022011393 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 1173022011394 acyl-activating enzyme (AAE) consensus motif; other site 1173022011395 putative AMP binding site [chemical binding]; other site 1173022011396 putative active site [active] 1173022011397 putative CoA binding site [chemical binding]; other site 1173022011398 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 1173022011399 active site 1173022011400 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 1173022011401 EF-hand domain pair; Region: EF_hand_5; pfam13499 1173022011402 Ca2+ binding site [ion binding]; other site 1173022011403 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 1173022011404 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 1173022011405 Walker A motif; other site 1173022011406 ATP binding site [chemical binding]; other site 1173022011407 Walker B motif; other site 1173022011408 phosphodiesterase YaeI; Provisional; Region: PRK11340 1173022011409 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 1173022011410 putative active site [active] 1173022011411 putative metal binding site [ion binding]; other site 1173022011412 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1173022011413 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1173022011414 Coenzyme A binding pocket [chemical binding]; other site 1173022011415 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022011416 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 1173022011417 active site 1173022011418 phosphorylation site [posttranslational modification] 1173022011419 intermolecular recognition site; other site 1173022011420 dimerization interface [polypeptide binding]; other site 1173022011421 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022011422 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1173022011423 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022011424 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1173022011425 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1173022011426 cyclase homology domain; Region: CHD; cd07302 1173022011427 nucleotidyl binding site; other site 1173022011428 metal binding site [ion binding]; metal-binding site 1173022011429 dimer interface [polypeptide binding]; other site 1173022011430 MjaII restriction endonuclease; Region: RE_MjaII; pfam09520 1173022011431 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 1173022011432 cofactor binding site; other site 1173022011433 DNA binding site [nucleotide binding] 1173022011434 substrate interaction site [chemical binding]; other site 1173022011435 Bromovirus movement protein; Region: Bromo_MP; pfam01573 1173022011436 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 1173022011437 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1173022011438 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1173022011439 EamA-like transporter family; Region: EamA; pfam00892 1173022011440 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1173022011441 EamA-like transporter family; Region: EamA; pfam00892 1173022011442 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1173022011443 Phosphate transporter family; Region: PHO4; pfam01384 1173022011444 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 1173022011445 YcfA-like protein; Region: YcfA; cl00752 1173022011446 deoxyhypusine synthase-like protein; Provisional; Region: PRK00770 1173022011447 deoxyhypusine synthase; Region: dhys; TIGR00321 1173022011448 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 1173022011449 putative ADP-ribose binding site [chemical binding]; other site 1173022011450 putative active site [active] 1173022011451 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 1173022011452 Cob(I)alamin adenosyltransferase N terminal; Region: Co_AT_N; pfam12557 1173022011453 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 1173022011454 homodimer interface [polypeptide binding]; other site 1173022011455 Walker A motif; other site 1173022011456 ATP binding site [chemical binding]; other site 1173022011457 hydroxycobalamin binding site [chemical binding]; other site 1173022011458 Walker B motif; other site 1173022011459 RNA polymerase sigma factor; Validated; Region: PRK05949 1173022011460 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1173022011461 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1173022011462 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1173022011463 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 1173022011464 DNA binding residues [nucleotide binding] 1173022011465 HAS barrel domain; Region: HAS-barrel; pfam09378 1173022011466 HerA helicase [Replication, recombination, and repair]; Region: COG0433 1173022011467 Domain of unknown function DUF87; Region: DUF87; pfam01935 1173022011468 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1173022011469 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 1173022011470 C-terminal domain interface [polypeptide binding]; other site 1173022011471 GSH binding site (G-site) [chemical binding]; other site 1173022011472 dimer interface [polypeptide binding]; other site 1173022011473 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1173022011474 substrate binding pocket (H-site) [chemical binding]; other site 1173022011475 N-terminal domain interface [polypeptide binding]; other site 1173022011476 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1173022011477 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1173022011478 Circadian oscillating protein COP23; Region: COP23; pfam14218 1173022011479 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 1173022011480 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1173022011481 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1173022011482 TPR repeat; Region: TPR_11; pfam13414 1173022011483 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 1173022011484 binding surface 1173022011485 TPR motif; other site 1173022011486 TPR repeat; Region: TPR_11; pfam13414 1173022011487 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1173022011488 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1173022011489 active site 1173022011490 ATP binding site [chemical binding]; other site 1173022011491 substrate binding site [chemical binding]; other site 1173022011492 activation loop (A-loop); other site 1173022011493 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 1173022011494 Phosphoglycerate kinase; Region: PGK; pfam00162 1173022011495 substrate binding site [chemical binding]; other site 1173022011496 hinge regions; other site 1173022011497 ADP binding site [chemical binding]; other site 1173022011498 catalytic site [active] 1173022011499 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 1173022011500 Ligand Binding Site [chemical binding]; other site 1173022011501 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 1173022011502 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 1173022011503 GTP/Mg2+ binding site [chemical binding]; other site 1173022011504 G4 box; other site 1173022011505 G5 box; other site 1173022011506 G1 box; other site 1173022011507 Switch I region; other site 1173022011508 G2 box; other site 1173022011509 G3 box; other site 1173022011510 Switch II region; other site 1173022011511 Isochorismatase family; Region: Isochorismatase; pfam00857 1173022011512 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 1173022011513 catalytic triad [active] 1173022011514 conserved cis-peptide bond; other site 1173022011515 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 1173022011516 Coenzyme Q (ubiquinone) biosynthesis protein Coq4; Region: Coq4; cl02093 1173022011517 proton extrusion protein PcxA; Provisional; Region: PRK02507 1173022011518 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1173022011519 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 1173022011520 putative metal binding site; other site 1173022011521 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 1173022011522 binding surface 1173022011523 TPR motif; other site 1173022011524 TPR repeat; Region: TPR_11; pfam13414 1173022011525 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 1173022011526 binding surface 1173022011527 TPR repeat; Region: TPR_11; pfam13414 1173022011528 TPR motif; other site 1173022011529 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1173022011530 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1173022011531 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1173022011532 Walker A/P-loop; other site 1173022011533 ATP binding site [chemical binding]; other site 1173022011534 Q-loop/lid; other site 1173022011535 ABC transporter signature motif; other site 1173022011536 Walker B; other site 1173022011537 D-loop; other site 1173022011538 H-loop/switch region; other site 1173022011539 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 1173022011540 YcfA-like protein; Region: YcfA; cl00752 1173022011541 Esterase/lipase [General function prediction only]; Region: COG1647 1173022011542 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022011543 proton extrusion protein PcxA; Provisional; Region: PRK02507 1173022011544 Mitochondrial inner membrane protein; Region: Mitofilin; pfam09731 1173022011545 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 1173022011546 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 1173022011547 homotrimer interface [polypeptide binding]; other site 1173022011548 Walker A motif; other site 1173022011549 GTP binding site [chemical binding]; other site 1173022011550 Walker B motif; other site 1173022011551 ribonuclease Z; Region: RNase_Z; TIGR02651 1173022011552 Sporulation protein and related proteins [Cell division and chromosome partitioning]; Region: SpoIID; COG2385 1173022011553 Stage II sporulation protein; Region: SpoIID; pfam08486 1173022011554 photosystem I assembly protein Ycf3; Provisional; Region: PRK02603 1173022011555 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 1173022011556 binding surface 1173022011557 TPR motif; other site 1173022011558 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 1173022011559 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 1173022011560 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 1173022011561 hinge; other site 1173022011562 active site 1173022011563 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 1173022011564 dimer interface [polypeptide binding]; other site 1173022011565 motif 1; other site 1173022011566 active site 1173022011567 motif 2; other site 1173022011568 motif 3; other site 1173022011569 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 1173022011570 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 1173022011571 Competence protein; Region: Competence; pfam03772 1173022011572 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 1173022011573 Domain of unknown function (DUF1802); Region: DUF1802; pfam08819 1173022011574 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1173022011575 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 1173022011576 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 1173022011577 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1173022011578 active site 1173022011579 catalytic tetrad [active] 1173022011580 PAS domain S-box; Region: sensory_box; TIGR00229 1173022011581 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 1173022011582 putative active site [active] 1173022011583 heme pocket [chemical binding]; other site 1173022011584 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1173022011585 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 1173022011586 ATP binding site [chemical binding]; other site 1173022011587 Mg2+ binding site [ion binding]; other site 1173022011588 G-X-G motif; other site 1173022011589 AMIN domain; Region: AMIN; pfam11741 1173022011590 Protein of unknown function (DUF3172); Region: DUF3172; pfam11371 1173022011591 MFS/sugar transport protein; Region: MFS_2; pfam13347 1173022011592 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 1173022011593 putative substrate translocation pore; other site 1173022011594 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 1173022011595 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1173022011596 active site 1173022011597 catalytic tetrad [active] 1173022011598 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 1173022011599 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1173022011600 Rieske non-heme iron oxygenase (RO) family, Pheophorbide a oxygenase (PaO) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; composed of the oxygenase alpha subunits of a small subfamily of enzymes found in plants as well as oxygenic...; Region: Rieske_RO_Alpha_PaO; cd03480 1173022011601 Pheophorbide a oxygenase; Region: PaO; pfam08417 1173022011602 Domain of unknown function (DUF373); Region: DUF373; cl12079 1173022011603 4Fe-4S single cluster domain; Region: Fer4_13; pfam13370 1173022011604 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1173022011605 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1173022011606 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 1173022011607 TM-ABC transporter signature motif; other site 1173022011608 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1173022011609 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1173022011610 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1173022011611 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_13; cd06348 1173022011612 putative ligand binding site [chemical binding]; other site 1173022011613 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1173022011614 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1173022011615 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1173022011616 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1173022011617 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 1173022011618 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 1173022011619 Walker A motif; other site 1173022011620 ATP binding site [chemical binding]; other site 1173022011621 Walker B motif; other site 1173022011622 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1173022011623 Clp protease; Region: CLP_protease; pfam00574 1173022011624 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1173022011625 oligomer interface [polypeptide binding]; other site 1173022011626 active site residues [active] 1173022011627 trigger factor; Provisional; Region: tig; PRK01490 1173022011628 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1173022011629 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1173022011630 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 1173022011631 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1173022011632 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1173022011633 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1173022011634 dimer interface [polypeptide binding]; other site 1173022011635 active site 1173022011636 catalytic residue [active] 1173022011637 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 1173022011638 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 1173022011639 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1173022011640 Mo-dependent nitrogenase C-terminus; Region: Mo-nitro_C; pfam06967 1173022011641 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 1173022011642 MltA specific insert domain; Region: MltA; pfam03562 1173022011643 3D domain; Region: 3D; pfam06725 1173022011644 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1173022011645 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1173022011646 Walker A/P-loop; other site 1173022011647 ATP binding site [chemical binding]; other site 1173022011648 Q-loop/lid; other site 1173022011649 ABC transporter signature motif; other site 1173022011650 Walker B; other site 1173022011651 D-loop; other site 1173022011652 H-loop/switch region; other site 1173022011653 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1173022011654 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1173022011655 Walker A/P-loop; other site 1173022011656 ATP binding site [chemical binding]; other site 1173022011657 Q-loop/lid; other site 1173022011658 ABC transporter signature motif; other site 1173022011659 Walker B; other site 1173022011660 D-loop; other site 1173022011661 H-loop/switch region; other site 1173022011662 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 1173022011663 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 1173022011664 C-terminal domain interface [polypeptide binding]; other site 1173022011665 GSH binding site (G-site) [chemical binding]; other site 1173022011666 dimer interface [polypeptide binding]; other site 1173022011667 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 1173022011668 N-terminal domain interface [polypeptide binding]; other site 1173022011669 putative dimer interface [polypeptide binding]; other site 1173022011670 active site 1173022011671 pyridine nucleotide-disulfide oxidoreductase family protein; Region: Nterm_to_SelD; TIGR03169 1173022011672 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1173022011673 DNA repair protein RadA; Provisional; Region: PRK11823 1173022011674 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 1173022011675 Walker A motif/ATP binding site; other site 1173022011676 ATP binding site [chemical binding]; other site 1173022011677 Walker B motif; other site 1173022011678 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1173022011679 Ycf27; Reviewed; Region: orf27; CHL00148 1173022011680 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 1173022011681 active site 1173022011682 phosphorylation site [posttranslational modification] 1173022011683 intermolecular recognition site; other site 1173022011684 dimerization interface [polypeptide binding]; other site 1173022011685 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 1173022011686 DNA binding site [nucleotide binding] 1173022011687 Protein of unknown function (DUF2930); Region: DUF2930; pfam11152 1173022011688 GAF domain; Region: GAF_2; pfam13185 1173022011689 Protein of unknown function (DUF456); Region: DUF456; pfam04306 1173022011690 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 1173022011691 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 1173022011692 NAD binding site [chemical binding]; other site 1173022011693 substrate binding site [chemical binding]; other site 1173022011694 homodimer interface [polypeptide binding]; other site 1173022011695 active site 1173022011696 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 1173022011697 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 1173022011698 putative active site [active] 1173022011699 putative metal binding site [ion binding]; other site 1173022011700 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1173022011701 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 1173022011702 active site 1173022011703 SAM binding site [chemical binding]; other site 1173022011704 homodimer interface [polypeptide binding]; other site 1173022011705 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 1173022011706 PGAP1-like protein; Region: PGAP1; pfam07819 1173022011707 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 1173022011708 active site 1173022011709 phosphorylation site [posttranslational modification] 1173022011710 intermolecular recognition site; other site 1173022011711 dimerization interface [polypeptide binding]; other site 1173022011712 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1173022011713 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1173022011714 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 1173022011715 dimer interface [polypeptide binding]; other site 1173022011716 phosphorylation site [posttranslational modification] 1173022011717 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 1173022011718 ATP binding site [chemical binding]; other site 1173022011719 Mg2+ binding site [ion binding]; other site 1173022011720 G-X-G motif; other site 1173022011721 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1173022011722 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 1173022011723 TrkA-N domain; Region: TrkA_N; pfam02254 1173022011724 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1173022011725 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 1173022011726 TM-ABC transporter signature motif; other site 1173022011727 Uncharacterized protein, putative amidase [General function prediction only]; Region: COG1402 1173022011728 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1173022011729 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 1173022011730 active site 1173022011731 phosphorylation site [posttranslational modification] 1173022011732 intermolecular recognition site; other site 1173022011733 dimerization interface [polypeptide binding]; other site 1173022011734 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 1173022011735 DNA binding site [nucleotide binding] 1173022011736 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 1173022011737 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1173022011738 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 1173022011739 dimer interface [polypeptide binding]; other site 1173022011740 phosphorylation site [posttranslational modification] 1173022011741 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 1173022011742 ATP binding site [chemical binding]; other site 1173022011743 Mg2+ binding site [ion binding]; other site 1173022011744 G-X-G motif; other site 1173022011745 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 1173022011746 PhoU domain; Region: PhoU; pfam01895 1173022011747 PhoU domain; Region: PhoU; pfam01895 1173022011748 S-layer homology domain; Region: SLH; pfam00395 1173022011749 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 1173022011750 GIY-YIG domain found in CAXIP1-like proteins, iron-sulfur cluster assembly proteins, and similar proteins; Region: GIY-YIG_AtGrxS16_like; cd10450 1173022011751 GIY-YIG motif/motif A; other site 1173022011752 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1173022011753 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1173022011754 active site 1173022011755 ATP binding site [chemical binding]; other site 1173022011756 substrate binding site [chemical binding]; other site 1173022011757 activation loop (A-loop); other site 1173022011758 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1173022011759 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1173022011760 active site 1173022011761 ATP binding site [chemical binding]; other site 1173022011762 substrate binding site [chemical binding]; other site 1173022011763 activation loop (A-loop); other site 1173022011764 YARHG domain; Region: YARHG; pfam13308 1173022011765 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 1173022011766 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022011767 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022011768 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022011769 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022011770 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022011771 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 1173022011772 peripheral dimer interface [polypeptide binding]; other site 1173022011773 core dimer interface [polypeptide binding]; other site 1173022011774 L10 interface [polypeptide binding]; other site 1173022011775 L11 interface [polypeptide binding]; other site 1173022011776 putative EF-Tu interaction site [polypeptide binding]; other site 1173022011777 putative EF-G interaction site [polypeptide binding]; other site 1173022011778 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 1173022011779 23S rRNA interface [nucleotide binding]; other site 1173022011780 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1173022011781 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 1173022011782 mRNA/rRNA interface [nucleotide binding]; other site 1173022011783 Ribosomal protein L11/L12; Region: RL11; smart00649 1173022011784 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 1173022011785 putative thiostrepton binding site; other site 1173022011786 23S rRNA interface [nucleotide binding]; other site 1173022011787 L7/L12 interface [polypeptide binding]; other site 1173022011788 L25 interface [polypeptide binding]; other site 1173022011789 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1173022011790 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1173022011791 putative homodimer interface [polypeptide binding]; other site 1173022011792 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1173022011793 heterodimer interface [polypeptide binding]; other site 1173022011794 homodimer interface [polypeptide binding]; other site 1173022011795 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 1173022011796 ribosomal protein L19; Region: rpl19; CHL00084 1173022011797 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 1173022011798 Glycosyl hydrolases family 31; Region: Glyco_hydro_31; pfam01055 1173022011799 active site 1173022011800 catalytic site [active] 1173022011801 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 1173022011802 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 1173022011803 phosphopeptide binding site; other site 1173022011804 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 1173022011805 PAS fold; Region: PAS_3; pfam08447 1173022011806 putative active site [active] 1173022011807 heme pocket [chemical binding]; other site 1173022011808 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1173022011809 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1173022011810 metal binding site [ion binding]; metal-binding site 1173022011811 active site 1173022011812 I-site; other site 1173022011813 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 1173022011814 Domain of unknown function (DUF1824); Region: DUF1824; pfam08854 1173022011815 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 1173022011816 PAS domain; Region: PAS_9; pfam13426 1173022011817 putative active site [active] 1173022011818 heme pocket [chemical binding]; other site 1173022011819 Predicted bile acid beta-glucosidase [Carbohydrate transport and metabolism]; Region: COG4354 1173022011820 beta-Glucocerebrosidase 2 N terminal; Region: GBA2_N; pfam12215 1173022011821 Protein of unknown function, DUF608; Region: DUF608; pfam04685 1173022011822 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 1173022011823 structural tetrad; other site 1173022011824 FOG: WD40 repeat [General function prediction only]; Region: COG2319 1173022011825 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 1173022011826 structural tetrad; other site 1173022011827 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 1173022011828 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 1173022011829 putative active site [active] 1173022011830 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 1173022011831 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 1173022011832 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1173022011833 active site 1173022011834 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 1173022011835 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1173022011836 TPR repeat; Region: TPR_11; pfam13414 1173022011837 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 1173022011838 binding surface 1173022011839 TPR motif; other site 1173022011840 TPR repeat; Region: TPR_11; pfam13414 1173022011841 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 1173022011842 binding surface 1173022011843 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 1173022011844 TPR motif; other site 1173022011845 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 1173022011846 binding surface 1173022011847 TPR motif; other site 1173022011848 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 1173022011849 binding surface 1173022011850 TPR motif; other site 1173022011851 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 1173022011852 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 1173022011853 binding surface 1173022011854 TPR motif; other site 1173022011855 Tetratricopeptide repeat; Region: TPR_1; pfam00515 1173022011856 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 1173022011857 binding surface 1173022011858 TPR motif; other site 1173022011859 Circadian oscillating protein COP23; Region: COP23; pfam14218 1173022011860 Circadian oscillating protein COP23; Region: COP23; pfam14218 1173022011861 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1173022011862 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 1173022011863 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; cl17315 1173022011864 DNA binding residues [nucleotide binding] 1173022011865 RecB family nuclease, putative, TM0106 family; Region: TIGR03491 1173022011866 RNase_H superfamily; Region: RNase_H_2; pfam13482 1173022011867 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1173022011868 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1173022011869 HIGH motif; other site 1173022011870 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1173022011871 active site 1173022011872 KMSKS motif; other site 1173022011873 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 1173022011874 Catalytic site; other site 1173022011875 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1173022011876 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1173022011877 Probable transposase; Region: OrfB_IS605; pfam01385 1173022011878 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1173022011879 Protein of unknown function (DUF1499); Region: DUF1499; cl01841 1173022011880 Anabaena sensory rhodopsin transducer; Region: ASRT; pfam07100 1173022011881 trehalose synthase; Region: treS_nterm; TIGR02456 1173022011882 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 1173022011883 active site 1173022011884 catalytic site [active] 1173022011885 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 1173022011886 glucose-1-dehydrogenase; Provisional; Region: PRK08936 1173022011887 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1173022011888 NAD(P) binding site [chemical binding]; other site 1173022011889 active site 1173022011890 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 1173022011891 active site 1173022011892 catalytic residues [active] 1173022011893 DNA binding site [nucleotide binding] 1173022011894 Int/Topo IB signature motif; other site 1173022011895 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1173022011896 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1173022011897 catalytic loop [active] 1173022011898 iron binding site [ion binding]; other site 1173022011899 Staphylococcal nuclease homologues; Region: SNc; smart00318 1173022011900 Catalytic site; other site 1173022011901 Staphylococcal nuclease homologue; Region: SNase; pfam00565 1173022011902 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1173022011903 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 1173022011904 active site 1173022011905 dimerization interface [polypeptide binding]; other site 1173022011906 DnaJ-class molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: CbpA; COG2214 1173022011907 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 1173022011908 HSP70 interaction site [polypeptide binding]; other site 1173022011909 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 1173022011910 binding surface 1173022011911 TPR motif; other site 1173022011912 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12292 1173022011913 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 1173022011914 dimer interface [polypeptide binding]; other site 1173022011915 motif 1; other site 1173022011916 active site 1173022011917 motif 2; other site 1173022011918 motif 3; other site 1173022011919 Ferredoxin [Energy production and conversion]; Region: COG1146 1173022011920 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1173022011921 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1173022011922 Walker A/P-loop; other site 1173022011923 ATP binding site [chemical binding]; other site 1173022011924 Q-loop/lid; other site 1173022011925 ABC transporter signature motif; other site 1173022011926 Walker B; other site 1173022011927 D-loop; other site 1173022011928 H-loop/switch region; other site 1173022011929 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022011930 GAF domain; Region: GAF; pfam01590 1173022011931 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 1173022011932 dimer interface [polypeptide binding]; other site 1173022011933 phosphorylation site [posttranslational modification] 1173022011934 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 1173022011935 ATP binding site [chemical binding]; other site 1173022011936 Mg2+ binding site [ion binding]; other site 1173022011937 G-X-G motif; other site 1173022011938 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1173022011939 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 1173022011940 active site 1173022011941 phosphorylation site [posttranslational modification] 1173022011942 intermolecular recognition site; other site 1173022011943 dimerization interface [polypeptide binding]; other site 1173022011944 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022011945 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 1173022011946 active site 1173022011947 phosphorylation site [posttranslational modification] 1173022011948 intermolecular recognition site; other site 1173022011949 dimerization interface [polypeptide binding]; other site 1173022011950 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 1173022011951 putative binding surface; other site 1173022011952 active site 1173022011953 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 1173022011954 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022011955 active site 1173022011956 phosphorylation site [posttranslational modification] 1173022011957 intermolecular recognition site; other site 1173022011958 dimerization interface [polypeptide binding]; other site 1173022011959 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1173022011960 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1173022011961 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 1173022011962 putative active site [active] 1173022011963 heme pocket [chemical binding]; other site 1173022011964 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 1173022011965 dimer interface [polypeptide binding]; other site 1173022011966 phosphorylation site [posttranslational modification] 1173022011967 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 1173022011968 ATP binding site [chemical binding]; other site 1173022011969 Mg2+ binding site [ion binding]; other site 1173022011970 G-X-G motif; other site 1173022011971 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); Region: MPN_like; cd08070 1173022011972 MPN+ (JAMM) motif; other site 1173022011973 Zinc-binding site [ion binding]; other site 1173022011974 hypothetical protein; Validated; Region: PRK07411 1173022011975 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 1173022011976 ATP binding site [chemical binding]; other site 1173022011977 substrate interface [chemical binding]; other site 1173022011978 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 1173022011979 active site residue [active] 1173022011980 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 1173022011981 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 1173022011982 GTP binding site; other site 1173022011983 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1173022011984 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1173022011985 Walker A/P-loop; other site 1173022011986 ATP binding site [chemical binding]; other site 1173022011987 Q-loop/lid; other site 1173022011988 ABC transporter signature motif; other site 1173022011989 Walker B; other site 1173022011990 D-loop; other site 1173022011991 H-loop/switch region; other site 1173022011992 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1173022011993 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1173022011994 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1173022011995 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 1173022011996 catalytic triad [active] 1173022011997 cobyric acid synthase; Provisional; Region: PRK00784 1173022011998 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 1173022011999 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 1173022012000 catalytic triad [active] 1173022012001 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1173022012002 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1173022012003 catalytic loop [active] 1173022012004 iron binding site [ion binding]; other site 1173022012005 Alkaline and neutral invertase; Region: Glyco_hydro_100; pfam12899 1173022012006 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_8; cd07817 1173022012007 putative hydrophobic ligand binding site [chemical binding]; other site 1173022012008 9,9'-di-cis-zeta-carotene desaturase; Region: zeta_caro_desat; TIGR02732 1173022012009 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1173022012010 Streptococcal 67 kDa myosin-cross-reactive antigen like family; Region: Strep_67kDa_ant; cl17487 1173022012011 Iron-sulfur cluster assembly accessory protein; Region: TIGR00049 1173022012012 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 1173022012013 binding surface 1173022012014 TPR motif; other site 1173022012015 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 1173022012016 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 1173022012017 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 1173022012018 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 1173022012019 active site 1173022012020 catalytic site [active] 1173022012021 glycogen branching enzyme; Provisional; Region: PRK12313 1173022012022 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 1173022012023 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 1173022012024 active site 1173022012025 catalytic site [active] 1173022012026 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 1173022012027 trehalose synthase; Region: treS_nterm; TIGR02456 1173022012028 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 1173022012029 active site 1173022012030 catalytic site [active] 1173022012031 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 1173022012032 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 1173022012033 Dynamin family; Region: Dynamin_N; pfam00350 1173022012034 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 1173022012035 G3 box; other site 1173022012036 Switch II region; other site 1173022012037 G4 box; other site 1173022012038 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 1173022012039 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 1173022012040 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 1173022012041 active site 1173022012042 homodimer interface [polypeptide binding]; other site 1173022012043 catalytic site [active] 1173022012044 acceptor binding site [chemical binding]; other site 1173022012045 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 1173022012046 probable non-F420 flavinoid oxidoreductase; Region: flavin_revert; TIGR03885 1173022012047 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4634 1173022012048 Protein of unknown function (DUF433); Region: DUF433; pfam04255 1173022012049 Maltooligosyl trehalose synthase [Carbohydrate transport and metabolism]; Region: TreY; COG3280 1173022012050 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 1173022012051 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 1173022012052 active site 1173022012053 catalytic site [active] 1173022012054 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 1173022012055 N-terminal Early set domain associated with the catalytic domain of Maltooligosyl trehalose trehalohydrolase (also called Glycosyltrehalose trehalohydrolase) and similar proteins; Region: E_set_MTHase_like_N; cd02853 1173022012056 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 1173022012057 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 1173022012058 catalytic site [active] 1173022012059 active site 1173022012060 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 1173022012061 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1173022012062 metal binding site [ion binding]; metal-binding site 1173022012063 active site 1173022012064 I-site; other site 1173022012065 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 1173022012066 FOG: WD40 repeat [General function prediction only]; Region: COG2319 1173022012067 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; pfam09907 1173022012068 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1173022012069 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1173022012070 Walker A/P-loop; other site 1173022012071 ATP binding site [chemical binding]; other site 1173022012072 Q-loop/lid; other site 1173022012073 ABC transporter signature motif; other site 1173022012074 Walker B; other site 1173022012075 D-loop; other site 1173022012076 H-loop/switch region; other site 1173022012077 TOBE domain; Region: TOBE_2; pfam08402 1173022012078 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1173022012079 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 1173022012080 ABC-ATPase subunit interface; other site 1173022012081 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 1173022012082 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 1173022012083 dimer interface [polypeptide binding]; other site 1173022012084 conserved gate region; other site 1173022012085 putative PBP binding loops; other site 1173022012086 ABC-ATPase subunit interface; other site 1173022012087 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1173022012088 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1173022012089 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1173022012090 XamI restriction endonuclease; Region: RE_XamI; pfam09572 1173022012091 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 1173022012092 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1173022012093 DNA binding residues [nucleotide binding] 1173022012094 dimer interface [polypeptide binding]; other site 1173022012095 metal binding site [ion binding]; metal-binding site 1173022012096 light-harvesting-like protein 3; Provisional; Region: PLN00014 1173022012097 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 1173022012098 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 1173022012099 hexamer interface [polypeptide binding]; other site 1173022012100 ligand binding site [chemical binding]; other site 1173022012101 putative active site [active] 1173022012102 NAD(P) binding site [chemical binding]; other site 1173022012103 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 1173022012104 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 1173022012105 MOSC domain; Region: MOSC; pfam03473 1173022012106 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 1173022012107 UbiA prenyltransferase family; Region: UbiA; pfam01040 1173022012108 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 1173022012109 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 1173022012110 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 1173022012111 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 1173022012112 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1173022012113 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1173022012114 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 1173022012115 D-pathway; other site 1173022012116 Putative ubiquinol binding site [chemical binding]; other site 1173022012117 Low-spin heme (heme b) binding site [chemical binding]; other site 1173022012118 Putative water exit pathway; other site 1173022012119 Binuclear center (heme o3/CuB) [ion binding]; other site 1173022012120 K-pathway; other site 1173022012121 Putative proton exit pathway; other site 1173022012122 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cd00386 1173022012123 Subunit I/III interface [polypeptide binding]; other site 1173022012124 putative high light inducible protein; Region: PHA02337 1173022012125 yiaA/B two helix domain; Region: YiaAB; cl01759 1173022012126 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 1173022012127 Ycf35; Provisional; Region: ycf35; CHL00193 1173022012128 Protein of unknown function (DUF2997); Region: DUF2997; pfam11211 1173022012129 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 1173022012130 NAD(P) binding pocket [chemical binding]; other site 1173022012131 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1173022012132 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 1173022012133 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1173022012134 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 1173022012135 interface (dimer of trimers) [polypeptide binding]; other site 1173022012136 Substrate-binding/catalytic site; other site 1173022012137 Zn-binding sites [ion binding]; other site 1173022012138 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1173022012139 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 1173022012140 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1173022012141 catalytic residues [active] 1173022012142 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK08649 1173022012143 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 1173022012144 active site 1173022012145 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 1173022012146 catalytic site [active] 1173022012147 metal binding site [ion binding]; metal-binding site 1173022012148 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041; cl17396 1173022012149 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1173022012150 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 1173022012151 Protein of unknown function (DUF3038); Region: DUF3038; pfam11237 1173022012152 Domain of unknown function (DUF4335); Region: DUF4335; pfam14233 1173022012153 Domain of unknown function (DUF4335); Region: DUF4335; pfam14233 1173022012154 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 1173022012155 Bacterial Micro-Compartment (BMC) domain; Region: BMC; cl01982 1173022012156 Hexamer interface [polypeptide binding]; other site 1173022012157 Hexagonal pore residue; other site 1173022012158 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 1173022012159 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022012160 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022012161 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 1173022012162 ATP-grasp domain; Region: ATP-grasp; pfam02222 1173022012163 Domain of unknown function (DUF4112); Region: DUF4112; pfam13430 1173022012164 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 1173022012165 active site 1173022012166 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1173022012167 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1173022012168 Walker A/P-loop; other site 1173022012169 ATP binding site [chemical binding]; other site 1173022012170 Q-loop/lid; other site 1173022012171 ABC transporter signature motif; other site 1173022012172 Walker B; other site 1173022012173 D-loop; other site 1173022012174 H-loop/switch region; other site 1173022012175 ABC transporter; Region: ABC_tran_2; pfam12848 1173022012176 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1173022012177 ABC transporter; Region: ABC_tran_2; pfam12848 1173022012178 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1173022012179 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1173022012180 active site 1173022012181 ATP binding site [chemical binding]; other site 1173022012182 substrate binding site [chemical binding]; other site 1173022012183 activation loop (A-loop); other site 1173022012184 AAA domain; Region: AAA_26; pfam13500 1173022012185 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 1173022012186 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1173022012187 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 1173022012188 metal binding site [ion binding]; metal-binding site 1173022012189 dimer interface [polypeptide binding]; other site 1173022012190 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1173022012191 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1173022012192 dimerization interface [polypeptide binding]; other site 1173022012193 DPS ferroxidase diiron center [ion binding]; other site 1173022012194 ion pore; other site 1173022012195 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 1173022012196 dimer interface [polypeptide binding]; other site 1173022012197 [2Fe-2S] cluster binding site [ion binding]; other site 1173022012198 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 1173022012199 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 1173022012200 dimer interface [polypeptide binding]; other site 1173022012201 conserved gate region; other site 1173022012202 ABC-ATPase subunit interface; other site 1173022012203 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 1173022012204 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1173022012205 Walker A/P-loop; other site 1173022012206 ATP binding site [chemical binding]; other site 1173022012207 Q-loop/lid; other site 1173022012208 ABC transporter signature motif; other site 1173022012209 Walker B; other site 1173022012210 D-loop; other site 1173022012211 H-loop/switch region; other site 1173022012212 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1173022012213 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 1173022012214 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 1173022012215 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022012216 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022012217 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022012218 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022012219 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022012220 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 1173022012221 homotrimer interaction site [polypeptide binding]; other site 1173022012222 putative active site [active] 1173022012223 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 1173022012224 nudix motif; other site 1173022012225 4-alpha-glucanotransferase; Provisional; Region: PRK14508 1173022012226 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 1173022012227 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 1173022012228 non-specific DNA binding site [nucleotide binding]; other site 1173022012229 salt bridge; other site 1173022012230 sequence-specific DNA binding site [nucleotide binding]; other site 1173022012231 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 1173022012232 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1173022012233 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 1173022012234 RNA binding surface [nucleotide binding]; other site 1173022012235 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 1173022012236 active site 1173022012237 Protein of unknown function (DUF2993); Region: DUF2993; pfam11209 1173022012238 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1173022012239 phosphatidate cytidylyltransferase; Region: PLN02953 1173022012240 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 1173022012241 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 1173022012242 S-adenosylmethionine binding site [chemical binding]; other site 1173022012243 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 1173022012244 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 1173022012245 homodimer interface [polypeptide binding]; other site 1173022012246 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1173022012247 catalytic residue [active] 1173022012248 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 1173022012249 GTP-binding protein YchF; Reviewed; Region: PRK09601 1173022012250 YchF GTPase; Region: YchF; cd01900 1173022012251 G1 box; other site 1173022012252 GTP/Mg2+ binding site [chemical binding]; other site 1173022012253 Switch I region; other site 1173022012254 G2 box; other site 1173022012255 Switch II region; other site 1173022012256 G3 box; other site 1173022012257 G4 box; other site 1173022012258 G5 box; other site 1173022012259 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 1173022012260 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 1173022012261 active site 1173022012262 Ycf46; Provisional; Region: ycf46; CHL00195 1173022012263 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 1173022012264 Walker A motif; other site 1173022012265 ATP binding site [chemical binding]; other site 1173022012266 Walker B motif; other site 1173022012267 arginine finger; other site 1173022012268 Protein of unknown function (DUF1257); Region: DUF1257; pfam06868 1173022012269 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1173022012270 Probable transposase; Region: OrfB_IS605; pfam01385 1173022012271 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1173022012272 Protein of unknown function (DUF3464); Region: DUF3464; pfam11947 1173022012273 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 1173022012274 16S/18S rRNA binding site [nucleotide binding]; other site 1173022012275 S13e-L30e interaction site [polypeptide binding]; other site 1173022012276 25S rRNA binding site [nucleotide binding]; other site 1173022012277 Inward rectifier potassium channel; Region: IRK; pfam01007 1173022012278 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1173022012279 Predicted NTPase (NACHT family) [Signal transduction mechanisms]; Region: COG5635 1173022012280 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 1173022012281 non-specific DNA binding site [nucleotide binding]; other site 1173022012282 salt bridge; other site 1173022012283 sequence-specific DNA binding site [nucleotide binding]; other site 1173022012284 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1173022012285 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1173022012286 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1173022012287 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022012288 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1173022012289 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1173022012290 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 1173022012291 dimer interface [polypeptide binding]; other site 1173022012292 phosphorylation site [posttranslational modification] 1173022012293 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 1173022012294 ATP binding site [chemical binding]; other site 1173022012295 Mg2+ binding site [ion binding]; other site 1173022012296 G-X-G motif; other site 1173022012297 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022012298 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 1173022012299 active site 1173022012300 phosphorylation site [posttranslational modification] 1173022012301 intermolecular recognition site; other site 1173022012302 dimerization interface [polypeptide binding]; other site 1173022012303 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 1173022012304 putative binding surface; other site 1173022012305 active site 1173022012306 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1173022012307 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 1173022012308 Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of photorespiration. Rubisco...; Region: RuBisCO_small; cd03527 1173022012309 multimerization interface [polypeptide binding]; other site 1173022012310 RbcX protein; Region: RcbX; pfam02341 1173022012311 ribulose-1,5-bisphosphate carboxylase/oxygenase large subunit; Region: rbcL; CHL00040 1173022012312 Ribulose bisphosphate carboxylase large chain, Form I; Region: RuBisCO_large_I; cd08212 1173022012313 homodimer interface [polypeptide binding]; other site 1173022012314 active site 1173022012315 heterodimer interface [polypeptide binding]; other site 1173022012316 catalytic residue [active] 1173022012317 metal binding site [ion binding]; metal-binding site 1173022012318 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 1173022012319 oligomerization interface [polypeptide binding]; other site 1173022012320 active site 1173022012321 metal binding site [ion binding]; metal-binding site 1173022012322 YcfA-like protein; Region: YcfA; pfam07927 1173022012323 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 1173022012324 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1173022012325 active site 1173022012326 substrate binding site [chemical binding]; other site 1173022012327 ATP binding site [chemical binding]; other site 1173022012328 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1173022012329 activation loop (A-loop); other site 1173022012330 Bacterial protein of unknown function (DUF937); Region: DUF937; pfam06078 1173022012331 Dynamin family; Region: Dynamin_N; pfam00350 1173022012332 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 1173022012333 G1 box; other site 1173022012334 GTP/Mg2+ binding site [chemical binding]; other site 1173022012335 Switch I region; other site 1173022012336 G2 box; other site 1173022012337 Switch II region; other site 1173022012338 G3 box; other site 1173022012339 G4 box; other site 1173022012340 G5 box; other site 1173022012341 Domain of unknown function (DUF697); Region: DUF697; pfam05128 1173022012342 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 1173022012343 putative active site [active] 1173022012344 2-dehydropantoate 2-reductase; Provisional; Region: PRK06249 1173022012345 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1173022012346 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1173022012347 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1173022012348 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1173022012349 Walker A/P-loop; other site 1173022012350 ATP binding site [chemical binding]; other site 1173022012351 Q-loop/lid; other site 1173022012352 ABC transporter signature motif; other site 1173022012353 Walker B; other site 1173022012354 D-loop; other site 1173022012355 H-loop/switch region; other site 1173022012356 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 1173022012357 Fasciclin domain; Region: Fasciclin; pfam02469 1173022012358 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 1173022012359 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 1173022012360 active site 1173022012361 homodimer interface [polypeptide binding]; other site 1173022012362 catalytic site [active] 1173022012363 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 1173022012364 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022012365 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 1173022012366 active site 1173022012367 phosphorylation site [posttranslational modification] 1173022012368 intermolecular recognition site; other site 1173022012369 dimerization interface [polypeptide binding]; other site 1173022012370 Protein of unknown function (DUF2854); Region: DUF2854; pfam11016 1173022012371 Protein of unknown function (DUF3571); Region: DUF3571; pfam12095 1173022012372 hypothetical protein; Validated; Region: PRK00029 1173022012373 Uncharacterized conserved protein [Function unknown]; Region: COG0397 1173022012374 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1173022012375 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 1173022012376 S-adenosylmethionine binding site [chemical binding]; other site 1173022012377 VanW like protein; Region: VanW; pfam04294 1173022012378 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 1173022012379 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 1173022012380 active site 1173022012381 interdomain interaction site; other site 1173022012382 putative metal-binding site [ion binding]; other site 1173022012383 nucleotide binding site [chemical binding]; other site 1173022012384 Bacterial DNA topoisomeraes I ATP-binding domain; Region: TOP1Bc; smart00436 1173022012385 domain I; other site 1173022012386 phosphate binding site [ion binding]; other site 1173022012387 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 1173022012388 domain II; other site 1173022012389 domain III; other site 1173022012390 nucleotide binding site [chemical binding]; other site 1173022012391 DNA binding groove [nucleotide binding] 1173022012392 catalytic site [active] 1173022012393 domain IV; other site 1173022012394 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 1173022012395 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 1173022012396 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 1173022012397 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1173022012398 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 1173022012399 Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452 1173022012400 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1173022012401 DNA binding residues [nucleotide binding] 1173022012402 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 1173022012403 catalytic residues [active] 1173022012404 catalytic nucleophile [active] 1173022012405 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 1173022012406 non-specific DNA binding site [nucleotide binding]; other site 1173022012407 salt bridge; other site 1173022012408 sequence-specific DNA binding site [nucleotide binding]; other site 1173022012409 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 1173022012410 Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]; Region: CheB; COG2201 1173022012411 CheB methylesterase; Region: CheB_methylest; pfam01339 1173022012412 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1173022012413 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1173022012414 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 1173022012415 PAS domain; Region: PAS_10; pfam13596 1173022012416 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1173022012417 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 1173022012418 dimer interface [polypeptide binding]; other site 1173022012419 phosphorylation site [posttranslational modification] 1173022012420 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 1173022012421 ATP binding site [chemical binding]; other site 1173022012422 Mg2+ binding site [ion binding]; other site 1173022012423 G-X-G motif; other site 1173022012424 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022012425 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 1173022012426 active site 1173022012427 phosphorylation site [posttranslational modification] 1173022012428 intermolecular recognition site; other site 1173022012429 dimerization interface [polypeptide binding]; other site 1173022012430 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022012431 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1173022012432 PAS fold; Region: PAS_7; pfam12860 1173022012433 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 1173022012434 putative active site [active] 1173022012435 heme pocket [chemical binding]; other site 1173022012436 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 1173022012437 PAS domain; Region: PAS_9; pfam13426 1173022012438 putative active site [active] 1173022012439 heme pocket [chemical binding]; other site 1173022012440 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1173022012441 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 1173022012442 dimer interface [polypeptide binding]; other site 1173022012443 phosphorylation site [posttranslational modification] 1173022012444 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 1173022012445 ATP binding site [chemical binding]; other site 1173022012446 Mg2+ binding site [ion binding]; other site 1173022012447 G-X-G motif; other site 1173022012448 Domain of unknown function (DUF1830); Region: DUF1830; pfam08865 1173022012449 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1173022012450 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 1173022012451 active site 1173022012452 phosphorylation site [posttranslational modification] 1173022012453 intermolecular recognition site; other site 1173022012454 dimerization interface [polypeptide binding]; other site 1173022012455 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 1173022012456 DNA binding site [nucleotide binding] 1173022012457 NAD(P)H-quinone oxidoreductase subunit 2; Provisional; Region: PRK02504 1173022012458 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1173022012459 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 1173022012460 AAA domain; Region: AAA_21; pfam13304 1173022012461 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 1173022012462 RloB-like protein; Region: RloB; pfam13707 1173022012463 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 1173022012464 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 1173022012465 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1173022012466 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 1173022012467 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 1173022012468 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 1173022012469 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 1173022012470 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 1173022012471 active site 1173022012472 SAM binding site [chemical binding]; other site 1173022012473 homodimer interface [polypeptide binding]; other site 1173022012474 Membrane protein of unknown function; Region: DUF360; pfam04020 1173022012475 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 1173022012476 ATP-grasp domain; Region: ATP-grasp; pfam02222 1173022012477 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1173022012478 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1173022012479 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1173022012480 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1173022012481 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1173022012482 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1173022012483 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1173022012484 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1173022012485 Probable transposase; Region: OrfB_IS605; pfam01385 1173022012486 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1173022012487 Ycf27; Reviewed; Region: orf27; CHL00148 1173022012488 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 1173022012489 active site 1173022012490 phosphorylation site [posttranslational modification] 1173022012491 intermolecular recognition site; other site 1173022012492 dimerization interface [polypeptide binding]; other site 1173022012493 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 1173022012494 ATP binding site [chemical binding]; other site 1173022012495 Mg2+ binding site [ion binding]; other site 1173022012496 G-X-G motif; other site 1173022012497 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1173022012498 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 1173022012499 active site 1173022012500 phosphorylation site [posttranslational modification] 1173022012501 intermolecular recognition site; other site 1173022012502 dimerization interface [polypeptide binding]; other site 1173022012503 PAS domain S-box; Region: sensory_box; TIGR00229 1173022012504 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 1173022012505 GAF domain; Region: GAF; pfam01590 1173022012506 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1173022012507 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 1173022012508 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1173022012509 putative active site [active] 1173022012510 heme pocket [chemical binding]; other site 1173022012511 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1173022012512 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 1173022012513 putative active site [active] 1173022012514 heme pocket [chemical binding]; other site 1173022012515 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 1173022012516 dimer interface [polypeptide binding]; other site 1173022012517 phosphorylation site [posttranslational modification] 1173022012518 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 1173022012519 ATP binding site [chemical binding]; other site 1173022012520 Mg2+ binding site [ion binding]; other site 1173022012521 G-X-G motif; other site 1173022012522 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1173022012523 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1173022012524 Probable transposase; Region: OrfB_IS605; pfam01385 1173022012525 Flavin reductase like domain; Region: Flavin_Reduct; pfam01613 1173022012526 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1173022012527 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 1173022012528 ligand binding site [chemical binding]; other site 1173022012529 flexible hinge region; other site 1173022012530 TLC ATP/ADP transporter; Region: TLC; cl03940 1173022012531 HEAT repeats; Region: HEAT_2; pfam13646 1173022012532 HEAT repeats; Region: HEAT_2; pfam13646 1173022012533 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1173022012534 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1173022012535 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1173022012536 hydrolase, alpha/beta fold family protein; Region: PLN02824 1173022012537 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 1173022012538 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1173022012539 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 1173022012540 outer membrane lipoprotein; Provisional; Region: PRK11023 1173022012541 acetohydroxyacid synthase small subunit; Region: ilvH; CHL00100 1173022012542 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 1173022012543 putative valine binding site [chemical binding]; other site 1173022012544 dimer interface [polypeptide binding]; other site 1173022012545 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 1173022012546 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR6; cd08272 1173022012547 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1173022012548 putative NAD(P) binding site [chemical binding]; other site 1173022012549 Type II/IV secretion system protein; Region: T2SE; pfam00437 1173022012550 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 1173022012551 Walker A motif; other site 1173022012552 ATP binding site [chemical binding]; other site 1173022012553 Walker B motif; other site 1173022012554 KWG Leptospira; Region: KWG; pfam07656 1173022012555 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 1173022012556 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 1173022012557 E3 interaction surface; other site 1173022012558 lipoyl attachment site [posttranslational modification]; other site 1173022012559 e3 binding domain; Region: E3_binding; pfam02817 1173022012560 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1173022012561 Protein of unknown function (DUF2869); Region: DUF2869; pfam11068 1173022012562 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 1173022012563 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 1173022012564 acyl-activating enzyme (AAE) consensus motif; other site 1173022012565 putative AMP binding site [chemical binding]; other site 1173022012566 putative active site [active] 1173022012567 putative CoA binding site [chemical binding]; other site 1173022012568 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 1173022012569 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 1173022012570 ATP binding site [chemical binding]; other site 1173022012571 putative Mg++ binding site [ion binding]; other site 1173022012572 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 1173022012573 nucleotide binding region [chemical binding]; other site 1173022012574 ATP-binding site [chemical binding]; other site 1173022012575 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 1173022012576 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4955 1173022012577 HRDC domain; Region: HRDC; pfam00570 1173022012578 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2343 1173022012579 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1173022012580 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1173022012581 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 1173022012582 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 1173022012583 putative active site [active] 1173022012584 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 1173022012585 looped-hinge helix DNA binding domain, AbrB family; Region: lp_hng_hel_AbrB; TIGR01439 1173022012586 Alpha-1,2-fucosyltransferase; Region: Fut1_Fut2_like; cd11301 1173022012587 GDP-Fucose binding site [chemical binding]; other site 1173022012588 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 1173022012589 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1173022012590 active site 1173022012591 catalytic tetrad [active] 1173022012592 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 1173022012593 TPR repeat; Region: TPR_11; pfam13414 1173022012594 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 1173022012595 binding surface 1173022012596 TPR motif; other site 1173022012597 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1173022012598 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 1173022012599 binding surface 1173022012600 TPR motif; other site 1173022012601 TPR repeat; Region: TPR_11; pfam13414 1173022012602 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 1173022012603 elongation factor G; Reviewed; Region: PRK12740 1173022012604 G1 box; other site 1173022012605 putative GEF interaction site [polypeptide binding]; other site 1173022012606 GTP/Mg2+ binding site [chemical binding]; other site 1173022012607 Switch I region; other site 1173022012608 G2 box; other site 1173022012609 G3 box; other site 1173022012610 Switch II region; other site 1173022012611 G4 box; other site 1173022012612 G5 box; other site 1173022012613 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 1173022012614 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 1173022012615 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 1173022012616 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 1173022012617 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1173022012618 Walker A/P-loop; other site 1173022012619 ATP binding site [chemical binding]; other site 1173022012620 Q-loop/lid; other site 1173022012621 ABC transporter signature motif; other site 1173022012622 Walker B; other site 1173022012623 D-loop; other site 1173022012624 H-loop/switch region; other site 1173022012625 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 1173022012626 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 1173022012627 dimer interface [polypeptide binding]; other site 1173022012628 conserved gate region; other site 1173022012629 putative PBP binding loops; other site 1173022012630 ABC-ATPase subunit interface; other site 1173022012631 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 1173022012632 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 1173022012633 dimer interface [polypeptide binding]; other site 1173022012634 conserved gate region; other site 1173022012635 putative PBP binding loops; other site 1173022012636 ABC-ATPase subunit interface; other site 1173022012637 phosphate binding protein; Region: ptsS_2; TIGR02136 1173022012638 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1173022012639 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_1; cd03400 1173022012640 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1173022012641 C-terminal peptidase (prc); Region: prc; TIGR00225 1173022012642 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 1173022012643 protein binding site [polypeptide binding]; other site 1173022012644 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1173022012645 Catalytic dyad [active] 1173022012646 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 1173022012647 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1173022012648 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1173022012649 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1173022012650 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 1173022012651 motif II; other site 1173022012652 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 1173022012653 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 1173022012654 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 1173022012655 putative active site [active] 1173022012656 putative NTP binding site [chemical binding]; other site 1173022012657 putative nucleic acid binding site [nucleotide binding]; other site 1173022012658 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1173022012659 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 1173022012660 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 1173022012661 active site 1173022012662 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 1173022012663 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1173022012664 active site 1173022012665 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1173022012666 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 1173022012667 Cytochrome c; Region: Cytochrom_C; cl11414 1173022012668 cytochrome c-550; Region: PS_II_C550; TIGR03045 1173022012669 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1173022012670 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1173022012671 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 1173022012672 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 1173022012673 tartrate dehydrogenase; Region: TTC; TIGR02089 1173022012674 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 1173022012675 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 1173022012676 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 1173022012677 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1173022012678 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1173022012679 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1173022012680 Walker A/P-loop; other site 1173022012681 ATP binding site [chemical binding]; other site 1173022012682 Q-loop/lid; other site 1173022012683 ABC transporter signature motif; other site 1173022012684 Walker B; other site 1173022012685 D-loop; other site 1173022012686 H-loop/switch region; other site 1173022012687 Iron permease FTR1 family; Region: FTR1; cl00475 1173022012688 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02705 1173022012689 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1173022012690 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1173022012691 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 1173022012692 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1173022012693 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1173022012694 Walker A/P-loop; other site 1173022012695 ATP binding site [chemical binding]; other site 1173022012696 Q-loop/lid; other site 1173022012697 ABC transporter signature motif; other site 1173022012698 Walker B; other site 1173022012699 D-loop; other site 1173022012700 H-loop/switch region; other site 1173022012701 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 1173022012702 active site 1173022012703 metal-binding site [ion binding] 1173022012704 nucleotide-binding site [chemical binding]; other site 1173022012705 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 1173022012706 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 1173022012707 active site 1173022012708 dimer interface [polypeptide binding]; other site 1173022012709 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 1173022012710 Ligand Binding Site [chemical binding]; other site 1173022012711 Molecular Tunnel; other site 1173022012712 Transglutaminase-like superfamily; Region: Transglut_core3; pfam13471 1173022012713 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 1173022012714 putative oxidoreductase; Provisional; Region: PRK08275 1173022012715 Protein of unknown function (DUF3370); Region: DUF3370; pfam11850 1173022012716 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 1173022012717 Peptidoglycan interpeptide bridge formation enzyme [Cell wall/membrane/envelope biogenesis]; Region: COG2348 1173022012718 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 1173022012719 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 1173022012720 S-adenosylmethionine binding site [chemical binding]; other site 1173022012721 Domain of unknown function (DUF4178); Region: DUF4178; pfam13785 1173022012722 Glycogen debranching enzyme N terminal; Region: GDE_N; pfam12439 1173022012723 glycogen debranching enzyme, archaeal type, putative; Region: gde_arch; TIGR01561 1173022012724 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 1173022012725 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 1173022012726 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 1173022012727 Beta-Casp domain; Region: Beta-Casp; pfam10996 1173022012728 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1173022012729 FOG: WD40 repeat [General function prediction only]; Region: COG2319 1173022012730 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 1173022012731 structural tetrad; other site 1173022012732 AAA ATPase domain; Region: AAA_16; pfam13191 1173022012733 FOG: WD40 repeat [General function prediction only]; Region: COG2319 1173022012734 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 1173022012735 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 1173022012736 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 1173022012737 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1173022012738 Probable transposase; Region: OrfB_IS605; pfam01385 1173022012739 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1173022012740 Domain of unknown function (DUF4359); Region: DUF4359; pfam14271 1173022012741 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1173022012742 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1173022012743 active site 1173022012744 ATP binding site [chemical binding]; other site 1173022012745 substrate binding site [chemical binding]; other site 1173022012746 activation loop (A-loop); other site 1173022012747 GUN4-like; Region: GUN4; pfam05419 1173022012748 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 1173022012749 Ferritin-like domain; Region: Ferritin; pfam00210 1173022012750 dimanganese center [ion binding]; other site 1173022012751 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 1173022012752 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 1173022012753 putative active site [active] 1173022012754 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), C-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_C; cd03414 1173022012755 putative active site [active] 1173022012756 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1173022012757 active site 1173022012758 SAM binding site [chemical binding]; other site 1173022012759 homodimer interface [polypeptide binding]; other site 1173022012760 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1173022012761 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 1173022012762 putative active site [active] 1173022012763 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 1173022012764 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 1173022012765 NADP binding site [chemical binding]; other site 1173022012766 active site 1173022012767 putative substrate binding site [chemical binding]; other site 1173022012768 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022012769 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 1173022012770 active site 1173022012771 phosphorylation site [posttranslational modification] 1173022012772 intermolecular recognition site; other site 1173022012773 dimerization interface [polypeptide binding]; other site 1173022012774 PAS domain S-box; Region: sensory_box; TIGR00229 1173022012775 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 1173022012776 putative active site [active] 1173022012777 heme pocket [chemical binding]; other site 1173022012778 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1173022012779 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1173022012780 metal binding site [ion binding]; metal-binding site 1173022012781 active site 1173022012782 I-site; other site 1173022012783 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 1173022012784 Predicted ATPase [General function prediction only]; Region: COG3899 1173022012785 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022012786 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1173022012787 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1173022012788 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 1173022012789 dimer interface [polypeptide binding]; other site 1173022012790 phosphorylation site [posttranslational modification] 1173022012791 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 1173022012792 ATP binding site [chemical binding]; other site 1173022012793 Mg2+ binding site [ion binding]; other site 1173022012794 G-X-G motif; other site 1173022012795 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1173022012796 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 1173022012797 active site 1173022012798 phosphorylation site [posttranslational modification] 1173022012799 intermolecular recognition site; other site 1173022012800 dimerization interface [polypeptide binding]; other site 1173022012801 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1173022012802 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1173022012803 active site 1173022012804 ATP binding site [chemical binding]; other site 1173022012805 substrate binding site [chemical binding]; other site 1173022012806 activation loop (A-loop); other site 1173022012807 AAA ATPase domain; Region: AAA_16; pfam13191 1173022012808 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3575 1173022012809 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 1173022012810 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1173022012811 putative substrate translocation pore; other site 1173022012812 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 1173022012813 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1173022012814 active site 1173022012815 ATP binding site [chemical binding]; other site 1173022012816 substrate binding site [chemical binding]; other site 1173022012817 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1173022012818 substrate binding site [chemical binding]; other site 1173022012819 activation loop (A-loop); other site 1173022012820 activation loop (A-loop); other site 1173022012821 AAA ATPase domain; Region: AAA_16; pfam13191 1173022012822 Predicted ATPase [General function prediction only]; Region: COG3899 1173022012823 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022012824 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1173022012825 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1173022012826 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 1173022012827 dimer interface [polypeptide binding]; other site 1173022012828 phosphorylation site [posttranslational modification] 1173022012829 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 1173022012830 ATP binding site [chemical binding]; other site 1173022012831 Mg2+ binding site [ion binding]; other site 1173022012832 G-X-G motif; other site 1173022012833 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1173022012834 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 1173022012835 active site 1173022012836 phosphorylation site [posttranslational modification] 1173022012837 intermolecular recognition site; other site 1173022012838 dimerization interface [polypeptide binding]; other site 1173022012839 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022012840 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 1173022012841 active site 1173022012842 phosphorylation site [posttranslational modification] 1173022012843 intermolecular recognition site; other site 1173022012844 dimerization interface [polypeptide binding]; other site 1173022012845 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1173022012846 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 1173022012847 putative active site [active] 1173022012848 heme pocket [chemical binding]; other site 1173022012849 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 1173022012850 dimer interface [polypeptide binding]; other site 1173022012851 phosphorylation site [posttranslational modification] 1173022012852 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 1173022012853 ATP binding site [chemical binding]; other site 1173022012854 G-X-G motif; other site 1173022012855 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022012856 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 1173022012857 active site 1173022012858 phosphorylation site [posttranslational modification] 1173022012859 intermolecular recognition site; other site 1173022012860 dimerization interface [polypeptide binding]; other site 1173022012861 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 1173022012862 S-adenosylmethionine binding site [chemical binding]; other site 1173022012863 mercuric reductase; Validated; Region: PRK06370 1173022012864 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1173022012865 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1173022012866 PAS domain S-box; Region: sensory_box; TIGR00229 1173022012867 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 1173022012868 putative active site [active] 1173022012869 heme pocket [chemical binding]; other site 1173022012870 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1173022012871 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 1173022012872 dimer interface [polypeptide binding]; other site 1173022012873 phosphorylation site [posttranslational modification] 1173022012874 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 1173022012875 ATP binding site [chemical binding]; other site 1173022012876 Mg2+ binding site [ion binding]; other site 1173022012877 G-X-G motif; other site 1173022012878 Uncharacterized conserved protein [Function unknown]; Region: COG0398 1173022012879 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1173022012880 Domain of unknown function (DUF4336); Region: DUF4336; pfam14234 1173022012881 alpha-glucosidase; Provisional; Region: PRK10137 1173022012882 Mannosyl oligosaccharide glucosidase; Region: Glyco_hydro_63; pfam03200 1173022012883 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1173022012884 putative acetyltransferase; Provisional; Region: PRK03624 1173022012885 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1173022012886 Coenzyme A binding pocket [chemical binding]; other site 1173022012887 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 1173022012888 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1173022012889 putative ADP-binding pocket [chemical binding]; other site 1173022012890 D-inositol-3-phosphate glycosyltransferase; Region: mycothiol_MshA; TIGR03449 1173022012891 This family is most closely related to the GT1 family of glycosyltransferases. The sucrose-phosphate synthases in this family may be unique to plants and photosynthetic bacteria. This enzyme catalyzes the synthesis of sucrose 6-phosphate from fructose...; Region: GT1_Sucrose_synthase; cd03800 1173022012892 putative ADP-binding pocket [chemical binding]; other site 1173022012893 TspO/MBR family; Region: TspO_MBR; cl01379 1173022012894 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 1173022012895 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 1173022012896 active site residue [active] 1173022012897 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1173022012898 dimer interface [polypeptide binding]; other site 1173022012899 putative CheW interface [polypeptide binding]; other site 1173022012900 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022012901 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1173022012902 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022012903 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1173022012904 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022012905 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022012906 Bacterial Micro-Compartment (BMC)-like domain 1 repeat 1; Region: BMC_like_1_repeat1; cd07051 1173022012907 putative hexamer interface [polypeptide binding]; other site 1173022012908 putative hexagonal pore; other site 1173022012909 Bacterial Micro-Compartment (BMC) domain; Region: BMC; cl01982 1173022012910 Hexamer interface [polypeptide binding]; other site 1173022012911 Hexagonal pore residue; other site 1173022012912 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1173022012913 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1173022012914 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1173022012915 Domain of unknown function (DUF4112); Region: DUF4112; pfam13430 1173022012916 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 1173022012917 threonine synthase; Reviewed; Region: PRK06721 1173022012918 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 1173022012919 homodimer interface [polypeptide binding]; other site 1173022012920 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1173022012921 catalytic residue [active] 1173022012922 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 1173022012923 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1173022012924 ATP binding site [chemical binding]; other site 1173022012925 Mg++ binding site [ion binding]; other site 1173022012926 motif III; other site 1173022012927 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 1173022012928 nucleotide binding region [chemical binding]; other site 1173022012929 ATP-binding site [chemical binding]; other site 1173022012930 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 1173022012931 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1173022012932 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 1173022012933 FeS/SAM binding site; other site 1173022012934 TRAM domain; Region: TRAM; cl01282 1173022012935 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; cd04722 1173022012936 phosphate binding site [ion binding]; other site 1173022012937 Vitamin K epoxide reductase family in bacteria and plants; Region: VKOR_1; cd12916 1173022012938 putative active site [active] 1173022012939 substrate binding site [chemical binding]; other site 1173022012940 redox center [active] 1173022012941 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 1173022012942 CHASE2 domain; Region: CHASE2; pfam05226 1173022012943 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 1173022012944 PAS fold; Region: PAS_4; pfam08448 1173022012945 putative active site [active] 1173022012946 heme pocket [chemical binding]; other site 1173022012947 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1173022012948 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1173022012949 metal binding site [ion binding]; metal-binding site 1173022012950 active site 1173022012951 I-site; other site 1173022012952 L-aspartate oxidase; Provisional; Region: PRK07395 1173022012953 L-aspartate oxidase; Provisional; Region: PRK06175 1173022012954 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1173022012955 photosystem II complex extrinsic protein precursor U; Provisional; Region: psbU; PRK02515 1173022012956 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1173022012957 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 1173022012958 dimer interface [polypeptide binding]; other site 1173022012959 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1173022012960 catalytic triad [active] 1173022012961 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1173022012962 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1173022012963 Probable transposase; Region: OrfB_IS605; pfam01385 1173022012964 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1173022012965 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1173022012966 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 1173022012967 dimer interface [polypeptide binding]; other site 1173022012968 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1173022012969 catalytic residue [active] 1173022012970 TPR repeat; Region: TPR_11; pfam13414 1173022012971 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 1173022012972 binding surface 1173022012973 TPR motif; other site 1173022012974 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1173022012975 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 1173022012976 putative active site [active] 1173022012977 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 1173022012978 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 1173022012979 dimer interface [polypeptide binding]; other site 1173022012980 [2Fe-2S] cluster binding site [ion binding]; other site 1173022012981 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 1173022012982 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 1173022012983 putative substrate translocation pore; other site 1173022012984 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1173022012985 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 1173022012986 S-adenosylmethionine binding site [chemical binding]; other site 1173022012987 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 1173022012988 TPR motif; other site 1173022012989 binding surface 1173022012990 Peptidase family M48; Region: Peptidase_M48; cl12018 1173022012991 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 1173022012992 dimer interface [polypeptide binding]; other site 1173022012993 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1173022012994 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1173022012995 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 1173022012996 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 1173022012997 nucleotide binding site [chemical binding]; other site 1173022012998 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1173022012999 SBD interface [polypeptide binding]; other site 1173022013000 Protein of unknown function (DUF3181); Region: DUF3181; pfam11378 1173022013001 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1173022013002 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 1173022013003 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 1173022013004 dihydropteroate synthase; Region: DHPS; TIGR01496 1173022013005 substrate binding pocket [chemical binding]; other site 1173022013006 dimer interface [polypeptide binding]; other site 1173022013007 inhibitor binding site; inhibition site 1173022013008 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 1173022013009 triosephosphate isomerase; Provisional; Region: PRK14565 1173022013010 substrate binding site [chemical binding]; other site 1173022013011 dimer interface [polypeptide binding]; other site 1173022013012 catalytic triad [active] 1173022013013 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 1173022013014 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 1173022013015 active site 1173022013016 allophycocyanin beta 18 subunit; Region: apcF; CHL00089 1173022013017 glutamine synthetase, type I; Region: GlnA; TIGR00653 1173022013018 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1173022013019 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1173022013020 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1173022013021 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 1173022013022 S-adenosylmethionine binding site [chemical binding]; other site 1173022013023 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 1173022013024 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 1173022013025 SpoIVFB Site-2 protease (S2P), a zinc metalloprotease (MEROPS family M50B), regulates intramembrane proteolysis (RIP), and is involved in the pro-sigmaK pathway of bacterial spore formation. In this subgroup, SpoIVFB (sporulation protein, stage IV cell...; Region: S2P-M50_SpoIVFB_CBS; cd06164 1173022013026 Peptidase family M50; Region: Peptidase_M50; pfam02163 1173022013027 active site 1173022013028 putative substrate binding region [chemical binding]; other site 1173022013029 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the metalloprotease peptidase M50. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently found in a wide...; Region: CBS_pair_M50_like; cd04801 1173022013030 Photosystem I psaG / psaK; Region: PSI_PSAK; cl11425 1173022013031 photosystem I reaction center subunit PsaK; Region: PS_I_psaK; TIGR03049 1173022013032 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 1173022013033 active site 1173022013034 PAS fold; Region: PAS; pfam00989 1173022013035 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 1173022013036 putative active site [active] 1173022013037 heme pocket [chemical binding]; other site 1173022013038 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1173022013039 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1173022013040 metal binding site [ion binding]; metal-binding site 1173022013041 active site 1173022013042 I-site; other site 1173022013043 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 1173022013044 homodecamer interface [polypeptide binding]; other site 1173022013045 GTP cyclohydrolase I; Provisional; Region: PLN03044 1173022013046 active site 1173022013047 putative catalytic site residues [active] 1173022013048 zinc binding site [ion binding]; other site 1173022013049 GTP-CH-I/GFRP interaction surface; other site 1173022013050 short chain dehydrogenase; Provisional; Region: PRK07454 1173022013051 classical (c) SDRs; Region: SDR_c; cd05233 1173022013052 NAD(P) binding site [chemical binding]; other site 1173022013053 active site 1173022013054 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 1173022013055 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 1173022013056 acyl-ACP reductase; Provisional; Region: PRK14982 1173022013057 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 1173022013058 NAD(P) binding pocket [chemical binding]; other site 1173022013059 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1173022013060 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 1173022013061 S-adenosylmethionine binding site [chemical binding]; other site 1173022013062 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1173022013063 The Delta6 Fatty Acid Desaturase (Delta6-FADS)-like CD includes the integral-membrane enzymes: delta-4, delta-5, delta-6, delta-8, delta-8-sphingolipid, and delta-11 desaturases found in vertebrates, higher plants, fungi, and bacteria. These desaturases...; Region: Delta6-FADS-like; cd03506 1173022013064 putative di-iron ligands [ion binding]; other site 1173022013065 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1173022013066 dinuclear metal binding motif [ion binding]; other site 1173022013067 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1173022013068 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 1173022013069 dimer interface [polypeptide binding]; other site 1173022013070 conserved gate region; other site 1173022013071 putative PBP binding loops; other site 1173022013072 ABC-ATPase subunit interface; other site 1173022013073 Predicted membrane protein (DUF2243); Region: DUF2243; cl01783 1173022013074 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 1173022013075 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1173022013076 NAD(P) binding site [chemical binding]; other site 1173022013077 Phytochelatin synthase; Region: Phytochelatin; pfam05023 1173022013078 GDSL-like Lipase/Acylhydrolase family; Region: Lipase_GDSL_2; pfam13472 1173022013079 active site 1173022013080 catalytic triad [active] 1173022013081 oxyanion hole [active] 1173022013082 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 1173022013083 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 1173022013084 ATP binding site [chemical binding]; other site 1173022013085 Mg2+ binding site [ion binding]; other site 1173022013086 G-X-G motif; other site 1173022013087 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 1173022013088 ATP binding site [chemical binding]; other site 1173022013089 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 1173022013090 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 1173022013091 active site residue [active] 1173022013092 hypothetical protein; Reviewed; Region: PRK09588 1173022013093 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 1173022013094 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1173022013095 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1173022013096 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1173022013097 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 1173022013098 Ligand Binding Site [chemical binding]; other site 1173022013099 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1173022013100 Domain of unknown function DUF21; Region: DUF21; pfam01595 1173022013101 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 1173022013102 Transporter associated domain; Region: CorC_HlyC; smart01091 1173022013103 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1173022013104 active site 1173022013105 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041; cl17396 1173022013106 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 1173022013107 oligomeric interface; other site 1173022013108 putative active site [active] 1173022013109 homodimer interface [polypeptide binding]; other site 1173022013110 thiamine biosynthesis protein ThiC; Provisional; Region: PRK13352 1173022013111 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 1173022013112 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 1173022013113 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 1173022013114 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 1173022013115 putative active site [active] 1173022013116 putative NTP binding site [chemical binding]; other site 1173022013117 putative nucleic acid binding site [nucleotide binding]; other site 1173022013118 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1173022013119 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 1173022013120 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 1173022013121 active site 1173022013122 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 1173022013123 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 1173022013124 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1173022013125 active site 1173022013126 ATP binding site [chemical binding]; other site 1173022013127 substrate binding site [chemical binding]; other site 1173022013128 activation loop (A-loop); other site 1173022013129 Bacterial SH3 domain; Region: SH3_3; pfam08239 1173022013130 Aminomethyltransferase folate-binding domain; Region: GCV_T; pfam01571 1173022013131 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 1173022013132 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1173022013133 S-layer homology domain; Region: SLH; pfam00395 1173022013134 S-layer homology domain; Region: SLH; pfam00395 1173022013135 S-layer homology domain; Region: SLH; pfam00395 1173022013136 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 1173022013137 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1649 1173022013138 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1173022013139 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1173022013140 Probable transposase; Region: OrfB_IS605; pfam01385 1173022013141 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1173022013142 Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452 1173022013143 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 1173022013144 DNA binding residues [nucleotide binding] 1173022013145 Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of...; Region: SR_IS607_transposase_like; cd03769 1173022013146 catalytic residues [active] 1173022013147 catalytic nucleophile [active] 1173022013148 bifunctional sterol desaturase/short chain dehydrogenase; Validated; Region: PRK07424 1173022013149 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1173022013150 NAD(P) binding site [chemical binding]; other site 1173022013151 active site 1173022013152 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1173022013153 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 1173022013154 DXD motif; other site 1173022013155 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 1173022013156 sequence-specific DNA binding site [nucleotide binding]; other site 1173022013157 salt bridge; other site 1173022013158 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 1173022013159 D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics; Region: D-aminoacylase; cd01297 1173022013160 active site 1173022013161 putative substrate binding pocket [chemical binding]; other site 1173022013162 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 1173022013163 Protein of unknown function (DUF962); Region: DUF962; cl01879 1173022013164 Fatty acyltransferase-like subfamily of the SGNH hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: fatty_acyltransferase_like; cd01846 1173022013165 active site 1173022013166 catalytic triad [active] 1173022013167 oxyanion hole [active] 1173022013168 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_2; cd06160 1173022013169 Peptidase family M50; Region: Peptidase_M50; pfam02163 1173022013170 active site 1173022013171 putative substrate binding region [chemical binding]; other site 1173022013172 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 1173022013173 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 1173022013174 putative active site [active] 1173022013175 Protein of unknown function (DUF3110); Region: DUF3110; pfam11360 1173022013176 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 1173022013177 Uncharacterized protein containing caspase domain [General function prediction only]; Region: COG4249 1173022013178 Caspase domain; Region: Peptidase_C14; pfam00656 1173022013179 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 1173022013180 FOG: WD40 repeat [General function prediction only]; Region: COG2319 1173022013181 structural tetrad; other site 1173022013182 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 1173022013183 structural tetrad; other site 1173022013184 WD domain, G-beta repeat; Region: WD40; pfam00400 1173022013185 Arylsulfatase regulator (Fe-S oxidoreductase) [General function prediction only]; Region: AslB; COG0641 1173022013186 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 1173022013187 FeS/SAM binding site; other site 1173022013188 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1173022013189 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1173022013190 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 1173022013191 DNA binding residues [nucleotide binding] 1173022013192 Protein of unknown function (DUF1822); Region: DUF1822; pfam08852 1173022013193 Haemolytic domain; Region: Haemolytic; pfam01809 1173022013194 Dolichol kinase [Lipid metabolism]; Region: SEC59; COG0170 1173022013195 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 1173022013196 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 1173022013197 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 1173022013198 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 1173022013199 binding surface 1173022013200 TPR motif; other site 1173022013201 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 1173022013202 binding surface 1173022013203 TPR motif; other site 1173022013204 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 1173022013205 binding surface 1173022013206 TPR motif; other site 1173022013207 CHAT domain; Region: CHAT; cl17868 1173022013208 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 1173022013209 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 1173022013210 active site 1173022013211 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 1173022013212 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1173022013213 active site 1173022013214 (T/H)XGH motif; other site 1173022013215 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 1173022013216 nudix motif; other site 1173022013217 NAD synthetase; Provisional; Region: PRK13981 1173022013218 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 1173022013219 multimer interface [polypeptide binding]; other site 1173022013220 active site 1173022013221 catalytic triad [active] 1173022013222 protein interface 1 [polypeptide binding]; other site 1173022013223 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 1173022013224 homodimer interface [polypeptide binding]; other site 1173022013225 NAD binding pocket [chemical binding]; other site 1173022013226 ATP binding pocket [chemical binding]; other site 1173022013227 Mg binding site [ion binding]; other site 1173022013228 active-site loop [active] 1173022013229 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 1173022013230 dimer interface [polypeptide binding]; other site 1173022013231 conserved gate region; other site 1173022013232 ABC-ATPase subunit interface; other site 1173022013233 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 1173022013234 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1173022013235 active site 1173022013236 NTP binding site [chemical binding]; other site 1173022013237 metal binding triad [ion binding]; metal-binding site 1173022013238 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1173022013239 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 1173022013240 Hypothetical chloroplast protein Ycf34; Region: Ycf34; pfam10718 1173022013241 XisI protein; Region: XisI; pfam08869 1173022013242 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1173022013243 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 1173022013244 argininosuccinate synthase; Provisional; Region: PRK13820 1173022013245 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 1173022013246 ANP binding site [chemical binding]; other site 1173022013247 Substrate Binding Site II [chemical binding]; other site 1173022013248 Substrate Binding Site I [chemical binding]; other site 1173022013249 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1173022013250 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1173022013251 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 1173022013252 Probable Catalytic site; other site 1173022013253 metal-binding site 1173022013254 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 1173022013255 N- and C-terminal domain interface [polypeptide binding]; other site 1173022013256 active site 1173022013257 MgATP binding site [chemical binding]; other site 1173022013258 catalytic site [active] 1173022013259 metal binding site [ion binding]; metal-binding site 1173022013260 xylulose binding site [chemical binding]; other site 1173022013261 homodimer interface [polypeptide binding]; other site 1173022013262 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1173022013263 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022013264 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022013265 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1173022013266 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022013267 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1173022013268 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 1173022013269 homodimer interface [polypeptide binding]; other site 1173022013270 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1173022013271 catalytic residue [active] 1173022013272 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1173022013273 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 1173022013274 active site 1173022013275 metal binding site [ion binding]; metal-binding site 1173022013276 Uncharacterized conserved protein [Function unknown]; Region: COG3349 1173022013277 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1173022013278 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1173022013279 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 1173022013280 active site 1173022013281 trimer interface [polypeptide binding]; other site 1173022013282 allosteric site; other site 1173022013283 active site lid [active] 1173022013284 hexamer (dimer of trimers) interface [polypeptide binding]; other site 1173022013285 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1173022013286 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1173022013287 Family of unknown function (DUF490); Region: DUF490; pfam04357 1173022013288 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1173022013289 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 1173022013290 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 1173022013291 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 1173022013292 SLBB domain; Region: SLBB; pfam10531 1173022013293 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1173022013294 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1173022013295 trimerization site [polypeptide binding]; other site 1173022013296 active site 1173022013297 Protein of function (DUF2518); Region: DUF2518; pfam10726 1173022013298 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 1173022013299 Glycerol dehydrogenases-like; Region: GlyDH-like1; cd08172 1173022013300 putative active site [active] 1173022013301 metal binding site [ion binding]; metal-binding site 1173022013302 aspartate aminotransferase; Provisional; Region: PRK05942 1173022013303 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 1173022013304 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1173022013305 homodimer interface [polypeptide binding]; other site 1173022013306 catalytic residue [active] 1173022013307 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG3372 1173022013308 Protein of unknown function (DUF790); Region: DUF790; pfam05626 1173022013309 PAS domain S-box; Region: sensory_box; TIGR00229 1173022013310 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 1173022013311 putative active site [active] 1173022013312 heme pocket [chemical binding]; other site 1173022013313 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1173022013314 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 1173022013315 dimer interface [polypeptide binding]; other site 1173022013316 phosphorylation site [posttranslational modification] 1173022013317 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 1173022013318 ATP binding site [chemical binding]; other site 1173022013319 Mg2+ binding site [ion binding]; other site 1173022013320 G-X-G motif; other site 1173022013321 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 1173022013322 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1173022013323 Walker A/P-loop; other site 1173022013324 ATP binding site [chemical binding]; other site 1173022013325 Q-loop/lid; other site 1173022013326 ABC transporter signature motif; other site 1173022013327 Walker B; other site 1173022013328 D-loop; other site 1173022013329 H-loop/switch region; other site 1173022013330 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 1173022013331 dimer interface [polypeptide binding]; other site 1173022013332 conserved gate region; other site 1173022013333 ABC-ATPase subunit interface; other site 1173022013334 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 1173022013335 Domain of unknown function (DUF4331); Region: DUF4331; pfam14224 1173022013336 Domain of unknown function (DUF4331); Region: DUF4331; pfam14224 1173022013337 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1173022013338 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 1173022013339 binding surface 1173022013340 TPR motif; other site 1173022013341 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1173022013342 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 1173022013343 TPR motif; other site 1173022013344 binding surface 1173022013345 High-affinity nickel-transport protein; Region: NicO; cl00964 1173022013346 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1173022013347 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1173022013348 GatB domain; Region: GatB_Yqey; smart00845 1173022013349 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 1173022013350 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 1173022013351 active site 1173022013352 SAM binding site [chemical binding]; other site 1173022013353 homodimer interface [polypeptide binding]; other site 1173022013354 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 1173022013355 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1173022013356 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 1173022013357 dimer interface [polypeptide binding]; other site 1173022013358 Uncharacterized conserved protein [Function unknown]; Region: COG0062 1173022013359 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 1173022013360 putative substrate binding site [chemical binding]; other site 1173022013361 putative ATP binding site [chemical binding]; other site 1173022013362 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 1173022013363 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 1173022013364 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG1964 1173022013365 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 1173022013366 FeS/SAM binding site; other site 1173022013367 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 1173022013368 Lecithin retinol acyltransferase; Region: LRAT; pfam04970 1173022013369 sulfate adenylyltransferase; Reviewed; Region: sat; PRK04149 1173022013370 ATP-sulfurylase; Region: ATPS; cd00517 1173022013371 active site 1173022013372 HXXH motif; other site 1173022013373 flexible loop; other site 1173022013374 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1173022013375 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 1173022013376 hinge region; other site 1173022013377 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 1173022013378 putative nucleotide binding site [chemical binding]; other site 1173022013379 uridine monophosphate binding site [chemical binding]; other site 1173022013380 homohexameric interface [polypeptide binding]; other site 1173022013381 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic...; Region: PRX_like1; cd02969 1173022013382 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1173022013383 putative catalytic residue [active] 1173022013384 hydrolase, alpha/beta fold family protein; Region: PLN02824 1173022013385 Transcriptional regulator [Transcription]; Region: LytR; COG1316 1173022013386 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 1173022013387 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 1173022013388 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 1173022013389 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 1173022013390 active site 1173022013391 catalytic residues [active] 1173022013392 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 1173022013393 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 1173022013394 substrate binding site [chemical binding]; other site 1173022013395 hexamer interface [polypeptide binding]; other site 1173022013396 metal binding site [ion binding]; metal-binding site 1173022013397 CsbD-like; Region: CsbD; pfam05532 1173022013398 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1173022013399 Probable transposase; Region: OrfB_IS605; pfam01385 1173022013400 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1173022013401 Uncharacterized conserved protein (DUF2349); Region: DUF2349; pfam09779 1173022013402 excinuclease ABC subunit B; Provisional; Region: PRK05298 1173022013403 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 1173022013404 ATP binding site [chemical binding]; other site 1173022013405 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 1173022013406 nucleotide binding region [chemical binding]; other site 1173022013407 ATP-binding site [chemical binding]; other site 1173022013408 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1173022013409 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: COG2402 1173022013410 light-harvesting-like protein 3; Provisional; Region: PLN00014 1173022013411 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 1173022013412 putative active site [active] 1173022013413 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1173022013414 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 1173022013415 dimer interface [polypeptide binding]; other site 1173022013416 phosphorylation site [posttranslational modification] 1173022013417 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 1173022013418 ATP binding site [chemical binding]; other site 1173022013419 Mg2+ binding site [ion binding]; other site 1173022013420 G-X-G motif; other site 1173022013421 Uncharacterized conserved protein (DUF2267); Region: DUF2267; pfam10025 1173022013422 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1173022013423 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1173022013424 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1173022013425 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1173022013426 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1173022013427 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1173022013428 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 1173022013429 IMP binding site; other site 1173022013430 dimer interface [polypeptide binding]; other site 1173022013431 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 1173022013432 putative active site [active] 1173022013433 Ub domain fused to Mut7-C; Region: Ub-Mut7C; pfam14451 1173022013434 Uncharacterized conserved protein [Function unknown]; Region: COG1656 1173022013435 Protein of unknown function DUF82; Region: DUF82; pfam01927 1173022013436 Domain of unknown function DUF29; Region: DUF29; pfam01724 1173022013437 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 1173022013438 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1173022013439 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 1173022013440 active site 1173022013441 Domain of unknown function (DUF4332); Region: DUF4332; pfam14229 1173022013442 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1173022013443 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1173022013444 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1173022013445 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1173022013446 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1173022013447 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1173022013448 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1173022013449 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1173022013450 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1173022013451 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1173022013452 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 1173022013453 ABC1 family; Region: ABC1; pfam03109 1173022013454 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 1173022013455 active site 1173022013456 ATP binding site [chemical binding]; other site 1173022013457 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 1173022013458 YcfA-like protein; Region: YcfA; cl00752 1173022013459 KTSC domain; Region: KTSC; pfam13619 1173022013460 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 1173022013461 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1173022013462 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 1173022013463 non-specific DNA binding site [nucleotide binding]; other site 1173022013464 salt bridge; other site 1173022013465 sequence-specific DNA binding site [nucleotide binding]; other site 1173022013466 Domain of unknown function (DUF955); Region: DUF955; cl01076 1173022013467 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1173022013468 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1173022013469 active site 1173022013470 (T/H)XGH motif; other site 1173022013471 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 1173022013472 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1173022013473 glutathione reductase; Validated; Region: PRK06116 1173022013474 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1173022013475 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1173022013476 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1173022013477 Caspase domain; Region: Peptidase_C14; pfam00656 1173022013478 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1173022013479 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 1173022013480 active site 1173022013481 phosphorylation site [posttranslational modification] 1173022013482 intermolecular recognition site; other site 1173022013483 dimerization interface [polypeptide binding]; other site 1173022013484 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 1173022013485 DNA binding site [nucleotide binding] 1173022013486 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 1173022013487 dimerization interface [polypeptide binding]; other site 1173022013488 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 1173022013489 dimer interface [polypeptide binding]; other site 1173022013490 phosphorylation site [posttranslational modification] 1173022013491 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 1173022013492 ATP binding site [chemical binding]; other site 1173022013493 Mg2+ binding site [ion binding]; other site 1173022013494 G-X-G motif; other site 1173022013495 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 1173022013496 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 1173022013497 cofactor binding site; other site 1173022013498 DNA binding site [nucleotide binding] 1173022013499 substrate interaction site [chemical binding]; other site 1173022013500 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 1173022013501 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 1173022013502 HlyD family secretion protein; Region: HlyD; pfam00529 1173022013503 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1173022013504 HlyD family secretion protein; Region: HlyD_3; pfam13437 1173022013505 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 1173022013506 ergothioneine biosynthesis protein EgtC; Region: TIGR03442 1173022013507 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 1173022013508 putative active site [active] 1173022013509 putative dimer interface [polypeptide binding]; other site 1173022013510 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 1173022013511 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1173022013512 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 1173022013513 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 1173022013514 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 1173022013515 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 1173022013516 active site 1173022013517 TDP-binding site; other site 1173022013518 acceptor substrate-binding pocket; other site 1173022013519 homodimer interface [polypeptide binding]; other site 1173022013520 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 1173022013521 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1173022013522 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 1173022013523 dimerization interface [polypeptide binding]; other site 1173022013524 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 1173022013525 dimerization interface [polypeptide binding]; other site 1173022013526 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 1173022013527 dimerization interface [polypeptide binding]; other site 1173022013528 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 1173022013529 dimerization interface [polypeptide binding]; other site 1173022013530 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1173022013531 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 1173022013532 dimerization interface [polypeptide binding]; other site 1173022013533 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 1173022013534 dimerization interface [polypeptide binding]; other site 1173022013535 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 1173022013536 dimerization interface [polypeptide binding]; other site 1173022013537 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1173022013538 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 1173022013539 dimerization interface [polypeptide binding]; other site 1173022013540 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 1173022013541 dimerization interface [polypeptide binding]; other site 1173022013542 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 1173022013543 dimerization interface [polypeptide binding]; other site 1173022013544 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 1173022013545 dimerization interface [polypeptide binding]; other site 1173022013546 GAF domain; Region: GAF_2; pfam13185 1173022013547 GAF domain; Region: GAF; pfam01590 1173022013548 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 1173022013549 dimer interface [polypeptide binding]; other site 1173022013550 phosphorylation site [posttranslational modification] 1173022013551 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 1173022013552 ATP binding site [chemical binding]; other site 1173022013553 Mg2+ binding site [ion binding]; other site 1173022013554 G-X-G motif; other site 1173022013555 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022013556 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 1173022013557 active site 1173022013558 phosphorylation site [posttranslational modification] 1173022013559 intermolecular recognition site; other site 1173022013560 dimerization interface [polypeptide binding]; other site 1173022013561 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022013562 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 1173022013563 active site 1173022013564 phosphorylation site [posttranslational modification] 1173022013565 intermolecular recognition site; other site 1173022013566 dimerization interface [polypeptide binding]; other site 1173022013567 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1173022013568 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 1173022013569 active site 1173022013570 phosphorylation site [posttranslational modification] 1173022013571 intermolecular recognition site; other site 1173022013572 dimerization interface [polypeptide binding]; other site 1173022013573 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022013574 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 1173022013575 active site 1173022013576 phosphorylation site [posttranslational modification] 1173022013577 intermolecular recognition site; other site 1173022013578 dimerization interface [polypeptide binding]; other site 1173022013579 PAS fold; Region: PAS; pfam00989 1173022013580 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 1173022013581 putative active site [active] 1173022013582 heme pocket [chemical binding]; other site 1173022013583 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1173022013584 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 1173022013585 dimer interface [polypeptide binding]; other site 1173022013586 phosphorylation site [posttranslational modification] 1173022013587 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 1173022013588 ATP binding site [chemical binding]; other site 1173022013589 Mg2+ binding site [ion binding]; other site 1173022013590 G-X-G motif; other site 1173022013591 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022013592 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 1173022013593 active site 1173022013594 phosphorylation site [posttranslational modification] 1173022013595 intermolecular recognition site; other site 1173022013596 dimerization interface [polypeptide binding]; other site 1173022013597 Transposase IS200 like; Region: Y1_Tnp; cl00848 1173022013598 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 1173022013599 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1173022013600 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 1173022013601 active site 1173022013602 phosphorylation site [posttranslational modification] 1173022013603 intermolecular recognition site; other site 1173022013604 dimerization interface [polypeptide binding]; other site 1173022013605 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1173022013606 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 1173022013607 dimer interface [polypeptide binding]; other site 1173022013608 phosphorylation site [posttranslational modification] 1173022013609 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 1173022013610 ATP binding site [chemical binding]; other site 1173022013611 Mg2+ binding site [ion binding]; other site 1173022013612 G-X-G motif; other site 1173022013613 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022013614 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 1173022013615 active site 1173022013616 phosphorylation site [posttranslational modification] 1173022013617 intermolecular recognition site; other site 1173022013618 dimerization interface [polypeptide binding]; other site 1173022013619 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 1173022013620 GAF domain; Region: GAF; pfam01590 1173022013621 Phytochrome region; Region: PHY; pfam00360 1173022013622 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 1173022013623 dimer interface [polypeptide binding]; other site 1173022013624 phosphorylation site [posttranslational modification] 1173022013625 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 1173022013626 ATP binding site [chemical binding]; other site 1173022013627 Mg2+ binding site [ion binding]; other site 1173022013628 G-X-G motif; other site 1173022013629 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1173022013630 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1173022013631 Probable transposase; Region: OrfB_IS605; pfam01385 1173022013632 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1173022013633 Mg-protoporphyrin IX methyl transferase; Validated; Region: PRK07580 1173022013634 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 1173022013635 S-adenosylmethionine binding site [chemical binding]; other site 1173022013636 Magnesium-protoporphyrin IX methyltransferase C-terminus; Region: Mg-por_mtran_C; pfam07109 1173022013637 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 1173022013638 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 1173022013639 active site 1173022013640 dimer interface [polypeptide binding]; other site 1173022013641 S-layer homology domain; Region: SLH; pfam00395 1173022013642 S-layer homology domain; Region: SLH; pfam00395 1173022013643 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 1173022013644 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 1173022013645 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 1173022013646 sialate_O-acetylesterase_like subfamily of the SGNH-hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: sialate_O-acetylesterase_like2; cd01828 1173022013647 active site 1173022013648 catalytic triad [active] 1173022013649 oxyanion hole [active] 1173022013650 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Provisional; Region: PRK13371 1173022013651 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 1173022013652 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 1173022013653 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1173022013654 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1173022013655 NAD(P) binding site [chemical binding]; other site 1173022013656 Complex I intermediate-associated protein 30 (CIA30); Region: CIA30; pfam08547 1173022013657 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1173022013658 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1173022013659 active site 1173022013660 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 1173022013661 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 1173022013662 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 1173022013663 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 1173022013664 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 1173022013665 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 1173022013666 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 1173022013667 putative active site [active] 1173022013668 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1173022013669 Clp amino terminal domain; Region: Clp_N; pfam02861 1173022013670 Clp amino terminal domain; Region: Clp_N; pfam02861 1173022013671 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 1173022013672 Walker A motif; other site 1173022013673 ATP binding site [chemical binding]; other site 1173022013674 Walker B motif; other site 1173022013675 arginine finger; other site 1173022013676 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 1173022013677 Walker A motif; other site 1173022013678 ATP binding site [chemical binding]; other site 1173022013679 Walker B motif; other site 1173022013680 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1173022013681 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 1173022013682 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 1173022013683 S-adenosylmethionine binding site [chemical binding]; other site 1173022013684 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 1173022013685 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1173022013686 active site 1173022013687 metal binding site [ion binding]; metal-binding site 1173022013688 photochlorophyllide reductase subunit B; Region: chlB; CHL00076 1173022013689 Pchlide_reductase_B: B protein of the NB protein complex of Protochlorophyllide (Pchlide)_reductase. Pchlide reductase catalyzes the reductive formation of chlorophyllide (chlide) from protochlorophyllide (pchlide) during biosynthesis of chlorophylls and...; Region: Pchlide_reductase_B; cd01981 1173022013690 Proto-chlorophyllide reductase 57 kD subunit; Region: PCP_red; pfam08369 1173022013691 ribonuclease PH; Reviewed; Region: rph; PRK00173 1173022013692 Ribonuclease PH; Region: RNase_PH_bact; cd11362 1173022013693 hexamer interface [polypeptide binding]; other site 1173022013694 active site 1173022013695 adenylate kinase; Reviewed; Region: adk; PRK00279 1173022013696 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 1173022013697 AMP-binding site [chemical binding]; other site 1173022013698 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1173022013699 RsbT co-antagonist protein rsbRD N-terminal domain; Region: RsbRD_N; pfam14361 1173022013700 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 1173022013701 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 1173022013702 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 1173022013703 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 1173022013704 ATP binding site [chemical binding]; other site 1173022013705 Mg2+ binding site [ion binding]; other site 1173022013706 G-X-G motif; other site 1173022013707 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 1173022013708 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 1173022013709 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 1173022013710 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 1173022013711 ATP binding site [chemical binding]; other site 1173022013712 Mg2+ binding site [ion binding]; other site 1173022013713 G-X-G motif; other site 1173022013714 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1173022013715 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 1173022013716 dimer interface [polypeptide binding]; other site 1173022013717 phosphorylation site [posttranslational modification] 1173022013718 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 1173022013719 ATP binding site [chemical binding]; other site 1173022013720 Mg2+ binding site [ion binding]; other site 1173022013721 G-X-G motif; other site 1173022013722 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022013723 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 1173022013724 active site 1173022013725 phosphorylation site [posttranslational modification] 1173022013726 intermolecular recognition site; other site 1173022013727 dimerization interface [polypeptide binding]; other site 1173022013728 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 1173022013729 active site 1173022013730 phosphorylation site [posttranslational modification] 1173022013731 intermolecular recognition site; other site 1173022013732 dimerization interface [polypeptide binding]; other site 1173022013733 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022013734 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 1173022013735 active site 1173022013736 phosphorylation site [posttranslational modification] 1173022013737 intermolecular recognition site; other site 1173022013738 dimerization interface [polypeptide binding]; other site 1173022013739 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 1173022013740 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1173022013741 putative active site [active] 1173022013742 heme pocket [chemical binding]; other site 1173022013743 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 1173022013744 dimer interface [polypeptide binding]; other site 1173022013745 phosphorylation site [posttranslational modification] 1173022013746 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 1173022013747 ATP binding site [chemical binding]; other site 1173022013748 Mg2+ binding site [ion binding]; other site 1173022013749 G-X-G motif; other site 1173022013750 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1173022013751 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 1173022013752 active site 1173022013753 phosphorylation site [posttranslational modification] 1173022013754 intermolecular recognition site; other site 1173022013755 dimerization interface [polypeptide binding]; other site 1173022013756 Isochorismatase family; Region: Isochorismatase; pfam00857 1173022013757 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 1173022013758 catalytic triad [active] 1173022013759 conserved cis-peptide bond; other site 1173022013760 Predicted membrane protein [Function unknown]; Region: COG2323 1173022013761 cob(I)yrinic acid a,c-diamide adenosyltransferase; Validated; Region: PRK07414 1173022013762 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 1173022013763 catalytic motif [active] 1173022013764 Zn binding site [ion binding]; other site 1173022013765 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1173022013766 trimer interface [polypeptide binding]; other site 1173022013767 active site 1173022013768 Thymidylate synthase complementing protein; Region: Thy1; cl03630 1173022013769 Hint (Hedgehog/Intein) domain N-terminal region; Region: HintN; smart00306 1173022013770 thioester formation/cholesterol transfer; other site 1173022013771 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 1173022013772 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 1173022013773 active site 1173022013774 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 1173022013775 protein-splicing catalytic site; other site 1173022013776 Thymidylate synthase complementing protein; Region: Thy1; cl03630 1173022013777 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 1173022013778 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1173022013779 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1173022013780 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 1173022013781 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 1173022013782 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1173022013783 homodimer interface [polypeptide binding]; other site 1173022013784 catalytic residue [active] 1173022013785 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 1173022013786 IHF dimer interface [polypeptide binding]; other site 1173022013787 IHF - DNA interface [nucleotide binding]; other site 1173022013788 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 1173022013789 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1173022013790 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 1173022013791 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 1173022013792 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 1173022013793 Cell division protein FtsA; Region: FtsA; cl17206 1173022013794 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1173022013795 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1173022013796 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 1173022013797 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1173022013798 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1173022013799 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 1173022013800 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1173022013801 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 1173022013802 TM-ABC transporter signature motif; other site 1173022013803 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1173022013804 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1173022013805 Walker A/P-loop; other site 1173022013806 ATP binding site [chemical binding]; other site 1173022013807 Q-loop/lid; other site 1173022013808 ABC transporter signature motif; other site 1173022013809 Walker B; other site 1173022013810 D-loop; other site 1173022013811 H-loop/switch region; other site 1173022013812 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1173022013813 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_11; cd06321 1173022013814 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1173022013815 putative ligand binding site [chemical binding]; other site 1173022013816 Domain of unknown function (DUF4278); Region: DUF4278; pfam14105 1173022013817 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 1173022013818 Winged helix-turn helix; Region: HTH_29; pfam13551 1173022013819 Winged helix-turn helix; Region: HTH_33; pfam13592 1173022013820 DDE superfamily endonuclease; Region: DDE_3; pfam13358 1173022013821 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 1173022013822 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 1173022013823 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 1173022013824 active site 1173022013825 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 1173022013826 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 1173022013827 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 1173022013828 substrate binding site [chemical binding]; other site 1173022013829 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 1173022013830 substrate binding site [chemical binding]; other site 1173022013831 ligand binding site [chemical binding]; other site 1173022013832 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 1173022013833 Uncharacterized conserved protein [Function unknown]; Region: COG2442 1173022013834 Nitrogen fixation protein of unknown function; Region: Nif11; pfam07862 1173022013835 Cupin domain; Region: Cupin_2; cl17218 1173022013836 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 1173022013837 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 1173022013838 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1173022013839 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1173022013840 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1173022013841 The C-terminal domain of a subfamily of Na+ /H+ antiporter existed in bacteria and archea . Na+/H+ exchange proteins eject protons from cells, effectively eliminating excess acid from actively metabolising cells. Na+ /H+ exchange activity is also crucial...; Region: Na_H_Antiporter_C; cd01988 1173022013842 Ligand Binding Site [chemical binding]; other site 1173022013843 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 1173022013844 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1173022013845 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1173022013846 shikimate binding site; other site 1173022013847 NAD(P) binding site [chemical binding]; other site 1173022013848 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022013849 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 1173022013850 active site 1173022013851 phosphorylation site [posttranslational modification] 1173022013852 intermolecular recognition site; other site 1173022013853 dimerization interface [polypeptide binding]; other site 1173022013854 GAF domain; Region: GAF; pfam01590 1173022013855 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022013856 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 1173022013857 active site 1173022013858 phosphorylation site [posttranslational modification] 1173022013859 intermolecular recognition site; other site 1173022013860 dimerization interface [polypeptide binding]; other site 1173022013861 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022013862 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 1173022013863 active site 1173022013864 phosphorylation site [posttranslational modification] 1173022013865 intermolecular recognition site; other site 1173022013866 dimerization interface [polypeptide binding]; other site 1173022013867 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 1173022013868 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022013869 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1173022013870 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022013871 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1173022013872 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022013873 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1173022013874 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022013875 GAF domain; Region: GAF; pfam01590 1173022013876 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022013877 GAF domain; Region: GAF; pfam01590 1173022013878 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1173022013879 GAF domain; Region: GAF; pfam01590 1173022013880 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 1173022013881 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1173022013882 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1173022013883 dimer interface [polypeptide binding]; other site 1173022013884 putative CheW interface [polypeptide binding]; other site 1173022013885 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 1173022013886 putative binding surface; other site 1173022013887 active site 1173022013888 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1173022013889 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 1173022013890 ATP binding site [chemical binding]; other site 1173022013891 Mg2+ binding site [ion binding]; other site 1173022013892 G-X-G motif; other site 1173022013893 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 1173022013894 Response regulator receiver domain; Region: Response_reg; pfam00072 1173022013895 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 1173022013896 active site 1173022013897 phosphorylation site [posttranslational modification] 1173022013898 intermolecular recognition site; other site 1173022013899 dimerization interface [polypeptide binding]; other site 1173022013900 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 1173022013901 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 1173022013902 E-class dimer interface [polypeptide binding]; other site 1173022013903 P-class dimer interface [polypeptide binding]; other site 1173022013904 active site 1173022013905 Cu2+ binding site [ion binding]; other site 1173022013906 Zn2+ binding site [ion binding]; other site 1173022013907 Protein of unknown function (DUF2993); Region: DUF2993; pfam11209 1173022013908 YGGT family; Region: YGGT; pfam02325 1173022013909 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1173022013910 active site 1173022013911 carotene isomerase; Region: carot_isom; TIGR02730 1173022013912 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1173022013913 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1173022013914 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1173022013915 Walker A/P-loop; other site 1173022013916 ATP binding site [chemical binding]; other site 1173022013917 Q-loop/lid; other site 1173022013918 ABC transporter signature motif; other site 1173022013919 Walker B; other site 1173022013920 D-loop; other site 1173022013921 H-loop/switch region; other site 1173022013922 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1173022013923 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 1173022013924 substrate binding pocket [chemical binding]; other site 1173022013925 membrane-bound complex binding site; other site 1173022013926 hinge residues; other site 1173022013927 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1173022013928 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 1173022013929 dimer interface [polypeptide binding]; other site 1173022013930 conserved gate region; other site 1173022013931 putative PBP binding loops; other site 1173022013932 ABC-ATPase subunit interface; other site 1173022013933 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 1173022013934 Transposase domain (DUF772); Region: DUF772; pfam05598 1173022013935 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1173022013936 DDE superfamily endonuclease; Region: DDE_5; cl17874 1173022013937 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK07428 1173022013938 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 1173022013939 dimerization interface [polypeptide binding]; other site 1173022013940 active site 1173022013941 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 1173022013942 arginine-tRNA ligase; Region: PLN02286 1173022013943 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1173022013944 active site 1173022013945 HIGH motif; other site 1173022013946 KMSK motif region; other site 1173022013947 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 1173022013948 tRNA binding surface [nucleotide binding]; other site 1173022013949 anticodon binding site; other site 1173022013950 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 1173022013951 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 1173022013952 putative metal binding site [ion binding]; other site 1173022013953 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 1173022013954 putative metal binding site [ion binding]; other site 1173022013955 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 1173022013956 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 1173022013957 putative metal binding site [ion binding]; other site 1173022013958 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 1173022013959 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 1173022013960 putative metal binding site [ion binding]; other site 1173022013961 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 1173022013962 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 1173022013963 putative metal binding site [ion binding]; other site 1173022013964 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 1173022013965 active site 1173022013966 catalytic residues [active] 1173022013967 metal binding site [ion binding]; metal-binding site 1173022013968 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 1173022013969 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1173022013970 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 1173022013971 active site 1173022013972 DNA binding site [nucleotide binding] 1173022013973 Int/Topo IB signature motif; other site 1173022013974 This entry represents the putative helicase A859L; Region: T5orf172; smart00974 1173022013975 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1173022013976 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 1173022013977 P-loop; other site 1173022013978 Magnesium ion binding site [ion binding]; other site 1173022013979 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 1173022013980 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 1173022013981 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 1173022013982 ATP binding site [chemical binding]; other site 1173022013983 putative Mg++ binding site [ion binding]; other site 1173022013984 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 1173022013985 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 1173022013986 putative active site [active] 1173022013987 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1173022013988 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1173022013989 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 1173022013990 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1173022013991 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1173022013992 ParB-like nuclease domain; Region: ParB; smart00470 1173022013993 TIGR04255 family protein; Region: sporadTIGR04255 1173022013994 HNH endonuclease; Region: HNH_3; pfam13392 1173022013995 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 1173022013996 DNA-binding interface [nucleotide binding]; DNA binding site 1173022013997 2-acyl-glycerophospho-ethanolamine acyltransferase; Validated; Region: PRK08633 1173022013998 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1173022013999 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 1173022014000 non-specific DNA binding site [nucleotide binding]; other site 1173022014001 salt bridge; other site 1173022014002 sequence-specific DNA binding site [nucleotide binding]; other site 1173022014003 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 1173022014004 active site 1173022014005 metal binding site [ion binding]; metal-binding site 1173022014006 interdomain interaction site; other site 1173022014007 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 1173022014008 thiazole biosynthesis adenylyltransferase ThiF, E. coli subfamily; Region: adenyl_thiF; TIGR02356 1173022014009 ATP binding site [chemical binding]; other site 1173022014010 substrate interface [chemical binding]; other site 1173022014011 Ubiquitin-conjugating enzyme E2, catalytic (UBCc) domain. This is part of the ubiquitin-mediated protein degradation pathway in which a thiol-ester linkage forms between a conserved cysteine and the C-terminus of ubiquitin and complexes with ubiquitin...; Region: UBCc; cl00154 1173022014012 active site cysteine 1173022014013 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 1173022014014 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 1173022014015 AAA-like domain; Region: AAA_10; pfam12846 1173022014016 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 1173022014017 Walker A motif; other site 1173022014018 ATP binding site [chemical binding]; other site 1173022014019 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 1173022014020 Walker B motif; other site 1173022014021 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 1173022014022 Mg binding site [ion binding]; other site 1173022014023 nucleotide binding site [chemical binding]; other site 1173022014024 putative protofilament interface [polypeptide binding]; other site 1173022014025 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 1173022014026 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 1173022014027 multiple promoter invertase; Provisional; Region: mpi; PRK13413 1173022014028 catalytic residues [active] 1173022014029 catalytic nucleophile [active] 1173022014030 Presynaptic Site I dimer interface [polypeptide binding]; other site 1173022014031 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1173022014032 Synaptic Flat tetramer interface [polypeptide binding]; other site 1173022014033 Synaptic Site I dimer interface [polypeptide binding]; other site 1173022014034 DNA binding site [nucleotide binding] 1173022014035 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 1173022014036 active site 1173022014037 DNA binding site [nucleotide binding] 1173022014038 Int/Topo IB signature motif; other site 1173022014039 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 1173022014040 active site 1173022014041 catalytic residues [active] 1173022014042 DNA binding site [nucleotide binding] 1173022014043 Int/Topo IB signature motif; other site 1173022014044 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 1173022014045 Family description; Region: UvrD_C_2; pfam13538 1173022014046 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1173022014047 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 1173022014048 Protein of unknown function DUF262; Region: DUF262; pfam03235 1173022014049 Uncharacterized conserved protein [Function unknown]; Region: COG1479 1173022014050 Uncharacterized conserved protein [Function unknown]; Region: COG4938 1173022014051 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1173022014052 Walker B; other site 1173022014053 D-loop; other site 1173022014054 H-loop/switch region; other site 1173022014055 Protein of unknown function (DUF3696); Region: DUF3696; pfam12476 1173022014056 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1173022014057 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 1173022014058 ATP binding site [chemical binding]; other site 1173022014059 Mg2+ binding site [ion binding]; other site 1173022014060 G-X-G motif; other site 1173022014061 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 1173022014062 Replication protein; Region: Rep_1; pfam01446