-- dump date 20140619_055423 -- class Genbank::misc_feature -- table misc_feature_note -- id note 13035000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 13035000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 13035000003 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 13035000004 Walker A motif; other site 13035000005 ATP binding site [chemical binding]; other site 13035000006 Walker B motif; other site 13035000007 arginine finger; other site 13035000008 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 13035000009 DnaA box-binding interface [nucleotide binding]; other site 13035000010 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 13035000011 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 13035000012 RNA polymerase sigma factor; Provisional; Region: PRK12518 13035000013 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 13035000014 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 13035000015 DNA binding residues [nucleotide binding] 13035000016 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 13035000017 dimer interface [polypeptide binding]; other site 13035000018 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 13035000019 glycine dehydrogenase; Provisional; Region: PRK05367 13035000020 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 13035000021 tetramer interface [polypeptide binding]; other site 13035000022 pyridoxal 5'-phosphate binding site [chemical binding]; other site 13035000023 catalytic residue [active] 13035000024 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 13035000025 tetramer interface [polypeptide binding]; other site 13035000026 pyridoxal 5'-phosphate binding site [chemical binding]; other site 13035000027 catalytic residue [active] 13035000028 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 13035000029 lipoyl attachment site [posttranslational modification]; other site 13035000030 hypothetical protein; Validated; Region: PRK00110 13035000031 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 13035000032 DNA methylase; Region: N6_N4_Mtase; pfam01555 13035000033 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 13035000034 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 13035000035 Probable transposase; Region: OrfB_IS605; pfam01385 13035000036 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 13035000037 Cupin domain; Region: Cupin_2; cl17218 13035000038 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 13035000039 apocytochrome f; Reviewed; Region: PRK02693 13035000040 cytochrome f; Region: petA; CHL00037 13035000041 cytochrome b6-f complex iron-sulfur subunit; Provisional; Region: PRK13474 13035000042 Cytochrome B6-F complex Fe-S subunit; Region: CytB6-F_Fe-S; pfam08802 13035000043 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 13035000044 cytochrome b subunit interaction site [polypeptide binding]; other site 13035000045 [2Fe-2S] cluster binding site [ion binding]; other site 13035000046 ATP-dependent Clp protease adaptor; Reviewed; Region: clpS; PRK13019 13035000047 Predicted metal-binding protein (DUF2103); Region: DUF2103; cl01651 13035000048 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 13035000049 glucosylglycerol-phosphate synthase; Region: gluc_glyc_Psyn; TIGR02398 13035000050 active site 13035000051 homotetramer interface [polypeptide binding]; other site 13035000052 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 13035000053 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 13035000054 active site 13035000055 ketol-acid reductoisomerase; Provisional; Region: PRK05479 13035000056 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 13035000057 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 13035000058 PIN domain; Region: PIN_3; cl17397 13035000059 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 13035000060 Ca2+ binding site [ion binding]; other site 13035000061 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 13035000062 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 13035000063 Cadherin repeat-like domain; Region: CA_like; cl15786 13035000064 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 13035000065 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 13035000066 phycobillisome linker protein; Region: apcE; CHL00091 13035000067 Phycobilisome protein; Region: Phycobilisome; cl08227 13035000068 Phycobilisome protein; Region: Phycobilisome; cl08227 13035000069 Phycobilisome Linker polypeptide; Region: PBS_linker_poly; pfam00427 13035000070 Phycobilisome Linker polypeptide; Region: PBS_linker_poly; pfam00427 13035000071 Phycobilisome Linker polypeptide; Region: PBS_linker_poly; pfam00427 13035000072 Phycobilisome Linker polypeptide; Region: PBS_linker_poly; pfam00427 13035000073 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 13035000074 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 13035000075 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 13035000076 inhibitor-cofactor binding pocket; inhibition site 13035000077 pyridoxal 5'-phosphate binding site [chemical binding]; other site 13035000078 catalytic residue [active] 13035000079 Protein of unknown function (DUF2839); Region: DUF2839; pfam10999 13035000080 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 13035000081 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 13035000082 MAPEG family; Region: MAPEG; cl09190 13035000083 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 13035000084 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 13035000085 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 13035000086 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 13035000087 active site 13035000088 HIGH motif; other site 13035000089 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 13035000090 KMSKS motif; other site 13035000091 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 13035000092 tRNA binding surface [nucleotide binding]; other site 13035000093 anticodon binding site; other site 13035000094 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 13035000095 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 13035000096 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 13035000097 hydrolase, alpha/beta fold family protein; Region: PLN02824 13035000098 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 13035000099 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 13035000100 active site 13035000101 homodimer interface [polypeptide binding]; other site 13035000102 catalytic site [active] 13035000103 Tetratricopeptide repeat; Region: TPR_12; pfam13424 13035000104 Tetratricopeptide repeat; Region: TPR_10; pfam13374 13035000105 CHAT domain; Region: CHAT; pfam12770 13035000106 Tetratricopeptide repeat; Region: TPR_10; cl17452 13035000107 TPR repeat; Region: TPR_11; pfam13414 13035000108 Tetratricopeptide repeat; Region: TPR_12; pfam13424 13035000109 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 13035000110 binding surface 13035000111 TPR motif; other site 13035000112 Tetratricopeptide repeat; Region: TPR_12; pfam13424 13035000113 Clp protease ATP binding subunit; Region: clpC; CHL00095 13035000114 Clp amino terminal domain; Region: Clp_N; pfam02861 13035000115 Clp amino terminal domain; Region: Clp_N; pfam02861 13035000116 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 13035000117 Walker A motif; other site 13035000118 ATP binding site [chemical binding]; other site 13035000119 Walker B motif; other site 13035000120 arginine finger; other site 13035000121 UvrB/uvrC motif; Region: UVR; pfam02151 13035000122 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 13035000123 Walker A motif; other site 13035000124 ATP binding site [chemical binding]; other site 13035000125 Walker B motif; other site 13035000126 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 13035000127 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 13035000128 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 13035000129 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 13035000130 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 13035000131 catalytic triad [active] 13035000132 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 13035000133 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 13035000134 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 13035000135 putative active site [active] 13035000136 putative NTP binding site [chemical binding]; other site 13035000137 putative nucleic acid binding site [nucleotide binding]; other site 13035000138 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 13035000139 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 13035000140 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 13035000141 active site 13035000142 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 13035000143 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 13035000144 Tetramer interface [polypeptide binding]; other site 13035000145 active site 13035000146 FMN-binding site [chemical binding]; other site 13035000147 FAD binding domain; Region: FAD_binding_4; pfam01565 13035000148 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 13035000149 FO synthase subunit 1; Reviewed; Region: cofG; PRK06245 13035000150 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 13035000151 FeS/SAM binding site; other site 13035000152 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 13035000153 putative active site [active] 13035000154 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR6; cd08272 13035000155 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 13035000156 putative NAD(P) binding site [chemical binding]; other site 13035000157 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 13035000158 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 13035000159 nucleophilic elbow; other site 13035000160 catalytic triad; other site 13035000161 Domain of unknown function (DUF4308); Region: DUF4308; pfam14159 13035000162 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 13035000163 dimer interface [polypeptide binding]; other site 13035000164 [2Fe-2S] cluster binding site [ion binding]; other site 13035000165 PAS fold; Region: PAS_7; pfam12860 13035000166 GAF domain; Region: GAF_3; pfam13492 13035000167 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 13035000168 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 13035000169 dimer interface [polypeptide binding]; other site 13035000170 phosphorylation site [posttranslational modification] 13035000171 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 13035000172 ATP binding site [chemical binding]; other site 13035000173 Mg2+ binding site [ion binding]; other site 13035000174 G-X-G motif; other site 13035000175 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 13035000176 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 13035000177 active site 13035000178 phosphorylation site [posttranslational modification] 13035000179 intermolecular recognition site; other site 13035000180 dimerization interface [polypeptide binding]; other site 13035000181 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Provisional; Region: PRK14619 13035000182 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 13035000183 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 13035000184 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 13035000185 nudix motif; other site 13035000186 Uncharacterized conserved protein [Function unknown]; Region: COG1543 13035000187 N-terminal catalytic domain of alpha-amylase ( AmyC ) and similar proteins; Region: GH57N_AmyC_like; cd10792 13035000188 active site 13035000189 substrate binding site [chemical binding]; other site 13035000190 catalytic site [active] 13035000191 Domain of unknown function (DUF1957); Region: DUF1957; pfam09210 13035000192 carotene isomerase; Region: carot_isom; TIGR02730 13035000193 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 13035000194 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 13035000195 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 13035000196 Domain present in PSD-95, Dlg, and ZO-1/2; Region: PDZ; smart00228 13035000197 protein binding site [polypeptide binding]; other site 13035000198 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 13035000199 putative active site [active] 13035000200 sulfate adenylyltransferase; Reviewed; Region: sat; PRK04149 13035000201 ATP-sulfurylase; Region: ATPS; cd00517 13035000202 active site 13035000203 HXXH motif; other site 13035000204 flexible loop; other site 13035000205 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 13035000206 catalytic triad [active] 13035000207 conserved cis-peptide bond; other site 13035000208 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 13035000209 chorismate binding enzyme; Region: Chorismate_bind; cl10555 13035000210 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Provisional; Region: PRK07419 13035000211 UbiA prenyltransferase family; Region: UbiA; pfam01040 13035000212 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 13035000213 Domain of unknown function DUF59; Region: DUF59; pfam01883 13035000214 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 13035000215 TPR repeat; Region: TPR_11; pfam13414 13035000216 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 13035000217 binding surface 13035000218 TPR motif; other site 13035000219 TPR repeat; Region: TPR_11; pfam13414 13035000220 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 13035000221 binding surface 13035000222 Tetratricopeptide repeat; Region: TPR_16; pfam13432 13035000223 TPR motif; other site 13035000224 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4398 13035000225 FIST N domain; Region: FIST; pfam08495 13035000226 FIST C domain; Region: FIST_C; pfam10442 13035000227 phosphoribulokinase; Provisional; Region: PRK07429 13035000228 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 13035000229 active site 13035000230 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 13035000231 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 13035000232 Beta-lactamase class A [Defense mechanisms]; Region: PenP; COG2367 13035000233 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 13035000234 Endonuclease, Uma2 family (restriction endonuclease fold) [General function prediction only]; Region: Uma2; COG4636 13035000235 Homeodomain-like domain; Region: HTH_23; pfam13384 13035000236 Winged helix-turn helix; Region: HTH_29; pfam13551 13035000237 Homeodomain-like domain; Region: HTH_32; pfam13565 13035000238 DDE superfamily endonuclease; Region: DDE_3; pfam13358 13035000239 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 13035000240 tRNA threonylcarbamoyl adenosine modification protein, Sua5/YciO/YrdC/YwlC family; Region: TIGR00057 13035000241 hypothetical protein; Provisional; Region: PRK04194 13035000242 Thf1-like protein; Reviewed; Region: PRK13266 13035000243 photosystem II biogenesis protein Psp29; Region: PS_II_psb29; TIGR03060 13035000244 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 13035000245 MutS domain III; Region: MutS_III; pfam05192 13035000246 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 13035000247 Walker A/P-loop; other site 13035000248 ATP binding site [chemical binding]; other site 13035000249 Q-loop/lid; other site 13035000250 ABC transporter signature motif; other site 13035000251 Walker B; other site 13035000252 D-loop; other site 13035000253 H-loop/switch region; other site 13035000254 Smr domain; Region: Smr; pfam01713 13035000255 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1483 13035000256 Protein of unknown function (DUF499); Region: DUF499; pfam04465 13035000257 Uncharacterized conserved protein [Function unknown]; Region: COG2361 13035000258 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 13035000259 active site 13035000260 NTP binding site [chemical binding]; other site 13035000261 metal binding triad [ion binding]; metal-binding site 13035000262 antibiotic binding site [chemical binding]; other site 13035000263 Protein of unknown function (DUF1156); Region: DUF1156; pfam06634 13035000264 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 13035000265 Adenine-specific DNA methylase containing a Zn-ribbon [DNA replication, recombination, and repair]; Region: COG1743 13035000266 YcfA-like protein; Region: YcfA; pfam07927 13035000267 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 13035000268 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 13035000269 Uncharacterized protein family (UPF0175); Region: UPF0175; pfam03683 13035000270 DEAD-like helicases superfamily; Region: DEXDc; smart00487 13035000271 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 13035000272 ATP binding site [chemical binding]; other site 13035000273 putative Mg++ binding site [ion binding]; other site 13035000274 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 13035000275 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 13035000276 nucleotide binding region [chemical binding]; other site 13035000277 ATP-binding site [chemical binding]; other site 13035000278 Domain of unknown function (DUF3883); Region: DUF3883; pfam13020 13035000279 Prokaryotic metallothionein; Region: Metallothio_Pro; pfam02069 13035000280 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14317 13035000281 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 13035000282 active site 13035000283 substrate binding site [chemical binding]; other site 13035000284 metal binding site [ion binding]; metal-binding site 13035000285 Protein of unknown function (DUF3177); Region: DUF3177; pfam11375 13035000286 DNA binding domain, excisionase family; Region: excise; TIGR01764 13035000287 transposase, putative, N-terminal domain; Region: tspaseT_teng_N; TIGR01765 13035000288 Probable transposase; Region: OrfB_IS605; pfam01385 13035000289 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 13035000290 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 13035000291 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 13035000292 Family description; Region: UvrD_C_2; pfam13538 13035000293 Rhomboid family; Region: Rhomboid; pfam01694 13035000294 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 13035000295 Predicted membrane protein [Function unknown]; Region: COG4094 13035000296 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 13035000297 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 13035000298 Walker A/P-loop; other site 13035000299 ATP binding site [chemical binding]; other site 13035000300 Q-loop/lid; other site 13035000301 ABC transporter signature motif; other site 13035000302 Walker B; other site 13035000303 D-loop; other site 13035000304 H-loop/switch region; other site 13035000305 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 13035000306 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 13035000307 Walker A/P-loop; other site 13035000308 ATP binding site [chemical binding]; other site 13035000309 Q-loop/lid; other site 13035000310 ABC transporter signature motif; other site 13035000311 Walker B; other site 13035000312 D-loop; other site 13035000313 H-loop/switch region; other site 13035000314 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 13035000315 Protein of unknown function (DUF3493); Region: DUF3493; pfam11998 13035000316 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 13035000317 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 13035000318 trimer interface [polypeptide binding]; other site 13035000319 putative metal binding site [ion binding]; other site 13035000320 gliding motility-associated ABC transporter permease protein GldF; Region: ABC_perm_GldF; TIGR03518 13035000321 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 13035000322 Subunit I/III interface [polypeptide binding]; other site 13035000323 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 13035000324 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 13035000325 D-pathway; other site 13035000326 Putative ubiquinol binding site [chemical binding]; other site 13035000327 Low-spin heme (heme b) binding site [chemical binding]; other site 13035000328 Putative water exit pathway; other site 13035000329 Binuclear center (heme o3/CuB) [ion binding]; other site 13035000330 K-pathway; other site 13035000331 Putative proton exit pathway; other site 13035000332 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 13035000333 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 13035000334 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 13035000335 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 13035000336 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 13035000337 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 13035000338 UbiA prenyltransferase family; Region: UbiA; pfam01040 13035000339 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 13035000340 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 13035000341 active site 13035000342 Protein of unknown function (DUF1257); Region: DUF1257; pfam06868 13035000343 Ycf46; Provisional; Region: ycf46; CHL00195 13035000344 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 13035000345 Walker A motif; other site 13035000346 ATP binding site [chemical binding]; other site 13035000347 Walker B motif; other site 13035000348 arginine finger; other site 13035000349 Domain of unknown function (DUF3598); Region: DUF3598; pfam12204 13035000350 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 13035000351 hypothetical protein; Provisional; Region: PRK10621 13035000352 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 13035000353 tetramerization interface [polypeptide binding]; other site 13035000354 active site 13035000355 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 13035000356 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 13035000357 dimer interface [polypeptide binding]; other site 13035000358 pyridoxal 5'-phosphate binding site [chemical binding]; other site 13035000359 catalytic residue [active] 13035000360 ABC exporter membrane fusion protein, DevB family; Region: heterocyst_DevB; TIGR02971 13035000361 HlyD family secretion protein; Region: HlyD_3; pfam13437 13035000362 DevC protein; Region: devC; TIGR01185 13035000363 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 13035000364 FtsX-like permease family; Region: FtsX; pfam02687 13035000365 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 13035000366 ABC exporter ATP-binding subunit, DevA family; Region: heterocyst_DevA; TIGR02982 13035000367 Walker A/P-loop; other site 13035000368 ATP binding site [chemical binding]; other site 13035000369 Q-loop/lid; other site 13035000370 ABC transporter signature motif; other site 13035000371 Walker B; other site 13035000372 D-loop; other site 13035000373 H-loop/switch region; other site 13035000374 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 13035000375 classical (c) SDRs; Region: SDR_c; cd05233 13035000376 NAD(P) binding site [chemical binding]; other site 13035000377 active site 13035000378 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II/unknown domain fusion protein; Provisional; Region: PRK09319 13035000379 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 13035000380 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 13035000381 dimerization interface [polypeptide binding]; other site 13035000382 active site 13035000383 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 13035000384 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK02755 13035000385 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 13035000386 RNA binding site [nucleotide binding]; other site 13035000387 active site 13035000388 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 13035000389 Ycf27; Reviewed; Region: orf27; CHL00148 13035000390 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 13035000391 active site 13035000392 phosphorylation site [posttranslational modification] 13035000393 intermolecular recognition site; other site 13035000394 dimerization interface [polypeptide binding]; other site 13035000395 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 13035000396 DNA binding site [nucleotide binding] 13035000397 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 13035000398 Peptidase family M23; Region: Peptidase_M23; pfam01551 13035000399 TIGR03032 family protein; Region: TIGR03032 13035000400 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 13035000401 binding surface 13035000402 TPR repeat; Region: TPR_11; pfam13414 13035000403 TPR motif; other site 13035000404 TPR repeat; Region: TPR_11; pfam13414 13035000405 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 13035000406 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 13035000407 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 13035000408 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 13035000409 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 13035000410 active site 13035000411 SAM binding site [chemical binding]; other site 13035000412 homodimer interface [polypeptide binding]; other site 13035000413 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 13035000414 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 13035000415 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 13035000416 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1799 13035000417 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 13035000418 pyrroline-5-carboxylate reductase; Region: PLN02688 13035000419 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 13035000420 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 13035000421 active site 13035000422 nucleotide binding site [chemical binding]; other site 13035000423 HIGH motif; other site 13035000424 KMSKS motif; other site 13035000425 Protein of unknown function (DUF2993); Region: DUF2993; pfam11209 13035000426 Uncharacterized ACR, YggU family COG1872; Region: DUF167; pfam02594 13035000427 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG3372 13035000428 Protein of unknown function (DUF790); Region: DUF790; pfam05626 13035000429 Protein of unknown function (DUF4079); Region: DUF4079; pfam13301 13035000430 DNA gyrase subunit A; Validated; Region: PRK05560 13035000431 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 13035000432 CAP-like domain; other site 13035000433 active site 13035000434 primary dimer interface [polypeptide binding]; other site 13035000435 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 13035000436 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 13035000437 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 13035000438 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 13035000439 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 13035000440 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 13035000441 CpeT/CpcT family (DUF1001); Region: CpeT; pfam06206 13035000442 Protein of unknown function, DUF393; Region: DUF393; pfam04134 13035000443 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 13035000444 CDP-diacylglycerol--glycerol-3-phosphate 3-phosphatidyltransferase; Region: pgsA; TIGR00560 13035000445 Cellular and retroviral pepsin-like aspartate proteases; Region: pepsin_retropepsin_like; cl11403 13035000446 inhibitor binding site; inhibition site 13035000447 catalytic motif [active] 13035000448 Catalytic residue [active] 13035000449 Active site flap [active] 13035000450 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 13035000451 S-adenosylmethionine binding site [chemical binding]; other site 13035000452 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 13035000453 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 13035000454 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 13035000455 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 13035000456 TPR repeat; Region: TPR_11; pfam13414 13035000457 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 13035000458 binding surface 13035000459 TPR motif; other site 13035000460 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 13035000461 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 13035000462 NAD binding site [chemical binding]; other site 13035000463 homodimer interface [polypeptide binding]; other site 13035000464 active site 13035000465 substrate binding site [chemical binding]; other site 13035000466 Response regulator receiver domain; Region: Response_reg; pfam00072 13035000467 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 13035000468 active site 13035000469 phosphorylation site [posttranslational modification] 13035000470 intermolecular recognition site; other site 13035000471 dimerization interface [polypeptide binding]; other site 13035000472 Protein of unknown function (DUF2854); Region: DUF2854; pfam11016 13035000473 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 13035000474 geranylgeranyl reductase; Region: ChlP; TIGR02028 13035000475 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 13035000476 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 13035000477 GrpE; Region: GrpE; pfam01025 13035000478 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 13035000479 dimer interface [polypeptide binding]; other site 13035000480 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 13035000481 molecular chaperone DnaK; Provisional; Region: PRK13411 13035000482 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 13035000483 nucleotide binding site [chemical binding]; other site 13035000484 NEF interaction site [polypeptide binding]; other site 13035000485 SBD interface [polypeptide binding]; other site 13035000486 chaperone protein DnaJ; Provisional; Region: PRK14293 13035000487 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 13035000488 HSP70 interaction site [polypeptide binding]; other site 13035000489 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 13035000490 substrate binding site [polypeptide binding]; other site 13035000491 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 13035000492 Zn binding sites [ion binding]; other site 13035000493 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 13035000494 dimer interface [polypeptide binding]; other site 13035000495 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 13035000496 CPxP motif; other site 13035000497 GTPase RsgA; Reviewed; Region: PRK12289 13035000498 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 13035000499 RNA binding site [nucleotide binding]; other site 13035000500 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 13035000501 GTPase/Zn-binding domain interface [polypeptide binding]; other site 13035000502 GTP/Mg2+ binding site [chemical binding]; other site 13035000503 G4 box; other site 13035000504 G5 box; other site 13035000505 G1 box; other site 13035000506 Switch I region; other site 13035000507 G2 box; other site 13035000508 G3 box; other site 13035000509 Switch II region; other site 13035000510 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 13035000511 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 13035000512 dimer interface [polypeptide binding]; other site 13035000513 decamer (pentamer of dimers) interface [polypeptide binding]; other site 13035000514 catalytic triad [active] 13035000515 Photosystem II 12 kDa extrinsic protein (PsbU); Region: PsbU; pfam06514 13035000516 Uncharacterized conserved protein [Function unknown]; Region: COG3937 13035000517 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 13035000518 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 13035000519 GTP/Mg2+ binding site [chemical binding]; other site 13035000520 G4 box; other site 13035000521 G5 box; other site 13035000522 G1 box; other site 13035000523 Switch I region; other site 13035000524 G2 box; other site 13035000525 G3 box; other site 13035000526 Switch II region; other site 13035000527 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 13035000528 Ligand Binding Site [chemical binding]; other site 13035000529 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 13035000530 oligomerization interface [polypeptide binding]; other site 13035000531 active site 13035000532 metal binding site [ion binding]; metal-binding site 13035000533 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 13035000534 Domain of unknown function (DUF3368); Region: DUF3368; pfam11848 13035000535 Uncharacterized protein family (UPF0175); Region: UPF0175; pfam03683 13035000536 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 13035000537 homoserine dehydrogenase; Provisional; Region: PRK06349 13035000538 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 13035000539 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 13035000540 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12902 13035000541 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 13035000542 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 13035000543 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 13035000544 nucleotide binding region [chemical binding]; other site 13035000545 Response regulator receiver domain; Region: Response_reg; pfam00072 13035000546 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 13035000547 active site 13035000548 phosphorylation site [posttranslational modification] 13035000549 intermolecular recognition site; other site 13035000550 dimerization interface [polypeptide binding]; other site 13035000551 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 13035000552 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 13035000553 metal binding site [ion binding]; metal-binding site 13035000554 active site 13035000555 I-site; other site 13035000556 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 13035000557 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 13035000558 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 13035000559 Hemerythrin; Region: Hemerythrin; cd12107 13035000560 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 13035000561 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 13035000562 motif II; other site 13035000563 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 13035000564 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 13035000565 photosystem II protein PsbQ; Region: PS_II_psbQ_bact; TIGR03042 13035000566 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 13035000567 hydroxyglutarate oxidase; Provisional; Region: PRK11728 13035000568 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 13035000569 flavoprotein, HI0933 family; Region: TIGR00275 13035000570 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 13035000571 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 13035000572 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 13035000573 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 13035000574 trimer interface [polypeptide binding]; other site 13035000575 active site 13035000576 UDP-GlcNAc binding site [chemical binding]; other site 13035000577 lipid binding site [chemical binding]; lipid-binding site 13035000578 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 13035000579 Methyltransferase domain; Region: Methyltransf_26; pfam13659 13035000580 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 13035000581 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 13035000582 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 13035000583 Probable transposase; Region: OrfB_IS605; pfam01385 13035000584 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 13035000585 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 13035000586 Sporulation protein and related proteins [Cell division and chromosome partitioning]; Region: SpoIID; COG2385 13035000587 Stage II sporulation protein; Region: SpoIID; pfam08486 13035000588 RRXRR protein; Region: RRXRR; pfam14239 13035000589 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 13035000590 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 13035000591 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 13035000592 ATP binding site [chemical binding]; other site 13035000593 Mg2+ binding site [ion binding]; other site 13035000594 G-X-G motif; other site 13035000595 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 13035000596 Response regulator receiver domain; Region: Response_reg; pfam00072 13035000597 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 13035000598 active site 13035000599 phosphorylation site [posttranslational modification] 13035000600 intermolecular recognition site; other site 13035000601 dimerization interface [polypeptide binding]; other site 13035000602 GTPase Era; Reviewed; Region: era; PRK00089 13035000603 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 13035000604 G1 box; other site 13035000605 GTP/Mg2+ binding site [chemical binding]; other site 13035000606 Switch I region; other site 13035000607 G2 box; other site 13035000608 Switch II region; other site 13035000609 G3 box; other site 13035000610 G4 box; other site 13035000611 G5 box; other site 13035000612 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 13035000613 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 13035000614 active site 13035000615 Zn binding site [ion binding]; other site 13035000616 Transglycosylase; Region: Transgly; pfam00912 13035000617 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 13035000618 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 13035000619 Domain of unknown function (DUF1825); Region: DUF1825; pfam08855 13035000620 Predicted membrane protein [Function unknown]; Region: XynA; COG2314 13035000621 Short C-terminal domain; Region: SHOCT; pfam09851 13035000622 DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]; Region: ComEA; COG1555 13035000623 Domain of unknown function DUF29; Region: DUF29; pfam01724 13035000624 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 13035000625 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 13035000626 H+ Antiporter protein; Region: 2A0121; TIGR00900 13035000627 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 13035000628 putative substrate translocation pore; other site 13035000629 Recombination protein O N terminal; Region: RecO_N; pfam11967 13035000630 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 13035000631 Recombination protein O C terminal; Region: RecO_C; pfam02565 13035000632 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 13035000633 intersubunit interface [polypeptide binding]; other site 13035000634 active site 13035000635 catalytic residue [active] 13035000636 PPOX class probable FMN-dependent enzyme, alr4036 family; Region: PPOX_FMN_cyano; TIGR04026 13035000637 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxase_2; pfam12766 13035000638 Protein of unknown function (DUF448); Region: DUF448; pfam04296 13035000639 putative RNA binding cleft [nucleotide binding]; other site 13035000640 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 13035000641 translation initiation factor IF-2; Region: IF-2; TIGR00487 13035000642 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 13035000643 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 13035000644 G1 box; other site 13035000645 putative GEF interaction site [polypeptide binding]; other site 13035000646 GTP/Mg2+ binding site [chemical binding]; other site 13035000647 Switch I region; other site 13035000648 G2 box; other site 13035000649 G3 box; other site 13035000650 Switch II region; other site 13035000651 G4 box; other site 13035000652 G5 box; other site 13035000653 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 13035000654 Translation-initiation factor 2; Region: IF-2; pfam11987 13035000655 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 13035000656 conjugal transfer ATP-binding protein TraC; Provisional; Region: PRK13721 13035000657 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 13035000658 G1 box; other site 13035000659 GTP/Mg2+ binding site [chemical binding]; other site 13035000660 G3 box; other site 13035000661 Switch II region; other site 13035000662 G4 box; other site 13035000663 G5 box; other site 13035000664 Domain of unknown function (DUF697); Region: DUF697; pfam05128 13035000665 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 13035000666 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 13035000667 active site 13035000668 Zn binding site [ion binding]; other site 13035000669 Domain of unknown function DUF29; Region: DUF29; pfam01724 13035000670 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 13035000671 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 13035000672 Walker A/P-loop; other site 13035000673 ATP binding site [chemical binding]; other site 13035000674 Q-loop/lid; other site 13035000675 ABC transporter signature motif; other site 13035000676 Walker B; other site 13035000677 D-loop; other site 13035000678 H-loop/switch region; other site 13035000679 Domain of unknown function DUF29; Region: DUF29; pfam01724 13035000680 Domain of unknown function DUF29; Region: DUF29; pfam01724 13035000681 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 13035000682 YcfA-like protein; Region: YcfA; cl00752 13035000683 Domain of unknown function DUF29; Region: DUF29; pfam01724 13035000684 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 13035000685 DNA binding residues [nucleotide binding] 13035000686 Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452 13035000687 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 13035000688 catalytic residues [active] 13035000689 catalytic nucleophile [active] 13035000690 Probable transposase; Region: OrfB_IS605; pfam01385 13035000691 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 13035000692 Domain of unknown function DUF29; Region: DUF29; pfam01724 13035000693 Protein of unknown function (DUF2283); Region: DUF2283; cl02251 13035000694 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 13035000695 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 13035000696 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 13035000697 Inter-Src homology 2 (iSH2) helical domain of Class IA Phosphoinositide 3-kinase Regulatory subunits; Region: iSH2_PI3K_IA_R; cl17108 13035000698 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 13035000699 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 13035000700 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 13035000701 Active Sites [active] 13035000702 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain associated with the NTP (Nucleotidyl transferase) domain downstream. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently...; Region: CBS_pair_NTP_transferase_assoc; cd04607 13035000703 FOG: CBS domain [General function prediction only]; Region: COG0517 13035000704 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 13035000705 NeuB family; Region: NeuB; pfam03102 13035000706 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 13035000707 NeuB binding interface [polypeptide binding]; other site 13035000708 putative substrate binding site [chemical binding]; other site 13035000709 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 13035000710 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 13035000711 Metal-binding active site; metal-binding site 13035000712 AP (apurinic/apyrimidinic) site pocket; other site 13035000713 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 13035000714 Methyltransferase domain; Region: Methyltransf_23; pfam13489 13035000715 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 13035000716 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 13035000717 ligand binding site; other site 13035000718 tetramer interface; other site 13035000719 N-acetylneuraminate lyase; Provisional; Region: PRK04147 13035000720 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 13035000721 active site 13035000722 inhibitor site; inhibition site 13035000723 dimer interface [polypeptide binding]; other site 13035000724 catalytic residue [active] 13035000725 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 13035000726 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 13035000727 active site 13035000728 Methyltransferase domain; Region: Methyltransf_23; pfam13489 13035000729 Methyltransferase domain; Region: Methyltransf_12; pfam08242 13035000730 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 13035000731 This family is most closely related to the GT1 family of glycosyltransferases. wcfI in Bacteroides fragilis has been shown to be involved in the capsular polysaccharide biosynthesis; Region: GT1_wcfI_like; cd03825 13035000732 Domain of unknown function DUF29; Region: DUF29; pfam01724 13035000733 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 13035000734 oligomeric interface; other site 13035000735 putative active site [active] 13035000736 homodimer interface [polypeptide binding]; other site 13035000737 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 13035000738 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 13035000739 This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor; Region: GT1_amsK_like; cd03799 13035000740 putative ADP-binding pocket [chemical binding]; other site 13035000741 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 13035000742 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 13035000743 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 13035000744 ExoA is involved in the biosynthesis of succinoglycan; Region: Succinoglycan_BP_ExoA; cd02525 13035000745 Ligand binding site; other site 13035000746 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 13035000747 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 13035000748 NAD(P) binding site [chemical binding]; other site 13035000749 active site 13035000750 Domain of unknown function DUF29; Region: DUF29; pfam01724 13035000751 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 13035000752 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 13035000753 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 13035000754 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 13035000755 putative active site [active] 13035000756 putative NTP binding site [chemical binding]; other site 13035000757 putative nucleic acid binding site [nucleotide binding]; other site 13035000758 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 13035000759 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 13035000760 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 13035000761 active site 13035000762 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 13035000763 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 13035000764 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 13035000765 putative active site [active] 13035000766 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 13035000767 putative active site [active] 13035000768 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 13035000769 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 13035000770 Uncharacterized conserved protein [Function unknown]; Region: COG1434 13035000771 putative active site [active] 13035000772 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 13035000773 putative active site [active] 13035000774 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 13035000775 putative active site [active] 13035000776 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 13035000777 HicB family; Region: HicB; pfam05534 13035000778 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 13035000779 putative active site [active] 13035000780 Uncharacterized conserved protein [Function unknown]; Region: COG1434 13035000781 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 13035000782 putative active site [active] 13035000783 AMIN domain; Region: AMIN; pfam11741 13035000784 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 13035000785 Orange carotenoid protein, N-terminal; Region: Carot_N; pfam09150 13035000786 Nuclear transport factor 2 (NTF2) domain; Region: NTF2; pfam02136 13035000787 Clp protease; Region: CLP_protease; pfam00574 13035000788 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 13035000789 oligomer interface [polypeptide binding]; other site 13035000790 active site residues [active] 13035000791 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 13035000792 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 13035000793 oligomer interface [polypeptide binding]; other site 13035000794 active site residues [active] 13035000795 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 13035000796 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 13035000797 active site 13035000798 substrate binding site [chemical binding]; other site 13035000799 ATP binding site [chemical binding]; other site 13035000800 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 13035000801 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 13035000802 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 13035000803 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 13035000804 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 13035000805 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 13035000806 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 13035000807 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4735 13035000808 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 13035000809 O-Antigen ligase; Region: Wzy_C; pfam04932 13035000810 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 13035000811 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 13035000812 active site 13035000813 phosphorylation site [posttranslational modification] 13035000814 intermolecular recognition site; other site 13035000815 dimerization interface [polypeptide binding]; other site 13035000816 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 13035000817 DNA binding residues [nucleotide binding] 13035000818 dimerization interface [polypeptide binding]; other site 13035000819 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 13035000820 dimer interface [polypeptide binding]; other site 13035000821 [2Fe-2S] cluster binding site [ion binding]; other site 13035000822 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 13035000823 oligomerisation interface [polypeptide binding]; other site 13035000824 mobile loop; other site 13035000825 roof hairpin; other site 13035000826 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 13035000827 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 13035000828 ring oligomerisation interface [polypeptide binding]; other site 13035000829 ATP/Mg binding site [chemical binding]; other site 13035000830 stacking interactions; other site 13035000831 hinge regions; other site 13035000832 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 13035000833 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 13035000834 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 13035000835 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 13035000836 NAD(P) binding site [chemical binding]; other site 13035000837 homotetramer interface [polypeptide binding]; other site 13035000838 homodimer interface [polypeptide binding]; other site 13035000839 active site 13035000840 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 13035000841 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 13035000842 hinge; other site 13035000843 active site 13035000844 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 13035000845 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 13035000846 Coenzyme A binding pocket [chemical binding]; other site 13035000847 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 13035000848 Ca2+ binding site [ion binding]; other site 13035000849 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 13035000850 Ca2+ binding site [ion binding]; other site 13035000851 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 13035000852 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 13035000853 Ca2+ binding site [ion binding]; other site 13035000854 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 13035000855 Ca2+ binding site [ion binding]; other site 13035000856 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 13035000857 Ca2+ binding site [ion binding]; other site 13035000858 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 13035000859 Ca2+ binding site [ion binding]; other site 13035000860 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 13035000861 Ca2+ binding site [ion binding]; other site 13035000862 von Willebrand factor type D domain; Region: VWD; cl02516 13035000863 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 13035000864 Ca2+ binding site [ion binding]; other site 13035000865 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 13035000866 Ca2+ binding site [ion binding]; other site 13035000867 VCBS repeat; Region: VCBS_repeat; TIGR01965 13035000868 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 13035000869 Ca2+ binding site [ion binding]; other site 13035000870 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 13035000871 Ca2+ binding site [ion binding]; other site 13035000872 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 13035000873 Cadherin repeat-like domain; Region: CA_like; cl15786 13035000874 Ca2+ binding site [ion binding]; other site 13035000875 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 13035000876 Cadherin repeat-like domain; Region: CA_like; cl15786 13035000877 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 13035000878 Ca2+ binding site [ion binding]; other site 13035000879 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 13035000880 Ca2+ binding site [ion binding]; other site 13035000881 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 13035000882 Ca2+ binding site [ion binding]; other site 13035000883 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 13035000884 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 13035000885 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 13035000886 putative active site [active] 13035000887 putative NTP binding site [chemical binding]; other site 13035000888 putative nucleic acid binding site [nucleotide binding]; other site 13035000889 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 13035000890 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 13035000891 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 13035000892 active site 13035000893 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 13035000894 Cadherin repeat-like domain; Region: CA_like; cl15786 13035000895 Transposase; Region: HTH_Tnp_IS630; pfam01710 13035000896 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 13035000897 DNA-binding interface [nucleotide binding]; DNA binding site 13035000898 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 13035000899 Ca2+ binding site [ion binding]; other site 13035000900 VCBS repeat; Region: VCBS_repeat; TIGR01965 13035000901 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 13035000902 Ca2+ binding site [ion binding]; other site 13035000903 VCBS repeat; Region: VCBS_repeat; TIGR01965 13035000904 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 13035000905 Ca2+ binding site [ion binding]; other site 13035000906 von Willebrand factor type D domain; Region: VWD; cl02516 13035000907 Cadherin repeat-like domain; Region: CA_like; cl15786 13035000908 Ca2+ binding site [ion binding]; other site 13035000909 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 13035000910 Ca2+ binding site [ion binding]; other site 13035000911 VCBS repeat; Region: VCBS_repeat; TIGR01965 13035000912 von Willebrand factor type D domain; Region: VWD; cl02516 13035000913 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 13035000914 Ca2+ binding site [ion binding]; other site 13035000915 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 13035000916 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 13035000917 Coenzyme A binding pocket [chemical binding]; other site 13035000918 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 13035000919 CRISPR/Cas system-associated RAMP superfamily protein Csx10; Region: Csx10; cl17558 13035000920 Protein of unknown function DUF86; Region: DUF86; cl01031 13035000921 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 13035000922 active site 13035000923 NTP binding site [chemical binding]; other site 13035000924 metal binding triad [ion binding]; metal-binding site 13035000925 antibiotic binding site [chemical binding]; other site 13035000926 D2 subunit of photosystem II (PS II); Region: Photosystem-II_D2; cd09288 13035000927 D1 interface; other site 13035000928 chlorophyll binding site; other site 13035000929 pheophytin binding site; other site 13035000930 beta carotene binding site; other site 13035000931 cytochrome b559 beta interface; other site 13035000932 quinone binding site; other site 13035000933 cytochrome b559 alpha interface; other site 13035000934 protein J interface; other site 13035000935 protein H interface; other site 13035000936 protein X interface; other site 13035000937 core light harvesting protein interface; other site 13035000938 protein L interface; other site 13035000939 CP43 interface; other site 13035000940 protein T interface; other site 13035000941 Fe binding site [ion binding]; other site 13035000942 protein M interface; other site 13035000943 Mn-stabilizing polypeptide interface; other site 13035000944 bromide binding site; other site 13035000945 cytochrome c-550 interface; other site 13035000946 Gas vesicle protein [General function prediction only]; Region: GvpP; COG4980 13035000947 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 13035000948 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 13035000949 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 13035000950 DNA binding residues [nucleotide binding] 13035000951 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 13035000952 dimerization interface [polypeptide binding]; other site 13035000953 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 13035000954 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 13035000955 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 13035000956 Cl- selectivity filter; other site 13035000957 Cl- binding residues [ion binding]; other site 13035000958 pore gating glutamate residue; other site 13035000959 dimer interface [polypeptide binding]; other site 13035000960 H+/Cl- coupling transport residue; other site 13035000961 FOG: CBS domain [General function prediction only]; Region: COG0517 13035000962 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 13035000963 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 13035000964 Ligand Binding Site [chemical binding]; other site 13035000965 septum formation inhibitor; Reviewed; Region: minC; PRK00513 13035000966 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 13035000967 septum site-determining protein MinD; Region: minD_bact; TIGR01968 13035000968 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 13035000969 P-loop; other site 13035000970 ADP binding residues [chemical binding]; other site 13035000971 Switch I; other site 13035000972 Switch II; other site 13035000973 Septum formation topological specificity factor MinE; Region: MinE; cl00538 13035000974 ergothioneine biosynthesis protein EgtC; Region: TIGR03442 13035000975 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 13035000976 putative active site [active] 13035000977 putative dimer interface [polypeptide binding]; other site 13035000978 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 13035000979 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 13035000980 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 13035000981 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 13035000982 active site 13035000983 dimer interface [polypeptide binding]; other site 13035000984 metal binding site [ion binding]; metal-binding site 13035000985 BT1 family; Region: BT1; pfam03092 13035000986 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 13035000987 putative substrate translocation pore; other site 13035000988 TPR repeat; Region: TPR_11; pfam13414 13035000989 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 13035000990 binding surface 13035000991 TPR motif; other site 13035000992 TPR repeat; Region: TPR_11; pfam13414 13035000993 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 13035000994 binding surface 13035000995 TPR motif; other site 13035000996 TPR repeat; Region: TPR_11; pfam13414 13035000997 S-adenosylmethionine decarboxylase proenzyme, Bacillus form; Region: SAM_DCase_Bsu; TIGR03330 13035000998 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 13035000999 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 13035001000 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 13035001001 Protein of unknown function (DUF2808); Region: DUF2808; pfam10989 13035001002 Hydrogenase/urease accessory protein [Posttranslational modification, protein turnover, chaperones]; Region: HupE; COG2370 13035001003 argininosuccinate synthase; Provisional; Region: PRK13820 13035001004 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 13035001005 ANP binding site [chemical binding]; other site 13035001006 Substrate Binding Site II [chemical binding]; other site 13035001007 Substrate Binding Site I [chemical binding]; other site 13035001008 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 13035001009 Predicted transcriptional regulator [Transcription]; Region: COG3682 13035001010 Putative integral membrane protein (DUF2391); Region: DUF2391; cl01935 13035001011 TIGR02588 family protein; Region: TIGR02588 13035001012 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 13035001013 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 13035001014 active site 13035001015 phosphorylation site [posttranslational modification] 13035001016 intermolecular recognition site; other site 13035001017 dimerization interface [polypeptide binding]; other site 13035001018 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 13035001019 dimerization interface [polypeptide binding]; other site 13035001020 DNA binding residues [nucleotide binding] 13035001021 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 13035001022 active site 13035001023 tellurium resistance terB-like protein; Region: terB_like; cd07177 13035001024 metal binding site [ion binding]; metal-binding site 13035001025 Mo-dependent nitrogenase C-terminus; Region: Mo-nitro_C; pfam06967 13035001026 PsaX family; Region: PsaX; pfam08078 13035001027 lipoyl synthase; Provisional; Region: PRK12928 13035001028 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 13035001029 FeS/SAM binding site; other site 13035001030 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 13035001031 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 13035001032 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 13035001033 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 13035001034 NAD(P) binding site [chemical binding]; other site 13035001035 active site 13035001036 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 13035001037 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 13035001038 active site 13035001039 putative substrate binding pocket [chemical binding]; other site 13035001040 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 13035001041 allantoate amidohydrolase; Reviewed; Region: PRK09290 13035001042 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 13035001043 active site 13035001044 metal binding site [ion binding]; metal-binding site 13035001045 dimer interface [polypeptide binding]; other site 13035001046 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 13035001047 putative active site pocket [active] 13035001048 dimerization interface [polypeptide binding]; other site 13035001049 putative catalytic residue [active] 13035001050 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 13035001051 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 13035001052 active site 13035001053 catalytic site [active] 13035001054 tetramer interface [polypeptide binding]; other site 13035001055 Transcriptional regulators [Transcription]; Region: FadR; COG2186 13035001056 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 13035001057 DNA-binding site [nucleotide binding]; DNA binding site 13035001058 FCD domain; Region: FCD; pfam07729 13035001059 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3224 13035001060 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 13035001061 Walker A/P-loop; other site 13035001062 ATP binding site [chemical binding]; other site 13035001063 Q-loop/lid; other site 13035001064 RRXRR protein; Region: RRXRR; pfam14239 13035001065 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 13035001066 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 13035001067 active site 13035001068 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 13035001069 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 13035001070 dimer interface [polypeptide binding]; other site 13035001071 conserved gate region; other site 13035001072 putative PBP binding loops; other site 13035001073 ABC-ATPase subunit interface; other site 13035001074 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 13035001075 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 13035001076 dimer interface [polypeptide binding]; other site 13035001077 conserved gate region; other site 13035001078 putative PBP binding loops; other site 13035001079 ABC-ATPase subunit interface; other site 13035001080 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 13035001081 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 13035001082 substrate binding pocket [chemical binding]; other site 13035001083 membrane-bound complex binding site; other site 13035001084 hinge residues; other site 13035001085 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 13035001086 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 13035001087 Walker A/P-loop; other site 13035001088 ATP binding site [chemical binding]; other site 13035001089 Q-loop/lid; other site 13035001090 ABC transporter signature motif; other site 13035001091 Walker B; other site 13035001092 D-loop; other site 13035001093 H-loop/switch region; other site 13035001094 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 13035001095 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 13035001096 [2Fe-2S] cluster binding site [ion binding]; other site 13035001097 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 13035001098 hydrophobic ligand binding site; other site 13035001099 xanthine permease; Region: pbuX; TIGR03173 13035001100 hypothetical protein; Provisional; Region: PRK07236 13035001101 FAD binding domain; Region: FAD_binding_3; pfam01494 13035001102 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 13035001103 EamA-like transporter family; Region: EamA; pfam00892 13035001104 EamA-like transporter family; Region: EamA; pfam00892 13035001105 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 13035001106 active site 13035001107 homotetramer interface [polypeptide binding]; other site 13035001108 OHCU decarboxylase; Region: OHCU_decarbox; cl01251 13035001109 S-layer homology domain; Region: SLH; pfam00395 13035001110 Carbohydrate-selective porin, OprB family; Region: OprB; cl17816 13035001111 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 13035001112 S-adenosylmethionine binding site [chemical binding]; other site 13035001113 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 13035001114 substrate binding site [chemical binding]; other site 13035001115 active site 13035001116 HEAT repeats; Region: HEAT_2; pfam13646 13035001117 HEAT repeats; Region: HEAT_2; pfam13646 13035001118 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 13035001119 putative active site [active] 13035001120 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 13035001121 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 13035001122 catalytic loop [active] 13035001123 iron binding site [ion binding]; other site 13035001124 Predicted membrane protein (DUF2232); Region: DUF2232; cl01728 13035001125 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 13035001126 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 13035001127 ligand binding site [chemical binding]; other site 13035001128 flexible hinge region; other site 13035001129 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 13035001130 putative switch regulator; other site 13035001131 non-specific DNA interactions [nucleotide binding]; other site 13035001132 DNA binding site [nucleotide binding] 13035001133 sequence specific DNA binding site [nucleotide binding]; other site 13035001134 putative cAMP binding site [chemical binding]; other site 13035001135 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 13035001136 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 13035001137 TM-ABC transporter signature motif; other site 13035001138 Probable transposase; Region: OrfB_IS605; pfam01385 13035001139 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 13035001140 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 13035001141 Cupin domain; Region: Cupin_2; cl17218 13035001142 Lecithin retinol acyltransferase; Region: LRAT; pfam04970 13035001143 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 13035001144 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 13035001145 cobalt-precorrin-6x reductase; Reviewed; Region: PRK08057 13035001146 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 13035001147 Uncharacterized conserved protein [Function unknown]; Region: COG1434 13035001148 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 13035001149 putative active site [active] 13035001150 Protein of unknown function (DUF3134); Region: DUF3134; pfam11332 13035001151 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 13035001152 putative homodimer interface [polypeptide binding]; other site 13035001153 putative active site pocket [active] 13035001154 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 13035001155 PIN domain; Region: PIN_3; cl17397 13035001156 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 13035001157 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 13035001158 substrate binding pocket [chemical binding]; other site 13035001159 chain length determination region; other site 13035001160 substrate-Mg2+ binding site; other site 13035001161 catalytic residues [active] 13035001162 aspartate-rich region 1; other site 13035001163 active site lid residues [active] 13035001164 aspartate-rich region 2; other site 13035001165 Uncharacterized ABC-type transport system, permease components [General function prediction only]; Region: COG3932 13035001166 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 13035001167 binding surface 13035001168 TPR motif; other site 13035001169 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 13035001170 TPR repeat; Region: TPR_11; pfam13414 13035001171 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 13035001172 binding surface 13035001173 TPR motif; other site 13035001174 Tetratricopeptide repeat; Region: TPR_12; pfam13424 13035001175 Domain of unknown function (DUF4330); Region: DUF4330; pfam14221 13035001176 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 13035001177 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 13035001178 catalytic site [active] 13035001179 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 13035001180 active site 13035001181 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 13035001182 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 13035001183 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 13035001184 dimer interface [polypeptide binding]; other site 13035001185 pyridoxal 5'-phosphate binding site [chemical binding]; other site 13035001186 catalytic residue [active] 13035001187 Predicted transcriptional regulator [Transcription]; Region: COG1959 13035001188 Transcriptional regulator; Region: Rrf2; pfam02082 13035001189 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 13035001190 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 13035001191 nucleotide binding site [chemical binding]; other site 13035001192 S-layer homology domain; Region: SLH; pfam00395 13035001193 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 13035001194 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 13035001195 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 13035001196 Walker A/P-loop; other site 13035001197 ATP binding site [chemical binding]; other site 13035001198 Q-loop/lid; other site 13035001199 ABC transporter signature motif; other site 13035001200 Walker B; other site 13035001201 D-loop; other site 13035001202 H-loop/switch region; other site 13035001203 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 13035001204 isocitrate dehydrogenase; Validated; Region: PRK07362 13035001205 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 13035001206 Major Facilitator Superfamily; Region: MFS_1; pfam07690 13035001207 putative substrate translocation pore; other site 13035001208 Protein of unknown function (DUF433); Region: DUF433; pfam04255 13035001209 Putative phosphatase (DUF442); Region: DUF442; cl17385 13035001210 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 13035001211 metal binding site 2 [ion binding]; metal-binding site 13035001212 putative DNA binding helix; other site 13035001213 metal binding site 1 [ion binding]; metal-binding site 13035001214 dimer interface [polypeptide binding]; other site 13035001215 structural Zn2+ binding site [ion binding]; other site 13035001216 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; pfam02700 13035001217 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 13035001218 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 13035001219 putative active site [active] 13035001220 catalytic triad [active] 13035001221 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14360 13035001222 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 13035001223 Substrate binding site; other site 13035001224 Mg++ binding site; other site 13035001225 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 13035001226 active site 13035001227 substrate binding site [chemical binding]; other site 13035001228 CoA binding site [chemical binding]; other site 13035001229 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 13035001230 HD domain; Region: HD_4; pfam13328 13035001231 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 13035001232 Mechanosensitive ion channel; Region: MS_channel; pfam00924 13035001233 photosystem II reaction center I protein I; Provisional; Region: psbI; PRK02655 13035001234 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 13035001235 metal binding site 2 [ion binding]; metal-binding site 13035001236 putative DNA binding helix; other site 13035001237 metal binding site 1 [ion binding]; metal-binding site 13035001238 dimer interface [polypeptide binding]; other site 13035001239 structural Zn2+ binding site [ion binding]; other site 13035001240 DEAD-like helicases superfamily; Region: DEXDc; smart00487 13035001241 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 13035001242 ATP binding site [chemical binding]; other site 13035001243 putative Mg++ binding site [ion binding]; other site 13035001244 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 13035001245 nucleotide binding region [chemical binding]; other site 13035001246 ATP-binding site [chemical binding]; other site 13035001247 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 13035001248 ATP binding site [chemical binding]; other site 13035001249 DSHCT (NUC185) domain; Region: DSHCT; pfam08148 13035001250 Sec-independent translocase component C; Provisional; Region: tatC; CHL00182 13035001251 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 13035001252 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 13035001253 active site 13035001254 catalytic tetrad [active] 13035001255 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 13035001256 active site pocket [active] 13035001257 putative dimer interface [polypeptide binding]; other site 13035001258 putative cataytic base [active] 13035001259 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 13035001260 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 13035001261 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 13035001262 putative active site [active] 13035001263 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 13035001264 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 13035001265 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 13035001266 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 13035001267 ABC1 family; Region: ABC1; pfam03109 13035001268 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 13035001269 active site 13035001270 ATP binding site [chemical binding]; other site 13035001271 Domain of unknown function (DUF4336); Region: DUF4336; pfam14234 13035001272 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 13035001273 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 13035001274 NAD(P) binding site [chemical binding]; other site 13035001275 homodimer interface [polypeptide binding]; other site 13035001276 substrate binding site [chemical binding]; other site 13035001277 active site 13035001278 Domain of unknown function (DUF1823); Region: DUF1823; pfam08853 13035001279 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 13035001280 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 13035001281 putative catalytic residue [active] 13035001282 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 13035001283 ABC1 family; Region: ABC1; cl17513 13035001284 histidinol-phosphate aminotransferase; Provisional; Region: PRK02610 13035001285 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 13035001286 pyridoxal 5'-phosphate binding site [chemical binding]; other site 13035001287 homodimer interface [polypeptide binding]; other site 13035001288 catalytic residue [active] 13035001289 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 13035001290 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 13035001291 Walker A/P-loop; other site 13035001292 ATP binding site [chemical binding]; other site 13035001293 Q-loop/lid; other site 13035001294 ABC transporter signature motif; other site 13035001295 Walker B; other site 13035001296 D-loop; other site 13035001297 H-loop/switch region; other site 13035001298 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 13035001299 arginine-tRNA ligase; Region: PLN02286 13035001300 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 13035001301 active site 13035001302 HIGH motif; other site 13035001303 KMSK motif region; other site 13035001304 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 13035001305 tRNA binding surface [nucleotide binding]; other site 13035001306 anticodon binding site; other site 13035001307 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 13035001308 putative active site [active] 13035001309 D1 subunit of photosystem II (PS II); Region: Photosystem-II_D1; cd09289 13035001310 protein I interface; other site 13035001311 D2 interface; other site 13035001312 protein T interface; other site 13035001313 chlorophyll binding site; other site 13035001314 beta carotene binding site; other site 13035001315 pheophytin binding site; other site 13035001316 manganese-stabilizing polypeptide interface; other site 13035001317 CP43 interface; other site 13035001318 protein L interface; other site 13035001319 oxygen evolving complex binding site; other site 13035001320 bromide binding site; other site 13035001321 quinone binding site; other site 13035001322 Fe binding site [ion binding]; other site 13035001323 core light harvesting interface; other site 13035001324 cytochrome b559 alpha subunit interface; other site 13035001325 cytochrome c-550 interface; other site 13035001326 protein J interface; other site 13035001327 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 13035001328 nucleotide binding site/active site [active] 13035001329 HIT family signature motif; other site 13035001330 catalytic residue [active] 13035001331 GH3 auxin-responsive promoter; Region: GH3; pfam03321 13035001332 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 13035001333 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII; cd09992 13035001334 active site 13035001335 Zn binding site [ion binding]; other site 13035001336 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 13035001337 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 13035001338 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 13035001339 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 13035001340 catalytic loop [active] 13035001341 iron binding site [ion binding]; other site 13035001342 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 13035001343 transmembrane helices; other site 13035001344 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 13035001345 TrkA-C domain; Region: TrkA_C; pfam02080 13035001346 TrkA-C domain; Region: TrkA_C; pfam02080 13035001347 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 13035001348 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 13035001349 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 13035001350 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 13035001351 Walker A motif; other site 13035001352 ATP binding site [chemical binding]; other site 13035001353 Walker B motif; other site 13035001354 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 13035001355 threonine synthase; Validated; Region: PRK08197 13035001356 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 13035001357 homodimer interface [polypeptide binding]; other site 13035001358 pyridoxal 5'-phosphate binding site [chemical binding]; other site 13035001359 catalytic residue [active] 13035001360 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 13035001361 putative FeS-containing Cyanobacterial-specific oxidoreductase; Region: cyano_FeS_chp; TIGR03279 13035001362 Protein of unknown function (DUF512); Region: DUF512; pfam04459 13035001363 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 13035001364 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 13035001365 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 13035001366 catalytic loop [active] 13035001367 iron binding site [ion binding]; other site 13035001368 photosystem II reaction center protein M; Provisional; Region: psbM; PRK04989 13035001369 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 13035001370 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 13035001371 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 13035001372 Walker A/P-loop; other site 13035001373 ATP binding site [chemical binding]; other site 13035001374 Q-loop/lid; other site 13035001375 ABC transporter signature motif; other site 13035001376 Walker B; other site 13035001377 D-loop; other site 13035001378 H-loop/switch region; other site 13035001379 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 13035001380 S-adenosylmethionine binding site [chemical binding]; other site 13035001381 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 13035001382 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 13035001383 putative ADP-binding pocket [chemical binding]; other site 13035001384 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 13035001385 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 13035001386 active site 13035001387 catalytic site [active] 13035001388 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 13035001389 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 13035001390 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 13035001391 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 13035001392 active site 13035001393 phosphorylation site [posttranslational modification] 13035001394 intermolecular recognition site; other site 13035001395 dimerization interface [polypeptide binding]; other site 13035001396 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 13035001397 DNA binding site [nucleotide binding] 13035001398 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 13035001399 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 13035001400 NADH(P)-binding; Region: NAD_binding_10; pfam13460 13035001401 NAD(P) binding site [chemical binding]; other site 13035001402 putative active site [active] 13035001403 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 13035001404 EamA-like transporter family; Region: EamA; cl17759 13035001405 EamA-like transporter family; Region: EamA; cl17759 13035001406 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 13035001407 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 13035001408 Walker A/P-loop; other site 13035001409 ATP binding site [chemical binding]; other site 13035001410 Q-loop/lid; other site 13035001411 ABC transporter signature motif; other site 13035001412 Walker B; other site 13035001413 D-loop; other site 13035001414 H-loop/switch region; other site 13035001415 CpeS-like protein; Region: CpeS; pfam09367 13035001416 HEAT repeats; Region: HEAT_2; pfam13646 13035001417 HEAT repeats; Region: HEAT_2; pfam13646 13035001418 E-Z type HEAT repeats; Region: EZ_HEAT; smart00567 13035001419 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 13035001420 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 13035001421 DoxX; Region: DoxX; pfam07681 13035001422 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 13035001423 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 13035001424 Probable transposase; Region: OrfB_IS605; pfam01385 13035001425 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 13035001426 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 13035001427 iron-sulfur cluster [ion binding]; other site 13035001428 [2Fe-2S] cluster binding site [ion binding]; other site 13035001429 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 13035001430 catalytic loop [active] 13035001431 iron binding site [ion binding]; other site 13035001432 AhpC/TSA antioxidant enzyme; Region: AhpC-TSA_2; pfam13911 13035001433 AhpC/TSA antioxidant enzyme; Region: AhpC-TSA_2; pfam13911 13035001434 NurA domain; Region: NurA; pfam09376 13035001435 HEAT repeats; Region: HEAT_2; pfam13646 13035001436 PBS lyase HEAT-like repeat; Region: HEAT_PBS; pfam03130 13035001437 HEAT repeats; Region: HEAT_2; pfam13646 13035001438 PBS lyase HEAT-like repeat; Region: HEAT_PBS; pfam03130 13035001439 CpcD/allophycocyanin linker domain; Region: CpcD; pfam01383 13035001440 Phycobilisome Linker polypeptide; Region: PBS_linker_poly; pfam00427 13035001441 CpcD/allophycocyanin linker domain; Region: CpcD; pfam01383 13035001442 phycocyanin, alpha subunit; Region: phycocy_alpha; TIGR01338 13035001443 Phycobilisome protein; Region: Phycobilisome; cl08227 13035001444 CpeS-like protein; Region: CpeS; pfam09367 13035001445 seryl-tRNA synthetase; Provisional; Region: PRK05431 13035001446 CpeS-like protein; Region: CpeS; pfam09367 13035001447 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 13035001448 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 13035001449 ATP binding site [chemical binding]; other site 13035001450 active site 13035001451 substrate binding site [chemical binding]; other site 13035001452 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 13035001453 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 13035001454 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 13035001455 Surface antigen; Region: Bac_surface_Ag; pfam01103 13035001456 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 13035001457 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 13035001458 Walker A/P-loop; other site 13035001459 ATP binding site [chemical binding]; other site 13035001460 Q-loop/lid; other site 13035001461 ABC transporter signature motif; other site 13035001462 Walker B; other site 13035001463 D-loop; other site 13035001464 H-loop/switch region; other site 13035001465 ABC-2 type transporter; Region: ABC2_membrane; cl17235 13035001466 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 13035001467 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 13035001468 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 13035001469 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 13035001470 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 13035001471 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 13035001472 ATP-grasp domain; Region: ATP-grasp_4; cl17255 13035001473 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 13035001474 IMP binding site; other site 13035001475 dimer interface [polypeptide binding]; other site 13035001476 interdomain contacts; other site 13035001477 partial ornithine binding site; other site 13035001478 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 13035001479 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 13035001480 active site 13035001481 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 13035001482 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 13035001483 Domain of unknown function (DUF814); Region: DUF814; pfam05670 13035001484 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 13035001485 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 13035001486 catalytic residue [active] 13035001487 Protein of unknown function (DUF3539); Region: DUF3539; pfam12058 13035001488 short chain dehydrogenase; Provisional; Region: PRK08303 13035001489 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 13035001490 NAD(P) binding site [chemical binding]; other site 13035001491 active site 13035001492 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 13035001493 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 13035001494 Protein of unknown function (DUF3593); Region: DUF3593; pfam12159 13035001495 light-harvesting-like protein 3; Provisional; Region: PLN00014 13035001496 Methyltransferase domain; Region: Methyltransf_31; pfam13847 13035001497 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 13035001498 S-adenosylmethionine binding site [chemical binding]; other site 13035001499 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 13035001500 Part of AAA domain; Region: AAA_19; pfam13245 13035001501 Family description; Region: UvrD_C_2; pfam13538 13035001502 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 13035001503 EamA-like transporter family; Region: EamA; pfam00892 13035001504 EamA-like transporter family; Region: EamA; pfam00892 13035001505 allophycocyanin, beta subunit; Region: apcB; TIGR01337 13035001506 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 13035001507 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 13035001508 NAD(P) binding site [chemical binding]; other site 13035001509 active site 13035001510 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 13035001511 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 13035001512 Walker A/P-loop; other site 13035001513 ATP binding site [chemical binding]; other site 13035001514 Q-loop/lid; other site 13035001515 ABC transporter signature motif; other site 13035001516 Walker B; other site 13035001517 D-loop; other site 13035001518 H-loop/switch region; other site 13035001519 TOBE domain; Region: TOBE_2; pfam08402 13035001520 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 13035001521 MoaE homodimer interface [polypeptide binding]; other site 13035001522 MoaD interaction [polypeptide binding]; other site 13035001523 active site residues [active] 13035001524 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 13035001525 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 13035001526 active site 13035001527 metal binding site [ion binding]; metal-binding site 13035001528 Probable transposase; Region: OrfB_IS605; pfam01385 13035001529 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 13035001530 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 13035001531 Domain of unknown function (DUF4332); Region: DUF4332; pfam14229 13035001532 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 13035001533 elongation factor Tu; Region: tufA; CHL00071 13035001534 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 13035001535 G1 box; other site 13035001536 GEF interaction site [polypeptide binding]; other site 13035001537 GTP/Mg2+ binding site [chemical binding]; other site 13035001538 Switch I region; other site 13035001539 G2 box; other site 13035001540 G3 box; other site 13035001541 Switch II region; other site 13035001542 G4 box; other site 13035001543 G5 box; other site 13035001544 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 13035001545 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 13035001546 Antibiotic Binding Site [chemical binding]; other site 13035001547 elongation factor G; Reviewed; Region: PRK00007 13035001548 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 13035001549 G1 box; other site 13035001550 putative GEF interaction site [polypeptide binding]; other site 13035001551 GTP/Mg2+ binding site [chemical binding]; other site 13035001552 Switch I region; other site 13035001553 G2 box; other site 13035001554 G3 box; other site 13035001555 Switch II region; other site 13035001556 G4 box; other site 13035001557 G5 box; other site 13035001558 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 13035001559 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 13035001560 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 13035001561 30S ribosomal protein S7; Validated; Region: PRK05302 13035001562 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 13035001563 S17 interaction site [polypeptide binding]; other site 13035001564 S8 interaction site; other site 13035001565 16S rRNA interaction site [nucleotide binding]; other site 13035001566 streptomycin interaction site [chemical binding]; other site 13035001567 23S rRNA interaction site [nucleotide binding]; other site 13035001568 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 13035001569 Predicted permeases [General function prediction only]; Region: COG0679 13035001570 Putative restriction endonuclease; Region: Uma2; pfam05685 13035001571 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 13035001572 IHF dimer interface [polypeptide binding]; other site 13035001573 IHF - DNA interface [nucleotide binding]; other site 13035001574 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 13035001575 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 13035001576 pyridoxal 5'-phosphate binding site [chemical binding]; other site 13035001577 homodimer interface [polypeptide binding]; other site 13035001578 catalytic residue [active] 13035001579 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 13035001580 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 13035001581 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 13035001582 putative active site [active] 13035001583 putative NTP binding site [chemical binding]; other site 13035001584 putative nucleic acid binding site [nucleotide binding]; other site 13035001585 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 13035001586 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 13035001587 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 13035001588 active site 13035001589 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 13035001590 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 13035001591 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 13035001592 pantothenate kinase; Reviewed; Region: PRK13331 13035001593 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 13035001594 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 13035001595 Ligand binding site; other site 13035001596 Putative Catalytic site; other site 13035001597 DXD motif; other site 13035001598 Predicted membrane protein [Function unknown]; Region: COG2246 13035001599 GtrA-like protein; Region: GtrA; pfam04138 13035001600 G1P_TT_long represents the long form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_long; cd04189 13035001601 glucose-1-phosphate thymidylylransferase, long form; Region: rmlA_long; TIGR01208 13035001602 substrate binding site; other site 13035001603 metal-binding site 13035001604 Oligomer interface; other site 13035001605 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 13035001606 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 13035001607 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 13035001608 NADP binding site [chemical binding]; other site 13035001609 active site 13035001610 putative substrate binding site [chemical binding]; other site 13035001611 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 13035001612 DNA polymerase III subunit delta'; Validated; Region: PRK07399 13035001613 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 13035001614 active site 13035001615 catalytic residues [active] 13035001616 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 13035001617 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 13035001618 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 13035001619 active site 13035001620 catalytic site [active] 13035001621 glycogen branching enzyme; Provisional; Region: PRK12313 13035001622 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 13035001623 active site 13035001624 catalytic site [active] 13035001625 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 13035001626 alpha-1,6-glucosidases, pullulanase-type; Region: pullul_strch; TIGR02103 13035001627 Early set domain associated with the catalytic domain of pullulanase (also called dextrinase and alpha-dextrin endo-1,6-alpha glucosidase); Region: E_set_Pullulanase; cd02860 13035001628 Alpha amylase catalytic domain found in Pullulanase (also called dextrinase; alpha-dextrin endo-1,6-alpha glucosidase), limit dextrinase, and related proteins; Region: AmyAc_Pullulanase_LD-like; cd11341 13035001629 Ca binding site [ion binding]; other site 13035001630 active site 13035001631 catalytic site [active] 13035001632 Domain of unknown function (DUF3372); Region: DUF3372; pfam11852 13035001633 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 13035001634 putative active site [active] 13035001635 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 13035001636 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 13035001637 cofactor binding site; other site 13035001638 DNA binding site [nucleotide binding] 13035001639 substrate interaction site [chemical binding]; other site 13035001640 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 13035001641 Lumazine binding domain; Region: Lum_binding; pfam00677 13035001642 Lumazine binding domain; Region: Lum_binding; pfam00677 13035001643 Bifunctional nuclease; Region: DNase-RNase; pfam02577 13035001644 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 13035001645 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 13035001646 active site 13035001647 catalytic tetrad [active] 13035001648 Domain of unknown function (DUF4351); Region: DUF4351; pfam14261 13035001649 Domain of unknown function (DUF4351); Region: DUF4351; pfam14261 13035001650 Domain of unknown function (DUF4351); Region: DUF4351; pfam14261 13035001651 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 13035001652 DNA-directed RNA polymerase subunit beta'; Provisional; Region: rpoC2; PRK02597 13035001653 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 13035001654 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 13035001655 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 13035001656 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 13035001657 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 13035001658 Apocytochrome F, C-terminal; Region: Apocytochr_F_C; cl03168 13035001659 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 13035001660 DNA binding site [nucleotide binding] 13035001661 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 13035001662 DNA-directed RNA polymerase subunit gamma; Provisional; Region: rpoC1; PRK02625 13035001663 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 13035001664 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 13035001665 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 13035001666 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 13035001667 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 13035001668 RNA polymerase beta subunit external 1 domain; Region: RNA_pol_Rpb2_45; pfam10385 13035001669 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 13035001670 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 13035001671 RPB10 interaction site [polypeptide binding]; other site 13035001672 RPB1 interaction site [polypeptide binding]; other site 13035001673 RPB11 interaction site [polypeptide binding]; other site 13035001674 RPB3 interaction site [polypeptide binding]; other site 13035001675 RPB12 interaction site [polypeptide binding]; other site 13035001676 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 13035001677 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 13035001678 active site 13035001679 ribosomal protein S20; Region: rps20; CHL00102 13035001680 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 13035001681 histidinol dehydrogenase; Region: hisD; TIGR00069 13035001682 NAD binding site [chemical binding]; other site 13035001683 dimerization interface [polypeptide binding]; other site 13035001684 product binding site; other site 13035001685 substrate binding site [chemical binding]; other site 13035001686 zinc binding site [ion binding]; other site 13035001687 catalytic residues [active] 13035001688 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 13035001689 Transposase [DNA replication, recombination, and repair]; Region: COG5421 13035001690 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 13035001691 active site 13035001692 NTP binding site [chemical binding]; other site 13035001693 metal binding triad [ion binding]; metal-binding site 13035001694 antibiotic binding site [chemical binding]; other site 13035001695 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 13035001696 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 13035001697 putative catalytic cysteine [active] 13035001698 Phosphoketolase [Carbohydrate transport and metabolism]; Region: COG3957 13035001699 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 13035001700 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 13035001701 TPP-binding site [chemical binding]; other site 13035001702 Transketolase, pyrimidine binding domain; Region: Transket_pyr; smart00861 13035001703 Predicted integral membrane protein [Function unknown]; Region: COG0762 13035001704 Photosystem II reaction centre X protein (PsbX); Region: PsbX; pfam06596 13035001705 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 13035001706 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 13035001707 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 13035001708 putative active site [active] 13035001709 putative NTP binding site [chemical binding]; other site 13035001710 putative nucleic acid binding site [nucleotide binding]; other site 13035001711 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 13035001712 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 13035001713 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 13035001714 putative active site [active] 13035001715 putative NTP binding site [chemical binding]; other site 13035001716 putative nucleic acid binding site [nucleotide binding]; other site 13035001717 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 13035001718 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 13035001719 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 13035001720 active site 13035001721 RRXRR protein; Region: RRXRR; pfam14239 13035001722 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 13035001723 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 13035001724 active site 13035001725 Ycf66 protein N-terminus; Region: Ycf66_N; pfam07444 13035001726 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 13035001727 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 13035001728 beta propeller repeat, Methanosarcina surface protein type; Region: beta_prop_Msarc; TIGR04275 13035001729 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 13035001730 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 13035001731 Substrate binding subunit of ER-derived-lipid transporter; Provisional; Region: PLN03094 13035001732 mce related protein; Region: MCE; pfam02470 13035001733 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 13035001734 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 13035001735 Walker A/P-loop; other site 13035001736 ATP binding site [chemical binding]; other site 13035001737 Q-loop/lid; other site 13035001738 ABC transporter signature motif; other site 13035001739 Walker B; other site 13035001740 D-loop; other site 13035001741 H-loop/switch region; other site 13035001742 Sucrose-6F-phosphate phosphohydrolase; Region: S6PP; pfam05116 13035001743 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 13035001744 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 13035001745 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 13035001746 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14333 13035001747 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 13035001748 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 13035001749 FeS/SAM binding site; other site 13035001750 TRAM domain; Region: TRAM; pfam01938 13035001751 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 13035001752 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 13035001753 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 13035001754 active site 13035001755 multimer interface [polypeptide binding]; other site 13035001756 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4634 13035001757 Uncharacterized conserved protein [Function unknown]; Region: COG2442 13035001758 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 13035001759 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 13035001760 DNA binding residues [nucleotide binding] 13035001761 Precorrin isomerase [Coenzyme metabolism]; Region: CobH; COG2082 13035001762 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; cl00913 13035001763 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 13035001764 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 13035001765 Soluble P-type ATPase [General function prediction only]; Region: COG4087 13035001766 Cache domain; Region: Cache_1; pfam02743 13035001767 PAS fold; Region: PAS_4; pfam08448 13035001768 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 13035001769 putative active site [active] 13035001770 heme pocket [chemical binding]; other site 13035001771 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 13035001772 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 13035001773 metal binding site [ion binding]; metal-binding site 13035001774 active site 13035001775 I-site; other site 13035001776 FeoC like transcriptional regulator; Region: FeoC; pfam09012 13035001777 ferrous iron transport protein B; Reviewed; Region: feoB; PRK09554 13035001778 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 13035001779 G1 box; other site 13035001780 GTP/Mg2+ binding site [chemical binding]; other site 13035001781 Switch I region; other site 13035001782 G2 box; other site 13035001783 G3 box; other site 13035001784 Switch II region; other site 13035001785 G4 box; other site 13035001786 G5 box; other site 13035001787 Nucleoside recognition; Region: Gate; pfam07670 13035001788 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 13035001789 Nucleoside recognition; Region: Gate; pfam07670 13035001790 FeoA domain; Region: FeoA; pfam04023 13035001791 FeoA domain; Region: FeoA; pfam04023 13035001792 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02705 13035001793 TrkA-N domain; Region: TrkA_N; pfam02254 13035001794 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 13035001795 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 13035001796 Clp protease ATP binding subunit; Region: clpC; CHL00095 13035001797 Clp amino terminal domain; Region: Clp_N; pfam02861 13035001798 Clp amino terminal domain; Region: Clp_N; pfam02861 13035001799 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 13035001800 Walker A motif; other site 13035001801 ATP binding site [chemical binding]; other site 13035001802 Walker B motif; other site 13035001803 arginine finger; other site 13035001804 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 13035001805 Walker A motif; other site 13035001806 ATP binding site [chemical binding]; other site 13035001807 Walker B motif; other site 13035001808 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 13035001809 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 13035001810 Myxococcus xanthus DevT and related proteins, metallophosphatase domain; Region: MPP_DevT; cd07397 13035001811 putative active site [active] 13035001812 putative metal binding site [ion binding]; other site 13035001813 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; cl01898 13035001814 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 13035001815 putative active site [active] 13035001816 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 13035001817 putative active site [active] 13035001818 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 13035001819 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 13035001820 non-specific DNA interactions [nucleotide binding]; other site 13035001821 DNA binding site [nucleotide binding] 13035001822 sequence specific DNA binding site [nucleotide binding]; other site 13035001823 putative cAMP binding site [chemical binding]; other site 13035001824 Domain of unknown function (DUF4359); Region: DUF4359; pfam14271 13035001825 30S ribosomal protein S1; Reviewed; Region: PRK07400 13035001826 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 13035001827 RNA binding site [nucleotide binding]; other site 13035001828 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 13035001829 RNA binding site [nucleotide binding]; other site 13035001830 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 13035001831 RNA binding site [nucleotide binding]; other site 13035001832 Dienelactone hydrolase family; Region: DLH; pfam01738 13035001833 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 13035001834 Uncharacterized conserved protein [Function unknown]; Region: COG5464 13035001835 Protein of unknown function (DUF2887); Region: DUF2887; pfam11103 13035001836 Domain of unknown function (DUF4351); Region: DUF4351; pfam14261 13035001837 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 13035001838 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 13035001839 Walker A/P-loop; other site 13035001840 ATP binding site [chemical binding]; other site 13035001841 Q-loop/lid; other site 13035001842 ABC transporter signature motif; other site 13035001843 Walker B; other site 13035001844 D-loop; other site 13035001845 H-loop/switch region; other site 13035001846 DevC protein; Region: devC; TIGR01185 13035001847 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 13035001848 FtsX-like permease family; Region: FtsX; pfam02687 13035001849 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 13035001850 putative RNA binding site [nucleotide binding]; other site 13035001851 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 13035001852 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 13035001853 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 13035001854 P loop; other site 13035001855 GTP binding site [chemical binding]; other site 13035001856 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 13035001857 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 13035001858 putative substrate translocation pore; other site 13035001859 Late competence development protein ComFB; Region: ComFB; pfam10719 13035001860 Protein of unknown function (DUF497); Region: DUF497; pfam04365 13035001861 Protein of unknown function (DUF3038); Region: DUF3038; pfam11237 13035001862 Domain of unknown function (DUF4335); Region: DUF4335; pfam14233 13035001863 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 13035001864 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 13035001865 arogenate dehydrogenase; Reviewed; Region: PRK07417 13035001866 prephenate dehydrogenase; Validated; Region: PRK08507 13035001867 photosystem I P700 chlorophyll a apoprotein A1; Region: psaA; CHL00056 13035001868 photosystem I P700 chlorophyll a apoprotein A2; Provisional; Region: psaB; PRK13199 13035001869 Uncharacterized conserved protein (DUF2246); Region: DUF2246; pfam10229 13035001870 shikimate kinase; Reviewed; Region: aroK; PRK00131 13035001871 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 13035001872 ADP binding site [chemical binding]; other site 13035001873 magnesium binding site [ion binding]; other site 13035001874 putative shikimate binding site; other site 13035001875 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 13035001876 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 13035001877 active site 13035001878 catalytic tetrad [active] 13035001879 recombination protein F; Reviewed; Region: recF; PRK00064 13035001880 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 13035001881 Walker A/P-loop; other site 13035001882 ATP binding site [chemical binding]; other site 13035001883 Q-loop/lid; other site 13035001884 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 13035001885 ABC transporter signature motif; other site 13035001886 Walker B; other site 13035001887 D-loop; other site 13035001888 H-loop/switch region; other site 13035001889 glycogen synthase; Provisional; Region: glgA; PRK00654 13035001890 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 13035001891 ADP-binding pocket [chemical binding]; other site 13035001892 homodimer interface [polypeptide binding]; other site 13035001893 Protein of unknown function (DUF497); Region: DUF497; cl01108 13035001894 Protein of unknown function (DUF497); Region: DUF497; pfam04365 13035001895 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12567 13035001896 hypothetical protein; Provisional; Region: PRK07377 13035001897 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; pfam03334 13035001898 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 13035001899 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK07234 13035001900 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 13035001901 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK08389 13035001902 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 13035001903 putative catalytic site [active] 13035001904 putative metal binding site [ion binding]; other site 13035001905 putative phosphate binding site [ion binding]; other site 13035001906 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 13035001907 Phytase; Region: Phytase; cl17685 13035001908 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 13035001909 active site 13035001910 catalytic triad [active] 13035001911 oxyanion hole [active] 13035001912 Phytase; Region: Phytase; cl17685 13035001913 PhoD-like phosphatase; Region: PhoD; pfam09423 13035001914 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 13035001915 putative active site [active] 13035001916 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 13035001917 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 13035001918 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 13035001919 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 13035001920 Protein of unknown function (DUF938); Region: DUF938; pfam06080 13035001921 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 13035001922 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 13035001923 active site 13035001924 SAM binding site [chemical binding]; other site 13035001925 homodimer interface [polypeptide binding]; other site 13035001926 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 13035001927 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 13035001928 dimer interface [polypeptide binding]; other site 13035001929 putative functional site; other site 13035001930 putative MPT binding site; other site 13035001931 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 13035001932 active site 13035001933 NTP binding site [chemical binding]; other site 13035001934 metal binding triad [ion binding]; metal-binding site 13035001935 antibiotic binding site [chemical binding]; other site 13035001936 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 13035001937 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 13035001938 active site 13035001939 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 13035001940 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 13035001941 C-3',4' desaturase CrtD; Region: desat_CrtD; TIGR02733 13035001942 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 13035001943 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 13035001944 Peptidase family M23; Region: Peptidase_M23; pfam01551 13035001945 Alpha/beta hydrolase of unknown function (DUF1400); Region: DUF1400; pfam07176 13035001946 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 13035001947 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 13035001948 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 13035001949 Domain of unknown function (DUF4327); Region: DUF4327; pfam14217 13035001950 DNA primase; Validated; Region: dnaG; PRK05667 13035001951 CHC2 zinc finger; Region: zf-CHC2; pfam01807 13035001952 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 13035001953 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 13035001954 active site 13035001955 metal binding site [ion binding]; metal-binding site 13035001956 interdomain interaction site; other site 13035001957 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 13035001958 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 13035001959 cofactor binding site; other site 13035001960 DNA binding site [nucleotide binding] 13035001961 substrate interaction site [chemical binding]; other site 13035001962 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 13035001963 MjaII restriction endonuclease; Region: RE_MjaII; pfam09520 13035001964 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 13035001965 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 13035001966 putative phosphoketolase; Provisional; Region: PRK05261 13035001967 Thiamine pyrophosphate (TPP) family, Phosphoketolase (PK) subfamily, TPP-binding module; PK catalyzes the conversion of D-xylulose 5-phosphate and phosphate to acetyl phosphate, D-glyceraldehyde-3-phosphate and H2O. This enzyme requires divalent...; Region: TPP_PK; cd02011 13035001968 TPP-binding site; other site 13035001969 XFP C-terminal domain; Region: XFP_C; pfam09363 13035001970 Protein of unknown function, DUF393; Region: DUF393; pfam04134 13035001971 EamA-like transporter family; Region: EamA; pfam00892 13035001972 O-succinylbenzoic acid--CoA ligase; Reviewed; Region: PRK07445 13035001973 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 13035001974 acyl-activating enzyme (AAE) consensus motif; other site 13035001975 putative AMP binding site [chemical binding]; other site 13035001976 putative active site [active] 13035001977 putative CoA binding site [chemical binding]; other site 13035001978 O-succinylbenzoate synthase; Provisional; Region: PRK02714 13035001979 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 13035001980 active site 13035001981 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; cd00488 13035001982 aromatic arch; other site 13035001983 DCoH dimer interaction site [polypeptide binding]; other site 13035001984 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 13035001985 DCoH tetramer interaction site [polypeptide binding]; other site 13035001986 substrate binding site [chemical binding]; other site 13035001987 TPR repeat; Region: TPR_11; pfam13414 13035001988 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 13035001989 binding surface 13035001990 TPR repeat; Region: TPR_11; pfam13414 13035001991 TPR motif; other site 13035001992 TPR repeat; Region: TPR_11; pfam13414 13035001993 Cation efflux family; Region: Cation_efflux; pfam01545 13035001994 Prophage maintenance system killer protein [General function prediction only]; Region: Doc; COG3654 13035001995 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5304 13035001996 Domain of unknown function (DUF4258); Region: DUF4258; pfam14076 13035001997 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 13035001998 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 13035001999 cofactor binding site; other site 13035002000 DNA binding site [nucleotide binding] 13035002001 substrate interaction site [chemical binding]; other site 13035002002 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 13035002003 Walker A/P-loop; other site 13035002004 ATP binding site [chemical binding]; other site 13035002005 Q-loop/lid; other site 13035002006 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 13035002007 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 13035002008 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 13035002009 ABC transporter signature motif; other site 13035002010 Walker B; other site 13035002011 D-loop; other site 13035002012 H-loop/switch region; other site 13035002013 AccI restriction endonuclease; Region: RE_AccI; pfam09545 13035002014 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 13035002015 S-adenosylmethionine binding site [chemical binding]; other site 13035002016 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 13035002017 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 13035002018 non-specific DNA binding site [nucleotide binding]; other site 13035002019 salt bridge; other site 13035002020 sequence-specific DNA binding site [nucleotide binding]; other site 13035002021 Mrr N-terminal domain; Region: Mrr_N; pfam14338 13035002022 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 13035002023 S-adenosylmethionine binding site [chemical binding]; other site 13035002024 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 13035002025 Uncharacterized conserved protein [Function unknown]; Region: COG4095 13035002026 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 13035002027 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 13035002028 ABC-ATPase subunit interface; other site 13035002029 dimer interface [polypeptide binding]; other site 13035002030 putative PBP binding regions; other site 13035002031 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 13035002032 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 13035002033 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 13035002034 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 13035002035 intersubunit interface [polypeptide binding]; other site 13035002036 Phycobilisome Linker polypeptide; Region: PBS_linker_poly; pfam00427 13035002037 diaminopimelate decarboxylase; Region: lysA; TIGR01048 13035002038 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 13035002039 active site 13035002040 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 13035002041 substrate binding site [chemical binding]; other site 13035002042 catalytic residues [active] 13035002043 dimer interface [polypeptide binding]; other site 13035002044 Uncharacterized conserved protein [Function unknown]; Region: COG1624 13035002045 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 13035002046 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 13035002047 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 13035002048 catalytic residue [active] 13035002049 putative FPP diphosphate binding site; other site 13035002050 putative FPP binding hydrophobic cleft; other site 13035002051 dimer interface [polypeptide binding]; other site 13035002052 putative IPP diphosphate binding site; other site 13035002053 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 13035002054 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 13035002055 active site 13035002056 homodimer interface [polypeptide binding]; other site 13035002057 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 13035002058 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 13035002059 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 13035002060 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 13035002061 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 13035002062 active site 13035002063 metal binding site [ion binding]; metal-binding site 13035002064 hexamer interface [polypeptide binding]; other site 13035002065 acetylornithine aminotransferase; Provisional; Region: PRK02627 13035002066 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 13035002067 inhibitor-cofactor binding pocket; inhibition site 13035002068 pyridoxal 5'-phosphate binding site [chemical binding]; other site 13035002069 catalytic residue [active] 13035002070 Ion channel; Region: Ion_trans_2; pfam07885 13035002071 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 13035002072 TrkA-N domain; Region: TrkA_N; pfam02254 13035002073 TrkA-C domain; Region: TrkA_C; pfam02080 13035002074 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 13035002075 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 13035002076 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 13035002077 Uncharacterized conserved protein [Function unknown]; Region: COG2442 13035002078 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 13035002079 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 13035002080 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 13035002081 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 13035002082 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 13035002083 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 13035002084 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 13035002085 Fasciclin domain; Region: Fasciclin; pfam02469 13035002086 Protein of unknown function (DUF3318); Region: DUF3318; pfam11780 13035002087 Staphylococcal nuclease homologues; Region: SNc; smart00318 13035002088 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 13035002089 Catalytic site; other site 13035002090 Carboxy-terminal domain of Formyltransferase and similar domains; Region: FMT_C_like; cl14785 13035002091 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 13035002092 putative active site [active] 13035002093 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 13035002094 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 13035002095 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 13035002096 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 13035002097 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 13035002098 ligand binding site [chemical binding]; other site 13035002099 homodimer interface [polypeptide binding]; other site 13035002100 NAD(P) binding site [chemical binding]; other site 13035002101 trimer interface B [polypeptide binding]; other site 13035002102 trimer interface A [polypeptide binding]; other site 13035002103 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 13035002104 active site 13035002105 NTP binding site [chemical binding]; other site 13035002106 metal binding triad [ion binding]; metal-binding site 13035002107 antibiotic binding site [chemical binding]; other site 13035002108 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 13035002109 putative binding surface; other site 13035002110 active site 13035002111 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 13035002112 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 13035002113 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 13035002114 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 13035002115 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 13035002116 hydrolase, alpha/beta fold family protein; Region: PLN02824 13035002117 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 13035002118 Aluminium resistance protein; Region: Alum_res; pfam06838 13035002119 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 13035002120 Fatty acid desaturase; Region: FA_desaturase; pfam00487 13035002121 Di-iron ligands [ion binding]; other site 13035002122 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 13035002123 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 13035002124 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 13035002125 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 13035002126 putative active site [active] 13035002127 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: StbD; COG2161 13035002128 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 13035002129 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 13035002130 Walker A motif; other site 13035002131 Hom_end-associated Hint; Region: Hom_end_hint; pfam05203 13035002132 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 13035002133 ATP binding site [chemical binding]; other site 13035002134 Walker B motif; other site 13035002135 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 13035002136 protein-splicing catalytic site; other site 13035002137 thioester formation/cholesterol transfer; other site 13035002138 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 13035002139 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 13035002140 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 13035002141 Uncharacterized conserved protein [Function unknown]; Region: COG3937 13035002142 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 13035002143 Ycf39; Provisional; Region: ycf39; CHL00194 13035002144 NAD(P) binding site [chemical binding]; other site 13035002145 putative active site [active] 13035002146 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 13035002147 putative catalytic site [active] 13035002148 putative phosphate binding site [ion binding]; other site 13035002149 active site 13035002150 metal binding site A [ion binding]; metal-binding site 13035002151 DNA binding site [nucleotide binding] 13035002152 putative AP binding site [nucleotide binding]; other site 13035002153 putative metal binding site B [ion binding]; other site 13035002154 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 13035002155 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 13035002156 phosphopeptide binding site; other site 13035002157 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 13035002158 Transglycosylase; Region: Transgly; pfam00912 13035002159 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 13035002160 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 13035002161 lipoprotein signal peptidase; Provisional; Region: PRK14787 13035002162 BioY family; Region: BioY; pfam02632 13035002163 Domain of unknown function (DUF4168); Region: DUF4168; pfam13767 13035002164 DNA polymerase III subunit delta; Validated; Region: PRK07452 13035002165 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 13035002166 precorrin-8X methylmutase; Provisional; Region: PRK05954 13035002167 Precorrin-8X methylmutase; Region: CbiC; pfam02570 13035002168 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 13035002169 active site 13035002170 putative homodimer interface [polypeptide binding]; other site 13035002171 SAM binding site [chemical binding]; other site 13035002172 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 13035002173 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 13035002174 S-adenosylmethionine binding site [chemical binding]; other site 13035002175 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 13035002176 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 13035002177 putative catalytic residues [active] 13035002178 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 13035002179 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 13035002180 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 13035002181 Ca2+ binding site [ion binding]; other site 13035002182 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 13035002183 Ca2+ binding site [ion binding]; other site 13035002184 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 13035002185 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 13035002186 Ca2+ binding site [ion binding]; other site 13035002187 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 13035002188 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 13035002189 Ca2+ binding site [ion binding]; other site 13035002190 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 13035002191 Ca2+ binding site [ion binding]; other site 13035002192 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 13035002193 Ca2+ binding site [ion binding]; other site 13035002194 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 13035002195 Ca2+ binding site [ion binding]; other site 13035002196 VCBS repeat; Region: VCBS_repeat; TIGR01965 13035002197 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 13035002198 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 13035002199 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 13035002200 HSP70 interaction site [polypeptide binding]; other site 13035002201 HEPN domain; Region: HEPN; cl00824 13035002202 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 13035002203 active site 13035002204 NTP binding site [chemical binding]; other site 13035002205 metal binding triad [ion binding]; metal-binding site 13035002206 antibiotic binding site [chemical binding]; other site 13035002207 Predicted acetamidase/formamidase [Energy production and conversion]; Region: COG2421 13035002208 L,L-diaminopimelate aminotransferase; Validated; Region: PRK07590 13035002209 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 13035002210 pyridoxal 5'-phosphate binding site [chemical binding]; other site 13035002211 homodimer interface [polypeptide binding]; other site 13035002212 catalytic residue [active] 13035002213 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 13035002214 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 13035002215 Probable transposase; Region: OrfB_IS605; pfam01385 13035002216 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 13035002217 hypothetical protein; Validated; Region: PRK07413 13035002218 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 13035002219 Walker A motif; other site 13035002220 homodimer interface [polypeptide binding]; other site 13035002221 ATP binding site [chemical binding]; other site 13035002222 hydroxycobalamin binding site [chemical binding]; other site 13035002223 Walker B motif; other site 13035002224 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP; Region: CobA_CobO_BtuR; pfam02572 13035002225 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK02862 13035002226 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 13035002227 ligand binding site; other site 13035002228 oligomer interface; other site 13035002229 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 13035002230 dimer interface [polypeptide binding]; other site 13035002231 N-terminal domain interface [polypeptide binding]; other site 13035002232 sulfate 1 binding site; other site 13035002233 Protein of unknown function (DUF808); Region: DUF808; cl01002 13035002234 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 13035002235 active site 13035002236 NTP binding site [chemical binding]; other site 13035002237 metal binding triad [ion binding]; metal-binding site 13035002238 antibiotic binding site [chemical binding]; other site 13035002239 2-phosphosulfolactate phosphatase; Provisional; Region: PRK00886 13035002240 Phosphosulfolactate phosphohydrolase and related enzymes [Coenzyme metabolism / General function prediction only]; Region: COG2045 13035002241 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 13035002242 non-specific DNA binding site [nucleotide binding]; other site 13035002243 salt bridge; other site 13035002244 sequence-specific DNA binding site [nucleotide binding]; other site 13035002245 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 13035002246 active site 13035002247 SAM binding site [chemical binding]; other site 13035002248 homodimer interface [polypeptide binding]; other site 13035002249 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 13035002250 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 13035002251 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 13035002252 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 13035002253 dimerization interface [polypeptide binding]; other site 13035002254 ATP binding site [chemical binding]; other site 13035002255 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 13035002256 dimerization interface [polypeptide binding]; other site 13035002257 ATP binding site [chemical binding]; other site 13035002258 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK07428 13035002259 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 13035002260 dimerization interface [polypeptide binding]; other site 13035002261 active site 13035002262 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 13035002263 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 13035002264 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 13035002265 Peptidase family M23; Region: Peptidase_M23; pfam01551 13035002266 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 13035002267 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 13035002268 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02645 13035002269 ATP-NAD kinase; Region: NAD_kinase; pfam01513 13035002270 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 13035002271 Major Facilitator Superfamily; Region: MFS_1; pfam07690 13035002272 putative substrate translocation pore; other site 13035002273 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 13035002274 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 13035002275 active site 13035002276 SAM binding site [chemical binding]; other site 13035002277 homodimer interface [polypeptide binding]; other site 13035002278 flavodoxin FldA; Validated; Region: PRK09267 13035002279 chlorophyll a/b binding light-harvesting protein; Region: PS_antenn_a_b; TIGR03041 13035002280 Photosystem I reaction centre subunit XI; Region: PsaL; pfam02605 13035002281 chlorophyll a/b binding light-harvesting protein; Region: PS_antenn_a_b; TIGR03041 13035002282 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 13035002283 ligand binding site [chemical binding]; other site 13035002284 FeoA domain; Region: FeoA; pfam04023 13035002285 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 13035002286 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 13035002287 dimerization interface [polypeptide binding]; other site 13035002288 DPS ferroxidase diiron center [ion binding]; other site 13035002289 ion pore; other site 13035002290 thymidylate kinase; Validated; Region: tmk; PRK00698 13035002291 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 13035002292 TMP-binding site; other site 13035002293 ATP-binding site [chemical binding]; other site 13035002294 imidazoleglycerol-phosphate dehydratase; Region: PLN02800 13035002295 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 13035002296 putative active site pocket [active] 13035002297 4-fold oligomerization interface [polypeptide binding]; other site 13035002298 metal binding residues [ion binding]; metal-binding site 13035002299 3-fold/trimer interface [polypeptide binding]; other site 13035002300 enoyl-(acyl carrier protein) reductase; Validated; Region: PRK07370 13035002301 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 13035002302 NAD binding site [chemical binding]; other site 13035002303 homotetramer interface [polypeptide binding]; other site 13035002304 homodimer interface [polypeptide binding]; other site 13035002305 substrate binding site [chemical binding]; other site 13035002306 active site 13035002307 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 13035002308 30S subunit binding site; other site 13035002309 Lipoate-protein ligase B [Coenzyme metabolism]; Region: LipB; COG0321 13035002310 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 13035002311 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 13035002312 active site 13035002313 (T/H)XGH motif; other site 13035002314 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 13035002315 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 13035002316 Catalytic site [active] 13035002317 dihydroorotase; Provisional; Region: PRK07369 13035002318 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 13035002319 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 13035002320 active site 13035002321 Circadian oscillating protein COP23; Region: COP23; pfam14218 13035002322 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 13035002323 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 13035002324 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 13035002325 putative active site [active] 13035002326 putative NTP binding site [chemical binding]; other site 13035002327 putative nucleic acid binding site [nucleotide binding]; other site 13035002328 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 13035002329 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 13035002330 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 13035002331 active site 13035002332 PAP-phosphatase_like domains. PAP-phosphatase is a member of the inositol monophosphatase family, and catalyses the hydrolysis of 3'-phosphoadenosine-5'-phosphate (PAP) to AMP. In Saccharomyces cerevisiae, HAL2 (MET22) is involved in methionine...; Region: PAP_phosphatase; cd01517 13035002333 active site 13035002334 putative lithium-binding site [ion binding]; other site 13035002335 substrate binding site [chemical binding]; other site 13035002336 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 13035002337 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 13035002338 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 13035002339 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 13035002340 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 13035002341 TrkA-N domain; Region: TrkA_N; pfam02254 13035002342 Circadian oscillating protein COP23; Region: COP23; pfam14218 13035002343 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 13035002344 putative nucleotide binding site [chemical binding]; other site 13035002345 uridine monophosphate binding site [chemical binding]; other site 13035002346 homohexameric interface [polypeptide binding]; other site 13035002347 ribosome recycling factor; Reviewed; Region: frr; PRK00083 13035002348 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 13035002349 hinge region; other site 13035002350 RNA polymerase sigma factor SigF; Reviewed; Region: PRK07408 13035002351 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 13035002352 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 13035002353 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 13035002354 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 13035002355 Fe-S cluster binding site [ion binding]; other site 13035002356 active site 13035002357 Bacterial Micro-Compartment (BMC)-like domain 1 repeat 1; Region: BMC_like_1_repeat1; cd07051 13035002358 putative hexamer interface [polypeptide binding]; other site 13035002359 putative hexagonal pore; other site 13035002360 Bacterial Micro-Compartment (BMC) domain; Region: BMC; cl01982 13035002361 Hexamer interface [polypeptide binding]; other site 13035002362 Hexagonal pore residue; other site 13035002363 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 13035002364 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; cl01250 13035002365 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 13035002366 chaperone protein DnaJ; Provisional; Region: PRK14299 13035002367 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 13035002368 HSP70 interaction site [polypeptide binding]; other site 13035002369 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 13035002370 substrate binding site [polypeptide binding]; other site 13035002371 dimer interface [polypeptide binding]; other site 13035002372 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 13035002373 RNA polymerase sigma factor, cyanobacterial RpoD-like family; Region: Sig70-cyanoRpoD; TIGR02997 13035002374 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 13035002375 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 13035002376 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 13035002377 DNA binding residues [nucleotide binding] 13035002378 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 13035002379 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 13035002380 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 13035002381 Family of unknown function (DUF490); Region: DUF490; pfam04357 13035002382 cupin fold metalloprotein, WbuC family; Region: cupin_WbuC; TIGR04366 13035002383 excinuclease ABC subunit B; Provisional; Region: PRK05298 13035002384 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 13035002385 ATP binding site [chemical binding]; other site 13035002386 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 13035002387 nucleotide binding region [chemical binding]; other site 13035002388 ATP-binding site [chemical binding]; other site 13035002389 Ultra-violet resistance protein B; Region: UvrB; pfam12344 13035002390 UvrB/uvrC motif; Region: UVR; pfam02151 13035002391 dnd system-associated protein 4; Region: dnd_assoc_4; TIGR04062 13035002392 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 13035002393 Ligand Binding Site [chemical binding]; other site 13035002394 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 13035002395 Ligand Binding Site [chemical binding]; other site 13035002396 Phycobilisome degradation protein nblA; Region: NblA; pfam04485 13035002397 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 13035002398 salt bridge; other site 13035002399 non-specific DNA binding site [nucleotide binding]; other site 13035002400 sequence-specific DNA binding site [nucleotide binding]; other site 13035002401 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 13035002402 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 13035002403 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 13035002404 Carbon dioxide concentrating mechanism (CcmK); Bacterial Micro-Compartment (BCM) domain; Region: BMC_CcmK; cd07057 13035002405 Hexamer interface [polypeptide binding]; other site 13035002406 Hexagonal pore residue; other site 13035002407 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 13035002408 Carbon dioxide concentrating mechanism (CcmK); Bacterial Micro-Compartment (BCM) domain; Region: BMC_CcmK; cd07057 13035002409 Hexamer interface [polypeptide binding]; other site 13035002410 Hexagonal pore residue; other site 13035002411 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 13035002412 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 13035002413 putative active site [active] 13035002414 substrate binding site [chemical binding]; other site 13035002415 putative cosubstrate binding site; other site 13035002416 catalytic site [active] 13035002417 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 13035002418 substrate binding site [chemical binding]; other site 13035002419 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 13035002420 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 13035002421 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 13035002422 HD domain; Region: HD; pfam01966 13035002423 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 13035002424 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 13035002425 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 13035002426 putative active site [active] 13035002427 putative NTP binding site [chemical binding]; other site 13035002428 putative nucleic acid binding site [nucleotide binding]; other site 13035002429 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 13035002430 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 13035002431 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 13035002432 active site 13035002433 4-hydroxybenzoate polyprenyltransferase; Reviewed; Region: ubiA; PRK12870 13035002434 UbiA prenyltransferase family; Region: UbiA; pfam01040 13035002435 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 13035002436 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 13035002437 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 13035002438 hydrolase, alpha/beta fold family protein; Region: PLN02824 13035002439 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 13035002440 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 13035002441 Inter-Src homology 2 (iSH2) helical domain of Class IA Phosphoinositide 3-kinase Regulatory subunits; Region: iSH2_PI3K_IA_R; cl17108 13035002442 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 13035002443 Protein of unknown function (DUF2993); Region: DUF2993; pfam11209 13035002444 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 13035002445 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 13035002446 RNA binding surface [nucleotide binding]; other site 13035002447 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 13035002448 active site 13035002449 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 13035002450 Helix-turn-helix domain; Region: HTH_25; pfam13413 13035002451 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 13035002452 biotin synthase; Validated; Region: PRK06256 13035002453 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 13035002454 FeS/SAM binding site; other site 13035002455 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 13035002456 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 13035002457 homotrimer interaction site [polypeptide binding]; other site 13035002458 active site 13035002459 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 13035002460 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 13035002461 tandem repeat interface [polypeptide binding]; other site 13035002462 oligomer interface [polypeptide binding]; other site 13035002463 active site residues [active] 13035002464 DNA polymerase I; Provisional; Region: PRK05755 13035002465 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 13035002466 active site 13035002467 metal binding site 1 [ion binding]; metal-binding site 13035002468 putative 5' ssDNA interaction site; other site 13035002469 metal binding site 3; metal-binding site 13035002470 metal binding site 2 [ion binding]; metal-binding site 13035002471 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 13035002472 putative DNA binding site [nucleotide binding]; other site 13035002473 putative metal binding site [ion binding]; other site 13035002474 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 13035002475 active site 13035002476 catalytic site [active] 13035002477 substrate binding site [chemical binding]; other site 13035002478 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 13035002479 active site 13035002480 DNA binding site [nucleotide binding] 13035002481 catalytic site [active] 13035002482 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 13035002483 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 13035002484 dimer interface [polypeptide binding]; other site 13035002485 decamer (pentamer of dimers) interface [polypeptide binding]; other site 13035002486 catalytic triad [active] 13035002487 peroxidatic and resolving cysteines [active] 13035002488 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 13035002489 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 13035002490 dimer interface [polypeptide binding]; other site 13035002491 conserved gate region; other site 13035002492 ABC-ATPase subunit interface; other site 13035002493 DNA phosphorothioation-associated putative methyltransferase; Region: dnd_rel_methyl; TIGR04096 13035002494 YacP-like NYN domain; Region: NYN_YacP; pfam05991 13035002495 LysR transcriptional regulator; Provisional; Region: rbcR; CHL00180 13035002496 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 13035002497 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 13035002498 putative dimerization interface [polypeptide binding]; other site 13035002499 PBP superfamily domain; Region: PBP_like_2; pfam12849 13035002500 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 13035002501 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 13035002502 Walker A/P-loop; other site 13035002503 ATP binding site [chemical binding]; other site 13035002504 Q-loop/lid; other site 13035002505 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 13035002506 ABC transporter signature motif; other site 13035002507 Walker B; other site 13035002508 D-loop; other site 13035002509 H-loop/switch region; other site 13035002510 heat shock protein 90; Provisional; Region: PRK05218 13035002511 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 13035002512 ATP binding site [chemical binding]; other site 13035002513 Mg2+ binding site [ion binding]; other site 13035002514 G-X-G motif; other site 13035002515 Major Facilitator Superfamily; Region: MFS_1; pfam07690 13035002516 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 13035002517 putative substrate translocation pore; other site 13035002518 Protein of unknown function (DUF760); Region: DUF760; pfam05542 13035002519 GTPase CgtA; Reviewed; Region: obgE; PRK12299 13035002520 GTP1/OBG; Region: GTP1_OBG; pfam01018 13035002521 Obg GTPase; Region: Obg; cd01898 13035002522 G1 box; other site 13035002523 GTP/Mg2+ binding site [chemical binding]; other site 13035002524 Switch I region; other site 13035002525 G2 box; other site 13035002526 G3 box; other site 13035002527 Switch II region; other site 13035002528 G4 box; other site 13035002529 G5 box; other site 13035002530 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 13035002531 Protein export membrane protein; Region: SecD_SecF; cl14618 13035002532 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 13035002533 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 13035002534 HlyD family secretion protein; Region: HlyD_3; pfam13437 13035002535 Predicted transcriptional regulators [Transcription]; Region: COG1695 13035002536 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 13035002537 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 13035002538 active site 13035002539 Growth regulator [Signal transduction mechanisms]; Region: MazE; COG2336 13035002540 PemK-like protein; Region: PemK; cl00995 13035002541 carotene isomerase; Region: carot_isom; TIGR02730 13035002542 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 13035002543 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 13035002544 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 13035002545 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 13035002546 Protein of unknown function (DUF561); Region: DUF561; pfam04481 13035002547 acetyl-CoA synthetase; Provisional; Region: PRK00174 13035002548 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 13035002549 active site 13035002550 CoA binding site [chemical binding]; other site 13035002551 acyl-activating enzyme (AAE) consensus motif; other site 13035002552 AMP binding site [chemical binding]; other site 13035002553 acetate binding site [chemical binding]; other site 13035002554 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 13035002555 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 13035002556 active site 13035002557 substrate binding site [chemical binding]; other site 13035002558 cosubstrate binding site; other site 13035002559 catalytic site [active] 13035002560 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 13035002561 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 13035002562 dimer interface [polypeptide binding]; other site 13035002563 conserved gate region; other site 13035002564 putative PBP binding loops; other site 13035002565 ABC-ATPase subunit interface; other site 13035002566 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 13035002567 Flavoprotein; Region: Flavoprotein; pfam02441 13035002568 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 13035002569 Protein of unknown function (DUF2555); Region: DUF2555; pfam10742 13035002570 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 13035002571 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 13035002572 putative ligand binding site [chemical binding]; other site 13035002573 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 13035002574 binding surface 13035002575 TPR repeat; Region: TPR_11; pfam13414 13035002576 TPR motif; other site 13035002577 TPR repeat; Region: TPR_11; pfam13414 13035002578 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 13035002579 binding surface 13035002580 TPR motif; other site 13035002581 TPR repeat; Region: TPR_11; pfam13414 13035002582 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 13035002583 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 13035002584 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 13035002585 putative active site [active] 13035002586 putative NTP binding site [chemical binding]; other site 13035002587 putative nucleic acid binding site [nucleotide binding]; other site 13035002588 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 13035002589 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 13035002590 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 13035002591 active site 13035002592 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 13035002593 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 13035002594 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 13035002595 putative active site [active] 13035002596 putative NTP binding site [chemical binding]; other site 13035002597 putative nucleic acid binding site [nucleotide binding]; other site 13035002598 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 13035002599 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 13035002600 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 13035002601 active site 13035002602 CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cd09680 13035002603 Domain of unknown function (DUF4258); Region: DUF4258; pfam14076 13035002604 HEAT repeats; Region: HEAT_2; pfam13646 13035002605 HEAT repeats; Region: HEAT_2; pfam13646 13035002606 Protein of unknown function (DUF1257); Region: DUF1257; pfam06868 13035002607 Ycf46; Provisional; Region: ycf46; CHL00195 13035002608 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 13035002609 Walker A motif; other site 13035002610 ATP binding site [chemical binding]; other site 13035002611 Walker B motif; other site 13035002612 arginine finger; other site 13035002613 Protein of unknown function (DUF2997); Region: DUF2997; pfam11211 13035002614 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 13035002615 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 13035002616 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 13035002617 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 13035002618 Domain of unknown function (DUF4258); Region: DUF4258; pfam14076 13035002619 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 13035002620 Ligand Binding Site [chemical binding]; other site 13035002621 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 13035002622 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 13035002623 putative substrate translocation pore; other site 13035002624 glucose-6-phosphate dehydrogenase assembly protein OpcA; Region: OpcA; TIGR00534 13035002625 Glucose-6-phosphate dehydrogenase subunit; Region: OpcA_G6PD_assem; cl01359 13035002626 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 13035002627 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 13035002628 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 13035002629 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 13035002630 putative active site [active] 13035002631 transaldolase; Provisional; Region: PRK03903 13035002632 catalytic residue [active] 13035002633 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 13035002634 AMP binding site [chemical binding]; other site 13035002635 metal binding site [ion binding]; metal-binding site 13035002636 active site 13035002637 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 13035002638 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 13035002639 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 13035002640 putative active site [active] 13035002641 putative NTP binding site [chemical binding]; other site 13035002642 putative nucleic acid binding site [nucleotide binding]; other site 13035002643 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 13035002644 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 13035002645 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 13035002646 active site 13035002647 Right handed beta helix region; Region: Beta_helix; pfam13229 13035002648 von Willebrand factor type D domain; Region: VWD; cl02516 13035002649 von Willebrand factor type D domain; Region: VWD; cl02516 13035002650 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 13035002651 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 13035002652 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK07364 13035002653 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 13035002654 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 13035002655 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 13035002656 S-adenosylmethionine binding site [chemical binding]; other site 13035002657 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 13035002658 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 13035002659 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 13035002660 dimer interface [polypeptide binding]; other site 13035002661 conserved gate region; other site 13035002662 putative PBP binding loops; other site 13035002663 ABC-ATPase subunit interface; other site 13035002664 signal peptide peptidase SppA, 67K type; Region: SppA_67K; TIGR00705 13035002665 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 13035002666 tandem repeat interface [polypeptide binding]; other site 13035002667 oligomer interface [polypeptide binding]; other site 13035002668 active site residues [active] 13035002669 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 13035002670 tandem repeat interface [polypeptide binding]; other site 13035002671 oligomer interface [polypeptide binding]; other site 13035002672 active site residues [active] 13035002673 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 13035002674 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 13035002675 active site 13035002676 catalytic site [active] 13035002677 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 13035002678 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 13035002679 active site 13035002680 catalytic site [active] 13035002681 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4222 13035002682 DNA methylase; Region: N6_N4_Mtase; cl17433 13035002683 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 13035002684 active site 13035002685 Serine acetyltransferase [Amino acid transport and metabolism]; Region: CysE; COG1045 13035002686 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 13035002687 trimer interface [polypeptide binding]; other site 13035002688 active site 13035002689 substrate binding site [chemical binding]; other site 13035002690 CoA binding site [chemical binding]; other site 13035002691 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 13035002692 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 13035002693 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 13035002694 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 13035002695 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 13035002696 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 13035002697 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 13035002698 dimerization interface [polypeptide binding]; other site 13035002699 putative ATP binding site [chemical binding]; other site 13035002700 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 13035002701 Domain of unknown function (DUF4112); Region: DUF4112; pfam13430 13035002702 alpha-mannosidase; Provisional; Region: PRK09819 13035002703 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 13035002704 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; smart00872 13035002705 Mechanosensitive ion channel; Region: MS_channel; pfam00924 13035002706 Domain of unknown function DUF20; Region: UPF0118; pfam01594 13035002707 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 13035002708 ribonuclease III; Reviewed; Region: rnc; PRK00102 13035002709 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 13035002710 dimerization interface [polypeptide binding]; other site 13035002711 active site 13035002712 metal binding site [ion binding]; metal-binding site 13035002713 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 13035002714 Uncharacterized conserved protein (DUF2267); Region: DUF2267; pfam10025 13035002715 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u1; cd11477 13035002716 Na binding site [ion binding]; other site 13035002717 hypothetical protein; Provisional; Region: PRK10279 13035002718 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 13035002719 active site 13035002720 nucleophile elbow; other site 13035002721 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 13035002722 Mechanosensitive ion channel; Region: MS_channel; pfam00924 13035002723 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12292 13035002724 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 13035002725 dimer interface [polypeptide binding]; other site 13035002726 motif 1; other site 13035002727 active site 13035002728 motif 2; other site 13035002729 motif 3; other site 13035002730 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 13035002731 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 13035002732 active site 13035002733 homodimer interface [polypeptide binding]; other site 13035002734 Acylphosphatase; Region: Acylphosphatase; cl00551 13035002735 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 13035002736 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 13035002737 Probable transposase; Region: OrfB_IS605; pfam01385 13035002738 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 13035002739 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 13035002740 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 13035002741 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 13035002742 Aspartyl protease; Region: Asp_protease_2; pfam13650 13035002743 inhibitor binding site; inhibition site 13035002744 catalytic motif [active] 13035002745 Catalytic residue [active] 13035002746 Active site flap [active] 13035002747 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 13035002748 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 13035002749 S-adenosylmethionine binding site [chemical binding]; other site 13035002750 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 13035002751 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 13035002752 active site 13035002753 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 13035002754 DHH family; Region: DHH; pfam01368 13035002755 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 13035002756 catalytic core [active] 13035002757 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 13035002758 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 13035002759 Domain of unknown function DUF21; Region: DUF21; pfam01595 13035002760 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 13035002761 Transporter associated domain; Region: CorC_HlyC; smart01091 13035002762 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 13035002763 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 13035002764 ligand binding site [chemical binding]; other site 13035002765 flexible hinge region; other site 13035002766 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 13035002767 putative switch regulator; other site 13035002768 non-specific DNA interactions [nucleotide binding]; other site 13035002769 DNA binding site [nucleotide binding] 13035002770 sequence specific DNA binding site [nucleotide binding]; other site 13035002771 putative cAMP binding site [chemical binding]; other site 13035002772 photosystem II reaction center protein H; Provisional; Region: psbH; PRK02624 13035002773 Proteolipid membrane potential modulator; Region: Pmp3; pfam01679 13035002774 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 13035002775 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 13035002776 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 13035002777 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 13035002778 ATP binding site [chemical binding]; other site 13035002779 putative Mg++ binding site [ion binding]; other site 13035002780 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 13035002781 nucleotide binding region [chemical binding]; other site 13035002782 ATP-binding site [chemical binding]; other site 13035002783 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 13035002784 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 13035002785 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 13035002786 Substrate binding site; other site 13035002787 Cupin domain; Region: Cupin_2; cl17218 13035002788 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 13035002789 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 13035002790 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 13035002791 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 13035002792 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 13035002793 lupeol synthase; Region: PLN02993 13035002794 Photosystem I reaction centre subunit IV / PsaE; Region: PSI_PsaE; pfam02427 13035002795 formamidopyrimidine-DNA glycosylase; Provisional; Region: PRK13945 13035002796 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 13035002797 DNA binding site [nucleotide binding] 13035002798 catalytic residue [active] 13035002799 H2TH interface [polypeptide binding]; other site 13035002800 putative catalytic residues [active] 13035002801 turnover-facilitating residue; other site 13035002802 intercalation triad [nucleotide binding]; other site 13035002803 8OG recognition residue [nucleotide binding]; other site 13035002804 putative reading head residues; other site 13035002805 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 13035002806 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 13035002807 Domain of unknown function (DUF4168); Region: DUF4168; pfam13767 13035002808 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 13035002809 DNA protecting protein DprA; Region: dprA; TIGR00732 13035002810 Predicted methyltransferases [General function prediction only]; Region: COG0313 13035002811 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 13035002812 putative SAM binding site [chemical binding]; other site 13035002813 putative homodimer interface [polypeptide binding]; other site 13035002814 phosphoglycolate phosphatase; Provisional; Region: PRK01158 13035002815 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 13035002816 active site 13035002817 motif I; other site 13035002818 motif II; other site 13035002819 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 13035002820 toxin interface [polypeptide binding]; other site 13035002821 YgiT-type zinc finger domain; Region: YgiT_finger; TIGR03831 13035002822 Zn binding site [ion binding]; other site 13035002823 proline aminopeptidase P II; Provisional; Region: PRK10879 13035002824 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 13035002825 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 13035002826 active site 13035002827 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 13035002828 Beta-lactamase superfamily domain; Region: Lactamase_B_3; pfam13483 13035002829 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 13035002830 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 13035002831 glutamine binding [chemical binding]; other site 13035002832 catalytic triad [active] 13035002833 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 13035002834 metal-binding heat shock protein; Provisional; Region: PRK00016 13035002835 Protein of unknown function (DUF3285); Region: DUF3285; pfam11688 13035002836 peptide chain release factor 2; Validated; Region: prfB; PRK00578 13035002837 This domain is found in peptide chain release factors; Region: PCRF; smart00937 13035002838 RF-1 domain; Region: RF-1; pfam00472 13035002839 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 13035002840 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 13035002841 HlyD family secretion protein; Region: HlyD_3; pfam13437 13035002842 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 13035002843 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 13035002844 ligand binding site [chemical binding]; other site 13035002845 flexible hinge region; other site 13035002846 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 13035002847 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 13035002848 putative active site [active] 13035002849 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 13035002850 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 13035002851 Walker A/P-loop; other site 13035002852 ATP binding site [chemical binding]; other site 13035002853 Q-loop/lid; other site 13035002854 ABC transporter signature motif; other site 13035002855 Walker B; other site 13035002856 D-loop; other site 13035002857 H-loop/switch region; other site 13035002858 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 13035002859 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 13035002860 Predicted permeases [General function prediction only]; Region: COG0701 13035002861 Protein of unknown function (DUF3747); Region: DUF3747; pfam12565 13035002862 S-layer homology domain; Region: SLH; pfam00395 13035002863 S-layer homology domain; Region: SLH; pfam00395 13035002864 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 13035002865 active site residue [active] 13035002866 Protein of unknown function (DUF3122); Region: DUF3122; pfam11320 13035002867 Protein of unknown function (DUF3122); Region: DUF3122; pfam11320 13035002868 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 13035002869 ATP-binding cassette domain of the lipid transporters, subfamily A; Region: ABC_subfamily_A; cd03263 13035002870 Walker A/P-loop; other site 13035002871 ATP binding site [chemical binding]; other site 13035002872 Q-loop/lid; other site 13035002873 ABC transporter signature motif; other site 13035002874 Walker B; other site 13035002875 D-loop; other site 13035002876 H-loop/switch region; other site 13035002877 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 13035002878 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 13035002879 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 13035002880 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 13035002881 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 13035002882 iron-sulfur cluster [ion binding]; other site 13035002883 [2Fe-2S] cluster binding site [ion binding]; other site 13035002884 Uncharacterized conserved protein [Function unknown]; Region: COG3349 13035002885 Clp protease; Region: CLP_protease; pfam00574 13035002886 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 13035002887 oligomer interface [polypeptide binding]; other site 13035002888 active site residues [active] 13035002889 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 13035002890 non-specific DNA binding site [nucleotide binding]; other site 13035002891 salt bridge; other site 13035002892 sequence-specific DNA binding site [nucleotide binding]; other site 13035002893 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 13035002894 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 13035002895 Mg++ binding site [ion binding]; other site 13035002896 putative catalytic motif [active] 13035002897 putative substrate binding site [chemical binding]; other site 13035002898 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 13035002899 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 13035002900 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 13035002901 Walker A/P-loop; other site 13035002902 ATP binding site [chemical binding]; other site 13035002903 Q-loop/lid; other site 13035002904 ABC transporter signature motif; other site 13035002905 Walker B; other site 13035002906 D-loop; other site 13035002907 H-loop/switch region; other site 13035002908 D-alanine--D-alanine ligase; Region: D_ala_D_alaTIGR; TIGR01205 13035002909 ATP-grasp domain; Region: ATP-grasp_4; cl17255 13035002910 hypothetical protein; Provisional; Region: PRK06849 13035002911 ATP-grasp domain; Region: ATP-grasp_4; cl17255 13035002912 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 13035002913 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 13035002914 S-adenosylmethionine binding site [chemical binding]; other site 13035002915 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 13035002916 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 13035002917 putative substrate translocation pore; other site 13035002918 pyruvate dehydrogenase E1 component alpha subunit; Reviewed; Region: odpA; CHL00149 13035002919 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 13035002920 tetramer interface [polypeptide binding]; other site 13035002921 TPP-binding site [chemical binding]; other site 13035002922 heterodimer interface [polypeptide binding]; other site 13035002923 phosphorylation loop region [posttranslational modification] 13035002924 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 13035002925 HSP70 interaction site [polypeptide binding]; other site 13035002926 Protein of unknown function (DUF4101); Region: DUF4101; pfam13355 13035002927 ACT_MalLac-Enz CD includes the N-terminal ACT domain of putative NAD-dependent malic enzyme 1, Bacillus subtilis YqkI and related domains; Region: ACT_MalLac-Enz; cd04887 13035002928 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 13035002929 Malic enzyme, N-terminal domain; Region: malic; pfam00390 13035002930 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 13035002931 putative NAD(P) binding site [chemical binding]; other site 13035002932 Uncharacterized conserved protein [Function unknown]; Region: COG1434 13035002933 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 13035002934 putative active site [active] 13035002935 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 13035002936 putative active site [active] 13035002937 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 13035002938 Catalytic site [active] 13035002939 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 13035002940 HD domain; Region: HD_4; pfam13328 13035002941 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 13035002942 synthetase active site [active] 13035002943 NTP binding site [chemical binding]; other site 13035002944 metal binding site [ion binding]; metal-binding site 13035002945 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 13035002946 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 13035002947 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 13035002948 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 13035002949 Walker A/P-loop; other site 13035002950 ATP binding site [chemical binding]; other site 13035002951 Q-loop/lid; other site 13035002952 ABC transporter signature motif; other site 13035002953 Walker B; other site 13035002954 D-loop; other site 13035002955 H-loop/switch region; other site 13035002956 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 13035002957 Walker A/P-loop; other site 13035002958 ATP binding site [chemical binding]; other site 13035002959 Q-loop/lid; other site 13035002960 ABC transporter signature motif; other site 13035002961 Walker B; other site 13035002962 D-loop; other site 13035002963 H-loop/switch region; other site 13035002964 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 13035002965 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 13035002966 ABC exporter ATP-binding subunit, DevA family; Region: heterocyst_DevA; TIGR02982 13035002967 Walker A/P-loop; other site 13035002968 ATP binding site [chemical binding]; other site 13035002969 Q-loop/lid; other site 13035002970 ABC transporter signature motif; other site 13035002971 Walker B; other site 13035002972 D-loop; other site 13035002973 H-loop/switch region; other site 13035002974 DevC protein; Region: devC; TIGR01185 13035002975 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 13035002976 FtsX-like permease family; Region: FtsX; pfam02687 13035002977 ABC exporter membrane fusion protein, DevB family; Region: heterocyst_DevB; TIGR02971 13035002978 HlyD family secretion protein; Region: HlyD_3; pfam13437 13035002979 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 13035002980 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 13035002981 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 13035002982 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 13035002983 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 13035002984 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 13035002985 hexamer interface [polypeptide binding]; other site 13035002986 ligand binding site [chemical binding]; other site 13035002987 putative active site [active] 13035002988 NAD(P) binding site [chemical binding]; other site 13035002989 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 13035002990 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 13035002991 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 13035002992 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 13035002993 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 13035002994 Walker A motif; other site 13035002995 ATP binding site [chemical binding]; other site 13035002996 Walker B motif; other site 13035002997 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 13035002998 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 13035002999 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 13035003000 Walker A motif; other site 13035003001 ATP binding site [chemical binding]; other site 13035003002 Walker B motif; other site 13035003003 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 13035003004 photochlorophyllide reductase subunit L; Region: chlL; CHL00072 13035003005 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 13035003006 P-loop; other site 13035003007 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 13035003008 light-independent protochlorophyllide reductase, N subunit; Region: DPOR_bchN; TIGR01279 13035003009 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 13035003010 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 13035003011 active site 13035003012 NTP binding site [chemical binding]; other site 13035003013 metal binding triad [ion binding]; metal-binding site 13035003014 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 13035003015 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 13035003016 Hypothetical chloroplast protein Ycf34; Region: Ycf34; pfam10718 13035003017 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 13035003018 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 13035003019 Peptidase family M50; Region: Peptidase_M50; pfam02163 13035003020 active site 13035003021 putative substrate binding region [chemical binding]; other site 13035003022 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 13035003023 SmpB-tmRNA interface; other site 13035003024 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 13035003025 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 13035003026 cytochrome c-550; Region: PS_II_C550; TIGR03045 13035003027 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 13035003028 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 13035003029 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 13035003030 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 13035003031 Sulfate transporter family; Region: Sulfate_transp; pfam00916 13035003032 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 13035003033 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 13035003034 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 13035003035 ligand binding site [chemical binding]; other site 13035003036 flexible hinge region; other site 13035003037 Dolichol kinase [Lipid metabolism]; Region: SEC59; COG0170 13035003038 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 13035003039 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 13035003040 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 13035003041 putative active site [active] 13035003042 putative NTP binding site [chemical binding]; other site 13035003043 putative nucleic acid binding site [nucleotide binding]; other site 13035003044 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 13035003045 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 13035003046 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 13035003047 active site 13035003048 FOG: CBS domain [General function prediction only]; Region: COG0517 13035003049 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 13035003050 HEAT repeats; Region: HEAT_2; pfam13646 13035003051 HEAT repeats; Region: HEAT_2; pfam13646 13035003052 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 13035003053 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 13035003054 G1 box; other site 13035003055 putative GEF interaction site [polypeptide binding]; other site 13035003056 GTP/Mg2+ binding site [chemical binding]; other site 13035003057 Switch I region; other site 13035003058 G2 box; other site 13035003059 G3 box; other site 13035003060 Switch II region; other site 13035003061 G4 box; other site 13035003062 G5 box; other site 13035003063 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 13035003064 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 13035003065 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK02812 13035003066 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 13035003067 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 13035003068 active site 13035003069 AAA domain; Region: AAA_26; pfam13500 13035003070 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 13035003071 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 13035003072 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 13035003073 metal binding site [ion binding]; metal-binding site 13035003074 dimer interface [polypeptide binding]; other site 13035003075 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 13035003076 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 13035003077 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 13035003078 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14457 13035003079 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 13035003080 FeS/SAM binding site; other site 13035003081 Domain of unknown function (DUF4278); Region: DUF4278; pfam14105 13035003082 YGGT family; Region: YGGT; pfam02325 13035003083 phosphodiesterase; Provisional; Region: PRK12704 13035003084 homoserine kinase; Provisional; Region: PRK01212 13035003085 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 13035003086 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 13035003087 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 13035003088 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 13035003089 putative active site [active] 13035003090 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 13035003091 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 13035003092 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 13035003093 PBP superfamily domain; Region: PBP_like_2; cl17296 13035003094 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 13035003095 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 13035003096 dimer interface [polypeptide binding]; other site 13035003097 ABC-ATPase subunit interface; other site 13035003098 putative PBP binding loops; other site 13035003099 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 13035003100 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 13035003101 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 13035003102 putative active site [active] 13035003103 putative NTP binding site [chemical binding]; other site 13035003104 putative nucleic acid binding site [nucleotide binding]; other site 13035003105 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 13035003106 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 13035003107 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 13035003108 active site 13035003109 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 13035003110 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 13035003111 dimer interface [polypeptide binding]; other site 13035003112 conserved gate region; other site 13035003113 putative PBP binding loops; other site 13035003114 ABC-ATPase subunit interface; other site 13035003115 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 13035003116 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 13035003117 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 13035003118 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 13035003119 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 13035003120 Protein export membrane protein; Region: SecD_SecF; cl14618 13035003121 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 13035003122 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 13035003123 active site residue [active] 13035003124 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 13035003125 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 13035003126 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 13035003127 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 13035003128 dimerization interface [polypeptide binding]; other site 13035003129 putative DNA binding site [nucleotide binding]; other site 13035003130 putative Zn2+ binding site [ion binding]; other site 13035003131 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 13035003132 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 13035003133 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 13035003134 aromatic acid decarboxylase; Validated; Region: PRK05920 13035003135 Flavoprotein; Region: Flavoprotein; pfam02441 13035003136 Exoribonuclease R [Transcription]; Region: VacB; COG0557 13035003137 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 13035003138 RNB domain; Region: RNB; pfam00773 13035003139 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 13035003140 RNA binding site [nucleotide binding]; other site 13035003141 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 13035003142 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 13035003143 Probable transposase; Region: OrfB_IS605; pfam01385 13035003144 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 13035003145 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 13035003146 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 13035003147 motif II; other site 13035003148 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 13035003149 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 13035003150 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 13035003151 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 13035003152 Protein export membrane protein; Region: SecD_SecF; pfam02355 13035003153 RRXRR protein; Region: RRXRR; pfam14239 13035003154 protein-export membrane protein SecD; Region: secD; TIGR01129 13035003155 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 13035003156 pyruvate dehydrogenase E1 component beta subunit; Validated; Region: odpB; CHL00144 13035003157 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 13035003158 alpha subunit interface [polypeptide binding]; other site 13035003159 TPP binding site [chemical binding]; other site 13035003160 heterodimer interface [polypeptide binding]; other site 13035003161 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 13035003162 photosystem I subunit VII; Region: psaC; CHL00065 13035003163 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 13035003164 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 13035003165 putative active site [active] 13035003166 S-layer homology domain; Region: SLH; pfam00395 13035003167 Carbohydrate-selective porin, OprB family; Region: OprB; cl17816 13035003168 Carbohydrate-selective porin, OprB family; Region: OprB; cl17816 13035003169 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 13035003170 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 13035003171 Inter-Src homology 2 (iSH2) helical domain of Class IA Phosphoinositide 3-kinase Regulatory subunits; Region: iSH2_PI3K_IA_R; cl17108 13035003172 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 13035003173 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 13035003174 putative active site [active] 13035003175 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 13035003176 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 13035003177 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 13035003178 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 13035003179 Inter-Src homology 2 (iSH2) helical domain of Class IA Phosphoinositide 3-kinase Regulatory subunits; Region: iSH2_PI3K_IA_R; cl17108 13035003180 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 13035003181 Uncharacterized ACR, YagE family COG1723; Region: DUF155; cl00751 13035003182 S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_30; cl17711 13035003183 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; cl02542 13035003184 HSP70 interaction site [polypeptide binding]; other site 13035003185 CpeT/CpcT family (DUF1001); Region: CpeT; pfam06206 13035003186 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 13035003187 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 13035003188 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 13035003189 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 13035003190 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 13035003191 putative dimer interface [polypeptide binding]; other site 13035003192 putative anticodon binding site; other site 13035003193 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 13035003194 homodimer interface [polypeptide binding]; other site 13035003195 motif 1; other site 13035003196 motif 2; other site 13035003197 active site 13035003198 motif 3; other site 13035003199 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 13035003200 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 13035003201 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 13035003202 putative active site [active] 13035003203 heme pocket [chemical binding]; other site 13035003204 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 13035003205 dimer interface [polypeptide binding]; other site 13035003206 phosphorylation site [posttranslational modification] 13035003207 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 13035003208 ATP binding site [chemical binding]; other site 13035003209 Mg2+ binding site [ion binding]; other site 13035003210 G-X-G motif; other site 13035003211 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 13035003212 AbrB-like transcriptional regulator; Region: AbrB-like; pfam14250 13035003213 Chlorophyll A-B binding protein; Region: Chloroa_b-bind; cl02879 13035003214 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 13035003215 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 13035003216 putative acyl-acceptor binding pocket; other site 13035003217 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 13035003218 iron-sulfur cluster biosynthesis transcriptional regulator SufR; Region: SufR_cyano; TIGR02702 13035003219 putative DNA binding site [nucleotide binding]; other site 13035003220 putative Zn2+ binding site [ion binding]; other site 13035003221 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 13035003222 putative ABC transporter; Region: ycf24; CHL00085 13035003223 sulfate ABC transporter protein; Validated; Region: ycf16; CHL00131 13035003224 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 13035003225 Walker A/P-loop; other site 13035003226 ATP binding site [chemical binding]; other site 13035003227 Q-loop/lid; other site 13035003228 ABC transporter signature motif; other site 13035003229 Walker B; other site 13035003230 D-loop; other site 13035003231 H-loop/switch region; other site 13035003232 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 13035003233 FeS assembly protein SufD; Region: sufD; TIGR01981 13035003234 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 13035003235 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 13035003236 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 13035003237 catalytic residue [active] 13035003238 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 13035003239 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 13035003240 cofactor binding site; other site 13035003241 DNA binding site [nucleotide binding] 13035003242 substrate interaction site [chemical binding]; other site 13035003243 hypothetical protein; Validated; Region: PRK00153 13035003244 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 13035003245 FAD binding domain; Region: FAD_binding_4; pfam01565 13035003246 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 13035003247 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 13035003248 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 13035003249 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 13035003250 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 13035003251 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK07403 13035003252 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 13035003253 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 13035003254 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 13035003255 DNA methylase; Region: N6_N4_Mtase; pfam01555 13035003256 Restriction endonuclease BglII; Region: Endonuc-BglII; pfam09195 13035003257 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 13035003258 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 13035003259 Glycosyl hydrolase family 57; Region: Glyco_hydro_57; pfam03065 13035003260 active site 13035003261 catalytic site [active] 13035003262 Domain of unknown function (DUF3536); Region: DUF3536; pfam12055 13035003263 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 13035003264 binding surface 13035003265 TPR motif; other site 13035003266 TPR repeat; Region: TPR_11; pfam13414 13035003267 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 13035003268 binding surface 13035003269 TPR repeat; Region: TPR_11; pfam13414 13035003270 TPR motif; other site 13035003271 Tetratricopeptide repeat; Region: TPR_16; pfam13432 13035003272 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 13035003273 TPR repeat; Region: TPR_11; pfam13414 13035003274 binding surface 13035003275 TPR motif; other site 13035003276 TPR repeat; Region: TPR_11; pfam13414 13035003277 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 13035003278 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 13035003279 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 13035003280 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 13035003281 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 13035003282 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 13035003283 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 13035003284 9,9'-di-cis-zeta-carotene desaturase; Region: zeta_caro_desat; TIGR02732 13035003285 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 13035003286 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_8; cd07817 13035003287 putative hydrophobic ligand binding site [chemical binding]; other site 13035003288 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 13035003289 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 13035003290 catalytic residues [active] 13035003291 D1 subunit of photosystem II (PS II); Region: Photosystem-II_D1; cd09289 13035003292 protein I interface; other site 13035003293 D2 interface; other site 13035003294 protein T interface; other site 13035003295 chlorophyll binding site; other site 13035003296 beta carotene binding site; other site 13035003297 pheophytin binding site; other site 13035003298 manganese-stabilizing polypeptide interface; other site 13035003299 CP43 interface; other site 13035003300 protein L interface; other site 13035003301 oxygen evolving complex binding site; other site 13035003302 bromide binding site; other site 13035003303 quinone binding site; other site 13035003304 Fe binding site [ion binding]; other site 13035003305 core light harvesting interface; other site 13035003306 cytochrome b559 alpha subunit interface; other site 13035003307 cytochrome c-550 interface; other site 13035003308 protein J interface; other site 13035003309 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 13035003310 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 13035003311 dimer interface [polypeptide binding]; other site 13035003312 tetramer interface [polypeptide binding]; other site 13035003313 PYR/PP interface [polypeptide binding]; other site 13035003314 TPP binding site [chemical binding]; other site 13035003315 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 13035003316 TPP-binding site; other site 13035003317 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 13035003318 primosomal protein N' Region: priA; TIGR00595 13035003319 ATP binding site [chemical binding]; other site 13035003320 putative Mg++ binding site [ion binding]; other site 13035003321 helicase superfamily c-terminal domain; Region: HELICc; smart00490 13035003322 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 13035003323 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 13035003324 homodimer interface [polypeptide binding]; other site 13035003325 metal binding site [ion binding]; metal-binding site 13035003326 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 13035003327 homodimer interface [polypeptide binding]; other site 13035003328 active site 13035003329 putative chemical substrate binding site [chemical binding]; other site 13035003330 metal binding site [ion binding]; metal-binding site 13035003331 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 13035003332 non-specific DNA binding site [nucleotide binding]; other site 13035003333 salt bridge; other site 13035003334 sequence-specific DNA binding site [nucleotide binding]; other site 13035003335 Nuclear pore component; Region: Nup88; pfam10168 13035003336 VWFA-related Acidobacterial domain; Region: acidobact_VWFA; TIGR03436 13035003337 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 13035003338 metal ion-dependent adhesion site (MIDAS); other site 13035003339 Protein of unknown function (DUF1460); Region: DUF1460; pfam07313 13035003340 Protein of unknown function (DUF4101); Region: DUF4101; pfam13355 13035003341 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 13035003342 metal ion-dependent adhesion site (MIDAS); other site 13035003343 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 13035003344 metal ion-dependent adhesion site (MIDAS); other site 13035003345 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 13035003346 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 13035003347 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 13035003348 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 13035003349 phosphopeptide binding site; other site 13035003350 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 13035003351 Protein phosphatase 2C; Region: PP2C; pfam00481 13035003352 active site 13035003353 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 13035003354 putative active site [active] 13035003355 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 13035003356 putative active site [active] 13035003357 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 13035003358 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 13035003359 Catalytic domain of Protein Kinases; Region: PKc; cd00180 13035003360 active site 13035003361 ATP binding site [chemical binding]; other site 13035003362 substrate binding site [chemical binding]; other site 13035003363 activation loop (A-loop); other site 13035003364 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 13035003365 TPR motif; other site 13035003366 binding surface 13035003367 TPR repeat; Region: TPR_11; pfam13414 13035003368 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 13035003369 TPR motif; other site 13035003370 TPR repeat; Region: TPR_11; pfam13414 13035003371 binding surface 13035003372 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 13035003373 binding surface 13035003374 TPR motif; other site 13035003375 TPR repeat; Region: TPR_11; pfam13414 13035003376 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 13035003377 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 13035003378 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 13035003379 Protein of unknown function (DUF1517); Region: DUF1517; pfam07466 13035003380 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 13035003381 thiS-thiF/thiG interaction site; other site 13035003382 thiamine-phosphate pyrophosphorylase; Provisional; Region: PRK02615 13035003383 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 13035003384 thiamine phosphate binding site [chemical binding]; other site 13035003385 active site 13035003386 pyrophosphate binding site [ion binding]; other site 13035003387 urease subunit alpha; Reviewed; Region: ureC; PRK13207 13035003388 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 13035003389 subunit interactions [polypeptide binding]; other site 13035003390 active site 13035003391 flap region; other site 13035003392 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 13035003393 gamma-beta subunit interface [polypeptide binding]; other site 13035003394 alpha-beta subunit interface [polypeptide binding]; other site 13035003395 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 13035003396 alpha-gamma subunit interface [polypeptide binding]; other site 13035003397 beta-gamma subunit interface [polypeptide binding]; other site 13035003398 Urease accessory protein UreH [Posttranslational modification, protein turnover, chaperones]; Region: UreH; COG0829 13035003399 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 13035003400 G1 box; other site 13035003401 GTP/Mg2+ binding site [chemical binding]; other site 13035003402 G2 box; other site 13035003403 Switch I region; other site 13035003404 G3 box; other site 13035003405 Switch II region; other site 13035003406 G4 box; other site 13035003407 G5 box; other site 13035003408 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 13035003409 UreF; Region: UreF; pfam01730 13035003410 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 13035003411 Putative regulatory protein; Region: CxxC_CXXC_SSSS; smart00834 13035003412 Acetamidase/Formamidase family; Region: FmdA_AmdA; pfam03069 13035003413 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 13035003414 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 13035003415 membrane-bound complex binding site; other site 13035003416 NosL; Region: NosL; cl01769 13035003417 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 13035003418 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 13035003419 dimer interface [polypeptide binding]; other site 13035003420 conserved gate region; other site 13035003421 putative PBP binding loops; other site 13035003422 ABC-ATPase subunit interface; other site 13035003423 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 13035003424 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 13035003425 Walker A/P-loop; other site 13035003426 ATP binding site [chemical binding]; other site 13035003427 Q-loop/lid; other site 13035003428 ABC transporter signature motif; other site 13035003429 Walker B; other site 13035003430 D-loop; other site 13035003431 H-loop/switch region; other site 13035003432 Transcriptional regulator [Transcription]; Region: LysR; COG0583 13035003433 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 13035003434 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 13035003435 dimerization interface [polypeptide binding]; other site 13035003436 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 13035003437 putative oxidoreductase; Provisional; Region: PRK08275 13035003438 L-aspartate oxidase; Provisional; Region: PRK06175 13035003439 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 13035003440 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 13035003441 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 13035003442 HEAT repeats; Region: HEAT_2; pfam13646 13035003443 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 13035003444 protein binding surface [polypeptide binding]; other site 13035003445 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; cl02500 13035003446 protein binding surface [polypeptide binding]; other site 13035003447 HEAT repeats; Region: HEAT_2; pfam13646 13035003448 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; cl02500 13035003449 HEAT repeats; Region: HEAT_2; pfam13646 13035003450 protein binding surface [polypeptide binding]; other site 13035003451 antiporter inner membrane protein; Provisional; Region: PRK11670 13035003452 Domain of unknown function DUF59; Region: DUF59; pfam01883 13035003453 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 13035003454 Predicted membrane protein [Function unknown]; Region: COG2855 13035003455 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 13035003456 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 13035003457 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 13035003458 Walker A/P-loop; other site 13035003459 ATP binding site [chemical binding]; other site 13035003460 Q-loop/lid; other site 13035003461 ABC transporter signature motif; other site 13035003462 Walker B; other site 13035003463 D-loop; other site 13035003464 H-loop/switch region; other site 13035003465 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 13035003466 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 13035003467 Walker A/P-loop; other site 13035003468 ATP binding site [chemical binding]; other site 13035003469 Q-loop/lid; other site 13035003470 ABC transporter signature motif; other site 13035003471 Walker B; other site 13035003472 D-loop; other site 13035003473 H-loop/switch region; other site 13035003474 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 13035003475 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 13035003476 TM-ABC transporter signature motif; other site 13035003477 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 13035003478 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 13035003479 TM-ABC transporter signature motif; other site 13035003480 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 13035003481 Type I periplasmic components of amide-binding protein (AmiC) and the active transport system for short-chain and urea (FmdDEF); Region: PBP1_AmiC_like; cd06331 13035003482 ligand binding site [chemical binding]; other site 13035003483 Protein of unknown function (DUF3146); Region: DUF3146; pfam11344 13035003484 GTPase SAR1 and related small G proteins [General function prediction only]; Region: COG1100 13035003485 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 13035003486 G1 box; other site 13035003487 GTP/Mg2+ binding site [chemical binding]; other site 13035003488 Switch I region; other site 13035003489 G2 box; other site 13035003490 Switch II region; other site 13035003491 G3 box; other site 13035003492 G4 box; other site 13035003493 G5 box; other site 13035003494 Domain of unknown function (DUF697); Region: DUF697; pfam05128 13035003495 GT_2_like_a represents a glycosyltransferase family-2 subfamily with unknown function; Region: GT_2_like_a; cd02522 13035003496 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 13035003497 Probable Catalytic site; other site 13035003498 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 13035003499 putative active site [active] 13035003500 transferase 1, rSAM/selenodomain-associated; Region: glyco_like_cofC; TIGR04282 13035003501 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 13035003502 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 13035003503 S-adenosylmethionine binding site [chemical binding]; other site 13035003504 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041; cl17396 13035003505 Exoribonuclease R [Transcription]; Region: VacB; COG0557 13035003506 RNB domain; Region: RNB; pfam00773 13035003507 ribosomal protein S18; Region: rps18; CHL00077 13035003508 RDD family; Region: RDD; pfam06271 13035003509 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 13035003510 phycocyanobilin:ferredoxin oxidoreductase; Validated; Region: PRK02816 13035003511 Ferredoxin thioredoxin reductase variable alpha chain; Region: FeThRed_A; pfam02941 13035003512 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 13035003513 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 13035003514 MOSC domain; Region: MOSC; pfam03473 13035003515 TIGR03943 family protein; Region: TIGR03943 13035003516 Bacterial Ig-like domain; Region: Big_5; pfam13205 13035003517 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 13035003518 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 13035003519 putative acyl-acceptor binding pocket; other site 13035003520 Gas vesicle synthesis protein GvpL/GvpF; Region: GvpL_GvpF; pfam06386 13035003521 Gas vesicle protein; Region: Gas_vesicle; cl02954 13035003522 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 13035003523 active site 13035003524 NTP binding site [chemical binding]; other site 13035003525 metal binding triad [ion binding]; metal-binding site 13035003526 antibiotic binding site [chemical binding]; other site 13035003527 Gas vesicle protein; Region: Gas_vesicle; cl02954 13035003528 gas vesicle protein GvpN; Region: gas_vesic_GvpN; TIGR02640 13035003529 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 13035003530 Walker A motif; other site 13035003531 ATP binding site [chemical binding]; other site 13035003532 Walker B motif; other site 13035003533 XisI protein; Region: XisI; pfam08869 13035003534 Gas vesicle protein; Region: Gas_vesicle; pfam00741 13035003535 Gas vesicle protein K; Region: GvpK; pfam05121 13035003536 Gas vesicle protein; Region: Gas_vesicle; pfam00741 13035003537 Gas vesicle synthesis protein GvpL/GvpF; Region: GvpL_GvpF; pfam06386 13035003538 Gas vesicle protein G; Region: GvpG; pfam05120 13035003539 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 13035003540 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 13035003541 dimer interface [polypeptide binding]; other site 13035003542 ADP-ribose binding site [chemical binding]; other site 13035003543 active site 13035003544 nudix motif; other site 13035003545 metal binding site [ion binding]; metal-binding site 13035003546 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 13035003547 catalytic center binding site [active] 13035003548 ATP binding site [chemical binding]; other site 13035003549 pyridine nucleotide-disulfide oxidoreductase family protein; Region: Nterm_to_SelD; TIGR03169 13035003550 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 13035003551 UDP-glycosyltransferase; Region: PLN02207 13035003552 Domain of unknown function (DUF1830); Region: DUF1830; pfam08865 13035003553 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 13035003554 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 13035003555 FeS/SAM binding site; other site 13035003556 Sensory domain found in DIguanylate Cyclases & Two-component systems; Region: DICT; cl01731 13035003557 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 13035003558 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 13035003559 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 13035003560 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 13035003561 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 13035003562 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 13035003563 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 13035003564 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 13035003565 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 13035003566 protein binding site [polypeptide binding]; other site 13035003567 Tocopherol cyclase; Region: Tocopherol_cycl; pfam14249 13035003568 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 13035003569 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 13035003570 C-terminal domain interface [polypeptide binding]; other site 13035003571 GSH binding site (G-site) [chemical binding]; other site 13035003572 dimer interface [polypeptide binding]; other site 13035003573 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 13035003574 N-terminal domain interface [polypeptide binding]; other site 13035003575 Protein of unknown function (DUF1350); Region: DUF1350; pfam07082 13035003576 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 13035003577 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 13035003578 dimer interface [polypeptide binding]; other site 13035003579 ssDNA binding site [nucleotide binding]; other site 13035003580 tetramer (dimer of dimers) interface [polypeptide binding]; other site 13035003581 GTP-binding protein Der; Reviewed; Region: PRK00093 13035003582 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 13035003583 G1 box; other site 13035003584 GTP/Mg2+ binding site [chemical binding]; other site 13035003585 Switch I region; other site 13035003586 G2 box; other site 13035003587 Switch II region; other site 13035003588 G3 box; other site 13035003589 G4 box; other site 13035003590 G5 box; other site 13035003591 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 13035003592 G1 box; other site 13035003593 GTP/Mg2+ binding site [chemical binding]; other site 13035003594 Switch I region; other site 13035003595 G2 box; other site 13035003596 G3 box; other site 13035003597 Switch II region; other site 13035003598 G4 box; other site 13035003599 G5 box; other site 13035003600 Cobalt transport protein; Region: CbiQ; cl00463 13035003601 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 13035003602 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 13035003603 HSP70 interaction site [polypeptide binding]; other site 13035003604 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 13035003605 substrate binding site [polypeptide binding]; other site 13035003606 dimer interface [polypeptide binding]; other site 13035003607 molecular chaperone DnaK; Provisional; Region: PRK13410 13035003608 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 13035003609 nucleotide binding site [chemical binding]; other site 13035003610 NEF interaction site [polypeptide binding]; other site 13035003611 SBD interface [polypeptide binding]; other site 13035003612 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 13035003613 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 13035003614 domain interfaces; other site 13035003615 active site 13035003616 phosphate transporter ATP-binding protein; Provisional; Region: PRK14243 13035003617 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 13035003618 Walker A/P-loop; other site 13035003619 ATP binding site [chemical binding]; other site 13035003620 Q-loop/lid; other site 13035003621 ABC transporter signature motif; other site 13035003622 Walker B; other site 13035003623 D-loop; other site 13035003624 H-loop/switch region; other site 13035003625 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 13035003626 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 13035003627 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 13035003628 dimer interface [polypeptide binding]; other site 13035003629 conserved gate region; other site 13035003630 putative PBP binding loops; other site 13035003631 ABC-ATPase subunit interface; other site 13035003632 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 13035003633 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 13035003634 dimer interface [polypeptide binding]; other site 13035003635 conserved gate region; other site 13035003636 putative PBP binding loops; other site 13035003637 ABC-ATPase subunit interface; other site 13035003638 PBP superfamily domain; Region: PBP_like_2; cl17296 13035003639 ribosomal protein L19; Region: rpl19; CHL00084 13035003640 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 13035003641 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 13035003642 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 13035003643 putative homodimer interface [polypeptide binding]; other site 13035003644 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 13035003645 heterodimer interface [polypeptide binding]; other site 13035003646 homodimer interface [polypeptide binding]; other site 13035003647 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 13035003648 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 13035003649 23S rRNA interface [nucleotide binding]; other site 13035003650 L7/L12 interface [polypeptide binding]; other site 13035003651 putative thiostrepton binding site; other site 13035003652 L25 interface [polypeptide binding]; other site 13035003653 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 13035003654 mRNA/rRNA interface [nucleotide binding]; other site 13035003655 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 13035003656 23S rRNA interface [nucleotide binding]; other site 13035003657 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 13035003658 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 13035003659 L11 interface [polypeptide binding]; other site 13035003660 putative EF-Tu interaction site [polypeptide binding]; other site 13035003661 putative EF-G interaction site [polypeptide binding]; other site 13035003662 TPR repeat; Region: TPR_11; pfam13414 13035003663 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 13035003664 binding surface 13035003665 TPR motif; other site 13035003666 TPR repeat; Region: TPR_11; pfam13414 13035003667 Protein of unknown function (DUF98); Region: DUF98; pfam01947 13035003668 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 13035003669 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 13035003670 nucleotide binding site [chemical binding]; other site 13035003671 putative NEF/HSP70 interaction site [polypeptide binding]; other site 13035003672 SBD interface [polypeptide binding]; other site 13035003673 Predicted ATPases [General function prediction only]; Region: COG1106 13035003674 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 13035003675 Walker A/P-loop; other site 13035003676 ATP binding site [chemical binding]; other site 13035003677 Bacterial SH3 domain; Region: SH3_3; cl17532 13035003678 aspartate aminotransferase; Provisional; Region: PRK05764 13035003679 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 13035003680 pyridoxal 5'-phosphate binding site [chemical binding]; other site 13035003681 homodimer interface [polypeptide binding]; other site 13035003682 catalytic residue [active] 13035003683 D-inositol-3-phosphate glycosyltransferase; Region: mycothiol_MshA; TIGR03449 13035003684 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 13035003685 putative ADP-binding pocket [chemical binding]; other site 13035003686 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 13035003687 alanine racemase; Reviewed; Region: alr; PRK00053 13035003688 active site 13035003689 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 13035003690 dimer interface [polypeptide binding]; other site 13035003691 substrate binding site [chemical binding]; other site 13035003692 catalytic residues [active] 13035003693 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 13035003694 MoaE interaction surface [polypeptide binding]; other site 13035003695 MoeB interaction surface [polypeptide binding]; other site 13035003696 thiocarboxylated glycine; other site 13035003697 Thymidylate synthase complementing protein; Region: Thy1; cl03630 13035003698 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; cl17442 13035003699 protein-splicing catalytic site; other site 13035003700 thioester formation/cholesterol transfer; other site 13035003701 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 13035003702 active site 13035003703 Hint (Hedgehog/Intein) domain C-terminal region; Region: HintC; smart00305 13035003704 Thymidylate synthase complementing protein; Region: Thy1; cl03630 13035003705 deoxycytidine triphosphate deaminase; Reviewed; Region: dcd; PRK00416 13035003706 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; cl17442 13035003707 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 13035003708 Protein of unknown function (DUF4079); Region: DUF4079; pfam13301 13035003709 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 13035003710 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 13035003711 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 13035003712 ThiS interaction site; other site 13035003713 putative active site [active] 13035003714 tetramer interface [polypeptide binding]; other site 13035003715 Predicted membrane protein [Function unknown]; Region: COG2261 13035003716 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4370 13035003717 conserved hypothetical protein; Region: TIGR03492 13035003718 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 13035003719 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 13035003720 Fatty acid desaturase; Region: FA_desaturase; pfam00487 13035003721 putative di-iron ligands [ion binding]; other site 13035003722 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 13035003723 TAP-like protein; Region: Abhydrolase_4; pfam08386 13035003724 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 13035003725 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 13035003726 putative acyl-acceptor binding pocket; other site 13035003727 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 13035003728 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 13035003729 active site 13035003730 HIGH motif; other site 13035003731 KMSKS motif; other site 13035003732 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 13035003733 tRNA binding surface [nucleotide binding]; other site 13035003734 anticodon binding site; other site 13035003735 Uncharacterized conserved protein [Function unknown]; Region: COG1432 13035003736 LabA_like proteins; Region: LabA; cd10911 13035003737 putative metal binding site [ion binding]; other site 13035003738 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 13035003739 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 13035003740 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK02534 13035003741 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 13035003742 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 13035003743 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 13035003744 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 13035003745 S-adenosylmethionine binding site [chemical binding]; other site 13035003746 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 13035003747 TrkA-N domain; Region: TrkA_N; pfam02254 13035003748 TrkA-N domain; Region: TrkA_N; pfam02254 13035003749 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]; Region: COG3609 13035003750 phytoene desaturase; Region: phytoene_desat; TIGR02731 13035003751 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 13035003752 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 13035003753 active site lid residues [active] 13035003754 substrate binding pocket [chemical binding]; other site 13035003755 catalytic residues [active] 13035003756 substrate-Mg2+ binding site; other site 13035003757 aspartate-rich region 1; other site 13035003758 aspartate-rich region 2; other site 13035003759 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cd00719 13035003760 GIY-YIG motif/motif A; other site 13035003761 active site 13035003762 catalytic site [active] 13035003763 metal binding site [ion binding]; metal-binding site 13035003764 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 13035003765 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 13035003766 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 13035003767 homotetramer interface [polypeptide binding]; other site 13035003768 ligand binding site [chemical binding]; other site 13035003769 catalytic site [active] 13035003770 NAD binding site [chemical binding]; other site 13035003771 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 13035003772 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 13035003773 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 13035003774 active site 13035003775 phosphorylation site [posttranslational modification] 13035003776 intermolecular recognition site; other site 13035003777 dimerization interface [polypeptide binding]; other site 13035003778 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 13035003779 DNA binding site [nucleotide binding] 13035003780 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02649 13035003781 ATP-NAD kinase; Region: NAD_kinase; pfam01513 13035003782 Ycf39; Provisional; Region: ycf39; CHL00194 13035003783 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 13035003784 NAD(P) binding site [chemical binding]; other site 13035003785 putative active site [active] 13035003786 FOG: WD40 repeat [General function prediction only]; Region: COG2319 13035003787 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 13035003788 structural tetrad; other site 13035003789 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 13035003790 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 13035003791 putative metal binding site [ion binding]; other site 13035003792 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 13035003793 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 13035003794 putative metal binding site [ion binding]; other site 13035003795 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 13035003796 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 13035003797 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 13035003798 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 13035003799 FtsX-like permease family; Region: FtsX; pfam02687 13035003800 Protein of unknown function (DUF565); Region: DUF565; pfam04483 13035003801 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 13035003802 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 13035003803 binding surface 13035003804 Tetratricopeptide repeat; Region: TPR_16; pfam13432 13035003805 TPR motif; other site 13035003806 TPR repeat; Region: TPR_11; pfam13414 13035003807 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 13035003808 binding surface 13035003809 TPR motif; other site 13035003810 tocopherol phytyltransferase; Reviewed; Region: ubiA; PRK12887 13035003811 UbiA prenyltransferase family; Region: UbiA; pfam01040 13035003812 Methyltransferase domain; Region: Methyltransf_31; pfam13847 13035003813 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 13035003814 S-adenosylmethionine binding site [chemical binding]; other site 13035003815 Arc-like DNA binding domain; Region: Arc; pfam03869 13035003816 PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs; Region: PIN_Pae0151; cd09873 13035003817 putative active site [active] 13035003818 homotetrameric interface [polypeptide binding]; other site 13035003819 metal binding site [ion binding]; metal-binding site 13035003820 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 13035003821 ligand binding site [chemical binding]; other site 13035003822 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 13035003823 oligomeric interface; other site 13035003824 putative active site [active] 13035003825 homodimer interface [polypeptide binding]; other site 13035003826 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 13035003827 Predicted membrane protein [Function unknown]; Region: COG1511 13035003828 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4634 13035003829 Protein of unknown function (DUF433); Region: DUF433; pfam04255 13035003830 Tubulin like; Region: Tubulin_2; pfam13809 13035003831 von Willebrand factor type A domain; Region: VWA_2; pfam13519 13035003832 metal ion-dependent adhesion site (MIDAS); other site 13035003833 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 13035003834 active site 13035003835 NAD binding site [chemical binding]; other site 13035003836 metal binding site [ion binding]; metal-binding site 13035003837 DNA polymerase III subunit beta; Validated; Region: PRK05643 13035003838 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 13035003839 putative DNA binding surface [nucleotide binding]; other site 13035003840 dimer interface [polypeptide binding]; other site 13035003841 beta-clamp/clamp loader binding surface; other site 13035003842 beta-clamp/translesion DNA polymerase binding surface; other site 13035003843 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 13035003844 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 13035003845 phosphopeptide binding site; other site 13035003846 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 13035003847 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 13035003848 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 13035003849 cyclase homology domain; Region: CHD; cd07302 13035003850 nucleotidyl binding site; other site 13035003851 metal binding site [ion binding]; metal-binding site 13035003852 dimer interface [polypeptide binding]; other site 13035003853 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 13035003854 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 13035003855 active site 13035003856 catalytic tetrad [active] 13035003857 CP12 domain; Region: CP12; pfam02672 13035003858 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 13035003859 EamA-like transporter family; Region: EamA; pfam00892 13035003860 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 13035003861 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 13035003862 active site 13035003863 phosphorylation site [posttranslational modification] 13035003864 intermolecular recognition site; other site 13035003865 dimerization interface [polypeptide binding]; other site 13035003866 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 13035003867 DNA binding site [nucleotide binding] 13035003868 Ycf66 protein N-terminus; Region: Ycf66_N; pfam07444 13035003869 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 13035003870 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 13035003871 HIGH motif; other site 13035003872 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 13035003873 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 13035003874 active site 13035003875 KMSKS motif; other site 13035003876 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 13035003877 tRNA binding surface [nucleotide binding]; other site 13035003878 anticodon binding site; other site 13035003879 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 13035003880 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 13035003881 putative active site [active] 13035003882 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 13035003883 putative active site [active] 13035003884 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 13035003885 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 13035003886 catalytic loop [active] 13035003887 iron binding site [ion binding]; other site 13035003888 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 13035003889 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 13035003890 Domain of unknown function (DUF4278); Region: DUF4278; pfam14105 13035003891 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 13035003892 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 13035003893 NDF6 (NDH-dependent flow 6); Provisional; Region: PLN00180 13035003894 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 13035003895 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 13035003896 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 13035003897 pyridoxal 5'-phosphate binding site [chemical binding]; other site 13035003898 catalytic residue [active] 13035003899 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 13035003900 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 13035003901 catalytic site [active] 13035003902 putative active site [active] 13035003903 putative substrate binding site [chemical binding]; other site 13035003904 Anion-transporting ATPase; Region: ArsA_ATPase; pfam02374 13035003905 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 13035003906 P loop; other site 13035003907 Nucleotide binding site [chemical binding]; other site 13035003908 DTAP/Switch II; other site 13035003909 Switch I; other site 13035003910 Anion-transporting ATPase; Region: ArsA_ATPase; pfam02374 13035003911 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 13035003912 DTAP/Switch II; other site 13035003913 Switch I; other site 13035003914 deoxyribodipyrimidine photo-lyase, 8-HDF type; Region: photolyase_8HDF; TIGR03556 13035003915 DNA photolyase; Region: DNA_photolyase; pfam00875 13035003916 S-layer homology domain; Region: SLH; pfam00395 13035003917 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 13035003918 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 13035003919 NADH(P)-binding; Region: NAD_binding_10; pfam13460 13035003920 NAD(P) binding site [chemical binding]; other site 13035003921 putative active site [active] 13035003922 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 13035003923 Na binding site [ion binding]; other site 13035003924 5-methyltetrahydrofolate--homocysteine methyltransferase; Region: metH; TIGR02082 13035003925 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 13035003926 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 13035003927 substrate binding pocket [chemical binding]; other site 13035003928 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 13035003929 B12 binding site [chemical binding]; other site 13035003930 cobalt ligand [ion binding]; other site 13035003931 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 13035003932 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 13035003933 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 13035003934 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 13035003935 putative active site [active] 13035003936 putative NTP binding site [chemical binding]; other site 13035003937 putative nucleic acid binding site [nucleotide binding]; other site 13035003938 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 13035003939 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 13035003940 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 13035003941 active site 13035003942 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 13035003943 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 13035003944 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 13035003945 putative active site [active] 13035003946 putative NTP binding site [chemical binding]; other site 13035003947 putative nucleic acid binding site [nucleotide binding]; other site 13035003948 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 13035003949 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 13035003950 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 13035003951 active site 13035003952 Transposase IS200 like; Region: Y1_Tnp; pfam01797 13035003953 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 13035003954 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 13035003955 HSP70 interaction site [polypeptide binding]; other site 13035003956 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 13035003957 binding surface 13035003958 Tetratricopeptide repeat; Region: TPR_16; pfam13432 13035003959 TPR motif; other site 13035003960 Domain of unknown function (DUF1817); Region: DUF1817; pfam08847 13035003961 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 13035003962 TPR motif; other site 13035003963 binding surface 13035003964 TPR repeat; Region: TPR_11; pfam13414 13035003965 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 13035003966 binding surface 13035003967 TPR motif; other site 13035003968 Tetratricopeptide repeat; Region: TPR_16; pfam13432 13035003969 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 13035003970 binding surface 13035003971 Tetratricopeptide repeat; Region: TPR_12; pfam13424 13035003972 TPR motif; other site 13035003973 Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV), A subunit [DNA replication, recombination, and repair]; Region: GyrA; COG0188 13035003974 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 13035003975 CAP-like domain; other site 13035003976 active site 13035003977 primary dimer interface [polypeptide binding]; other site 13035003978 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 13035003979 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 13035003980 photosystem II reaction center protein Psb28; Region: PS_II_psb28; TIGR03047 13035003981 PetM family of cytochrome b6f complex subunit 7; Region: PetM; pfam08041 13035003982 2TM domain; Region: 2TM; pfam13239 13035003983 Protein of unknown function (DUF3181); Region: DUF3181; pfam11378 13035003984 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 13035003985 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 13035003986 DXD motif; other site 13035003987 bifunctional sterol desaturase/short chain dehydrogenase; Validated; Region: PRK07424 13035003988 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 13035003989 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 13035003990 NAD(P) binding site [chemical binding]; other site 13035003991 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 13035003992 catalytic triad [active] 13035003993 dimer interface [polypeptide binding]; other site 13035003994 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 13035003995 putative active site [active] 13035003996 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 13035003997 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 13035003998 HIGH motif; other site 13035003999 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 13035004000 active site 13035004001 KMSKS motif; other site 13035004002 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 13035004003 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 13035004004 HSP70 interaction site [polypeptide binding]; other site 13035004005 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 13035004006 Low molecular weight phosphatase family; Region: LMWPc; cd00115 13035004007 active site 13035004008 Protein of unknown function (DUF2808); Region: DUF2808; pfam10989 13035004009 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 13035004010 glutamine synthetase, type I; Region: GlnA; TIGR00653 13035004011 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 13035004012 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 13035004013 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 13035004014 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 13035004015 Chromate transporter; Region: Chromate_transp; pfam02417 13035004016 Uncharacterized conserved protein (DUF2358); Region: DUF2358; pfam10184 13035004017 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 13035004018 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 13035004019 dimer interface [polypeptide binding]; other site 13035004020 putative PBP binding loops; other site 13035004021 ABC-ATPase subunit interface; other site 13035004022 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 13035004023 dimer interface [polypeptide binding]; other site 13035004024 conserved gate region; other site 13035004025 putative PBP binding loops; other site 13035004026 ABC-ATPase subunit interface; other site 13035004027 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 13035004028 ligand-binding site [chemical binding]; other site 13035004029 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 13035004030 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 13035004031 active site 13035004032 phosphorylation site [posttranslational modification] 13035004033 intermolecular recognition site; other site 13035004034 dimerization interface [polypeptide binding]; other site 13035004035 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 13035004036 DNA binding site [nucleotide binding] 13035004037 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 13035004038 putative active site [active] 13035004039 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 13035004040 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 13035004041 active site 13035004042 phosphorylation site [posttranslational modification] 13035004043 intermolecular recognition site; other site 13035004044 dimerization interface [polypeptide binding]; other site 13035004045 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 13035004046 DNA binding site [nucleotide binding] 13035004047 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 13035004048 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 13035004049 substrate binding site [chemical binding]; other site 13035004050 ATP binding site [chemical binding]; other site 13035004051 PBP superfamily domain; Region: PBP_like_2; cl17296 13035004052 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 13035004053 Predicted kinase [General function prediction only]; Region: COG0645 13035004054 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 13035004055 ATP-binding site [chemical binding]; other site 13035004056 Gluconate-6-phosphate binding site [chemical binding]; other site 13035004057 Response regulator receiver domain; Region: Response_reg; pfam00072 13035004058 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 13035004059 active site 13035004060 phosphorylation site [posttranslational modification] 13035004061 intermolecular recognition site; other site 13035004062 dimerization interface [polypeptide binding]; other site 13035004063 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 13035004064 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 13035004065 dimer interface [polypeptide binding]; other site 13035004066 phosphorylation site [posttranslational modification] 13035004067 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 13035004068 ATP binding site [chemical binding]; other site 13035004069 Mg2+ binding site [ion binding]; other site 13035004070 G-X-G motif; other site 13035004071 cryptochrome, DASH family; Region: crypto_DASH; TIGR02765 13035004072 DNA photolyase; Region: DNA_photolyase; pfam00875 13035004073 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 13035004074 putative lipid kinase; Reviewed; Region: PRK13057 13035004075 Uncharacterized conserved protein [Function unknown]; Region: COG5464 13035004076 Domain of unknown function (DUF4351); Region: DUF4351; pfam14261 13035004077 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 13035004078 TIGR01777 family protein; Region: yfcH 13035004079 putative NAD(P) binding site [chemical binding]; other site 13035004080 putative active site [active] 13035004081 tRNA synthetases class I (I, L, M and V); Region: tRNA-synt_1; pfam00133 13035004082 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 13035004083 active site 13035004084 HIGH motif; other site 13035004085 nucleotide binding site [chemical binding]; other site 13035004086 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 13035004087 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 13035004088 active site 13035004089 KMSKS motif; other site 13035004090 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 13035004091 tRNA binding surface [nucleotide binding]; other site 13035004092 anticodon binding site; other site 13035004093 Anticodon-binding domain of tRNA; Region: Anticodon_1; pfam08264 13035004094 Domain of unknown function (DUF4308); Region: DUF4308; pfam14159 13035004095 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 13035004096 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 13035004097 AIR carboxylase; Region: AIRC; smart01001 13035004098 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 13035004099 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 13035004100 Homo sapiens acid phosphatase 5 and related proteins, metallophosphatase domain; Region: MPP_ACP5; cd07378 13035004101 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 13035004102 active site 13035004103 metal binding site [ion binding]; metal-binding site 13035004104 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 13035004105 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 13035004106 catalytic residues [active] 13035004107 Protein of unknown function (DUF554); Region: DUF554; pfam04474 13035004108 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 13035004109 putative active site [active] 13035004110 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 13035004111 Alpha/beta hydrolase of unknown function (DUF1400); Region: DUF1400; pfam07176 13035004112 Predicted dienelactone hydrolase [General function prediction only]; Region: COG4188 13035004113 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 13035004114 PHP domain; Region: PHP; pfam02811 13035004115 active site 13035004116 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 13035004117 lysine/cadaverine antiporter; Provisional; Region: cadB; PRK10435 13035004118 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041; cl17396 13035004119 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 13035004120 NAD(P)H-quinone oxidoreductase subunit H; Validated; Region: PRK07415 13035004121 Protein of unknown function (DUF3352); Region: DUF3352; pfam11832 13035004122 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 13035004123 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 13035004124 putative metal binding site [ion binding]; other site 13035004125 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 13035004126 UreF; Region: UreF; pfam01730 13035004127 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; cl03727 13035004128 dimer interface [polypeptide binding]; other site 13035004129 catalytic residues [active] 13035004130 UreD urease accessory protein; Region: UreD; pfam01774 13035004131 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 13035004132 urease subunit alpha; Reviewed; Region: ureC; PRK13207 13035004133 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 13035004134 subunit interactions [polypeptide binding]; other site 13035004135 active site 13035004136 flap region; other site 13035004137 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 13035004138 alpha-beta subunit interface [polypeptide binding]; other site 13035004139 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 13035004140 alpha-gamma subunit interface [polypeptide binding]; other site 13035004141 beta-gamma subunit interface [polypeptide binding]; other site 13035004142 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 13035004143 NMT1-like family; Region: NMT1_2; pfam13379 13035004144 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 13035004145 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 13035004146 dimer interface [polypeptide binding]; other site 13035004147 conserved gate region; other site 13035004148 ABC-ATPase subunit interface; other site 13035004149 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 13035004150 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 13035004151 Walker A/P-loop; other site 13035004152 ATP binding site [chemical binding]; other site 13035004153 Q-loop/lid; other site 13035004154 ABC transporter signature motif; other site 13035004155 Walker B; other site 13035004156 D-loop; other site 13035004157 H-loop/switch region; other site 13035004158 cyanate hydratase; Validated; Region: PRK02866 13035004159 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 13035004160 non-specific DNA binding site [nucleotide binding]; other site 13035004161 salt bridge; other site 13035004162 sequence-specific DNA binding site [nucleotide binding]; other site 13035004163 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 13035004164 oligomer interface [polypeptide binding]; other site 13035004165 active site 13035004166 Hydrogenase/urease accessory protein [Posttranslational modification, protein turnover, chaperones]; Region: HupE; COG2370 13035004167 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 13035004168 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 13035004169 P-loop, Walker A motif; other site 13035004170 Base recognition motif; other site 13035004171 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 13035004172 FOG: WD40 repeat [General function prediction only]; Region: COG2319 13035004173 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 13035004174 structural tetrad; other site 13035004175 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 13035004176 rRNA interaction site [nucleotide binding]; other site 13035004177 S8 interaction site; other site 13035004178 putative laminin-1 binding site; other site 13035004179 elongation factor Ts; Reviewed; Region: tsf; PRK12332 13035004180 UBA/TS-N domain; Region: UBA; pfam00627 13035004181 Elongation factor TS; Region: EF_TS; pfam00889 13035004182 Photosystem II protein; Region: PSII; cl08223 13035004183 photosystem II 44 kDa subunit reaction center protein (also called P6 protein, CP43), bacterial and chloroplast; Region: psbC; TIGR01153 13035004184 D2 subunit of photosystem II (PS II); Region: Photosystem-II_D2; cd09288 13035004185 D1 interface; other site 13035004186 chlorophyll binding site; other site 13035004187 pheophytin binding site; other site 13035004188 beta carotene binding site; other site 13035004189 cytochrome b559 beta interface; other site 13035004190 quinone binding site; other site 13035004191 cytochrome b559 alpha interface; other site 13035004192 protein J interface; other site 13035004193 protein H interface; other site 13035004194 protein X interface; other site 13035004195 core light harvesting protein interface; other site 13035004196 protein L interface; other site 13035004197 CP43 interface; other site 13035004198 protein T interface; other site 13035004199 Fe binding site [ion binding]; other site 13035004200 protein M interface; other site 13035004201 Mn-stabilizing polypeptide interface; other site 13035004202 bromide binding site; other site 13035004203 cytochrome c-550 interface; other site 13035004204 photosystem I assembly protein Ycf4; Provisional; Region: PRK02542 13035004205 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 13035004206 active site 13035004207 Domain of unknown function DUF29; Region: DUF29; pfam01724 13035004208 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK05952 13035004209 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 13035004210 dimer interface [polypeptide binding]; other site 13035004211 active site 13035004212 Predicted membrane protein [Function unknown]; Region: COG3463 13035004213 Predicted membrane protein (DUF2079); Region: DUF2079; pfam09852 13035004214 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2343 13035004215 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 13035004216 Predicted RNA binding protein (dsRBD-like fold), HicA family [General function prediction only]; Region: COG1724 13035004217 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 13035004218 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 13035004219 Glycosyl transferase family 1; Region: Glyco_trans_1_3; pfam13528 13035004220 Uncharacterized conserved protein [Function unknown]; Region: COG0432 13035004221 cell division protein; Validated; Region: ftsH; CHL00176 13035004222 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 13035004223 Walker A motif; other site 13035004224 ATP binding site [chemical binding]; other site 13035004225 Walker B motif; other site 13035004226 arginine finger; other site 13035004227 Peptidase family M41; Region: Peptidase_M41; pfam01434 13035004228 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 13035004229 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 13035004230 quinone interaction residues [chemical binding]; other site 13035004231 active site 13035004232 catalytic residues [active] 13035004233 FMN binding site [chemical binding]; other site 13035004234 substrate binding site [chemical binding]; other site 13035004235 M28 Zn-Peptidases; Region: M28_like_1; cd05640 13035004236 Peptidase family M28; Region: Peptidase_M28; pfam04389 13035004237 metal binding site [ion binding]; metal-binding site 13035004238 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 13035004239 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 13035004240 catalytic loop [active] 13035004241 iron binding site [ion binding]; other site 13035004242 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 13035004243 MutS domain I; Region: MutS_I; pfam01624 13035004244 MutS domain II; Region: MutS_II; pfam05188 13035004245 MutS domain III; Region: MutS_III; pfam05192 13035004246 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 13035004247 Walker A/P-loop; other site 13035004248 ATP binding site [chemical binding]; other site 13035004249 Q-loop/lid; other site 13035004250 ABC transporter signature motif; other site 13035004251 Walker B; other site 13035004252 D-loop; other site 13035004253 H-loop/switch region; other site 13035004254 Amino acid permease; Region: AA_permease; pfam00324 13035004255 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 13035004256 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 13035004257 [2Fe-2S] cluster binding site [ion binding]; other site 13035004258 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 13035004259 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 13035004260 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 13035004261 catalytic triad [active] 13035004262 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 13035004263 transketolase; Region: PLN02790 13035004264 TPP-binding site [chemical binding]; other site 13035004265 dimer interface [polypeptide binding]; other site 13035004266 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 13035004267 PYR/PP interface [polypeptide binding]; other site 13035004268 dimer interface [polypeptide binding]; other site 13035004269 TPP binding site [chemical binding]; other site 13035004270 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 13035004271 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 13035004272 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 13035004273 dimer interface [polypeptide binding]; other site 13035004274 active site 13035004275 acyl carrier protein; Provisional; Region: acpP; PRK00982 13035004276 Domain of unknown function (DUF1815); Region: DUF1815; pfam08844 13035004277 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 13035004278 phosphate binding site [ion binding]; other site 13035004279 Vitamin K epoxide reductase family in bacteria and plants; Region: VKOR_1; cd12916 13035004280 putative active site [active] 13035004281 substrate binding site [chemical binding]; other site 13035004282 redox center [active] 13035004283 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 13035004284 YcfA-like protein; Region: YcfA; pfam07927 13035004285 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 13035004286 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 13035004287 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 13035004288 dimerization interface [polypeptide binding]; other site 13035004289 domain crossover interface; other site 13035004290 redox-dependent activation switch; other site 13035004291 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 13035004292 putative active site [active] 13035004293 XisH protein; Region: XisH; pfam08814 13035004294 XisI protein; Region: XisI; pfam08869 13035004295 5'-methylthioadenosine phosphorylase; Provisional; Region: PRK07432 13035004296 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 13035004297 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 13035004298 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 13035004299 putative active site [active] 13035004300 putative NTP binding site [chemical binding]; other site 13035004301 putative nucleic acid binding site [nucleotide binding]; other site 13035004302 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 13035004303 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 13035004304 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 13035004305 active site 13035004306 Predicted ATPase of the ABC class; Region: ABC_ATPase; pfam09818 13035004307 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 13035004308 Walker A/P-loop; other site 13035004309 ATP binding site [chemical binding]; other site 13035004310 Q-loop/lid; other site 13035004311 ABC transporter signature motif; other site 13035004312 Walker B; other site 13035004313 D-loop; other site 13035004314 H-loop/switch region; other site 13035004315 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 13035004316 Cytochrome P450; Region: p450; cl12078 13035004317 Protein of unknown function (DUF497); Region: DUF497; pfam04365 13035004318 CO2 hydration protein (ChpXY); Region: ChpXY; cl10905 13035004319 NAD(P)H-quinone oxidoreductase subunit M; Validated; Region: PRK07363 13035004320 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 13035004321 NAD(P)H-quinone oxidoreductase subunit F; Validated; Region: PRK07390 13035004322 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 13035004323 Transcriptional regulator [Transcription]; Region: LysR; COG0583 13035004324 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 13035004325 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 13035004326 putative dimerization interface [polypeptide binding]; other site 13035004327 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 13035004328 4Fe-4S binding domain; Region: Fer4; pfam00037 13035004329 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 13035004330 Stage II sporulation protein; Region: SpoIID; pfam08486 13035004331 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 13035004332 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 13035004333 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 13035004334 Probable transposase; Region: OrfB_IS605; pfam01385 13035004335 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 13035004336 argininosuccinate lyase; Provisional; Region: PRK00855 13035004337 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 13035004338 active sites [active] 13035004339 tetramer interface [polypeptide binding]; other site 13035004340 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 13035004341 nudix motif; other site 13035004342 polyphosphate kinase; Provisional; Region: PRK05443 13035004343 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 13035004344 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 13035004345 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 13035004346 putative domain interface [polypeptide binding]; other site 13035004347 putative active site [active] 13035004348 catalytic site [active] 13035004349 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 13035004350 putative domain interface [polypeptide binding]; other site 13035004351 putative active site [active] 13035004352 catalytic site [active] 13035004353 hypothetical protein; Reviewed; Region: PRK12497 13035004354 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 13035004355 MPT binding site; other site 13035004356 trimer interface [polypeptide binding]; other site 13035004357 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 13035004358 active site 13035004359 metal binding site [ion binding]; metal-binding site 13035004360 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 13035004361 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 13035004362 active site 13035004363 dimer interface [polypeptide binding]; other site 13035004364 Alkaline phosphatase [Inorganic ion transport and metabolism]; Region: PhoA; COG1785 13035004365 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 13035004366 active site 13035004367 Domain of unknown function (DUF4353); Region: DUF4353; pfam14262 13035004368 Right handed beta helix region; Region: Beta_helix; pfam13229 13035004369 Cadherin repeat-like domain; Region: CA_like; cl15786 13035004370 Ca2+ binding site [ion binding]; other site 13035004371 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 13035004372 Alkaline phosphatase homologues; Region: alkPPc; smart00098 13035004373 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 13035004374 active site 13035004375 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 13035004376 active site 13035004377 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 13035004378 tartrate dehydrogenase; Region: TTC; TIGR02089 13035004379 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 13035004380 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 13035004381 active site 13035004382 interdomain interaction site; other site 13035004383 putative metal-binding site [ion binding]; other site 13035004384 nucleotide binding site [chemical binding]; other site 13035004385 Bacterial DNA topoisomeraes I ATP-binding domain; Region: TOP1Bc; smart00436 13035004386 domain I; other site 13035004387 phosphate binding site [ion binding]; other site 13035004388 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 13035004389 domain II; other site 13035004390 domain III; other site 13035004391 nucleotide binding site [chemical binding]; other site 13035004392 DNA binding groove [nucleotide binding] 13035004393 catalytic site [active] 13035004394 domain IV; other site 13035004395 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 13035004396 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 13035004397 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 13035004398 TMAO/DMSO reductase; Reviewed; Region: PRK05363 13035004399 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 13035004400 Moco binding site; other site 13035004401 metal coordination site [ion binding]; other site 13035004402 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 13035004403 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 13035004404 dimer interface [polypeptide binding]; other site 13035004405 phosphorylation site [posttranslational modification] 13035004406 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 13035004407 ATP binding site [chemical binding]; other site 13035004408 Mg2+ binding site [ion binding]; other site 13035004409 G-X-G motif; other site 13035004410 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 13035004411 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 13035004412 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 13035004413 NAD binding site [chemical binding]; other site 13035004414 substrate binding site [chemical binding]; other site 13035004415 homodimer interface [polypeptide binding]; other site 13035004416 active site 13035004417 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 13035004418 tetramer interface [polypeptide binding]; other site 13035004419 dimer interface [polypeptide binding]; other site 13035004420 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 13035004421 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 13035004422 Walker A motif; other site 13035004423 ATP binding site [chemical binding]; other site 13035004424 Walker B motif; other site 13035004425 light-dependent protochlorophyllide reductase; Region: LPOR; TIGR01289 13035004426 light-dependent protochlorophyllide reductase (LPOR)-like, classical (c)-like SDRs; Region: LPOR_like_SDR_c_like; cd09810 13035004427 putative NAD(P) binding site [chemical binding]; other site 13035004428 active site 13035004429 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 13035004430 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 13035004431 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 13035004432 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 13035004433 23S rRNA binding site [nucleotide binding]; other site 13035004434 L21 binding site [polypeptide binding]; other site 13035004435 L13 binding site [polypeptide binding]; other site 13035004436 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 13035004437 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 13035004438 substrate binding pocket [chemical binding]; other site 13035004439 membrane-bound complex binding site; other site 13035004440 hinge residues; other site 13035004441 TPR repeat; Region: TPR_11; pfam13414 13035004442 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 13035004443 binding surface 13035004444 TPR motif; other site 13035004445 TPR repeat; Region: TPR_11; pfam13414 13035004446 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 13035004447 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 13035004448 active site 13035004449 intersubunit interface [polypeptide binding]; other site 13035004450 catalytic residue [active] 13035004451 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 13035004452 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 13035004453 Walker A/P-loop; other site 13035004454 ATP binding site [chemical binding]; other site 13035004455 Q-loop/lid; other site 13035004456 ABC transporter signature motif; other site 13035004457 Walker B; other site 13035004458 D-loop; other site 13035004459 H-loop/switch region; other site 13035004460 TOBE domain; Region: TOBE_2; pfam08402 13035004461 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 13035004462 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 13035004463 dimer interface [polypeptide binding]; other site 13035004464 conserved gate region; other site 13035004465 putative PBP binding loops; other site 13035004466 ABC-ATPase subunit interface; other site 13035004467 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 13035004468 dimer interface [polypeptide binding]; other site 13035004469 conserved gate region; other site 13035004470 putative PBP binding loops; other site 13035004471 ABC-ATPase subunit interface; other site 13035004472 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 13035004473 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 13035004474 PemK-like protein; Region: PemK; pfam02452 13035004475 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 13035004476 Protein of unknown function (DUF2862); Region: DUF2862; pfam11061 13035004477 Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: ArsA; COG0003 13035004478 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 13035004479 P loop; other site 13035004480 Nucleotide binding site [chemical binding]; other site 13035004481 Switch I; other site 13035004482 This domain family includes the alpha-crystallin domain (ACD) of alpha-crystallin-type small heat shock proteins (sHsps) and a similar domain found in p23-like proteins. sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa; Region: ACD_sHsps_p23-like; cd00298 13035004483 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 13035004484 UbiA prenyltransferase family; Region: UbiA; pfam01040 13035004485 Protein of unknown function (DUF2930); Region: DUF2930; pfam11152 13035004486 Ycf27; Reviewed; Region: orf27; CHL00148 13035004487 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 13035004488 active site 13035004489 phosphorylation site [posttranslational modification] 13035004490 intermolecular recognition site; other site 13035004491 dimerization interface [polypeptide binding]; other site 13035004492 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 13035004493 DNA binding site [nucleotide binding] 13035004494 DNA repair protein RadA; Provisional; Region: PRK11823 13035004495 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 13035004496 Walker A motif/ATP binding site; other site 13035004497 ATP binding site [chemical binding]; other site 13035004498 Walker B motif; other site 13035004499 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 13035004500 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 13035004501 S-adenosylmethionine binding site [chemical binding]; other site 13035004502 Methyltransferase domain; Region: Methyltransf_31; pfam13847 13035004503 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 13035004504 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 13035004505 EamA-like transporter family; Region: EamA; pfam00892 13035004506 Protein of unknown function (DUF2993); Region: DUF2993; pfam11209 13035004507 Sporulation and spore germination; Region: Germane; pfam10646 13035004508 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 13035004509 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 13035004510 carboxyltransferase (CT) interaction site; other site 13035004511 biotinylation site [posttranslational modification]; other site 13035004512 elongation factor P; Validated; Region: PRK00529 13035004513 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 13035004514 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 13035004515 RNA binding site [nucleotide binding]; other site 13035004516 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 13035004517 RNA binding site [nucleotide binding]; other site 13035004518 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 13035004519 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 13035004520 Probable transposase; Region: OrfB_IS605; pfam01385 13035004521 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 13035004522 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 13035004523 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 13035004524 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 13035004525 active site 13035004526 HIGH motif; other site 13035004527 dimer interface [polypeptide binding]; other site 13035004528 KMSKS motif; other site 13035004529 rod shape-determining protein MreC; Provisional; Region: PRK13922 13035004530 rod shape-determining protein MreC; Region: MreC; pfam04085 13035004531 Domain of unknown function DUF39; Region: DUF39; pfam01837 13035004532 glycine betaine transporter periplasmic subunit; Provisional; Region: proX; PRK11119 13035004533 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 13035004534 glutathione synthetase; Provisional; Region: PRK05246 13035004535 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 13035004536 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 13035004537 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 13035004538 Phosphoenolpyruvate carboxylase; Region: PEPcase; pfam00311 13035004539 D1 subunit of photosystem II (PS II); Region: Photosystem-II_D1; cd09289 13035004540 protein I interface; other site 13035004541 D2 interface; other site 13035004542 protein T interface; other site 13035004543 chlorophyll binding site; other site 13035004544 beta carotene binding site; other site 13035004545 pheophytin binding site; other site 13035004546 manganese-stabilizing polypeptide interface; other site 13035004547 CP43 interface; other site 13035004548 protein L interface; other site 13035004549 oxygen evolving complex binding site; other site 13035004550 bromide binding site; other site 13035004551 quinone binding site; other site 13035004552 Fe binding site [ion binding]; other site 13035004553 core light harvesting interface; other site 13035004554 cytochrome b559 alpha subunit interface; other site 13035004555 cytochrome c-550 interface; other site 13035004556 protein J interface; other site 13035004557 cell division protein; Validated; Region: ftsH; CHL00176 13035004558 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 13035004559 Walker A motif; other site 13035004560 ATP binding site [chemical binding]; other site 13035004561 Walker B motif; other site 13035004562 arginine finger; other site 13035004563 Peptidase family M41; Region: Peptidase_M41; pfam01434 13035004564 CpcD/allophycocyanin linker domain; Region: CpcD; pfam01383 13035004565 ferredoxin--NADP+ reductase; Provisional; Region: PLN03116 13035004566 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 13035004567 dimerization interface [polypeptide binding]; other site 13035004568 FAD binding pocket [chemical binding]; other site 13035004569 FAD binding motif [chemical binding]; other site 13035004570 catalytic residues [active] 13035004571 NAD binding pocket [chemical binding]; other site 13035004572 phosphate binding motif [ion binding]; other site 13035004573 beta-alpha-beta structure motif; other site 13035004574 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 13035004575 catalytic residues [active] 13035004576 Pyruvate formate lyase 1; Region: PFL1; cd01678 13035004577 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 13035004578 coenzyme A binding site [chemical binding]; other site 13035004579 active site 13035004580 catalytic residues [active] 13035004581 glycine loop; other site 13035004582 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 13035004583 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 13035004584 FeS/SAM binding site; other site 13035004585 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 13035004586 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 13035004587 putative catalytic cysteine [active] 13035004588 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 13035004589 putative active site [active] 13035004590 metal binding site [ion binding]; metal-binding site 13035004591 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 13035004592 active site 13035004593 NTP binding site [chemical binding]; other site 13035004594 metal binding triad [ion binding]; metal-binding site 13035004595 antibiotic binding site [chemical binding]; other site 13035004596 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 13035004597 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 13035004598 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 13035004599 putative active site [active] 13035004600 putative NTP binding site [chemical binding]; other site 13035004601 putative nucleic acid binding site [nucleotide binding]; other site 13035004602 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 13035004603 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 13035004604 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 13035004605 active site 13035004606 phosphoribulokinase; Provisional; Region: PRK07429 13035004607 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 13035004608 active site 13035004609 NAD(P)H-quinone oxidoreductase subunit D4; Validated; Region: PRK06473 13035004610 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 13035004611 NAD(P)H-quinone oxidoreductase subunit F; Validated; Region: PRK07390 13035004612 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 13035004613 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 13035004614 Carbon dioxide concentrating mechanism (CcmK); Bacterial Micro-Compartment (BCM) domain; Region: BMC_CcmK; cd07057 13035004615 Hexamer interface [polypeptide binding]; other site 13035004616 Hexagonal pore residue; other site 13035004617 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 13035004618 Carbon dioxide concentrating mechanism (CcmK); Bacterial Micro-Compartment (BCM) domain; Region: BMC_CcmK; cd07057 13035004619 Hexamer interface [polypeptide binding]; other site 13035004620 Hexagonal pore residue; other site 13035004621 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 13035004622 Hexamer/Pentamer interface [polypeptide binding]; other site 13035004623 central pore; other site 13035004624 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 13035004625 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 13035004626 trimer interface [polypeptide binding]; other site 13035004627 active site 13035004628 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 13035004629 putative multimerization interface [polypeptide binding]; other site 13035004630 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 13035004631 putative multimerization interface [polypeptide binding]; other site 13035004632 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 13035004633 putative multimerization interface [polypeptide binding]; other site 13035004634 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 13035004635 putative multimerization interface [polypeptide binding]; other site 13035004636 ribulose-1,5-bisphosphate carboxylase/oxygenase large subunit; Region: rbcL; CHL00040 13035004637 Ribulose bisphosphate carboxylase large chain, Form I; Region: RuBisCO_large_I; cd08212 13035004638 homodimer interface [polypeptide binding]; other site 13035004639 active site 13035004640 heterodimer interface [polypeptide binding]; other site 13035004641 catalytic residue [active] 13035004642 metal binding site [ion binding]; metal-binding site 13035004643 RbcX protein; Region: RcbX; pfam02341 13035004644 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 13035004645 multimerization interface [polypeptide binding]; other site 13035004646 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 13035004647 active site 13035004648 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 13035004649 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 13035004650 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 13035004651 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 13035004652 Walker A/P-loop; other site 13035004653 ATP binding site [chemical binding]; other site 13035004654 Q-loop/lid; other site 13035004655 ABC transporter signature motif; other site 13035004656 Walker B; other site 13035004657 D-loop; other site 13035004658 H-loop/switch region; other site 13035004659 Methyltransferase domain; Region: Methyltransf_11; pfam08241 13035004660 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 13035004661 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 13035004662 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 13035004663 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 13035004664 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 13035004665 active site 13035004666 NTP binding site [chemical binding]; other site 13035004667 metal binding triad [ion binding]; metal-binding site 13035004668 antibiotic binding site [chemical binding]; other site 13035004669 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 13035004670 putative active site [active] 13035004671 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 13035004672 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 13035004673 Walker A/P-loop; other site 13035004674 ATP binding site [chemical binding]; other site 13035004675 Q-loop/lid; other site 13035004676 ABC transporter signature motif; other site 13035004677 Walker B; other site 13035004678 D-loop; other site 13035004679 H-loop/switch region; other site 13035004680 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 13035004681 OstA-like protein; Region: OstA; cl00844 13035004682 Protein of unknown function (DUF3769); Region: DUF3769; pfam12600 13035004683 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 13035004684 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 13035004685 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 13035004686 dimer interface [polypeptide binding]; other site 13035004687 putative anticodon binding site; other site 13035004688 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 13035004689 motif 1; other site 13035004690 active site 13035004691 motif 2; other site 13035004692 motif 3; other site 13035004693 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 13035004694 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 13035004695 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 13035004696 Peptidase domain in the S53 family; Region: Peptidases_S53_like; cd05562 13035004697 putative active site [active] 13035004698 putative catalytic triad [active] 13035004699 Peptidase domain in the S53 family; Region: Peptidases_S53_like; cd05562 13035004700 Ferredoxin thioredoxin reductase catalytic beta chain; Region: FeThRed_B; cl01977 13035004701 Domain of unknown function (DUF309); Region: DUF309; pfam03745 13035004702 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 13035004703 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 13035004704 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 13035004705 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 13035004706 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 13035004707 ribosome maturation protein RimP; Reviewed; Region: PRK00092 13035004708 Sm and related proteins; Region: Sm_like; cl00259 13035004709 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 13035004710 putative oligomer interface [polypeptide binding]; other site 13035004711 putative RNA binding site [nucleotide binding]; other site 13035004712 NusA N-terminal domain; Region: NusA_N; pfam08529 13035004713 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 13035004714 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 13035004715 RNA binding site [nucleotide binding]; other site 13035004716 homodimer interface [polypeptide binding]; other site 13035004717 NusA-like KH domain; Region: KH_5; pfam13184 13035004718 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 13035004719 G-X-X-G motif; other site 13035004720 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 13035004721 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 13035004722 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 13035004723 ATP binding site [chemical binding]; other site 13035004724 Mg2+ binding site [ion binding]; other site 13035004725 G-X-G motif; other site 13035004726 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 13035004727 ATP binding site [chemical binding]; other site 13035004728 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 13035004729 enolase; Provisional; Region: eno; PRK00077 13035004730 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 13035004731 dimer interface [polypeptide binding]; other site 13035004732 metal binding site [ion binding]; metal-binding site 13035004733 substrate binding pocket [chemical binding]; other site 13035004734 Protein of unknown function (DUF3571); Region: DUF3571; pfam12095 13035004735 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 13035004736 Aspartase; Region: Aspartase; cd01357 13035004737 active sites [active] 13035004738 tetramer interface [polypeptide binding]; other site 13035004739 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 13035004740 Fasciclin domain; Region: Fasciclin; pfam02469 13035004741 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 13035004742 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 13035004743 catalytic site [active] 13035004744 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 13035004745 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 13035004746 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 13035004747 motif II; other site 13035004748 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 13035004749 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 13035004750 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 13035004751 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 13035004752 nucleotide binding pocket [chemical binding]; other site 13035004753 K-X-D-G motif; other site 13035004754 catalytic site [active] 13035004755 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 13035004756 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 13035004757 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 13035004758 Dimer interface [polypeptide binding]; other site 13035004759 BRCT sequence motif; other site 13035004760 anthranilate synthase component I-like protein; Validated; Region: PRK05940 13035004761 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 13035004762 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 13035004763 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 13035004764 RNA polymerase sigma factor, cyanobacterial RpoD-like family; Region: Sig70-cyanoRpoD; TIGR02997 13035004765 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 13035004766 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 13035004767 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 13035004768 DNA binding residues [nucleotide binding] 13035004769 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 13035004770 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 13035004771 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 13035004772 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 13035004773 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 13035004774 RNA binding surface [nucleotide binding]; other site 13035004775 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 13035004776 active site 13035004777 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 13035004778 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 13035004779 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 13035004780 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 13035004781 Walker A motif; other site 13035004782 ATP binding site [chemical binding]; other site 13035004783 Walker B motif; other site 13035004784 arginine finger; other site 13035004785 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 13035004786 Walker A motif; other site 13035004787 ATP binding site [chemical binding]; other site 13035004788 Walker B motif; other site 13035004789 arginine finger; other site 13035004790 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 13035004791 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional; Region: pdxA; PRK02746 13035004792 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 13035004793 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 13035004794 catalytic residues [active] 13035004795 photochlorophyllide reductase subunit B; Region: chlB; CHL00076 13035004796 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 13035004797 Proto-chlorophyllide reductase 57 kD subunit; Region: PCP_red; pfam08369 13035004798 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 13035004799 heme-binding site [chemical binding]; other site 13035004800 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 13035004801 binding surface 13035004802 TPR motif; other site 13035004803 Tetratricopeptide repeat; Region: TPR_16; pfam13432 13035004804 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 13035004805 binding surface 13035004806 TPR motif; other site 13035004807 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 13035004808 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 13035004809 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 13035004810 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 13035004811 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 13035004812 Bacterial sugar transferase; Region: Bac_transf; pfam02397 13035004813 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 13035004814 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 13035004815 NADP-binding site; other site 13035004816 homotetramer interface [polypeptide binding]; other site 13035004817 substrate binding site [chemical binding]; other site 13035004818 homodimer interface [polypeptide binding]; other site 13035004819 active site 13035004820 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 13035004821 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 13035004822 NADP binding site [chemical binding]; other site 13035004823 active site 13035004824 putative substrate binding site [chemical binding]; other site 13035004825 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 13035004826 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 13035004827 AMIN domain; Region: AMIN; pfam11741 13035004828 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 13035004829 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 13035004830 active site 13035004831 metal binding site [ion binding]; metal-binding site 13035004832 glutamate racemase; Provisional; Region: PRK00865 13035004833 c-type cytochrome biogenensis protein; Validated; Region: ccs1; CHL00177 13035004834 ResB-like family; Region: ResB; pfam05140 13035004835 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 13035004836 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 13035004837 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 13035004838 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 13035004839 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 13035004840 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 13035004841 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 13035004842 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 13035004843 putative di-iron ligands [ion binding]; other site 13035004844 Uncharacterized conserved protein [Function unknown]; Region: COG0062 13035004845 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 13035004846 putative substrate binding site [chemical binding]; other site 13035004847 putative ATP binding site [chemical binding]; other site 13035004848 tRNA guanosine-2'-O-methyltransferase; Provisional; Region: PRK11081 13035004849 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 13035004850 SpoU, rRNA methylase, C-terminal; Region: SpoU_methylas_C; pfam12105 13035004851 hypothetical protein; Provisional; Region: PRK13683 13035004852 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 13035004853 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 13035004854 Walker A/P-loop; other site 13035004855 ATP binding site [chemical binding]; other site 13035004856 Q-loop/lid; other site 13035004857 ABC transporter signature motif; other site 13035004858 Walker B; other site 13035004859 D-loop; other site 13035004860 H-loop/switch region; other site 13035004861 Uncharacterized protein family (UPF0175); Region: UPF0175; cl01085 13035004862 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: COG2405 13035004863 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Provisional; Region: PRK13371 13035004864 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 13035004865 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 13035004866 Resolvase, N terminal domain; Region: Resolvase; smart00857 13035004867 Recombinase; Region: Recombinase; pfam07508 13035004868 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 13035004869 FlxA-like protein; Region: FlxA; pfam14282 13035004870 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 13035004871 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 13035004872 dimer interface [polypeptide binding]; other site 13035004873 putative metal binding site [ion binding]; other site 13035004874 transposase, putative, N-terminal domain; Region: tspaseT_teng_N; TIGR01765 13035004875 Probable transposase; Region: OrfB_IS605; pfam01385 13035004876 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 13035004877 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 13035004878 Inhibitor of apoptosis-promoting Bax1; Region: Bax1-I; pfam01027 13035004879 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 13035004880 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 13035004881 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 13035004882 Walker A/P-loop; other site 13035004883 ATP binding site [chemical binding]; other site 13035004884 Q-loop/lid; other site 13035004885 ABC transporter signature motif; other site 13035004886 Walker B; other site 13035004887 D-loop; other site 13035004888 H-loop/switch region; other site 13035004889 Ferredoxin [Energy production and conversion]; Region: COG1146 13035004890 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 13035004891 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 13035004892 active site 13035004893 L-asparaginase II; Region: Asparaginase_II; cl01842 13035004894 Protein of unknown function (DUF1230); Region: DUF1230; pfam06799 13035004895 Oligomerisation domain; Region: Oligomerisation; pfam02410 13035004896 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 13035004897 Zn2+ binding site [ion binding]; other site 13035004898 Mg2+ binding site [ion binding]; other site 13035004899 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 13035004900 putative active site [active] 13035004901 AAA domain; Region: AAA_33; pfam13671 13035004902 AAA domain; Region: AAA_17; pfam13207 13035004903 WYL domain; Region: WYL; pfam13280 13035004904 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 13035004905 active site 13035004906 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 13035004907 active site 13035004908 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 13035004909 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 13035004910 S-adenosylmethionine binding site [chemical binding]; other site 13035004911 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 13035004912 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 13035004913 ligand binding site [chemical binding]; other site 13035004914 NAD binding site [chemical binding]; other site 13035004915 dimerization interface [polypeptide binding]; other site 13035004916 catalytic site [active] 13035004917 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 13035004918 putative L-serine binding site [chemical binding]; other site 13035004919 photosystem II S4 domain protein; Region: PS_II_S4; TIGR03069 13035004920 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 13035004921 RNA binding surface [nucleotide binding]; other site 13035004922 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 13035004923 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 13035004924 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 13035004925 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 13035004926 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 13035004927 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 13035004928 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 13035004929 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 13035004930 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 13035004931 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 13035004932 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 13035004933 putative active site [active] 13035004934 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 13035004935 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 13035004936 Ca binding site [ion binding]; other site 13035004937 active site 13035004938 catalytic site [active] 13035004939 2-deoxyglucose-6-phosphatase; Provisional; Region: PRK10826 13035004940 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 13035004941 active site 13035004942 motif I; other site 13035004943 motif II; other site 13035004944 ferrochelatase; Reviewed; Region: hemH; PRK00035 13035004945 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 13035004946 active site 13035004947 C-terminal domain interface [polypeptide binding]; other site 13035004948 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 13035004949 active site 13035004950 N-terminal domain interface [polypeptide binding]; other site 13035004951 Chlorophyll A-B binding protein; Region: Chloroa_b-bind; pfam00504 13035004952 Copper chaperone [Inorganic ion transport and metabolism]; Region: CopZ; COG2608 13035004953 metal-binding site [ion binding] 13035004954 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 13035004955 putative active site pocket [active] 13035004956 dimerization interface [polypeptide binding]; other site 13035004957 putative catalytic residue [active] 13035004958 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 13035004959 active site 13035004960 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 13035004961 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 13035004962 NAD(P) binding site [chemical binding]; other site 13035004963 active site 13035004964 Photosystem II reaction centre N protein (psbN); Region: PsbN; pfam02468 13035004965 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 13035004966 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 13035004967 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 13035004968 catalytic residue [active] 13035004969 RecB family nuclease, putative, TM0106 family; Region: TIGR03491 13035004970 RNase_H superfamily; Region: RNase_H_2; pfam13482 13035004971 Methyltransferase domain; Region: Methyltransf_23; pfam13489 13035004972 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 13035004973 S-adenosylmethionine binding site [chemical binding]; other site 13035004974 S4 domain; Region: S4_2; pfam13275 13035004975 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 13035004976 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; pfam10009 13035004977 Mg2+ transporter (mgtE); Region: mgtE; TIGR00400 13035004978 MgtE intracellular N domain; Region: MgtE_N; smart00924 13035004979 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 13035004980 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 13035004981 Divalent cation transporter; Region: MgtE; pfam01769 13035004982 C-terminal processing peptidase family S41; Region: Peptidase_S41; cd06567 13035004983 C-terminal peptidase (prc); Region: prc; TIGR00225 13035004984 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 13035004985 protein binding site [polypeptide binding]; other site 13035004986 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 13035004987 Catalytic dyad [active] 13035004988 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 13035004989 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 13035004990 cell division protein FtsZ; Validated; Region: PRK09330 13035004991 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 13035004992 nucleotide binding site [chemical binding]; other site 13035004993 SulA interaction site; other site 13035004994 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 13035004995 dimer interface [polypeptide binding]; other site 13035004996 substrate binding site [chemical binding]; other site 13035004997 ATP binding site [chemical binding]; other site 13035004998 Homeobox associated leucine zipper; Region: HALZ; cl02577 13035004999 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 13035005000 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 13035005001 dimer interface [polypeptide binding]; other site 13035005002 motif 1; other site 13035005003 active site 13035005004 motif 2; other site 13035005005 motif 3; other site 13035005006 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 13035005007 anticodon binding site; other site 13035005008 GMP synthase; Reviewed; Region: guaA; PRK00074 13035005009 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 13035005010 AMP/PPi binding site [chemical binding]; other site 13035005011 candidate oxyanion hole; other site 13035005012 catalytic triad [active] 13035005013 potential glutamine specificity residues [chemical binding]; other site 13035005014 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 13035005015 ATP Binding subdomain [chemical binding]; other site 13035005016 Ligand Binding sites [chemical binding]; other site 13035005017 Dimerization subdomain; other site 13035005018 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 13035005019 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 13035005020 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 13035005021 Ligand Binding Site [chemical binding]; other site 13035005022 Mechanosensitive ion channel; Region: MS_channel; pfam00924 13035005023 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 13035005024 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 13035005025 Mechanosensitive ion channel; Region: MS_channel; pfam00924 13035005026 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 13035005027 EamA-like transporter family; Region: EamA; cl17759 13035005028 Domain of unknown function (DUF1818); Region: DUF1818; pfam08848 13035005029 PetN; Region: PetN; pfam03742 13035005030 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 13035005031 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 13035005032 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 13035005033 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 13035005034 Beta-lactamase superfamily domain; Region: Lactamase_B_3; pfam13483 13035005035 coproporphyrinogen III oxidase; Provisional; Region: PRK07379 13035005036 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 13035005037 FeS/SAM binding site; other site 13035005038 Domain of unknown function (DUF1870); Region: DUF1870; pfam08965 13035005039 HemN C-terminal domain; Region: HemN_C; pfam06969 13035005040 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 13035005041 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 13035005042 FeS/SAM binding site; other site 13035005043 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 13035005044 binding surface 13035005045 TPR motif; other site 13035005046 TPR repeat; Region: TPR_11; pfam13414 13035005047 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 13035005048 binding surface 13035005049 TPR motif; other site 13035005050 TPR repeat; Region: TPR_11; pfam13414 13035005051 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 13035005052 binding surface 13035005053 TPR motif; other site 13035005054 TPR repeat; Region: TPR_11; pfam13414 13035005055 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 13035005056 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 13035005057 generic binding surface II; other site 13035005058 ssDNA binding site; other site 13035005059 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 13035005060 ATP binding site [chemical binding]; other site 13035005061 putative Mg++ binding site [ion binding]; other site 13035005062 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 13035005063 nucleotide binding region [chemical binding]; other site 13035005064 ATP-binding site [chemical binding]; other site 13035005065 Uncharacterized conserved protein [Function unknown]; Region: COG5464 13035005066 Protein of unknown function (DUF2887); Region: DUF2887; pfam11103 13035005067 Domain of unknown function (DUF4351); Region: DUF4351; pfam14261 13035005068 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 13035005069 active site 13035005070 NTP binding site [chemical binding]; other site 13035005071 metal binding triad [ion binding]; metal-binding site 13035005072 antibiotic binding site [chemical binding]; other site 13035005073 Uncharacterized conserved protein [Function unknown]; Region: COG2361 13035005074 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; COG2327 13035005075 polysaccharide pyruvyl transferase CsaB; Region: S_layer_CsaB; TIGR03609 13035005076 Methyltransferase domain; Region: Methyltransf_31; pfam13847 13035005077 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 13035005078 S-adenosylmethionine binding site [chemical binding]; other site 13035005079 Protein of unknown function (DUF3155); Region: DUF3155; pfam11352 13035005080 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 13035005081 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 13035005082 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 13035005083 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 13035005084 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 13035005085 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 13035005086 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 13035005087 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 13035005088 putative metal binding site [ion binding]; other site 13035005089 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 13035005090 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 13035005091 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 13035005092 Predicted ATP-binding protein involved in virulence [General function prediction only]; Region: COG3950 13035005093 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 13035005094 Walker A/P-loop; other site 13035005095 ATP binding site [chemical binding]; other site 13035005096 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 13035005097 ABC transporter signature motif; other site 13035005098 Walker B; other site 13035005099 D-loop; other site 13035005100 H-loop/switch region; other site 13035005101 TIGR02646 family protein; Region: TIGR02646 13035005102 DNA methylase; Region: N6_N4_Mtase; pfam01555 13035005103 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 13035005104 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041; cl17396 13035005105 Uncharacterized protein family (UPF0175); Region: UPF0175; pfam03683 13035005106 Predicted transcription regulator containing HTH domain [Transcription]; Region: COG5499 13035005107 hypothetical protein; Provisional; Region: PRK06850 13035005108 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 13035005109 Active Sites [active] 13035005110 Protein of unknown function (DUF2283); Region: DUF2283; pfam10049 13035005111 DNA sulfur modification protein DndD; Region: DNA_S_dndD; TIGR03185 13035005112 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 13035005113 Walker A/P-loop; other site 13035005114 ATP binding site [chemical binding]; other site 13035005115 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 13035005116 Q-loop/lid; other site 13035005117 ABC transporter signature motif; other site 13035005118 Walker B; other site 13035005119 D-loop; other site 13035005120 H-loop/switch region; other site 13035005121 Protein of unknown function (DUF497); Region: DUF497; pfam04365 13035005122 pyruvate kinase; Provisional; Region: PRK06354 13035005123 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 13035005124 domain interfaces; other site 13035005125 active site 13035005126 Phosphohistidine swiveling domain [Signal transduction mechanisms]; Region: COG3848 13035005127 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 13035005128 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 13035005129 active site 13035005130 Substrate binding site; other site 13035005131 Mg++ binding site; other site 13035005132 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 13035005133 putative trimer interface [polypeptide binding]; other site 13035005134 putative CoA binding site [chemical binding]; other site 13035005135 ScpA/B protein; Region: ScpA_ScpB; pfam02616 13035005136 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cl00183 13035005137 dimerization interface [polypeptide binding]; other site 13035005138 putative active cleft [active] 13035005139 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 13035005140 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 13035005141 Band_7_flotillin: 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. These two proteins are lipid raft-associated. Individual proteins of...; Region: Band_7_flotillin; cd03399 13035005142 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 13035005143 Band_7_flotillin: 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. These two proteins are lipid raft-associated. Individual proteins of...; Region: Band_7_flotillin; cd03399 13035005144 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 13035005145 Aerobic Cyclase System Fe-containing subunit (ACSF), ferritin-like diiron-binding domain; Region: ACSF; cd01047 13035005146 diiron binding motif [ion binding]; other site 13035005147 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 13035005148 heme binding pocket [chemical binding]; other site 13035005149 heme ligand [chemical binding]; other site 13035005150 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 13035005151 HemN C-terminal domain; Region: HemN_C; pfam06969 13035005152 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 13035005153 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 13035005154 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 13035005155 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 13035005156 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 13035005157 active site 13035005158 phosphorylation site [posttranslational modification] 13035005159 intermolecular recognition site; other site 13035005160 dimerization interface [polypeptide binding]; other site 13035005161 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 13035005162 DNA binding site [nucleotide binding] 13035005163 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 13035005164 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 13035005165 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 13035005166 dimer interface [polypeptide binding]; other site 13035005167 phosphorylation site [posttranslational modification] 13035005168 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 13035005169 ATP binding site [chemical binding]; other site 13035005170 Mg2+ binding site [ion binding]; other site 13035005171 G-X-G motif; other site 13035005172 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 13035005173 PhoU domain; Region: PhoU; pfam01895 13035005174 PhoU domain; Region: PhoU; pfam01895 13035005175 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 13035005176 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 13035005177 ABC1 family; Region: ABC1; cl17513 13035005178 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 13035005179 active site 13035005180 Band_7_prohibitin. A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup group includes proteins similar to prohibitin (a lipid raft-associated integral membrane protein). Individual proteins of this band 7 domain family may...; Region: Band_7_prohibitin; cd03401 13035005181 HflK protein; Region: hflK; TIGR01933 13035005182 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 13035005183 Band_7_prohibitin. A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup group includes proteins similar to prohibitin (a lipid raft-associated integral membrane protein). Individual proteins of this band 7 domain family may...; Region: Band_7_prohibitin; cd03401 13035005184 Uncharacterized conserved protein [Function unknown]; Region: COG3937 13035005185 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 13035005186 dihydropteroate synthase; Region: DHPS; TIGR01496 13035005187 substrate binding pocket [chemical binding]; other site 13035005188 dimer interface [polypeptide binding]; other site 13035005189 inhibitor binding site; inhibition site 13035005190 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 13035005191 triosephosphate isomerase; Provisional; Region: PRK14565 13035005192 substrate binding site [chemical binding]; other site 13035005193 dimer interface [polypeptide binding]; other site 13035005194 catalytic triad [active] 13035005195 ncharacterized protein conserved in bacteria [Function unknown]; Region: SpoIIIAA; COG3854 13035005196 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 13035005197 Walker A motif; other site 13035005198 ATP binding site [chemical binding]; other site 13035005199 Walker B motif; other site 13035005200 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 13035005201 RxxxH motif; other site 13035005202 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 13035005203 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 13035005204 Iron-Sulfur binding protein C terminal; Region: LdpA_C; pfam12617 13035005205 Uncharacterized conserved protein [Function unknown]; Region: COG5464 13035005206 Domain of unknown function (DUF4351); Region: DUF4351; pfam14261 13035005207 Uncharacterized conserved protein [Function unknown]; Region: COG5464 13035005208 Domain of unknown function (DUF4351); Region: DUF4351; pfam14261 13035005209 Uncharacterized conserved protein [Function unknown]; Region: COG5464 13035005210 Domain of unknown function (DUF4351); Region: DUF4351; pfam14261 13035005211 Domain of unknown function (DUF4351); Region: DUF4351; pfam14261 13035005212 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 13035005213 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 13035005214 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 13035005215 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 13035005216 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 13035005217 Probable transposase; Region: OrfB_IS605; pfam01385 13035005218 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 13035005219 Glycoprotease family; Region: Peptidase_M22; pfam00814 13035005220 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 13035005221 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 13035005222 GIY-YIG motif/motif A; other site 13035005223 active site 13035005224 catalytic site [active] 13035005225 putative DNA binding site [nucleotide binding]; other site 13035005226 metal binding site [ion binding]; metal-binding site 13035005227 UvrB/uvrC motif; Region: UVR; pfam02151 13035005228 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 13035005229 Helix-hairpin-helix motif; Region: HHH; pfam00633 13035005230 Uncharacterized protein conserved in bacteria (DUF2256); Region: DUF2256; pfam10013 13035005231 Methyltransferase domain; Region: Methyltransf_23; pfam13489 13035005232 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 13035005233 S-adenosylmethionine binding site [chemical binding]; other site 13035005234 Rubredoxin [Energy production and conversion]; Region: COG1773 13035005235 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 13035005236 iron binding site [ion binding]; other site 13035005237 Ycf48-like protein; Provisional; Region: PRK13684 13035005238 cytochrome b559 subunit alpha; Provisional; Region: psbE; PRK02557 13035005239 Cytochrome b559, alpha (gene psbE) and beta (gene psbF)subunits; Region: Cytochrom_B559; pfam00283 13035005240 Lumenal portion of Cytochrome b559, alpha (gene psbE) subunit; Region: Cytochrom_B559a; pfam00284 13035005241 cytochrome b559 subunit beta; Provisional; Region: psbF; PRK02561 13035005242 photosystem II reaction center L; Provisional; Region: psbL; PRK00753 13035005243 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 13035005244 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 13035005245 cofactor binding site; other site 13035005246 DNA binding site [nucleotide binding] 13035005247 substrate interaction site [chemical binding]; other site 13035005248 GTPase SAR1 and related small G proteins [General function prediction only]; Region: COG1100 13035005249 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 13035005250 G1 box; other site 13035005251 GTP/Mg2+ binding site [chemical binding]; other site 13035005252 Switch I region; other site 13035005253 G2 box; other site 13035005254 Switch II region; other site 13035005255 G3 box; other site 13035005256 G4 box; other site 13035005257 G5 box; other site 13035005258 Domain of unknown function (DUF697); Region: DUF697; pfam05128 13035005259 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 13035005260 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 13035005261 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 13035005262 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 13035005263 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 13035005264 C-terminal domain interface [polypeptide binding]; other site 13035005265 GSH binding site (G-site) [chemical binding]; other site 13035005266 dimer interface [polypeptide binding]; other site 13035005267 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 13035005268 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 13035005269 putative ribose interaction site [chemical binding]; other site 13035005270 putative ADP binding site [chemical binding]; other site 13035005271 mercuric reductase; Validated; Region: PRK06370 13035005272 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 13035005273 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 13035005274 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 13035005275 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 13035005276 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 13035005277 Walker A motif; other site 13035005278 ATP binding site [chemical binding]; other site 13035005279 methionine aminopeptidase; Provisional; Region: PRK08671 13035005280 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 13035005281 active site 13035005282 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 13035005283 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 13035005284 Walker A/P-loop; other site 13035005285 ATP binding site [chemical binding]; other site 13035005286 Q-loop/lid; other site 13035005287 ABC transporter signature motif; other site 13035005288 Walker B; other site 13035005289 D-loop; other site 13035005290 H-loop/switch region; other site 13035005291 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 13035005292 TPR motif; other site 13035005293 binding surface 13035005294 TPR repeat; Region: TPR_11; pfam13414 13035005295 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 13035005296 homodecamer interface [polypeptide binding]; other site 13035005297 GTP cyclohydrolase I; Provisional; Region: PLN03044 13035005298 active site 13035005299 putative catalytic site residues [active] 13035005300 zinc binding site [ion binding]; other site 13035005301 GTP-CH-I/GFRP interaction surface; other site 13035005302 short chain dehydrogenase; Provisional; Region: PRK07454 13035005303 classical (c) SDRs; Region: SDR_c; cd05233 13035005304 NAD(P) binding site [chemical binding]; other site 13035005305 active site 13035005306 ATP adenylyltransferase (5',5'''-P-1,P-4-tetraphosphate phosphorylase II) [Nucleotide transport and metabolism]; Region: APA2; COG4360 13035005307 ATP adenylyltransferase; Region: ATP_transf; pfam09830 13035005308 Ion transport protein; Region: Ion_trans; pfam00520 13035005309 Ion channel; Region: Ion_trans_2; pfam07885 13035005310 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 13035005311 Domain of unknown function DUF20; Region: UPF0118; pfam01594 13035005312 Response regulator receiver domain; Region: Response_reg; pfam00072 13035005313 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 13035005314 active site 13035005315 phosphorylation site [posttranslational modification] 13035005316 intermolecular recognition site; other site 13035005317 dimerization interface [polypeptide binding]; other site 13035005318 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 13035005319 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 13035005320 nucleotide binding site [chemical binding]; other site 13035005321 NEF interaction site [polypeptide binding]; other site 13035005322 SBD interface [polypeptide binding]; other site 13035005323 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 13035005324 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 13035005325 Ribonuclease P; Region: Ribonuclease_P; cl00457 13035005326 Bacterial PH domain; Region: DUF304; pfam03703 13035005327 putative inner membrane protein translocase component YidC; Provisional; Region: PRK02654 13035005328 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 13035005329 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 13035005330 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 13035005331 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 13035005332 G-X-X-G motif; other site 13035005333 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 13035005334 RxxxH motif; other site 13035005335 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 13035005336 Ycf46; Provisional; Region: ycf46; CHL00195 13035005337 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 13035005338 Walker A motif; other site 13035005339 ATP binding site [chemical binding]; other site 13035005340 Walker B motif; other site 13035005341 arginine finger; other site 13035005342 Bacterial SH3 domain; Region: SH3_3; cl17532 13035005343 LL-diaminopimelate aminotransferase; Provisional; Region: PRK09276 13035005344 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 13035005345 pyridoxal 5'-phosphate binding site [chemical binding]; other site 13035005346 homodimer interface [polypeptide binding]; other site 13035005347 catalytic residue [active] 13035005348 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 13035005349 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 13035005350 HflX GTPase family; Region: HflX; cd01878 13035005351 G1 box; other site 13035005352 GTP/Mg2+ binding site [chemical binding]; other site 13035005353 Switch I region; other site 13035005354 G2 box; other site 13035005355 G3 box; other site 13035005356 Switch II region; other site 13035005357 G4 box; other site 13035005358 G5 box; other site 13035005359 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 13035005360 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 13035005361 cobalamin binding residues [chemical binding]; other site 13035005362 putative BtuC binding residues; other site 13035005363 dimer interface [polypeptide binding]; other site 13035005364 Domain of unknown function (DUF4258); Region: DUF4258; pfam14076 13035005365 Protein of unknown function (DUF2283); Region: DUF2283; pfam10049 13035005366 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 13035005367 putative active site [active] 13035005368 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 13035005369 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 13035005370 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 13035005371 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 13035005372 ligand binding site [chemical binding]; other site 13035005373 flexible hinge region; other site 13035005374 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 13035005375 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 13035005376 Walker A motif; other site 13035005377 ATP binding site [chemical binding]; other site 13035005378 Walker B motif; other site 13035005379 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 13035005380 4Fe-4S binding domain; Region: Fer4_5; pfam12801 13035005381 4Fe-4S binding domain; Region: Fer4_5; pfam12801 13035005382 photosystem II 47 kDa protein; Region: psbB; CHL00062 13035005383 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 13035005384 photosystem II reaction center protein T; Reviewed; Region: psbT; PRK11875 13035005385 30S ribosomal protein S1; Reviewed; Region: PRK07400 13035005386 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 13035005387 RNA binding site [nucleotide binding]; other site 13035005388 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 13035005389 RNA binding site [nucleotide binding]; other site 13035005390 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 13035005391 RNA binding site [nucleotide binding]; other site 13035005392 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 13035005393 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 13035005394 motif II; other site 13035005395 S-adenosylmethionine synthetase; Validated; Region: PRK05250 13035005396 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 13035005397 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 13035005398 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 13035005399 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 13035005400 cobalt transport protein CbiM; Validated; Region: PRK06265 13035005401 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 13035005402 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 13035005403 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1649 13035005404 Homeodomain-like domain; Region: HTH_23; pfam13384 13035005405 Winged helix-turn helix; Region: HTH_29; pfam13551 13035005406 Homeodomain-like domain; Region: HTH_32; pfam13565 13035005407 DDE superfamily endonuclease; Region: DDE_3; pfam13358 13035005408 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 13035005409 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 13035005410 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 13035005411 putative active site [active] 13035005412 catalytic triad [active] 13035005413 putative dimer interface [polypeptide binding]; other site 13035005414 LabA_like proteins; Region: LabA; cd10911 13035005415 Uncharacterized conserved protein [Function unknown]; Region: COG1432 13035005416 putative metal binding site [ion binding]; other site 13035005417 2-isopropylmalate synthase; Validated; Region: PRK00915 13035005418 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 13035005419 active site 13035005420 catalytic residues [active] 13035005421 metal binding site [ion binding]; metal-binding site 13035005422 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 13035005423 Conserved TM helix; Region: TM_helix; pfam05552 13035005424 Conserved TM helix; Region: TM_helix; pfam05552 13035005425 Conserved TM helix; Region: TM_helix; pfam05552 13035005426 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 13035005427 hydrophobic ligand binding site; other site 13035005428 Uncharacterized conserved protein [Function unknown]; Region: COG2912 13035005429 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 13035005430 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 13035005431 TPR motif; other site 13035005432 binding surface 13035005433 recombination protein RecR; Reviewed; Region: recR; PRK00076 13035005434 Helix-hairpin-helix DNA-binding motif class 1; Region: HhH1; smart00278 13035005435 RecR protein; Region: RecR; pfam02132 13035005436 TOPRIM_recR: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in Escherichia coli RecR. RecR participates in the RecFOR pathway of homologous recombinational repair in prokaryotes. This pathway provides a...; Region: TOPRIM_recR; cd01025 13035005437 putative active site [active] 13035005438 putative metal-binding site [ion binding]; other site 13035005439 tetramer interface [polypeptide binding]; other site 13035005440 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14096 13035005441 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 13035005442 active site 13035005443 dimer interface [polypeptide binding]; other site 13035005444 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 13035005445 dimer interface [polypeptide binding]; other site 13035005446 active site 13035005447 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 13035005448 putative active site [active] 13035005449 Predicted membrane protein [Function unknown]; Region: COG3463 13035005450 Predicted membrane protein (DUF2079); Region: DUF2079; pfam09852 13035005451 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 13035005452 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 13035005453 catalytic residues [active] 13035005454 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 13035005455 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 13035005456 non-specific DNA binding site [nucleotide binding]; other site 13035005457 salt bridge; other site 13035005458 sequence-specific DNA binding site [nucleotide binding]; other site 13035005459 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 13035005460 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 13035005461 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 13035005462 putative active site [active] 13035005463 putative NTP binding site [chemical binding]; other site 13035005464 putative nucleic acid binding site [nucleotide binding]; other site 13035005465 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 13035005466 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 13035005467 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 13035005468 active site 13035005469 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 13035005470 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 13035005471 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 13035005472 Protein of unknown function DUF45; Region: DUF45; pfam01863 13035005473 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 13035005474 non-specific DNA binding site [nucleotide binding]; other site 13035005475 salt bridge; other site 13035005476 sequence-specific DNA binding site [nucleotide binding]; other site 13035005477 Helix-turn-helix domain; Region: HTH_36; pfam13730 13035005478 ParB-like nuclease domain; Region: ParBc; cl02129 13035005479 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 13035005480 active site 13035005481 glucokinase; Provisional; Region: glk; PRK00292 13035005482 glucokinase, proteobacterial type; Region: glk; TIGR00749 13035005483 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 13035005484 catalytic core [active] 13035005485 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 13035005486 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 13035005487 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 13035005488 catalytic residue [active] 13035005489 Protein of unknown function (DUF3529); Region: DUF3529; pfam12046 13035005490 Predicted transcriptional regulators [Transcription]; Region: COG1695 13035005491 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 13035005492 Protein of unknown function (DUF3611); Region: DUF3611; pfam12263 13035005493 seryl-tRNA synthetase; Provisional; Region: PRK05431 13035005494 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 13035005495 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 13035005496 dimer interface [polypeptide binding]; other site 13035005497 active site 13035005498 motif 1; other site 13035005499 motif 2; other site 13035005500 motif 3; other site 13035005501 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 13035005502 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 13035005503 active site 13035005504 phosphorylation site [posttranslational modification] 13035005505 intermolecular recognition site; other site 13035005506 dimerization interface [polypeptide binding]; other site 13035005507 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 13035005508 DNA binding residues [nucleotide binding] 13035005509 dimerization interface [polypeptide binding]; other site 13035005510 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 13035005511 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 13035005512 Probable transposase; Region: OrfB_IS605; pfam01385 13035005513 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 13035005514 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 13035005515 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 13035005516 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 13035005517 calcium mediated ligand binding site; other site 13035005518 intermolecular salt bridges; other site 13035005519 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 13035005520 calcium mediated ligand binding site; other site 13035005521 intermolecular salt bridges; other site 13035005522 Protein of unknown function (DUF760); Region: DUF760; pfam05542 13035005523 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 13035005524 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 13035005525 minor groove reading motif; other site 13035005526 helix-hairpin-helix signature motif; other site 13035005527 substrate binding pocket [chemical binding]; other site 13035005528 active site 13035005529 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 13035005530 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 13035005531 active site 13035005532 8-oxo-dGMP binding site [chemical binding]; other site 13035005533 nudix motif; other site 13035005534 metal binding site [ion binding]; metal-binding site 13035005535 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 13035005536 Mechanosensitive ion channel; Region: MS_channel; pfam00924 13035005537 glycine betaine transporter periplasmic subunit; Provisional; Region: proX; PRK11119 13035005538 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 13035005539 RNA methyltransferase, RsmE family; Region: TIGR00046 13035005540 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 13035005541 Domain of unknown function (DUF1887); Region: DUF1887; pfam09002 13035005542 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 13035005543 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 13035005544 FMN binding site [chemical binding]; other site 13035005545 substrate binding site [chemical binding]; other site 13035005546 putative catalytic residue [active] 13035005547 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 13035005548 Protein phosphatase 2C; Region: PP2C; pfam00481 13035005549 active site 13035005550 Cyanobacterial and plastid NDH-1 subunit M; Region: NdhM; pfam10664 13035005551 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 13035005552 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 13035005553 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 13035005554 putative active site [active] 13035005555 oxyanion strand; other site 13035005556 catalytic triad [active] 13035005557 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); Region: MPN_like; cd08070 13035005558 MPN+ (JAMM) motif; other site 13035005559 Zinc-binding site [ion binding]; other site 13035005560 hypothetical protein; Validated; Region: PRK07411 13035005561 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 13035005562 ATP binding site [chemical binding]; other site 13035005563 substrate interface [chemical binding]; other site 13035005564 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 13035005565 active site residue [active] 13035005566 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 13035005567 feedback inhibition sensing region; other site 13035005568 homohexameric interface [polypeptide binding]; other site 13035005569 nucleotide binding site [chemical binding]; other site 13035005570 N-acetyl-L-glutamate binding site [chemical binding]; other site 13035005571 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 13035005572 putative active site [active] 13035005573 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 13035005574 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 13035005575 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 13035005576 putative active site [active] 13035005577 putative NTP binding site [chemical binding]; other site 13035005578 putative nucleic acid binding site [nucleotide binding]; other site 13035005579 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 13035005580 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 13035005581 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 13035005582 active site 13035005583 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 13035005584 putative active site [active] 13035005585 Uncharacterized conserved protein [Function unknown]; Region: COG1615 13035005586 Uncharacterized protein family (UPF0182); Region: UPF0182; pfam03699 13035005587 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 13035005588 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 13035005589 S-adenosylmethionine binding site [chemical binding]; other site 13035005590 Predicted RNA-binding protein, contains TRAM domain [General function prediction only]; Region: COG3269 13035005591 23S rRNA (uracil-5-)-methyltransferase RumA; Region: rumA; TIGR00479 13035005592 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 13035005593 S-adenosylmethionine binding site [chemical binding]; other site 13035005594 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 13035005595 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 13035005596 FOG: CBS domain [General function prediction only]; Region: COG0517 13035005597 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_17; cd04630 13035005598 CP12 domain; Region: CP12; pfam02672 13035005599 Restriction endonuclease; Region: Mrr_cat; pfam04471 13035005600 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 13035005601 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 13035005602 substrate binding site [chemical binding]; other site 13035005603 ligand binding site [chemical binding]; other site 13035005604 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 13035005605 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 13035005606 substrate binding site [chemical binding]; other site 13035005607 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 13035005608 tetramer (dimer of dimers) interface [polypeptide binding]; other site 13035005609 active site 13035005610 dimer interface [polypeptide binding]; other site 13035005611 methionine sulfoxide reductase A; Provisional; Region: PRK00058 13035005612 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 13035005613 DHH family; Region: DHH; pfam01368 13035005614 Membrane protein of unknown function; Region: DUF360; pfam04020 13035005615 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 13035005616 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 13035005617 protein binding site [polypeptide binding]; other site 13035005618 lipoyl synthase; Provisional; Region: PRK05481 13035005619 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 13035005620 FeS/SAM binding site; other site 13035005621 nickel responsive regulator; Provisional; Region: PRK02967 13035005622 PemK-like protein; Region: PemK; pfam02452 13035005623 Right handed beta helix region; Region: Beta_helix; pfam13229 13035005624 VCBS repeat; Region: VCBS_repeat; TIGR01965 13035005625 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 13035005626 adenylosuccinate lyase; Provisional; Region: PRK07380 13035005627 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 13035005628 tetramer interface [polypeptide binding]; other site 13035005629 active site 13035005630 Adenylosuccinate lyase C-terminus; Region: ADSL_C; smart00998 13035005631 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 13035005632 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 13035005633 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 13035005634 metal binding site [ion binding]; metal-binding site 13035005635 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 13035005636 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 13035005637 Walker A/P-loop; other site 13035005638 ATP binding site [chemical binding]; other site 13035005639 Q-loop/lid; other site 13035005640 ABC transporter signature motif; other site 13035005641 Walker B; other site 13035005642 D-loop; other site 13035005643 H-loop/switch region; other site 13035005644 OstA-like protein; Region: OstA; cl00844 13035005645 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 13035005646 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 13035005647 dimer interface [polypeptide binding]; other site 13035005648 conserved gate region; other site 13035005649 putative PBP binding loops; other site 13035005650 ABC-ATPase subunit interface; other site 13035005651 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 13035005652 dinuclear metal binding motif [ion binding]; other site 13035005653 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 13035005654 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 13035005655 NAD(P) binding site [chemical binding]; other site 13035005656 active site 13035005657 acyl-ACP reductase; Provisional; Region: PRK14982 13035005658 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 13035005659 NAD(P) binding pocket [chemical binding]; other site 13035005660 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 13035005661 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 13035005662 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 13035005663 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 13035005664 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 13035005665 AbrB-like transcriptional regulator; Region: AbrB-like; pfam14250 13035005666 Predicted transcriptional regulator [Transcription]; Region: COG1959 13035005667 Transcriptional regulator; Region: Rrf2; cl17282 13035005668 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 13035005669 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 13035005670 putative active site [active] 13035005671 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 13035005672 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 13035005673 inhibitor-cofactor binding pocket; inhibition site 13035005674 pyridoxal 5'-phosphate binding site [chemical binding]; other site 13035005675 catalytic residue [active] 13035005676 Sialic acid synthase [Cell envelope biogenesis, outer membrane]; Region: SpsE; COG2089 13035005677 NeuB family; Region: NeuB; pfam03102 13035005678 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 13035005679 NeuB binding interface [polypeptide binding]; other site 13035005680 putative substrate binding site [chemical binding]; other site 13035005681 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 13035005682 ligand binding site; other site 13035005683 tetramer interface; other site 13035005684 Domain of unknown function DUF29; Region: DUF29; pfam01724 13035005685 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 13035005686 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 13035005687 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 13035005688 Uncharacterized protein family (UPF0175); Region: UPF0175; pfam03683 13035005689 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 13035005690 active site 13035005691 NTP binding site [chemical binding]; other site 13035005692 metal binding triad [ion binding]; metal-binding site 13035005693 antibiotic binding site [chemical binding]; other site 13035005694 Protein of unknown function DUF86; Region: DUF86; cl01031 13035005695 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 13035005696 active site 13035005697 NTP binding site [chemical binding]; other site 13035005698 metal binding triad [ion binding]; metal-binding site 13035005699 antibiotic binding site [chemical binding]; other site 13035005700 Domain of unknown function DUF29; Region: DUF29; pfam01724 13035005701 Uncharacterized conserved protein [Function unknown]; Region: COG5464 13035005702 Domain of unknown function (DUF4351); Region: DUF4351; pfam14261 13035005703 pseudaminic acid biosynthesis N-acetyl transferase; Region: PseH; TIGR03585 13035005704 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 13035005705 Formyltransferase, catalytic core domain; Region: FMT_core; cd08369 13035005706 active site 13035005707 cosubstrate binding site; other site 13035005708 substrate binding site [chemical binding]; other site 13035005709 catalytic site [active] 13035005710 Domain of unknown function DUF29; Region: DUF29; pfam01724 13035005711 UGMP family protein; Validated; Region: PRK09604 13035005712 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 13035005713 Photosystem I reaction centre subunit III; Region: PSI_PsaF; cl03627 13035005714 Photosystem I reaction centre subunit IX / PsaJ; Region: PSI_PsaJ; cl03320 13035005715 FAD dependent oxidoreductase; Region: DAO; pfam01266 13035005716 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 13035005717 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 13035005718 Carbon dioxide concentrating mechanism (CcmK); Bacterial Micro-Compartment (BCM) domain; Region: BMC_CcmK; cd07057 13035005719 Hexamer interface [polypeptide binding]; other site 13035005720 Hexagonal pore residue; other site 13035005721 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 13035005722 Carbon dioxide concentrating mechanism (CcmK); Bacterial Micro-Compartment (BCM) domain; Region: BMC_CcmK; cd07057 13035005723 Hexamer interface [polypeptide binding]; other site 13035005724 Hexagonal pore residue; other site 13035005725 valine--pyruvate transaminase; Provisional; Region: avtA; PRK09440 13035005726 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 13035005727 pyridoxal 5'-phosphate binding site [chemical binding]; other site 13035005728 homodimer interface [polypeptide binding]; other site 13035005729 catalytic residue [active] 13035005730 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 13035005731 Ca2+ binding site [ion binding]; other site 13035005732 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 13035005733 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 13035005734 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 13035005735 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 13035005736 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 13035005737 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 13035005738 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 13035005739 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 13035005740 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 13035005741 Ligand Binding Site [chemical binding]; other site 13035005742 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 13035005743 phosphate/phosphite/phosphonate ABC transporters, periplasmic binding protein; Region: 3A0109s03R; TIGR01098 13035005744 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 13035005745 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 13035005746 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 13035005747 Walker A/P-loop; other site 13035005748 ATP binding site [chemical binding]; other site 13035005749 Q-loop/lid; other site 13035005750 ABC transporter signature motif; other site 13035005751 Walker B; other site 13035005752 D-loop; other site 13035005753 H-loop/switch region; other site 13035005754 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 13035005755 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 13035005756 dimer interface [polypeptide binding]; other site 13035005757 conserved gate region; other site 13035005758 ABC-ATPase subunit interface; other site 13035005759 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 13035005760 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 13035005761 dimer interface [polypeptide binding]; other site 13035005762 conserved gate region; other site 13035005763 ABC-ATPase subunit interface; other site 13035005764 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 13035005765 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 13035005766 ligand binding site [chemical binding]; other site 13035005767 amidase; Provisional; Region: PRK09201 13035005768 Amidase; Region: Amidase; cl11426 13035005769 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 13035005770 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 13035005771 Probable transposase; Region: OrfB_IS605; pfam01385 13035005772 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 13035005773 Dehydroquinase class II; Region: DHquinase_II; pfam01220 13035005774 trimer interface [polypeptide binding]; other site 13035005775 active site 13035005776 dimer interface [polypeptide binding]; other site 13035005777 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 13035005778 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 13035005779 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 13035005780 Zn2+ binding site [ion binding]; other site 13035005781 Mg2+ binding site [ion binding]; other site 13035005782 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 13035005783 catalytic residues [active] 13035005784 Uncharacterized protein family (UPF0175); Region: UPF0175; cl01085 13035005785 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 13035005786 AAA domain; Region: AAA_33; pfam13671 13035005787 active site 13035005788 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 13035005789 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 13035005790 active site 13035005791 metal binding site [ion binding]; metal-binding site 13035005792 Domain of unknown function DUF29; Region: DUF29; pfam01724 13035005793 HAS barrel domain; Region: HAS-barrel; pfam09378 13035005794 HerA helicase [Replication, recombination, and repair]; Region: COG0433 13035005795 Domain of unknown function DUF87; Region: DUF87; pfam01935 13035005796 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 13035005797 dimerization interface [polypeptide binding]; other site 13035005798 putative DNA binding site [nucleotide binding]; other site 13035005799 putative Zn2+ binding site [ion binding]; other site 13035005800 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 13035005801 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 13035005802 binding surface 13035005803 TPR motif; other site 13035005804 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 13035005805 TPR motif; other site 13035005806 binding surface 13035005807 Tetratricopeptide repeat; Region: TPR_12; pfam13424 13035005808 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4995 13035005809 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 13035005810 filamentous hemagglutinin family N-terminal domain; Region: adhes_NPXG; TIGR01901 13035005811 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 13035005812 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 13035005813 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 13035005814 Surface antigen; Region: Bac_surface_Ag; pfam01103 13035005815 DHH family; Region: DHH; pfam01368 13035005816 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 13035005817 FOG: CBS domain [General function prediction only]; Region: COG0517 13035005818 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 13035005819 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 13035005820 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 13035005821 active site 13035005822 NTP binding site [chemical binding]; other site 13035005823 metal binding triad [ion binding]; metal-binding site 13035005824 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 13035005825 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 13035005826 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 13035005827 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 13035005828 N-acetyl-D-glucosamine binding site [chemical binding]; other site 13035005829 catalytic residue [active] 13035005830 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 13035005831 Protein of unknown function (DUF1092); Region: DUF1092; pfam06485 13035005832 Methyltransferase domain; Region: Methyltransf_23; pfam13489 13035005833 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 13035005834 S-adenosylmethionine binding site [chemical binding]; other site 13035005835 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 13035005836 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 13035005837 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 13035005838 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 13035005839 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 13035005840 NAD(P) binding site [chemical binding]; other site 13035005841 active site 13035005842 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; cl17442 13035005843 protein-splicing catalytic site; other site 13035005844 thioester formation/cholesterol transfer; other site 13035005845 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 13035005846 active site 13035005847 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 13035005848 protein-splicing catalytic site; other site 13035005849 thioester formation/cholesterol transfer; other site 13035005850 Intein/homing endonuclease [DNA replication, recombination, and repair]; Region: COG1372 13035005851 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 13035005852 protein-splicing catalytic site; other site 13035005853 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 13035005854 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 13035005855 Domain of unknown function (DUF4351); Region: DUF4351; pfam14261 13035005856 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 13035005857 Homeodomain-like domain; Region: HTH_23; pfam13384 13035005858 Winged helix-turn helix; Region: HTH_29; pfam13551 13035005859 Homeodomain-like domain; Region: HTH_32; pfam13565 13035005860 DDE superfamily endonuclease; Region: DDE_3; pfam13358 13035005861 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 13035005862 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 13035005863 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 13035005864 putative active site [active] 13035005865 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 13035005866 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 13035005867 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 13035005868 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 13035005869 Mechanosensitive ion channel; Region: MS_channel; pfam00924 13035005870 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 13035005871 Mechanosensitive ion channel; Region: MS_channel; pfam00924 13035005872 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 13035005873 Mechanosensitive ion channel; Region: MS_channel; pfam00924 13035005874 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 13035005875 metal binding site 2 [ion binding]; metal-binding site 13035005876 putative DNA binding helix; other site 13035005877 metal binding site 1 [ion binding]; metal-binding site 13035005878 dimer interface [polypeptide binding]; other site 13035005879 structural Zn2+ binding site [ion binding]; other site 13035005880 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 13035005881 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 13035005882 FeS/SAM binding site; other site 13035005883 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 13035005884 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 13035005885 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 13035005886 putative active site [active] 13035005887 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 13035005888 von Willebrand factor type D domain; Region: VWD; cl02516 13035005889 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 13035005890 Ca2+ binding site [ion binding]; other site 13035005891 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 13035005892 Ca2+ binding site [ion binding]; other site 13035005893 VCBS repeat; Region: VCBS_repeat; TIGR01965 13035005894 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 13035005895 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 13035005896 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 13035005897 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like; cd07473 13035005898 catalytic triad [active] 13035005899 putative active site [active] 13035005900 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 13035005901 Major Facilitator Superfamily; Region: MFS_1; pfam07690 13035005902 putative substrate translocation pore; other site 13035005903 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 13035005904 Retinal pigment epithelial membrane protein; Region: RPE65; pfam03055 13035005905 MSMEG_0570 family protein; Region: MSMEG_0570_fam; TIGR04042 13035005906 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 13035005907 SnoaL-like domain; Region: SnoaL_2; pfam12680 13035005908 AIR synthase-related protein, sll0787 family; Region: AIR_rel_sll0787; TIGR04049 13035005909 AIR synthase (PurM) related protein, subgroup 3 of unknown function. The family of PurM related proteins includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM synthase and Selenophosphate synthetase (SelD). They all contain two...; Region: PurM-like3; cd02192 13035005910 dimerization interface [polypeptide binding]; other site 13035005911 putative ATP binding site [chemical binding]; other site 13035005912 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 13035005913 Coenzyme A binding pocket [chemical binding]; other site 13035005914 radical SAM protein, MSMEG_0568 family; Region: rSAM_MSMEG_0568; TIGR04043 13035005915 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 13035005916 FeS/SAM binding site; other site 13035005917 Predicted amidohydrolase [General function prediction only]; Region: COG0388 13035005918 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 13035005919 putative active site [active] 13035005920 catalytic triad [active] 13035005921 putative dimer interface [polypeptide binding]; other site 13035005922 MSMEG_0572 family protein; Region: MSMEG_0572_fam; TIGR04044 13035005923 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 13035005924 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 13035005925 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 13035005926 GAF domain; Region: GAF; pfam01590 13035005927 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 13035005928 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 13035005929 DNA binding residues [nucleotide binding] 13035005930 dimerization interface [polypeptide binding]; other site 13035005931 Uncharacterized conserved protein [Function unknown]; Region: COG1565 13035005932 phosphoenolpyruvate synthase; Region: PEP_synth; TIGR01418 13035005933 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 13035005934 Phosphohistidine swiveling domain [Signal transduction mechanisms]; Region: COG3848 13035005935 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 13035005936 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 13035005937 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 13035005938 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 13035005939 EamA-like transporter family; Region: EamA; pfam00892 13035005940 RNA polymerase sigma factor; Validated; Region: PRK05949 13035005941 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 13035005942 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 13035005943 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 13035005944 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 13035005945 DNA binding residues [nucleotide binding] 13035005946 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 13035005947 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 13035005948 HSP70 interaction site [polypeptide binding]; other site 13035005949 TPR repeat; Region: TPR_11; pfam13414 13035005950 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 13035005951 TPR motif; other site 13035005952 binding surface 13035005953 TPR repeat; Region: TPR_11; pfam13414 13035005954 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 13035005955 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 13035005956 active site 13035005957 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 13035005958 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 13035005959 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 13035005960 Inter-Src homology 2 (iSH2) helical domain of Class IA Phosphoinositide 3-kinase Regulatory subunits; Region: iSH2_PI3K_IA_R; cl17108 13035005961 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 13035005962 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 13035005963 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 13035005964 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 13035005965 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 13035005966 Mg++ binding site [ion binding]; other site 13035005967 putative catalytic motif [active] 13035005968 putative substrate binding site [chemical binding]; other site 13035005969 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 13035005970 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 13035005971 putative substrate translocation pore; other site 13035005972 transposase, putative, N-terminal domain; Region: tspaseT_teng_N; TIGR01765 13035005973 Probable transposase; Region: OrfB_IS605; pfam01385 13035005974 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 13035005975 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 13035005976 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 13035005977 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 13035005978 catalytic site [active] 13035005979 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 13035005980 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 13035005981 Peptidase family M23; Region: Peptidase_M23; pfam01551 13035005982 prolyl-tRNA synthetase; Provisional; Region: PRK09194 13035005983 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 13035005984 dimer interface [polypeptide binding]; other site 13035005985 motif 1; other site 13035005986 active site 13035005987 motif 2; other site 13035005988 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 13035005989 putative deacylase active site [active] 13035005990 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 13035005991 active site 13035005992 motif 3; other site 13035005993 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 13035005994 anticodon binding site; other site 13035005995 Domain of unknown function (DUF1832); Region: DUF1832; pfam08870 13035005996 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 13035005997 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 13035005998 Photosystem II Pbs27; Region: PSII_Pbs27; cl11841 13035005999 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 13035006000 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 13035006001 E3 interaction surface; other site 13035006002 lipoyl attachment site [posttranslational modification]; other site 13035006003 e3 binding domain; Region: E3_binding; pfam02817 13035006004 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 13035006005 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 13035006006 Domain of unknown function DUF20; Region: UPF0118; pfam01594 13035006007 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 13035006008 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: MGAT-like; Region: LPLAT_MGAT-like; cd07987 13035006009 putative acyl-acceptor binding pocket; other site 13035006010 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 13035006011 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 13035006012 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 13035006013 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 13035006014 Protein of unknown function (DUF1565); Region: DUF1565; pfam07602 13035006015 Response regulator receiver domain; Region: Response_reg; pfam00072 13035006016 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 13035006017 active site 13035006018 phosphorylation site [posttranslational modification] 13035006019 intermolecular recognition site; other site 13035006020 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 13035006021 dimerization interface [polypeptide binding]; other site 13035006022 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 13035006023 dimer interface [polypeptide binding]; other site 13035006024 phosphorylation site [posttranslational modification] 13035006025 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 13035006026 ATP binding site [chemical binding]; other site 13035006027 Mg2+ binding site [ion binding]; other site 13035006028 G-X-G motif; other site 13035006029 Cytochrome B6-F complex subunit 5; Region: PetG; cl03637 13035006030 Cytochrome c; Region: Cytochrom_C; pfam00034 13035006031 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 13035006032 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 13035006033 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 13035006034 Walker A/P-loop; other site 13035006035 ATP binding site [chemical binding]; other site 13035006036 Q-loop/lid; other site 13035006037 ABC transporter signature motif; other site 13035006038 Walker B; other site 13035006039 D-loop; other site 13035006040 H-loop/switch region; other site 13035006041 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 13035006042 RimM N-terminal domain; Region: RimM; pfam01782 13035006043 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 13035006044 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 13035006045 interchain domain interface [polypeptide binding]; other site 13035006046 intrachain domain interface; other site 13035006047 Qi binding site; other site 13035006048 Qo binding site; other site 13035006049 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 13035006050 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 13035006051 Qi binding site; other site 13035006052 intrachain domain interface; other site 13035006053 interchain domain interface [polypeptide binding]; other site 13035006054 heme bH binding site [chemical binding]; other site 13035006055 heme bL binding site [chemical binding]; other site 13035006056 Qo binding site; other site 13035006057 carboxyl-terminal processing protease; Provisional; Region: PLN00049 13035006058 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 13035006059 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 13035006060 protein binding site [polypeptide binding]; other site 13035006061 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 13035006062 Catalytic dyad [active] 13035006063 Lipid A disaccharide synthetase [Cell envelope biogenesis, outer membrane]; Region: LpxB; COG0763 13035006064 Psb28 protein; Region: Psb28; cl04326 13035006065 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 13035006066 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 13035006067 putative active site [active] 13035006068 Uncharacterized conserved protein [Function unknown]; Region: COG2928 13035006069 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 13035006070 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 13035006071 Coenzyme A binding pocket [chemical binding]; other site 13035006072 Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452 13035006073 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 13035006074 DNA binding residues [nucleotide binding] 13035006075 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 13035006076 catalytic residues [active] 13035006077 catalytic nucleophile [active] 13035006078 Uncharacterized protein, putative amidase [General function prediction only]; Region: COG1402 13035006079 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 13035006080 active site residue [active] 13035006081 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 13035006082 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 13035006083 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 13035006084 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 13035006085 dihydrodipicolinate synthase; Region: dapA; TIGR00674 13035006086 dimer interface [polypeptide binding]; other site 13035006087 active site 13035006088 catalytic residue [active] 13035006089 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 13035006090 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 13035006091 trigger factor; Provisional; Region: tig; PRK01490 13035006092 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 13035006093 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 13035006094 Clp protease; Region: CLP_protease; pfam00574 13035006095 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 13035006096 oligomer interface [polypeptide binding]; other site 13035006097 active site residues [active] 13035006098 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 13035006099 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 13035006100 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 13035006101 Walker A motif; other site 13035006102 ATP binding site [chemical binding]; other site 13035006103 Walker B motif; other site 13035006104 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 13035006105 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 13035006106 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 13035006107 catalytic residues [active] 13035006108 succinyldiaminopimelate transaminase; Validated; Region: PRK07366 13035006109 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 13035006110 pyridoxal 5'-phosphate binding site [chemical binding]; other site 13035006111 homodimer interface [polypeptide binding]; other site 13035006112 catalytic residue [active] 13035006113 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 13035006114 DNA binding residues [nucleotide binding] 13035006115 Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452 13035006116 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 13035006117 catalytic residues [active] 13035006118 catalytic nucleophile [active] 13035006119 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 13035006120 Probable transposase; Region: OrfB_IS605; pfam01385 13035006121 glycogen branching enzyme; Provisional; Region: PRK05402 13035006122 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 13035006123 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 13035006124 active site 13035006125 catalytic site [active] 13035006126 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 13035006127 Response regulator receiver domain; Region: Response_reg; pfam00072 13035006128 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 13035006129 active site 13035006130 phosphorylation site [posttranslational modification] 13035006131 intermolecular recognition site; other site 13035006132 dimerization interface [polypeptide binding]; other site 13035006133 Protein of unknown function (DUF3685); Region: DUF3685; pfam12452 13035006134 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 13035006135 GSH binding site [chemical binding]; other site 13035006136 catalytic residues [active] 13035006137 Protein of unknown function (DUF1292); Region: DUF1292; pfam06949 13035006138 Protein of unknown function (DUF3727); Region: DUF3727; pfam12527 13035006139 Domain of unknown function (DUF1824); Region: DUF1824; pfam08854 13035006140 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 13035006141 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 13035006142 catalytic loop [active] 13035006143 iron binding site [ion binding]; other site 13035006144 cobyric acid synthase; Provisional; Region: PRK00784 13035006145 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 13035006146 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 13035006147 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 13035006148 catalytic triad [active] 13035006149 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 13035006150 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 13035006151 Sulfate transporter family; Region: Sulfate_transp; pfam00916 13035006152 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 13035006153 sulfite reductase subunit beta; Provisional; Region: PRK13504 13035006154 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 13035006155 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 13035006156 ParG; Region: ParG; pfam09274 13035006157 Predicted membrane protein [Function unknown]; Region: COG1971 13035006158 Domain of unknown function DUF; Region: DUF204; pfam02659 13035006159 Domain of unknown function DUF; Region: DUF204; pfam02659 13035006160 Peptidase S8 family domain in Thermitase-like proteins; Region: Peptidases_S8_Thermitase_like; cd07484 13035006161 active site 13035006162 catalytic triad [active] 13035006163 Uncharacterized conserved protein [Function unknown]; Region: COG1479 13035006164 Protein of unknown function DUF262; Region: DUF262; pfam03235 13035006165 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 13035006166 bifunctional pantoate ligase/cytidylate kinase; Provisional; Region: PRK13477 13035006167 Pantoate-beta-alanine ligase; Region: PanC; cd00560 13035006168 active site 13035006169 ATP-binding site [chemical binding]; other site 13035006170 pantoate-binding site; other site 13035006171 HXXH motif; other site 13035006172 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 13035006173 CMP-binding site; other site 13035006174 The sites determining sugar specificity; other site 13035006175 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 13035006176 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 13035006177 ligand binding site [chemical binding]; other site 13035006178 flexible hinge region; other site 13035006179 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 13035006180 putative switch regulator; other site 13035006181 non-specific DNA interactions [nucleotide binding]; other site 13035006182 DNA binding site [nucleotide binding] 13035006183 sequence specific DNA binding site [nucleotide binding]; other site 13035006184 putative cAMP binding site [chemical binding]; other site 13035006185 Uncharacterized protein conserved in bacteria with the myosin-like domain [Function unknown]; Region: COG4372 13035006186 Protein of unknown function (DUF3084); Region: DUF3084; pfam11283 13035006187 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 13035006188 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 13035006189 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 13035006190 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 13035006191 phosphate binding site [ion binding]; other site 13035006192 putative substrate binding pocket [chemical binding]; other site 13035006193 dimer interface [polypeptide binding]; other site 13035006194 Major Facilitator Superfamily; Region: MFS_1; pfam07690 13035006195 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 13035006196 putative substrate translocation pore; other site 13035006197 HEAT repeats; Region: HEAT_2; pfam13646 13035006198 HEAT repeats; Region: HEAT_2; pfam13646 13035006199 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 13035006200 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 13035006201 ligand binding site [chemical binding]; other site 13035006202 flexible hinge region; other site 13035006203 XisI protein; Region: XisI; pfam08869 13035006204 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 13035006205 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 13035006206 active site 13035006207 catalytic tetrad [active] 13035006208 Protein of unknown function (DUF4230); Region: DUF4230; pfam14014 13035006209 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 13035006210 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 13035006211 homodimer interface [polypeptide binding]; other site 13035006212 Walker A motif; other site 13035006213 ATP binding site [chemical binding]; other site 13035006214 hydroxycobalamin binding site [chemical binding]; other site 13035006215 Walker B motif; other site 13035006216 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 13035006217 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 13035006218 putative C-terminal domain interface [polypeptide binding]; other site 13035006219 putative GSH binding site (G-site) [chemical binding]; other site 13035006220 putative dimer interface [polypeptide binding]; other site 13035006221 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 13035006222 dimer interface [polypeptide binding]; other site 13035006223 N-terminal domain interface [polypeptide binding]; other site 13035006224 substrate binding pocket (H-site) [chemical binding]; other site 13035006225 hypothetical protein; Reviewed; Region: PRK00024 13035006226 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 13035006227 MPN+ (JAMM) motif; other site 13035006228 Zinc-binding site [ion binding]; other site 13035006229 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 13035006230 putative active site [active] 13035006231 Type IV pilin PilA; Region: Pilin_PilA; pfam14245 13035006232 Type IV pilin PilA; Region: Pilin_PilA; pfam14245 13035006233 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 13035006234 O-Antigen ligase; Region: Wzy_C; pfam04932 13035006235 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 13035006236 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 13035006237 oligomeric interface; other site 13035006238 putative active site [active] 13035006239 homodimer interface [polypeptide binding]; other site 13035006240 Protein of unknown function (DUF2283); Region: DUF2283; pfam10049 13035006241 Uncharacterized conserved protein [Function unknown]; Region: COG5607 13035006242 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 13035006243 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 13035006244 acyl-activating enzyme (AAE) consensus motif; other site 13035006245 putative AMP binding site [chemical binding]; other site 13035006246 putative active site [active] 13035006247 putative CoA binding site [chemical binding]; other site 13035006248 Protein of unknown function (DUF2869); Region: DUF2869; pfam11068 13035006249 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 13035006250 nitrilase; Region: PLN02798 13035006251 putative active site [active] 13035006252 catalytic triad [active] 13035006253 dimer interface [polypeptide binding]; other site 13035006254 Protein of unknown function (DUF1092); Region: DUF1092; pfam06485 13035006255 Sensory domain found in DIguanylate Cyclases & Two-component systems; Region: DICT; cl01731 13035006256 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 13035006257 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 13035006258 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 13035006259 dimer interface [polypeptide binding]; other site 13035006260 phosphorylation site [posttranslational modification] 13035006261 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 13035006262 ATP binding site [chemical binding]; other site 13035006263 Mg2+ binding site [ion binding]; other site 13035006264 G-X-G motif; other site 13035006265 Protein of unknown function (DUF433); Region: DUF433; pfam04255 13035006266 phosphoglucomutase; Region: PLN02307 13035006267 Phosphoglucomutase 1 (PGM1) catalyzes the bidirectional interconversion of glucose-1-phosphate (G-1-P) and glucose-6-phosphate (G-6-P) via a glucose 1,6-diphosphate intermediate, an important metabolic step in prokaryotes and eukaryotes. In one direction; Region: PGM1; cd03085 13035006268 substrate binding site [chemical binding]; other site 13035006269 dimer interface [polypeptide binding]; other site 13035006270 active site 13035006271 metal binding site [ion binding]; metal-binding site 13035006272 Uncharacterized conserved protein [Function unknown]; Region: COG0759 13035006273 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 13035006274 putative DNA binding site [nucleotide binding]; other site 13035006275 putative Zn2+ binding site [ion binding]; other site 13035006276 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 13035006277 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 13035006278 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 13035006279 active site 13035006280 catalytic site [active] 13035006281 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 13035006282 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 13035006283 cofactor binding site; other site 13035006284 DNA binding site [nucleotide binding] 13035006285 substrate interaction site [chemical binding]; other site 13035006286 AAA domain; Region: AAA_22; pfam13401 13035006287 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 13035006288 ATP binding site [chemical binding]; other site 13035006289 putative Mg++ binding site [ion binding]; other site 13035006290 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 13035006291 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 13035006292 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 13035006293 nucleotide binding region [chemical binding]; other site 13035006294 ATP-binding site [chemical binding]; other site 13035006295 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 13035006296 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 13035006297 putative substrate binding site [chemical binding]; other site 13035006298 putative ATP binding site [chemical binding]; other site 13035006299 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 13035006300 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 13035006301 active site 13035006302 phosphorylation site [posttranslational modification] 13035006303 intermolecular recognition site; other site 13035006304 dimerization interface [polypeptide binding]; other site 13035006305 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 13035006306 DNA binding residues [nucleotide binding] 13035006307 dimerization interface [polypeptide binding]; other site 13035006308 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 13035006309 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 13035006310 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 13035006311 active site 13035006312 metal binding site [ion binding]; metal-binding site 13035006313 DNA binding site [nucleotide binding] 13035006314 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 13035006315 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 13035006316 Active Sites [active] 13035006317 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 13035006318 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 13035006319 active site 13035006320 catalytic site [active] 13035006321 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 13035006322 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 13035006323 Catalytic site [active] 13035006324 Protein of unknown function (DUF2949); Region: DUF2949; pfam11165 13035006325 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 13035006326 Protein of unknown function (DUF3082); Region: DUF3082; pfam11282 13035006327 Protein of unknown function (DUF3110); Region: DUF3110; pfam11360 13035006328 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 13035006329 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 13035006330 putative active site [active] 13035006331 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 13035006332 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 13035006333 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 13035006334 TM-ABC transporter signature motif; other site 13035006335 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 13035006336 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 13035006337 Walker A/P-loop; other site 13035006338 ATP binding site [chemical binding]; other site 13035006339 Q-loop/lid; other site 13035006340 ABC transporter signature motif; other site 13035006341 Walker B; other site 13035006342 D-loop; other site 13035006343 H-loop/switch region; other site 13035006344 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 13035006345 homotrimer interaction site [polypeptide binding]; other site 13035006346 putative active site [active] 13035006347 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cl00197 13035006348 active site 13035006349 Yqey-like protein; Region: YqeY; cl17540 13035006350 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 13035006351 CAAX protease self-immunity; Region: Abi; pfam02517 13035006352 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 13035006353 RuvA N terminal domain; Region: RuvA_N; pfam01330 13035006354 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 13035006355 Phosphoglycerate kinase; Region: PGK; pfam00162 13035006356 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 13035006357 substrate binding site [chemical binding]; other site 13035006358 hinge regions; other site 13035006359 ADP binding site [chemical binding]; other site 13035006360 catalytic site [active] 13035006361 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 13035006362 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 13035006363 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 13035006364 Walker A/P-loop; other site 13035006365 ATP binding site [chemical binding]; other site 13035006366 Q-loop/lid; other site 13035006367 ABC transporter signature motif; other site 13035006368 Walker B; other site 13035006369 D-loop; other site 13035006370 H-loop/switch region; other site 13035006371 YcfA-like protein; Region: YcfA; pfam07927 13035006372 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 13035006373 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 13035006374 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 13035006375 active site 13035006376 Riboflavin kinase; Region: Flavokinase; pfam01687 13035006377 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 13035006378 putative active site [active] 13035006379 Domain of unknown function DUF21; Region: DUF21; pfam01595 13035006380 FOG: CBS domain [General function prediction only]; Region: COG0517 13035006381 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 13035006382 proton extrusion protein PcxA; Provisional; Region: PRK02507 13035006383 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 13035006384 homotrimer interface [polypeptide binding]; other site 13035006385 Walker A motif; other site 13035006386 GTP binding site [chemical binding]; other site 13035006387 Walker B motif; other site 13035006388 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 13035006389 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 13035006390 substrate binding site [chemical binding]; other site 13035006391 dimer interface [polypeptide binding]; other site 13035006392 ATP binding site [chemical binding]; other site 13035006393 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 13035006394 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 13035006395 tRNA; other site 13035006396 putative tRNA binding site [nucleotide binding]; other site 13035006397 putative NADP binding site [chemical binding]; other site 13035006398 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 13035006399 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 13035006400 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 13035006401 trmE is a tRNA modification GTPase; Region: trmE; cd04164 13035006402 G1 box; other site 13035006403 GTP/Mg2+ binding site [chemical binding]; other site 13035006404 Switch I region; other site 13035006405 G2 box; other site 13035006406 Switch II region; other site 13035006407 G3 box; other site 13035006408 G4 box; other site 13035006409 G5 box; other site 13035006410 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 13035006411 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 13035006412 Protein of unknown function (DUF2396); Region: DUF2396; pfam09654 13035006413 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 13035006414 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 13035006415 active site 13035006416 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 13035006417 putative active site [active] 13035006418 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 13035006419 putative active site [active] 13035006420 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 13035006421 putative active site [active] 13035006422 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 13035006423 putative addiction module component, TIGR02574 family; Region: stabl_TIGR02574 13035006424 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 13035006425 Catalytic domain of Protein Kinases; Region: PKc; cd00180 13035006426 active site 13035006427 ATP binding site [chemical binding]; other site 13035006428 substrate binding site [chemical binding]; other site 13035006429 activation loop (A-loop); other site 13035006430 FOG: WD40 repeat [General function prediction only]; Region: COG2319 13035006431 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 13035006432 structural tetrad; other site 13035006433 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 13035006434 TrkA-N domain; Region: TrkA_N; pfam02254 13035006435 TrkA-N domain; Region: TrkA_N; pfam02254 13035006436 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 13035006437 non-specific DNA binding site [nucleotide binding]; other site 13035006438 salt bridge; other site 13035006439 sequence-specific DNA binding site [nucleotide binding]; other site 13035006440 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 13035006441 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 13035006442 ABC1 family; Region: ABC1; pfam03109 13035006443 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 13035006444 active site 13035006445 ATP binding site [chemical binding]; other site 13035006446 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 13035006447 homotrimer interaction site [polypeptide binding]; other site 13035006448 zinc binding site [ion binding]; other site 13035006449 CDP-binding sites; other site 13035006450 RRXRR protein; Region: RRXRR; pfam14239 13035006451 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 13035006452 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 13035006453 active site 13035006454 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 13035006455 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 13035006456 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 13035006457 catalytic site [active] 13035006458 subunit interface [polypeptide binding]; other site 13035006459 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 13035006460 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 13035006461 anti sigma factor interaction site; other site 13035006462 regulatory phosphorylation site [posttranslational modification]; other site 13035006463 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; cl00258 13035006464 dimerization interface [polypeptide binding]; other site 13035006465 active site 13035006466 metal binding site [ion binding]; metal-binding site 13035006467 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 13035006468 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 13035006469 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 13035006470 Domain of unknown function (DUF1816); Region: DUF1816; pfam08846 13035006471 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 13035006472 homooctamer interface [polypeptide binding]; other site 13035006473 active site 13035006474 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 13035006475 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 13035006476 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 13035006477 TrkA-N domain; Region: TrkA_N; pfam02254 13035006478 TrkA-C domain; Region: TrkA_C; pfam02080 13035006479 multifunctional aminopeptidase A; Provisional; Region: PRK00913 13035006480 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 13035006481 interface (dimer of trimers) [polypeptide binding]; other site 13035006482 Substrate-binding/catalytic site; other site 13035006483 Zn-binding sites [ion binding]; other site 13035006484 Coenzyme F420-reducing hydrogenase, beta subunit [Energy production and conversion]; Region: FrhB; COG1035 13035006485 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit N-term; Region: FrhB_FdhB_N; pfam04422 13035006486 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 13035006487 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 13035006488 Protein of unknown function (DUF3353); Region: DUF3353; pfam11833 13035006489 dihydrodipicolinate reductase; Provisional; Region: PRK00048 13035006490 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 13035006491 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 13035006492 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 13035006493 dimerization interface [polypeptide binding]; other site 13035006494 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 13035006495 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 13035006496 putative active site [active] 13035006497 heme pocket [chemical binding]; other site 13035006498 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 13035006499 dimer interface [polypeptide binding]; other site 13035006500 phosphorylation site [posttranslational modification] 13035006501 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 13035006502 ATP binding site [chemical binding]; other site 13035006503 Mg2+ binding site [ion binding]; other site 13035006504 G-X-G motif; other site 13035006505 Predicted type IV restriction endonuclease [Defense mechanisms]; Region: COG2810 13035006506 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 13035006507 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 13035006508 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 13035006509 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 13035006510 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 13035006511 ATP-grasp domain; Region: ATP-grasp; pfam02222 13035006512 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 13035006513 phosphatidate cytidylyltransferase; Region: PLN02953 13035006514 citrate synthase; Provisional; Region: PRK14036 13035006515 Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the oxidative citric acid cycle (TCA or Krebs cycle). Peroxisomal CS is involved in the glyoxylate...; Region: citrate_synt_like_1_1; cd06112 13035006516 dimer interface [polypeptide binding]; other site 13035006517 active site 13035006518 citrylCoA binding site [chemical binding]; other site 13035006519 oxalacetate/citrate binding site [chemical binding]; other site 13035006520 coenzyme A binding site [chemical binding]; other site 13035006521 catalytic triad [active] 13035006522 NADH dehydrogenase subunit 1; Region: ndhA; CHL00032 13035006523 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 13035006524 NADH-plastoquinone oxidoreductase subunit I protein; Region: ndhI; TIGR00403 13035006525 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 13035006526 NADH dehydrogenase subunit 6; Region: ndhG; CHL00016 13035006527 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 13035006528 NADH dehydrogenase subunit 4L; Region: ndhE; CHL00015 13035006529 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 13035006530 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 13035006531 ABC-ATPase subunit interface; other site 13035006532 dimer interface [polypeptide binding]; other site 13035006533 putative PBP binding regions; other site 13035006534 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 13035006535 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 13035006536 Metal binding protein ZntC. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: ZntC; cd01018 13035006537 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 13035006538 putative metal binding residues [ion binding]; other site 13035006539 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 13035006540 active site 13035006541 dimer interface [polypeptide binding]; other site 13035006542 Predicted esterase [General function prediction only]; Region: COG0400 13035006543 putative hydrolase; Provisional; Region: PRK11460 13035006544 Transcriptional regulator [Transcription]; Region: LytR; COG1316 13035006545 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 13035006546 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 13035006547 active site 13035006548 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 13035006549 Hint (Hedgehog/Intein) domain N-terminal region; Region: HintN; smart00306 13035006550 protein-splicing catalytic site; other site 13035006551 thioester formation/cholesterol transfer; other site 13035006552 Intein/homing endonuclease [DNA replication, recombination, and repair]; Region: COG1372 13035006553 Homing endonuclease; Region: Hom_end; pfam05204 13035006554 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 13035006555 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 13035006556 protein-splicing catalytic site; other site 13035006557 thioester formation/cholesterol transfer; other site 13035006558 Hint (Hedgehog/Intein) domain C-terminal region; Region: HintC; smart00305 13035006559 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 13035006560 protein-splicing catalytic site; other site 13035006561 thioester formation/cholesterol transfer; other site 13035006562 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 13035006563 thiamine monophosphate kinase; Provisional; Region: PRK05731 13035006564 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 13035006565 ATP binding site [chemical binding]; other site 13035006566 dimerization interface [polypeptide binding]; other site 13035006567 Vesicle transport v-SNARE protein N-terminus; Region: V-SNARE; pfam05008 13035006568 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 13035006569 active site 13035006570 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 13035006571 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 13035006572 active site 13035006573 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 13035006574 PIN domain; Region: PIN_3; cl17397 13035006575 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 13035006576 Cytochrome c; Region: Cytochrom_C; cl11414 13035006577 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 13035006578 TPR repeat; Region: TPR_11; pfam13414 13035006579 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 13035006580 TPR motif; other site 13035006581 binding surface 13035006582 Tetratricopeptide repeat; Region: TPR_16; pfam13432 13035006583 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 13035006584 binding surface 13035006585 TPR motif; other site 13035006586 TPR repeat; Region: TPR_11; pfam13414 13035006587 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 13035006588 catalytic core [active] 13035006589 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 13035006590 catalytic core [active] 13035006591 CAAX protease self-immunity; Region: Abi; pfam02517 13035006592 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 13035006593 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 13035006594 phosphorylation site [posttranslational modification] 13035006595 dimer interface [polypeptide binding]; other site 13035006596 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 13035006597 ATP binding site [chemical binding]; other site 13035006598 Mg2+ binding site [ion binding]; other site 13035006599 G-X-G motif; other site 13035006600 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 13035006601 Protein of unknown function (DUF3326); Region: DUF3326; pfam11805 13035006602 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 13035006603 Bacillus subtilis aldehyde dehydrogenase ywdH-like; Region: ALDH_YwdH-P39616; cd07136 13035006604 NAD(P) binding site [chemical binding]; other site 13035006605 catalytic residues [active] 13035006606 Integral membrane protein DUF92; Region: DUF92; pfam01940 13035006607 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 13035006608 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 13035006609 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 13035006610 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 13035006611 Phycobilisome protein; Region: Phycobilisome; cl08227 13035006612 spermine synthase; Region: PLN02823 13035006613 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 13035006614 S-adenosylmethionine binding site [chemical binding]; other site 13035006615 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 13035006616 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 13035006617 catalytic site [active] 13035006618 G-X2-G-X-G-K; other site 13035006619 hypothetical protein; Provisional; Region: PRK04323 13035006620 GDYXXLXY protein; Region: GDYXXLXY; pfam14345 13035006621 Protein of unknown function (DUF1997); Region: DUF1997; pfam09366 13035006622 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 13035006623 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 13035006624 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 13035006625 catalytic triad [active] 13035006626 E-Z type HEAT repeats; Region: EZ_HEAT; smart00567 13035006627 HEAT repeats; Region: HEAT_2; pfam13646 13035006628 Protein of function (DUF2518); Region: DUF2518; pfam10726 13035006629 Cell cycle protein; Region: FTSW_RODA_SPOVE; pfam01098 13035006630 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 13035006631 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 13035006632 active site 13035006633 motif I; other site 13035006634 motif II; other site 13035006635 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 13035006636 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 13035006637 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 13035006638 active site 13035006639 NTP binding site [chemical binding]; other site 13035006640 metal binding triad [ion binding]; metal-binding site 13035006641 antibiotic binding site [chemical binding]; other site 13035006642 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 13035006643 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 13035006644 ligand binding site [chemical binding]; other site 13035006645 cell division protein MukB; Provisional; Region: mukB; PRK04863 13035006646 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 13035006647 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 13035006648 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 13035006649 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 13035006650 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 13035006651 DNA phosphorothioation system restriction enzyme; Region: dnd_restrict_1; TIGR04095 13035006652 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 13035006653 ATP binding site [chemical binding]; other site 13035006654 putative Mg++ binding site [ion binding]; other site 13035006655 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 13035006656 nucleotide binding region [chemical binding]; other site 13035006657 ATP-binding site [chemical binding]; other site 13035006658 Periplasmic copper-binding protein (NosD); Region: NosD; pfam05048 13035006659 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 13035006660 Protein of unknown function (DUF4089); Region: DUF4089; pfam13318 13035006661 Protein of unknown function (DUF1499); Region: DUF1499; cl01841 13035006662 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 13035006663 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 13035006664 ligand binding site [chemical binding]; other site 13035006665 flexible hinge region; other site 13035006666 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 13035006667 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 13035006668 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 13035006669 protein binding site [polypeptide binding]; other site 13035006670 CO2 hydration protein (ChpXY); Region: ChpXY; pfam10216 13035006671 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 13035006672 heme binding pocket [chemical binding]; other site 13035006673 heme ligand [chemical binding]; other site 13035006674 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 13035006675 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 13035006676 Ca2+ binding site [ion binding]; other site 13035006677 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 13035006678 Ca2+ binding site [ion binding]; other site 13035006679 VCBS repeat; Region: VCBS_repeat; TIGR01965 13035006680 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 13035006681 Ca2+ binding site [ion binding]; other site 13035006682 von Willebrand factor type D domain; Region: VWD; cl02516 13035006683 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 13035006684 Ca2+ binding site [ion binding]; other site 13035006685 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 13035006686 Ca2+ binding site [ion binding]; other site 13035006687 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 13035006688 Ca2+ binding site [ion binding]; other site 13035006689 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 13035006690 Ca2+ binding site [ion binding]; other site 13035006691 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 13035006692 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 13035006693 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 13035006694 NAD(P) binding site [chemical binding]; other site 13035006695 methionine sulfoxide reductase B; Provisional; Region: PRK00222 13035006696 SelR domain; Region: SelR; pfam01641 13035006697 photosystem II protein K; Region: psbK; CHL00047 13035006698 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 13035006699 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 13035006700 cobalamin synthase; Reviewed; Region: cobS; PRK00235 13035006701 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 13035006702 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 13035006703 cofactor binding site; other site 13035006704 DNA binding site [nucleotide binding] 13035006705 substrate interaction site [chemical binding]; other site 13035006706 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 13035006707 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 13035006708 ThiC family; Region: ThiC; pfam01964 13035006709 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 13035006710 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 13035006711 DNA polymerase III subunit alpha; Reviewed; Region: PRK07373 13035006712 Hint (Hedgehog/Intein) domain C-terminal region; Region: HintC; smart00305 13035006713 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 13035006714 generic binding surface I; other site 13035006715 generic binding surface II; other site 13035006716 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 13035006717 ribosomal protein S4; Reviewed; Region: rps4; CHL00113 13035006718 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 13035006719 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 13035006720 RNA binding surface [nucleotide binding]; other site 13035006721 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 13035006722 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 13035006723 S-adenosylmethionine binding site [chemical binding]; other site 13035006724 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 13035006725 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 13035006726 sequence-specific DNA binding site [nucleotide binding]; other site 13035006727 salt bridge; other site 13035006728 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 13035006729 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 13035006730 substrate binding site [chemical binding]; other site 13035006731 hexamer interface [polypeptide binding]; other site 13035006732 metal binding site [ion binding]; metal-binding site 13035006733 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 13035006734 active site 13035006735 catalytic residues [active] 13035006736 Uncharacterized conserved protein [Function unknown]; Region: COG4279 13035006737 SWIM zinc finger; Region: SWIM; pfam04434 13035006738 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 13035006739 putative active site [active] 13035006740 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 13035006741 putative active site [active] 13035006742 Protein of unknown function (DUF2281); Region: DUF2281; cl02355 13035006743 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 13035006744 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 13035006745 ring oligomerisation interface [polypeptide binding]; other site 13035006746 ATP/Mg binding site [chemical binding]; other site 13035006747 stacking interactions; other site 13035006748 hinge regions; other site 13035006749 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 13035006750 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 13035006751 HIGH motif; other site 13035006752 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 13035006753 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 13035006754 active site 13035006755 KMSKS motif; other site 13035006756 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 13035006757 tRNA binding surface [nucleotide binding]; other site 13035006758 SapC; Region: SapC; pfam07277 13035006759 Domain of unknown function (DUF4347); Region: DUF4347; pfam14252 13035006760 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 13035006761 domain in bacterial beta-glucosidases other glycosidases, glycosyltransferases, proteases, amidases, yeast adhesins, and bacterial toxins; Region: PA14; smart00758 13035006762 domain in bacterial beta-glucosidases other glycosidases, glycosyltransferases, proteases, amidases, yeast adhesins, and bacterial toxins; Region: PA14; smart00758 13035006763 FG-GAP repeat; Region: FG-GAP_2; pfam14312 13035006764 FG-GAP repeat; Region: FG-GAP_2; pfam14312 13035006765 FG-GAP repeat; Region: FG-GAP_2; pfam14312 13035006766 FG-GAP repeat; Region: FG-GAP_2; pfam14312 13035006767 Beta/Gamma crystallin; Region: Crystall; cl02528 13035006768 FG-GAP repeat; Region: FG-GAP_2; pfam14312 13035006769 FG-GAP repeat; Region: FG-GAP_2; pfam14312 13035006770 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 13035006771 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 13035006772 Ca2+ binding site [ion binding]; other site 13035006773 Cadherin repeat-like domain; Region: CA_like; cl15786 13035006774 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 13035006775 Walker A motif; other site 13035006776 ATP binding site [chemical binding]; other site 13035006777 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 13035006778 protein-splicing catalytic site; other site 13035006779 thioester formation/cholesterol transfer; other site 13035006780 Pretoxin HINT domain; Region: PT-HINT; pfam07591 13035006781 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14948 13035006782 DNA polymerase III subunit delta'; Validated; Region: PRK08485 13035006783 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 13035006784 hypothetical protein; Provisional; Region: PRK13686 13035006785 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 13035006786 active site 13035006787 substrate binding pocket [chemical binding]; other site 13035006788 dimer interface [polypeptide binding]; other site 13035006789 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 13035006790 putative active site [active] 13035006791 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 13035006792 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 13035006793 Calcineurin-like phosphoesterase superfamily domain; Region: Metallophos_2; pfam12850 13035006794 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 13035006795 active site 13035006796 metal binding site [ion binding]; metal-binding site 13035006797 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 13035006798 YcfA-like protein; Region: YcfA; pfam07927 13035006799 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 13035006800 Protein of unknown function (DUF1636); Region: DUF1636; pfam07845 13035006801 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 13035006802 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 13035006803 homodecamer interface [polypeptide binding]; other site 13035006804 GTP cyclohydrolase I; Provisional; Region: PLN03044 13035006805 active site 13035006806 putative catalytic site residues [active] 13035006807 zinc binding site [ion binding]; other site 13035006808 GTP-CH-I/GFRP interaction surface; other site 13035006809 YcfA-like protein; Region: YcfA; pfam07927 13035006810 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 13035006811 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; cl00462 13035006812 ABC-ATPase subunit interface; other site 13035006813 dimer interface [polypeptide binding]; other site 13035006814 putative PBP binding regions; other site 13035006815 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 13035006816 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 13035006817 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 13035006818 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 13035006819 intersubunit interface [polypeptide binding]; other site 13035006820 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 13035006821 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 13035006822 Inter-Src homology 2 (iSH2) helical domain of Class IA Phosphoinositide 3-kinase Regulatory subunits; Region: iSH2_PI3K_IA_R; cl17108 13035006823 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 13035006824 FOG: WD40 repeat [General function prediction only]; Region: COG2319 13035006825 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 13035006826 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 13035006827 structural tetrad; other site 13035006828 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 13035006829 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 13035006830 P-loop, Walker A motif; other site 13035006831 Base recognition motif; other site 13035006832 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 13035006833 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 13035006834 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 13035006835 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 13035006836 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 13035006837 Walker A/P-loop; other site 13035006838 ATP binding site [chemical binding]; other site 13035006839 Q-loop/lid; other site 13035006840 ABC transporter signature motif; other site 13035006841 Walker B; other site 13035006842 D-loop; other site 13035006843 H-loop/switch region; other site 13035006844 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 13035006845 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 13035006846 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 13035006847 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 13035006848 putative active site [active] 13035006849 S-layer homology domain; Region: SLH; pfam00395 13035006850 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 13035006851 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 13035006852 putative active site [active] 13035006853 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 13035006854 putative active site [active] 13035006855 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 13035006856 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 13035006857 active site 13035006858 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 13035006859 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 13035006860 active site 13035006861 (T/H)XGH motif; other site 13035006862 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 13035006863 nudix motif; other site 13035006864 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 13035006865 NAD synthetase; Provisional; Region: PRK13981 13035006866 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 13035006867 multimer interface [polypeptide binding]; other site 13035006868 active site 13035006869 catalytic triad [active] 13035006870 protein interface 1 [polypeptide binding]; other site 13035006871 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 13035006872 homodimer interface [polypeptide binding]; other site 13035006873 NAD binding pocket [chemical binding]; other site 13035006874 ATP binding pocket [chemical binding]; other site 13035006875 Mg binding site [ion binding]; other site 13035006876 active-site loop [active] 13035006877 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 13035006878 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 13035006879 RNA binding surface [nucleotide binding]; other site 13035006880 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 13035006881 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 13035006882 dimer interface [polypeptide binding]; other site 13035006883 conserved gate region; other site 13035006884 ABC-ATPase subunit interface; other site 13035006885 Peptidase family M48; Region: Peptidase_M48; cl12018 13035006886 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 13035006887 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 13035006888 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 13035006889 shikimate binding site; other site 13035006890 NAD(P) binding site [chemical binding]; other site 13035006891 YrhK-like protein; Region: YrhK; pfam14145 13035006892 Uncharacterized conserved protein (DUF2358); Region: DUF2358; pfam10184 13035006893 Anion-transporting ATPase; Region: ArsA_ATPase; pfam02374 13035006894 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 13035006895 P loop; other site 13035006896 Nucleotide binding site [chemical binding]; other site 13035006897 DTAP/Switch II; other site 13035006898 Switch I; other site 13035006899 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 13035006900 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 13035006901 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 13035006902 Probable transposase; Region: OrfB_IS605; pfam01385 13035006903 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 13035006904 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 13035006905 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 13035006906 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 13035006907 dimer interface [polypeptide binding]; other site 13035006908 motif 1; other site 13035006909 active site 13035006910 motif 2; other site 13035006911 motif 3; other site 13035006912 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 13035006913 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 13035006914 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 13035006915 domain interfaces; other site 13035006916 active site 13035006917 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 13035006918 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 13035006919 Coenzyme A binding pocket [chemical binding]; other site 13035006920 aspartate kinase; Provisional; Region: PRK07431 13035006921 AAK_AK-DapG-like: Amino Acid Kinase Superfamily (AAK), AK-DapG-like; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the diaminopimelate-sensitive aspartokinase isoenzyme AKI (DapG), a monofunctional enzymes found in Bacilli; Region: AAK_AK-DapG-like; cd04246 13035006922 putative catalytic residues [active] 13035006923 putative nucleotide binding site [chemical binding]; other site 13035006924 putative aspartate binding site [chemical binding]; other site 13035006925 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 13035006926 putative allosteric regulatory site; other site 13035006927 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 13035006928 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 13035006929 putative allosteric regulatory site; other site 13035006930 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 13035006931 putative allosteric regulatory residue; other site 13035006932 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 13035006933 active site 13035006934 hydrophilic channel; other site 13035006935 dimerization interface [polypeptide binding]; other site 13035006936 catalytic residues [active] 13035006937 active site lid [active] 13035006938 Protein of unknown function (DUF2488); Region: Ycf54; pfam10674 13035006939 Uncharacterized protein family, UPF0114; Region: UPF0114; pfam03350 13035006940 Divergent PAP2 family; Region: DUF212; pfam02681 13035006941 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 13035006942 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 13035006943 substrate binding pocket [chemical binding]; other site 13035006944 chain length determination region; other site 13035006945 substrate-Mg2+ binding site; other site 13035006946 catalytic residues [active] 13035006947 aspartate-rich region 1; other site 13035006948 active site lid residues [active] 13035006949 aspartate-rich region 2; other site 13035006950 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 13035006951 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 13035006952 active site 13035006953 phosphorylation site [posttranslational modification] 13035006954 intermolecular recognition site; other site 13035006955 dimerization interface [polypeptide binding]; other site 13035006956 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 13035006957 DNA binding site [nucleotide binding] 13035006958 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 13035006959 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 13035006960 dimer interface [polypeptide binding]; other site 13035006961 phosphorylation site [posttranslational modification] 13035006962 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 13035006963 ATP binding site [chemical binding]; other site 13035006964 Mg2+ binding site [ion binding]; other site 13035006965 G-X-G motif; other site 13035006966 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14186 13035006967 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 13035006968 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 13035006969 homodimer interface [polypeptide binding]; other site 13035006970 NADP binding site [chemical binding]; other site 13035006971 substrate binding site [chemical binding]; other site 13035006972 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 13035006973 C-terminal peptidase (prc); Region: prc; TIGR00225 13035006974 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 13035006975 protein binding site [polypeptide binding]; other site 13035006976 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 13035006977 Catalytic dyad [active] 13035006978 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 13035006979 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 13035006980 5S rRNA interface [nucleotide binding]; other site 13035006981 CTC domain interface [polypeptide binding]; other site 13035006982 L16 interface [polypeptide binding]; other site 13035006983 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 13035006984 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 13035006985 GDP-binding site [chemical binding]; other site 13035006986 ACT binding site; other site 13035006987 IMP binding site; other site 13035006988 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 13035006989 Adenosine/AMP deaminase. Adenosine deaminases (ADAs) are present in pro- and eukaryotic organisms and catalyze the zinc dependent irreversible deamination of adenosine nucleosides to inosine nucleosides and ammonia. The eukaryotic AMP deaminase...; Region: ADA_AMPD; cd00443 13035006990 active site 13035006991 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 13035006992 non-specific DNA binding site [nucleotide binding]; other site 13035006993 salt bridge; other site 13035006994 sequence-specific DNA binding site [nucleotide binding]; other site 13035006995 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; pfam09907 13035006996 XisI protein; Region: XisI; pfam08869 13035006997 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 13035006998 sucrose synthase; Region: sucr_synth; TIGR02470 13035006999 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 13035007000 putative ADP-binding pocket [chemical binding]; other site 13035007001 glycosyltransferase, TIGR04182 family; Region: glyco_TIGR04182 13035007002 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 13035007003 Ligand binding site; other site 13035007004 Putative Catalytic site; other site 13035007005 DXD motif; other site 13035007006 glucosylglycerol 3-phosphatase; Region: salt_tol_Pase; TIGR02399 13035007007 Glucosylglycerol-phosphate phosphatase (Salt_tol_Pase); Region: Salt_tol_Pase; pfam09506 13035007008 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 13035007009 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 13035007010 active site residue [active] 13035007011 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 13035007012 active site residue [active] 13035007013 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 13035007014 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 13035007015 Walker A/P-loop; other site 13035007016 ATP binding site [chemical binding]; other site 13035007017 Q-loop/lid; other site 13035007018 ABC transporter signature motif; other site 13035007019 Walker B; other site 13035007020 D-loop; other site 13035007021 H-loop/switch region; other site 13035007022 cobalt ABC transporter, permease protein CbiQ; Region: CbiQ_TIGR; TIGR02454 13035007023 NAD(P)H-quinone oxidoreductase subunit 4; Provisional; Region: PRK12561 13035007024 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 13035007025 DNA polymerase III subunit alpha; Reviewed; Region: PRK09532 13035007026 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 13035007027 active site 13035007028 PHP Thumb interface [polypeptide binding]; other site 13035007029 metal binding site [ion binding]; metal-binding site 13035007030 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 13035007031 protein-splicing catalytic site; other site 13035007032 thioester formation/cholesterol transfer; other site 13035007033 GTP-binding protein LepA; Provisional; Region: PRK05433 13035007034 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 13035007035 G1 box; other site 13035007036 putative GEF interaction site [polypeptide binding]; other site 13035007037 GTP/Mg2+ binding site [chemical binding]; other site 13035007038 Switch I region; other site 13035007039 G2 box; other site 13035007040 G3 box; other site 13035007041 Switch II region; other site 13035007042 G4 box; other site 13035007043 G5 box; other site 13035007044 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 13035007045 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 13035007046 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 13035007047 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 13035007048 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 13035007049 G1 box; other site 13035007050 putative GEF interaction site [polypeptide binding]; other site 13035007051 GTP/Mg2+ binding site [chemical binding]; other site 13035007052 Switch I region; other site 13035007053 G2 box; other site 13035007054 G3 box; other site 13035007055 Switch II region; other site 13035007056 G4 box; other site 13035007057 G5 box; other site 13035007058 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 13035007059 3-deoxy-7-phosphoheptulonate synthase; Provisional; Region: PRK13396 13035007060 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 13035007061 Protein of unknown function (DUF3464); Region: DUF3464; pfam11947 13035007062 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 13035007063 16S/18S rRNA binding site [nucleotide binding]; other site 13035007064 S13e-L30e interaction site [polypeptide binding]; other site 13035007065 25S rRNA binding site [nucleotide binding]; other site 13035007066 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 13035007067 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 13035007068 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 13035007069 Coenzyme A binding pocket [chemical binding]; other site 13035007070 Predicted membrane protein [Function unknown]; Region: COG2324 13035007071 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 13035007072 active site 13035007073 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 13035007074 RNA/DNA hybrid binding site [nucleotide binding]; other site 13035007075 active site 13035007076 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 13035007077 putative active site [active] 13035007078 Rhomboid family; Region: Rhomboid; pfam01694 13035007079 Protein of unknown function (DUF3143); Region: DUF3143; pfam11341 13035007080 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 13035007081 HSP70 interaction site [polypeptide binding]; other site 13035007082 4-alpha-glucanotransferase; Provisional; Region: PRK14508 13035007083 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 13035007084 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 13035007085 active site 13035007086 substrate binding site [chemical binding]; other site 13035007087 metal binding site [ion binding]; metal-binding site 13035007088 Manganese-stabilising protein / photosystem II polypeptide; Region: MSP; pfam01716 13035007089 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 13035007090 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 13035007091 dimer interface [polypeptide binding]; other site 13035007092 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 13035007093 active site 13035007094 Fe binding site [ion binding]; other site 13035007095 classical (c) SDRs; Region: SDR_c; cd05233 13035007096 NAD(P) binding site [chemical binding]; other site 13035007097 active site 13035007098 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 13035007099 Clp amino terminal domain; Region: Clp_N; pfam02861 13035007100 Clp amino terminal domain; Region: Clp_N; pfam02861 13035007101 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 13035007102 Walker A motif; other site 13035007103 ATP binding site [chemical binding]; other site 13035007104 Walker B motif; other site 13035007105 arginine finger; other site 13035007106 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 13035007107 Walker A motif; other site 13035007108 ATP binding site [chemical binding]; other site 13035007109 Walker B motif; other site 13035007110 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 13035007111 Protein of unknown function (DUF2499); Region: DUF2499; pfam10693 13035007112 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 13035007113 putative homodimer interface [polypeptide binding]; other site 13035007114 putative homotetramer interface [polypeptide binding]; other site 13035007115 putative metal binding site [ion binding]; other site 13035007116 putative homodimer-homodimer interface [polypeptide binding]; other site 13035007117 putative allosteric switch controlling residues; other site 13035007118 PUCC protein; Region: PUCC; pfam03209 13035007119 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 13035007120 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 13035007121 active site 13035007122 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 13035007123 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 13035007124 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 13035007125 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 13035007126 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 13035007127 HsdM N-terminal domain; Region: HsdM_N; pfam12161 13035007128 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 13035007129 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 13035007130 S-adenosylmethionine binding site [chemical binding]; other site 13035007131 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 13035007132 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 13035007133 P-loop; other site 13035007134 Magnesium ion binding site [ion binding]; other site 13035007135 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 13035007136 Magnesium ion binding site [ion binding]; other site 13035007137 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 13035007138 Glutathione S-transferase, N-terminal domain; Region: GST_N_3; pfam13417 13035007139 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 13035007140 N-terminal domain interface [polypeptide binding]; other site 13035007141 dimer interface [polypeptide binding]; other site 13035007142 substrate binding pocket (H-site) [chemical binding]; other site 13035007143 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 13035007144 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 13035007145 active site 13035007146 catalytic residues [active] 13035007147 metal binding site [ion binding]; metal-binding site 13035007148 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 13035007149 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 13035007150 active site 13035007151 PEP-CTERM protein sorting domain, cyanobacterial subclass; Region: cyano_PEP; TIGR04155 13035007152 Sporulation related domain; Region: SPOR; cl10051 13035007153 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 13035007154 putative active site [active] 13035007155 putative metal binding site [ion binding]; other site 13035007156 Protein of unknown function (DUF2805); Region: DUF2805; pfam10985 13035007157 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 13035007158 catalytic core [active] 13035007159 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 13035007160 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 13035007161 homodimer interface [polypeptide binding]; other site 13035007162 oligonucleotide binding site [chemical binding]; other site 13035007163 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 13035007164 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 13035007165 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 13035007166 FeS/SAM binding site; other site 13035007167 Domain of unknown function (DUF4070); Region: DUF4070; pfam13282 13035007168 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 13035007169 TPR motif; other site 13035007170 binding surface 13035007171 Tetratricopeptide repeat; Region: TPR_12; pfam13424 13035007172 cellulose synthase-like protein; Region: PLN02248 13035007173 FO synthase subunit 2; Reviewed; Region: PRK07360 13035007174 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 13035007175 FeS/SAM binding site; other site 13035007176 Protein of unknown function (DUF3318); Region: DUF3318; pfam11780 13035007177 Uncharacterized conserved protein [Function unknown]; Region: COG2361 13035007178 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 13035007179 active site 13035007180 NTP binding site [chemical binding]; other site 13035007181 metal binding triad [ion binding]; metal-binding site 13035007182 antibiotic binding site [chemical binding]; other site 13035007183 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4402 13035007184 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 13035007185 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 13035007186 heterotetramer interface [polypeptide binding]; other site 13035007187 active site pocket [active] 13035007188 cleavage site 13035007189 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 13035007190 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 13035007191 GatB domain; Region: GatB_Yqey; smart00845 13035007192 Domain of unknown function (DUF1830); Region: DUF1830; pfam08865 13035007193 Protein of unknown function (DUF3252); Region: DUF3252; pfam11623 13035007194 Protein of unknown function (DUF3067); Region: DUF3067; pfam11267 13035007195 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 13035007196 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 13035007197 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 13035007198 active site 13035007199 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 13035007200 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 13035007201 binding surface 13035007202 TPR motif; other site 13035007203 Iron-sulfur cluster assembly accessory protein; Region: TIGR00049 13035007204 rod shape-determining protein MreB; Provisional; Region: PRK13927 13035007205 MreB and similar proteins; Region: MreB_like; cd10225 13035007206 nucleotide binding site [chemical binding]; other site 13035007207 Mg binding site [ion binding]; other site 13035007208 putative protofilament interaction site [polypeptide binding]; other site 13035007209 RodZ interaction site [polypeptide binding]; other site 13035007210 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 13035007211 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 13035007212 dimer interface [polypeptide binding]; other site 13035007213 ssDNA binding site [nucleotide binding]; other site 13035007214 tetramer (dimer of dimers) interface [polypeptide binding]; other site 13035007215 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 13035007216 FAD binding site [chemical binding]; other site 13035007217 Catalytic domain of EDTA-resistant nuclease Nuc, vertebrate phospholipase D6, and similar proteins; Region: PLDc_Nuc_like; cd09116 13035007218 PLD-like domain; Region: PLDc_2; pfam13091 13035007219 putative active site [active] 13035007220 catalytic site [active] 13035007221 Putative catalytic domain, repeat 2, of uncharacterized hypothetical proteins similar to Nuc, an endonuclease from Salmonella typhimurium; Region: PLDc_Nuc_like_unchar1_2; cd09173 13035007222 PLD-like domain; Region: PLDc_2; pfam13091 13035007223 putative active site [active] 13035007224 catalytic site [active] 13035007225 TPR repeat; Region: TPR_11; pfam13414 13035007226 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 13035007227 binding surface 13035007228 TPR motif; other site 13035007229 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 13035007230 Protein of unknown function (DUF3288); Region: DUF3288; pfam11691 13035007231 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 13035007232 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 13035007233 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 13035007234 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 13035007235 catalytic residue [active] 13035007236 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 13035007237 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 13035007238 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 13035007239 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 13035007240 VCBS repeat; Region: VCBS_repeat; TIGR01965 13035007241 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 13035007242 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 13035007243 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 13035007244 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 13035007245 VCBS repeat; Region: VCBS_repeat; TIGR01965 13035007246 Cadherin repeat-like domain; Region: CA_like; cl15786 13035007247 Ca2+ binding site [ion binding]; other site 13035007248 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 13035007249 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 13035007250 VCBS repeat; Region: VCBS_repeat; TIGR01965 13035007251 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 13035007252 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 13035007253 Integrin alpha (beta-propellor repeats); Region: Int_alpha; smart00191 13035007254 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 13035007255 Ca2+ binding site [ion binding]; other site 13035007256 VCBS repeat; Region: VCBS_repeat; TIGR01965 13035007257 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 13035007258 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 13035007259 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 13035007260 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 13035007261 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 13035007262 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 13035007263 Protein of unknown function (DUF1997); Region: DUF1997; pfam09366 13035007264 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 13035007265 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 13035007266 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 13035007267 FeS/SAM binding site; other site 13035007268 Protein of unknown function (DUF4090); Region: DUF4090; pfam13319 13035007269 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 13035007270 Ligand Binding Site [chemical binding]; other site 13035007271 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 13035007272 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 13035007273 Probable transposase; Region: OrfB_IS605; pfam01385 13035007274 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 13035007275 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 13035007276 active site 13035007277 catalytic residues [active] 13035007278 metal binding site [ion binding]; metal-binding site 13035007279 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 13035007280 intersubunit interface [polypeptide binding]; other site 13035007281 active site 13035007282 zinc binding site [ion binding]; other site 13035007283 Na+ binding site [ion binding]; other site 13035007284 Fructose-1,6-bisphosphate aldolase; Region: FBP_aldolase_I_a; cd00948 13035007285 active site 13035007286 intersubunit interface [polypeptide binding]; other site 13035007287 catalytic residue [active] 13035007288 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 13035007289 Tryptophan-rich protein (DUF2389); Region: DUF2389; pfam09493 13035007290 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 13035007291 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 13035007292 C-terminal domain interface [polypeptide binding]; other site 13035007293 GSH binding site (G-site) [chemical binding]; other site 13035007294 dimer interface [polypeptide binding]; other site 13035007295 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 13035007296 N-terminal domain interface [polypeptide binding]; other site 13035007297 Cyanobacterial and plant NDH-1 subunit O; Region: NdhO; pfam11910 13035007298 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 13035007299 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 13035007300 active site 13035007301 Substrate binding site; other site 13035007302 Mg++ binding site; other site 13035007303 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 13035007304 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 13035007305 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 13035007306 Photosystem II protein Y (PsbY); Region: PsbY; pfam06298 13035007307 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 13035007308 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 13035007309 Domain of unknown function DUF29; Region: DUF29; pfam01724 13035007310 Histidinol phosphatase and related phosphatases [Amino acid transport and metabolism]; Region: HisB; COG0241 13035007311 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 13035007312 active site 13035007313 motif I; other site 13035007314 motif II; other site 13035007315 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 13035007316 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 13035007317 putative active site [active] 13035007318 Predicted membrane protein (DUF2214); Region: DUF2214; pfam09980 13035007319 CHASE3 domain; Region: CHASE3; pfam05227 13035007320 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 13035007321 dimer interface [polypeptide binding]; other site 13035007322 phosphorylation site [posttranslational modification] 13035007323 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 13035007324 ATP binding site [chemical binding]; other site 13035007325 Mg2+ binding site [ion binding]; other site 13035007326 G-X-G motif; other site 13035007327 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 13035007328 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 13035007329 active site 13035007330 phosphorylation site [posttranslational modification] 13035007331 intermolecular recognition site; other site 13035007332 dimerization interface [polypeptide binding]; other site 13035007333 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 13035007334 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 13035007335 active site 13035007336 phosphorylation site [posttranslational modification] 13035007337 intermolecular recognition site; other site 13035007338 dimerization interface [polypeptide binding]; other site 13035007339 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 13035007340 PAS fold; Region: PAS_3; pfam08447 13035007341 putative active site [active] 13035007342 heme pocket [chemical binding]; other site 13035007343 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 13035007344 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 13035007345 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 13035007346 GAF domain; Region: GAF; pfam01590 13035007347 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 13035007348 dimer interface [polypeptide binding]; other site 13035007349 phosphorylation site [posttranslational modification] 13035007350 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 13035007351 ATP binding site [chemical binding]; other site 13035007352 Mg2+ binding site [ion binding]; other site 13035007353 G-X-G motif; other site 13035007354 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 13035007355 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 13035007356 putative ADP-binding pocket [chemical binding]; other site 13035007357 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 13035007358 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 13035007359 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 13035007360 NADH(P)-binding; Region: NAD_binding_10; pfam13460 13035007361 NAD(P) binding site [chemical binding]; other site 13035007362 Complex I intermediate-associated protein 30 (CIA30); Region: CIA30; pfam08547 13035007363 NADH(P)-binding; Region: NAD_binding_10; pfam13460 13035007364 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 13035007365 active site 13035007366 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 13035007367 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 13035007368 generic binding surface I; other site 13035007369 generic binding surface II; other site 13035007370 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 13035007371 putative active site [active] 13035007372 putative catalytic site [active] 13035007373 putative Mg binding site IVb [ion binding]; other site 13035007374 putative phosphate binding site [ion binding]; other site 13035007375 putative DNA binding site [nucleotide binding]; other site 13035007376 putative Mg binding site IVa [ion binding]; other site 13035007377 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 13035007378 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 13035007379 CHRD domain; Region: CHRD; pfam07452 13035007380 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 13035007381 Synechococcus sp. strain PCC 7942 PhoA and related proteins, N-terminal metallophosphatase domain; Region: MPP_PhoA_N; cd08162 13035007382 putative active site [active] 13035007383 putative metal binding site [ion binding]; other site 13035007384 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 13035007385 Cadherin repeat-like domain; Region: CA_like; cl15786 13035007386 Ca2+ binding site [ion binding]; other site 13035007387 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 13035007388 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 13035007389 glutaminase active site [active] 13035007390 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 13035007391 dimer interface [polypeptide binding]; other site 13035007392 active site 13035007393 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 13035007394 dimer interface [polypeptide binding]; other site 13035007395 active site 13035007396 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 13035007397 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 13035007398 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: COG2405 13035007399 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 13035007400 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 13035007401 P-loop; other site 13035007402 Magnesium ion binding site [ion binding]; other site 13035007403 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 13035007404 Magnesium ion binding site [ion binding]; other site 13035007405 ATP-dependent helicase HepA; Validated; Region: PRK04914 13035007406 putative acyl transferase; Provisional; Region: PRK10502 13035007407 wcaF-like: This group is composed of the protein product of the E. coli wcaF gene and similar proteins. WcaF is part of the gene cluster responsible for the biosynthesis of the extracellular polysaccharide colanic acid. The wcaF protein is predicted to...; Region: LbH_wcaF_like; cd05825 13035007408 putative trimer interface [polypeptide binding]; other site 13035007409 putative active site [active] 13035007410 putative substrate binding site [chemical binding]; other site 13035007411 putative CoA binding site [chemical binding]; other site 13035007412 magnesium chelatase ATPase subunit I; Region: BchI-ChlI; TIGR02030 13035007413 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 13035007414 Walker A motif; other site 13035007415 ATP binding site [chemical binding]; other site 13035007416 Walker B motif; other site 13035007417 arginine finger; other site 13035007418 Mg-chelatase subunit ChlD [Coenzyme metabolism]; Region: ChlD; COG1240 13035007419 Protein of unknown function (DUF444); Region: DUF444; cl17371 13035007420 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 13035007421 metal ion-dependent adhesion site (MIDAS); other site 13035007422 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 13035007423 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 13035007424 dimerization interface [polypeptide binding]; other site 13035007425 DPS ferroxidase diiron center [ion binding]; other site 13035007426 ion pore; other site 13035007427 ParB-like nuclease domain; Region: ParBc; cl02129 13035007428 S-formylglutathione hydrolase; Region: PLN02442 13035007429 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 13035007430 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 13035007431 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 13035007432 substrate binding site [chemical binding]; other site 13035007433 catalytic Zn binding site [ion binding]; other site 13035007434 NAD binding site [chemical binding]; other site 13035007435 structural Zn binding site [ion binding]; other site 13035007436 dimer interface [polypeptide binding]; other site 13035007437 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 13035007438 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 13035007439 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 13035007440 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 13035007441 Protein of unknown function (DUF3531); Region: DUF3531; pfam12049 13035007442 prephenate dehydratase; Provisional; Region: PRK11898 13035007443 Prephenate dehydratase; Region: PDT; pfam00800 13035007444 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 13035007445 putative L-Phe binding site [chemical binding]; other site 13035007446 stage V sporulation protein K; Region: spore_V_K; TIGR02881 13035007447 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 13035007448 Walker A motif; other site 13035007449 ATP binding site [chemical binding]; other site 13035007450 Walker B motif; other site 13035007451 arginine finger; other site 13035007452 YcfA-like protein; Region: YcfA; pfam07927 13035007453 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 13035007454 YcfA-like protein; Region: YcfA; pfam07927 13035007455 Domain of unknown function (DUF1902); Region: DUF1902; pfam08972 13035007456 YcfA-like protein; Region: YcfA; pfam07927 13035007457 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 13035007458 PemK-like protein; Region: PemK; pfam02452 13035007459 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 13035007460 Putative addiction module component; Region: Unstab_antitox; pfam09720 13035007461 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 13035007462 Short C-terminal domain; Region: SHOCT; pfam09851 13035007463 PIN domain; Region: PIN; pfam01850 13035007464 putative active site [active] 13035007465 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 13035007466 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 13035007467 active site 13035007468 Protein of unknown function (DUF433); Region: DUF433; cl01030 13035007469 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 13035007470 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 13035007471 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 13035007472 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 13035007473 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 13035007474 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 13035007475 PemK-like protein; Region: PemK; cl00995 13035007476 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 13035007477 active site 13035007478 NTP binding site [chemical binding]; other site 13035007479 metal binding triad [ion binding]; metal-binding site 13035007480 antibiotic binding site [chemical binding]; other site 13035007481 Protein of unknown function DUF86; Region: DUF86; cl01031 13035007482 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 13035007483 putative active site [active] 13035007484 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 13035007485 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 13035007486 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 13035007487 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 13035007488 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 13035007489 putative active site [active] 13035007490 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 13035007491 putative active site [active] 13035007492 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 13035007493 active site 13035007494 SAM binding site [chemical binding]; other site 13035007495 homodimer interface [polypeptide binding]; other site 13035007496 putative bicarbonate transporter, IctB family; Region: 2A73; TIGR00947 13035007497 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 13035007498 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 13035007499 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 13035007500 Probable transposase; Region: OrfB_IS605; pfam01385 13035007501 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 13035007502 GUN4-like; Region: GUN4; pfam05419 13035007503 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 13035007504 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 13035007505 S-adenosylmethionine binding site [chemical binding]; other site 13035007506 Tic22-like family; Region: Tic22; pfam04278 13035007507 Cytochrome P450; Region: p450; pfam00067 13035007508 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 13035007509 GLTT repeat (6 copies); Region: GLTT; pfam01744 13035007510 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 13035007511 Cytochrome P450; Region: p450; pfam00067 13035007512 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 13035007513 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 13035007514 active site 13035007515 catalytic tetrad [active] 13035007516 Protein of unknown function (DUF1499); Region: DUF1499; cl01841 13035007517 Predicted permeases [General function prediction only]; Region: COG0795 13035007518 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 13035007519 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 13035007520 active site residue [active] 13035007521 Protein of unknown function, DUF547; Region: DUF547; pfam04784 13035007522 GT_2_like_a represents a glycosyltransferase family-2 subfamily with unknown function; Region: GT_2_like_a; cd02522 13035007523 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 13035007524 Probable Catalytic site; other site 13035007525 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 13035007526 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 13035007527 DNA methylase; Region: N6_N4_Mtase; pfam01555 13035007528 glutathione reductase; Validated; Region: PRK06116 13035007529 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 13035007530 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 13035007531 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 13035007532 competence damage-inducible protein A; Provisional; Region: PRK00549 13035007533 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 13035007534 putative MPT binding site; other site 13035007535 Competence-damaged protein; Region: CinA; pfam02464 13035007536 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 13035007537 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 13035007538 Mg++ binding site [ion binding]; other site 13035007539 putative catalytic motif [active] 13035007540 substrate binding site [chemical binding]; other site 13035007541 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 13035007542 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 13035007543 dimer interface [polypeptide binding]; other site 13035007544 active site 13035007545 glycine-pyridoxal phosphate binding site [chemical binding]; other site 13035007546 folate binding site [chemical binding]; other site 13035007547 YCII-related domain; Region: YCII; cl00999 13035007548 Bacterial SH3 domain; Region: SH3_3; pfam08239 13035007549 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 13035007550 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 13035007551 active site 13035007552 metal binding site [ion binding]; metal-binding site 13035007553 Cytochrome c; Region: Cytochrom_C; cl11414 13035007554 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 13035007555 Predicted membrane protein [Function unknown]; Region: COG2259 13035007556 NADH dehydrogenase transmembrane subunit; Region: NdhL; pfam10716 13035007557 Protein of unknown function (DUF3007); Region: DUF3007; pfam11460 13035007558 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 13035007559 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 13035007560 substrate binding site [chemical binding]; other site 13035007561 active site 13035007562 catalytic residues [active] 13035007563 heterodimer interface [polypeptide binding]; other site 13035007564 Aldose 1-epimerase, similar to Synechocystis Slr1438; Region: Aldose_epim_Slr1438; cd09025 13035007565 active site 13035007566 catalytic residues [active] 13035007567 Predicted membrane protein [Function unknown]; Region: COG2259 13035007568 agmatinase; Region: agmatinase; TIGR01230 13035007569 Agmatinase and related proteins; Region: Agmatinase-like_2; cd11593 13035007570 putative active site [active] 13035007571 Mn binding site [ion binding]; other site 13035007572 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 13035007573 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 13035007574 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 13035007575 catalytic residue [active] 13035007576 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 13035007577 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 13035007578 dimer interface [polypeptide binding]; other site 13035007579 motif 1; other site 13035007580 active site 13035007581 motif 2; other site 13035007582 motif 3; other site 13035007583 Protein of unknown function (DUF4079); Region: DUF4079; pfam13301 13035007584 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 13035007585 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 13035007586 Competence protein; Region: Competence; pfam03772 13035007587 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 13035007588 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 13035007589 FMN binding site [chemical binding]; other site 13035007590 active site 13035007591 catalytic residues [active] 13035007592 substrate binding site [chemical binding]; other site 13035007593 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK12305 13035007594 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 13035007595 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 13035007596 active site 13035007597 dimer interface [polypeptide binding]; other site 13035007598 motif 1; other site 13035007599 motif 2; other site 13035007600 motif 3; other site 13035007601 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 13035007602 anticodon binding site; other site 13035007603 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 13035007604 putative NAD(P) binding site [chemical binding]; other site 13035007605 Enoylreductase; Region: PKS_ER; smart00829 13035007606 putative substrate binding site [chemical binding]; other site 13035007607 catalytic Zn binding site [ion binding]; other site 13035007608 structural Zn binding site [ion binding]; other site 13035007609 dimer interface [polypeptide binding]; other site 13035007610 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 13035007611 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 13035007612 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 13035007613 putative active site [active] 13035007614 putative NTP binding site [chemical binding]; other site 13035007615 putative nucleic acid binding site [nucleotide binding]; other site 13035007616 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 13035007617 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 13035007618 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 13035007619 active site 13035007620 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 13035007621 Protein of unknown function (DUF2288); Region: DUF2288; pfam10052 13035007622 Uncharacterized protein family (UPF0175); Region: UPF0175; pfam03683 13035007623 Uncharacterized integral membrane protein (DUF2301); Region: DUF2301; pfam10063 13035007624 recombinase A; Provisional; Region: recA; PRK09354 13035007625 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 13035007626 hexamer interface [polypeptide binding]; other site 13035007627 Walker A motif; other site 13035007628 ATP binding site [chemical binding]; other site 13035007629 Walker B motif; other site 13035007630 TrkA-N domain; Region: TrkA_N; pfam02254 13035007631 Protein of unknown function (DUF1012); Region: DUF1012; pfam06241 13035007632 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 13035007633 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 13035007634 MutS domain III; Region: MutS_III; cl17822 13035007635 HlyD family secretion protein; Region: HlyD_3; pfam13437 13035007636 Nuclease-related domain; Region: NERD; pfam08378 13035007637 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3972 13035007638 Family description; Region: UvrD_C_2; pfam13538 13035007639 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 13035007640 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 13035007641 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 13035007642 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 13035007643 Ligand Binding Site [chemical binding]; other site 13035007644 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 13035007645 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 13035007646 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 13035007647 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 13035007648 active site 13035007649 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 13035007650 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 13035007651 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 13035007652 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 13035007653 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 13035007654 dimer interface [polypeptide binding]; other site 13035007655 conserved gate region; other site 13035007656 putative PBP binding loops; other site 13035007657 ABC-ATPase subunit interface; other site 13035007658 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 13035007659 active site 13035007660 photosystem I reaction center subunit PsaK; Region: PS_I_psaK; TIGR03049 13035007661 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 13035007662 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; cl01898 13035007663 putative active site [active] 13035007664 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 13035007665 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 13035007666 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 13035007667 BioD-like N-terminal domain of phosphotransacetylase [General function prediction only]; Region: Pta; COG0857 13035007668 DRTGG domain; Region: DRTGG; pfam07085 13035007669 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 13035007670 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 13035007671 active site 13035007672 HIGH motif; other site 13035007673 dimer interface [polypeptide binding]; other site 13035007674 KMSKS motif; other site 13035007675 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 13035007676 MltA specific insert domain; Region: MltA; pfam03562 13035007677 3D domain; Region: 3D; pfam06725 13035007678 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 13035007679 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 13035007680 TPP-binding site; other site 13035007681 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 13035007682 PYR/PP interface [polypeptide binding]; other site 13035007683 dimer interface [polypeptide binding]; other site 13035007684 TPP binding site [chemical binding]; other site 13035007685 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 13035007686 Fructosamine kinase; Region: Fructosamin_kin; pfam03881 13035007687 Phosphotransferase enzyme family; Region: APH; pfam01636 13035007688 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 13035007689 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 13035007690 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 13035007691 Ligand Binding Site [chemical binding]; other site 13035007692 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 13035007693 Ligand Binding Site [chemical binding]; other site 13035007694 S23 ribosomal protein; Region: Ribosomal_S23p; pfam05635 13035007695 four helix bundle protein; Region: TIGR02436 13035007696 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 13035007697 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 13035007698 hinge; other site 13035007699 active site 13035007700 Predicted membrane protein [Function unknown]; Region: COG3431 13035007701 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 13035007702 SNF2 Helicase protein; Region: DUF3670; pfam12419 13035007703 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 13035007704 protein-splicing catalytic site; other site 13035007705 thioester formation/cholesterol transfer; other site 13035007706 Intein/homing endonuclease [DNA replication, recombination, and repair]; Region: COG1372 13035007707 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 13035007708 protein-splicing catalytic site; other site 13035007709 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 13035007710 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 13035007711 putative Mg++ binding site [ion binding]; other site 13035007712 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 13035007713 nucleotide binding region [chemical binding]; other site 13035007714 ATP-binding site [chemical binding]; other site 13035007715 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 13035007716 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 13035007717 RNase E interface [polypeptide binding]; other site 13035007718 trimer interface [polypeptide binding]; other site 13035007719 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 13035007720 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 13035007721 RNase E interface [polypeptide binding]; other site 13035007722 trimer interface [polypeptide binding]; other site 13035007723 active site 13035007724 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 13035007725 putative nucleic acid binding region [nucleotide binding]; other site 13035007726 G-X-X-G motif; other site 13035007727 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 13035007728 RNA binding site [nucleotide binding]; other site 13035007729 domain interface; other site 13035007730 CpcD/allophycocyanin linker domain; Region: CpcD; pfam01383 13035007731 allophycocyanin beta subunit; Region: apcB; CHL00088 13035007732 Phycobilisome protein; Region: Phycobilisome; cl08227 13035007733 XisH protein; Region: XisH; pfam08814 13035007734 XisI protein; Region: XisI; pfam08869 13035007735 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 13035007736 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 13035007737 catalytic triad [active] 13035007738 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 13035007739 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 13035007740 N- and C-terminal domain interface [polypeptide binding]; other site 13035007741 active site 13035007742 MgATP binding site [chemical binding]; other site 13035007743 catalytic site [active] 13035007744 metal binding site [ion binding]; metal-binding site 13035007745 glycerol binding site [chemical binding]; other site 13035007746 homotetramer interface [polypeptide binding]; other site 13035007747 homodimer interface [polypeptide binding]; other site 13035007748 FBP binding site [chemical binding]; other site 13035007749 protein IIAGlc interface [polypeptide binding]; other site 13035007750 Protein of unknown function (DUF3179); Region: DUF3179; pfam11376 13035007751 hypothetical protein; Provisional; Region: PRK02509 13035007752 Uncharacterized conserved protein [Function unknown]; Region: COG1615; cl09133 13035007753 Uncharacterized conserved protein [Function unknown]; Region: COG1615 13035007754 16S rRNA methyltransferase B; Provisional; Region: PRK14901 13035007755 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 13035007756 putative RNA binding site [nucleotide binding]; other site 13035007757 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 13035007758 S-adenosylmethionine binding site [chemical binding]; other site 13035007759 tellurium resistance terB-like protein; Region: terB_like; cd07177 13035007760 metal binding site [ion binding]; metal-binding site 13035007761 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 13035007762 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 13035007763 putative active site [active] 13035007764 TM2 domain; Region: TM2; cl00984 13035007765 light-harvesting-like protein 3; Provisional; Region: PLN00014 13035007766 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 13035007767 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 13035007768 active site 13035007769 Protein of unknown function (DUF1611); Region: DUF1611; pfam07755 13035007770 Domain of unknown function DUF29; Region: DUF29; pfam01724 13035007771 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 13035007772 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 13035007773 active site residue [active] 13035007774 Methyltransferase domain; Region: Methyltransf_31; pfam13847 13035007775 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 13035007776 S-adenosylmethionine binding site [chemical binding]; other site 13035007777 Methyltransferase domain; Region: Methyltransf_23; pfam13489 13035007778 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 13035007779 S-adenosylmethionine binding site [chemical binding]; other site 13035007780 quinolinate synthetase; Provisional; Region: PRK09375 13035007781 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 13035007782 putative active site [active] 13035007783 CpeS-like protein; Region: CpeS; pfam09367 13035007784 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 13035007785 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 13035007786 Walker A/P-loop; other site 13035007787 ATP binding site [chemical binding]; other site 13035007788 Q-loop/lid; other site 13035007789 ABC transporter signature motif; other site 13035007790 Walker B; other site 13035007791 D-loop; other site 13035007792 H-loop/switch region; other site 13035007793 Protein kinase domain; Region: Pkinase; pfam00069 13035007794 Catalytic domain of Protein Kinases; Region: PKc; cd00180 13035007795 active site 13035007796 ATP binding site [chemical binding]; other site 13035007797 substrate binding site [chemical binding]; other site 13035007798 activation loop (A-loop); other site 13035007799 TPR repeat; Region: TPR_11; pfam13414 13035007800 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 13035007801 binding surface 13035007802 TPR motif; other site 13035007803 Tetratricopeptide repeat; Region: TPR_12; pfam13424 13035007804 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 13035007805 binding surface 13035007806 TPR motif; other site 13035007807 TPR repeat; Region: TPR_11; pfam13414 13035007808 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 13035007809 binding surface 13035007810 TPR motif; other site 13035007811 S-layer homology domain; Region: SLH; pfam00395 13035007812 S-layer homology domain; Region: SLH; pfam00395 13035007813 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 13035007814 trimer interface [polypeptide binding]; other site 13035007815 dimer interface [polypeptide binding]; other site 13035007816 putative active site [active] 13035007817 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 13035007818 OB-fold nucleic acid binding domain; Region: tRNA_anti; pfam01336 13035007819 CHASE3 domain; Region: CHASE3; pfam05227 13035007820 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 13035007821 dimer interface [polypeptide binding]; other site 13035007822 phosphorylation site [posttranslational modification] 13035007823 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 13035007824 ATP binding site [chemical binding]; other site 13035007825 Mg2+ binding site [ion binding]; other site 13035007826 G-X-G motif; other site 13035007827 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 13035007828 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 13035007829 active site 13035007830 phosphorylation site [posttranslational modification] 13035007831 intermolecular recognition site; other site 13035007832 dimerization interface [polypeptide binding]; other site 13035007833 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 13035007834 DNA binding site [nucleotide binding] 13035007835 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 13035007836 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 13035007837 motif II; other site 13035007838 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 13035007839 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 13035007840 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 13035007841 Methyltransferase domain; Region: Methyltransf_23; pfam13489 13035007842 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 13035007843 S-adenosylmethionine binding site [chemical binding]; other site 13035007844 ribosomal protein L21; Region: rpl21; CHL00075 13035007845 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 13035007846 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 13035007847 PBP superfamily domain; Region: PBP_like_2; cl17296 13035007848 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 13035007849 dimer interface [polypeptide binding]; other site 13035007850 catalytic triad [active] 13035007851 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 13035007852 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 13035007853 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 13035007854 homodimer interface [polypeptide binding]; other site 13035007855 substrate-cofactor binding pocket; other site 13035007856 Aminotransferase class IV; Region: Aminotran_4; pfam01063 13035007857 pyridoxal 5'-phosphate binding site [chemical binding]; other site 13035007858 catalytic residue [active] 13035007859 Nickel-containing superoxide dismutase; Region: Sod_Ni; cl07609 13035007860 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 13035007861 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 13035007862 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 13035007863 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 13035007864 Flagellin N-methylase; Region: FliB; pfam03692 13035007865 Predicted membrane protein [Function unknown]; Region: COG2119 13035007866 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 13035007867 Predicted membrane protein [Function unknown]; Region: COG2119 13035007868 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 13035007869 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 13035007870 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 13035007871 substrate binding site [chemical binding]; other site 13035007872 oxyanion hole (OAH) forming residues; other site 13035007873 trimer interface [polypeptide binding]; other site 13035007874 NAD(P)H-quinone oxidoreductase subunit 2; Provisional; Region: PRK02504 13035007875 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 13035007876 Alpha-amylase/alpha-mannosidase [Carbohydrate transport and metabolism]; Region: COG1449 13035007877 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 13035007878 N-terminal catalytic domain of thermoactive amylopullulanases; glycoside hydrolase family 57 (GH57); Region: GH57N_APU; cd10796 13035007879 putative active site [active] 13035007880 catalytic site [active] 13035007881 Domon-like ligand-binding domains; Region: DOMON_like; cd00241 13035007882 putative ligand binding site [chemical binding]; other site 13035007883 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 13035007884 putative active site [active] 13035007885 Amidohydrolase; Region: Amidohydro_2; pfam04909 13035007886 Protein of unknown function (DUF962); Region: DUF962; pfam06127 13035007887 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 13035007888 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 13035007889 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 13035007890 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 13035007891 putative active site [active] 13035007892 putative NTP binding site [chemical binding]; other site 13035007893 putative nucleic acid binding site [nucleotide binding]; other site 13035007894 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 13035007895 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 13035007896 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 13035007897 active site 13035007898 tocopherol O-methyltransferase; Region: PLN02244 13035007899 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 13035007900 S-adenosylmethionine binding site [chemical binding]; other site 13035007901 dephospho-CoA kinase; Region: TIGR00152 13035007902 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 13035007903 CoA-binding site [chemical binding]; other site 13035007904 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 13035007905 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 13035007906 active site 13035007907 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 13035007908 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 13035007909 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 13035007910 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 13035007911 spermidine synthase; Provisional; Region: PRK03612 13035007912 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 13035007913 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 13035007914 CoA binding domain; Region: CoA_binding_2; pfam13380 13035007915 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 13035007916 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 13035007917 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 13035007918 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 13035007919 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 13035007920 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 13035007921 Olfactory marker protein; Region: Olfactory_mark; pfam06554 13035007922 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 13035007923 Bacitracin resistance protein BacA; Region: BacA; pfam02673 13035007924 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 13035007925 Histone deacetylase class IV also known as histone deacetylase 11; Region: HDAC_classIV; cd09993 13035007926 putative active site [active] 13035007927 Zn binding site [ion binding]; other site 13035007928 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 13035007929 plastocyanin; Provisional; Region: PRK02710 13035007930 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 13035007931 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 13035007932 dimer interface [polypeptide binding]; other site 13035007933 conserved gate region; other site 13035007934 putative PBP binding loops; other site 13035007935 ABC-ATPase subunit interface; other site 13035007936 Protein of unknown function (DUF2805); Region: DUF2805; cl11923 13035007937 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 13035007938 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 13035007939 dimer interface [polypeptide binding]; other site 13035007940 conserved gate region; other site 13035007941 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 13035007942 ABC-ATPase subunit interface; other site 13035007943 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 13035007944 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 13035007945 Walker A/P-loop; other site 13035007946 ATP binding site [chemical binding]; other site 13035007947 Q-loop/lid; other site 13035007948 ABC transporter signature motif; other site 13035007949 Walker B; other site 13035007950 D-loop; other site 13035007951 H-loop/switch region; other site 13035007952 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 13035007953 SdiA-regulated; Region: SdiA-regulated; cd09971 13035007954 putative active site [active] 13035007955 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 13035007956 DHH family; Region: DHH; pfam01368 13035007957 DHHA1 domain; Region: DHHA1; pfam02272 13035007958 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 13035007959 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 13035007960 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 13035007961 Inter-Src homology 2 (iSH2) helical domain of Class IA Phosphoinositide 3-kinase Regulatory subunits; Region: iSH2_PI3K_IA_R; cl17108 13035007962 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 13035007963 Right handed beta helix region; Region: Beta_helix; pfam13229 13035007964 Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell division and chromosome partitioning / Cytoskeleton]; Region: ATS1; COG5184 13035007965 Calx-beta domain; Region: Calx-beta; cl02522 13035007966 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 13035007967 PhoH-like protein; Region: PhoH; pfam02562 13035007968 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 13035007969 KH domain; Region: KH_4; pfam13083 13035007970 ribosomal protein S16; Region: rps16; CHL00005 13035007971 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 13035007972 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 13035007973 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 13035007974 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 13035007975 NAD(P) binding site [chemical binding]; other site 13035007976 active site 13035007977 CAAX protease self-immunity; Region: Abi; pfam02517 13035007978 Protein of unknown function (DUF4079); Region: DUF4079; pfam13301 13035007979 Protein of unknown function (DUF4079); Region: DUF4079; pfam13301 13035007980 cellulose synthase catalytic subunit (UDP-forming); Region: CelA; TIGR03030 13035007981 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 13035007982 DXD motif; other site 13035007983 Cellulose synthase-like protein; Region: PLN02893 13035007984 threonine synthase; Validated; Region: PRK07591 13035007985 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 13035007986 homodimer interface [polypeptide binding]; other site 13035007987 pyridoxal 5'-phosphate binding site [chemical binding]; other site 13035007988 catalytic residue [active] 13035007989 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 13035007990 MoaE interaction surface [polypeptide binding]; other site 13035007991 MoeB interaction surface [polypeptide binding]; other site 13035007992 thiocarboxylated glycine; other site 13035007993 Protein of unknown function (DUF2996); Region: DUF2996; pfam11210 13035007994 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 13035007995 PemK-like protein; Region: PemK; pfam02452 13035007996 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 13035007997 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 13035007998 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 13035007999 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 13035008000 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 13035008001 dimer interface [polypeptide binding]; other site 13035008002 anticodon binding site; other site 13035008003 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 13035008004 homodimer interface [polypeptide binding]; other site 13035008005 motif 1; other site 13035008006 active site 13035008007 motif 2; other site 13035008008 GAD domain; Region: GAD; pfam02938 13035008009 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 13035008010 active site 13035008011 motif 3; other site 13035008012 short chain dehydrogenase; Validated; Region: PRK06484 13035008013 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 13035008014 L-aspartate oxidase; Provisional; Region: PRK06175 13035008015 L-aspartate oxidase; Provisional; Region: PRK07395 13035008016 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 13035008017 Homeodomain-like domain; Region: HTH_23; pfam13384 13035008018 Winged helix-turn helix; Region: HTH_29; pfam13551 13035008019 Homeodomain-like domain; Region: HTH_32; pfam13565 13035008020 DDE superfamily endonuclease; Region: DDE_3; pfam13358 13035008021 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 13035008022 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 13035008023 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 13035008024 cofactor binding site; other site 13035008025 DNA binding site [nucleotide binding] 13035008026 substrate interaction site [chemical binding]; other site 13035008027 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 13035008028 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 13035008029 putative active site [active] 13035008030 C factor cell-cell signaling protein; Provisional; Region: PRK09009 13035008031 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 13035008032 NADP binding site [chemical binding]; other site 13035008033 homodimer interface [polypeptide binding]; other site 13035008034 active site 13035008035 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 13035008036 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 13035008037 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 13035008038 catalytic residue [active] 13035008039 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 13035008040 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 13035008041 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 13035008042 putative NADP binding site [chemical binding]; other site 13035008043 putative substrate binding site [chemical binding]; other site 13035008044 active site 13035008045 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 13035008046 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 13035008047 SLBB domain; Region: SLBB; pfam10531 13035008048 AMIN domain; Region: AMIN; pfam11741 13035008049 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 13035008050 Secretin and TonB N terminus short domain; Region: STN; pfam07660 13035008051 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 13035008052 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 13035008053 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 13035008054 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 13035008055 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 13035008056 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 13035008057 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 13035008058 Nitrogen regulatory protein P-II; Region: P-II; smart00938 13035008059 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 13035008060 active site 13035008061 dimerization interface [polypeptide binding]; other site 13035008062 chloroplast protein import component, Tic20 family; Region: 3a0901s05TIC20; TIGR00994 13035008063 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 13035008064 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 13035008065 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 13035008066 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 13035008067 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 13035008068 Mg2+ binding site [ion binding]; other site 13035008069 G-X-G motif; other site 13035008070 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 13035008071 anchoring element; other site 13035008072 dimer interface [polypeptide binding]; other site 13035008073 ATP binding site [chemical binding]; other site 13035008074 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 13035008075 protein-splicing catalytic site; other site 13035008076 thioester formation/cholesterol transfer; other site 13035008077 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 13035008078 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 13035008079 protein-splicing catalytic site; other site 13035008080 thioester formation/cholesterol transfer; other site 13035008081 metal binding site [ion binding]; metal-binding site 13035008082 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 13035008083 salt bridge; other site 13035008084 non-specific DNA binding site [nucleotide binding]; other site 13035008085 sequence-specific DNA binding site [nucleotide binding]; other site 13035008086 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 13035008087 active site 13035008088 metal binding site [ion binding]; metal-binding site 13035008089 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 13035008090 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 13035008091 putative active site [active] 13035008092 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 13035008093 oligomeric interface; other site 13035008094 putative active site [active] 13035008095 homodimer interface [polypeptide binding]; other site 13035008096 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 13035008097 YcfA-like protein; Region: YcfA; cl00752 13035008098 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 13035008099 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 13035008100 GIY-YIG domain found in CAXIP1-like proteins, iron-sulfur cluster assembly proteins, and similar proteins; Region: GIY-YIG_AtGrxS16_like; cd10450 13035008101 GIY-YIG motif/motif A; other site 13035008102 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 13035008103 Catalytic domain of Protein Kinases; Region: PKc; cd00180 13035008104 active site 13035008105 ATP binding site [chemical binding]; other site 13035008106 substrate binding site [chemical binding]; other site 13035008107 activation loop (A-loop); other site 13035008108 glycine betaine transporter membrane protein; Provisional; Region: PRK10952 13035008109 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 13035008110 dimer interface [polypeptide binding]; other site 13035008111 conserved gate region; other site 13035008112 putative PBP binding loops; other site 13035008113 ABC-ATPase subunit interface; other site 13035008114 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 13035008115 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 13035008116 Walker A/P-loop; other site 13035008117 ATP binding site [chemical binding]; other site 13035008118 Q-loop/lid; other site 13035008119 ABC transporter signature motif; other site 13035008120 Walker B; other site 13035008121 D-loop; other site 13035008122 H-loop/switch region; other site 13035008123 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 13035008124 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 13035008125 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 13035008126 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 13035008127 putative active site [active] 13035008128 putative NTP binding site [chemical binding]; other site 13035008129 putative nucleic acid binding site [nucleotide binding]; other site 13035008130 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 13035008131 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 13035008132 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 13035008133 active site 13035008134 AIR carboxylase; Region: AIRC; pfam00731 13035008135 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 13035008136 proline aminopeptidase P II; Provisional; Region: PRK10879 13035008137 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 13035008138 active site 13035008139 High-affinity nickel-transport protein; Region: NicO; cl00964 13035008140 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 13035008141 substrate binding site; other site 13035008142 dimer interface; other site 13035008143 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 13035008144 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 13035008145 protein binding site [polypeptide binding]; other site 13035008146 light-harvesting-like protein 3; Provisional; Region: PLN00014 13035008147 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 13035008148 Predicted membrane protein (DUF2157); Region: DUF2157; cl10480 13035008149 GTP-binding protein YchF; Reviewed; Region: PRK09601 13035008150 YchF GTPase; Region: YchF; cd01900 13035008151 G1 box; other site 13035008152 GTP/Mg2+ binding site [chemical binding]; other site 13035008153 Switch I region; other site 13035008154 G2 box; other site 13035008155 Switch II region; other site 13035008156 G3 box; other site 13035008157 G4 box; other site 13035008158 G5 box; other site 13035008159 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 13035008160 PRC-barrel domain; Region: PRC; pfam05239 13035008161 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 13035008162 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 13035008163 metal-binding site [ion binding] 13035008164 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 13035008165 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 13035008166 motif II; other site 13035008167 Dynamin family; Region: Dynamin_N; pfam00350 13035008168 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 13035008169 G1 box; other site 13035008170 GTP/Mg2+ binding site [chemical binding]; other site 13035008171 Switch I region; other site 13035008172 G2 box; other site 13035008173 Switch II region; other site 13035008174 G3 box; other site 13035008175 G4 box; other site 13035008176 G5 box; other site 13035008177 Domain of unknown function (DUF697); Region: DUF697; pfam05128 13035008178 Curli production assembly/transport component CsgG; Region: CsgG; pfam03783 13035008179 Type II secretory pathway, pullulanase PulA and related glycosidases [Carbohydrate transport and metabolism]; Region: PulA; COG1523 13035008180 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 13035008181 Clp amino terminal domain; Region: Clp_N; pfam02861 13035008182 Clp amino terminal domain; Region: Clp_N; pfam02861 13035008183 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 13035008184 Walker A motif; other site 13035008185 ATP binding site [chemical binding]; other site 13035008186 Walker B motif; other site 13035008187 arginine finger; other site 13035008188 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 13035008189 Walker A motif; other site 13035008190 ATP binding site [chemical binding]; other site 13035008191 Walker B motif; other site 13035008192 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 13035008193 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 13035008194 DNA methylase; Region: N6_N4_Mtase; cl17433 13035008195 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 13035008196 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 13035008197 Protein of unknown function (DUF751); Region: DUF751; pfam05421 13035008198 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 13035008199 Protein of unknown function, DUF482; Region: DUF482; pfam04339 13035008200 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 13035008201 DEAD-like helicases superfamily; Region: DEXDc; smart00487 13035008202 ATP binding site [chemical binding]; other site 13035008203 Mg++ binding site [ion binding]; other site 13035008204 motif III; other site 13035008205 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 13035008206 nucleotide binding region [chemical binding]; other site 13035008207 ATP-binding site [chemical binding]; other site 13035008208 threonine synthase; Reviewed; Region: PRK06721 13035008209 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 13035008210 homodimer interface [polypeptide binding]; other site 13035008211 pyridoxal 5'-phosphate binding site [chemical binding]; other site 13035008212 catalytic residue [active] 13035008213 Protein of unknown function DUF262; Region: DUF262; pfam03235 13035008214 Uncharacterized conserved protein [Function unknown]; Region: COG1479 13035008215 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 13035008216 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 13035008217 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 13035008218 Protein of unknown function, DUF488; Region: DUF488; pfam04343 13035008219 Protein of unknown function, DUF488; Region: DUF488; pfam04343 13035008220 Uncharacterized protein conserved in bacteria (DUF2237); Region: DUF2237; pfam09996 13035008221 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 13035008222 active site 13035008223 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK08649 13035008224 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 13035008225 active site 13035008226 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 13035008227 ornithine carbamoyltransferase; Provisional; Region: PRK00779 13035008228 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 13035008229 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; pfam02660 13035008230 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 13035008231 phosphoenolpyruvate synthase; Validated; Region: PRK06241 13035008232 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 13035008233 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 13035008234 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 13035008235 putative GSH binding site [chemical binding]; other site 13035008236 catalytic residues [active] 13035008237 BolA-like protein; Region: BolA; pfam01722 13035008238 adaptive-response sensory kinase; Validated; Region: PRK09303 13035008239 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 13035008240 tetramer interface [polypeptide binding]; other site 13035008241 dimer interface [polypeptide binding]; other site 13035008242 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 13035008243 dimer interface [polypeptide binding]; other site 13035008244 phosphorylation site [posttranslational modification] 13035008245 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 13035008246 ATP binding site [chemical binding]; other site 13035008247 Mg2+ binding site [ion binding]; other site 13035008248 G-X-G motif; other site 13035008249 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 13035008250 nucleoside/Zn binding site; other site 13035008251 dimer interface [polypeptide binding]; other site 13035008252 catalytic motif [active] 13035008253 Proto-chlorophyllide reductase 57 kD subunit; Region: PCP_red; pfam08369 13035008254 Peptidase family M48; Region: Peptidase_M48; pfam01435 13035008255 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 13035008256 HAMP domain; Region: HAMP; pfam00672 13035008257 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 13035008258 dimer interface [polypeptide binding]; other site 13035008259 phosphorylation site [posttranslational modification] 13035008260 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 13035008261 ATP binding site [chemical binding]; other site 13035008262 Mg2+ binding site [ion binding]; other site 13035008263 G-X-G motif; other site 13035008264 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 13035008265 Chain length determinant protein; Region: Wzz; pfam02706 13035008266 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 13035008267 Chain length determinant protein; Region: Wzz; cl15801 13035008268 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 13035008269 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 13035008270 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 13035008271 GST_N family, Saccharomyces cerevisiae GTT2-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT2. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing...; Region: GST_N_GTT2_like; cd03051 13035008272 putative C-terminal domain interface [polypeptide binding]; other site 13035008273 putative GSH binding site (G-site) [chemical binding]; other site 13035008274 putative dimer interface [polypeptide binding]; other site 13035008275 Predicted ATPases [General function prediction only]; Region: COG1106 13035008276 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 13035008277 Q-loop/lid; other site 13035008278 ABC transporter signature motif; other site 13035008279 Walker B; other site 13035008280 D-loop; other site 13035008281 H-loop/switch region; other site 13035008282 RloB-like protein; Region: RloB; pfam13707 13035008283 Conserved nitrate reductase-associated protein (Nitr_red_assoc); Region: Nitr_red_assoc; pfam09655 13035008284 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 13035008285 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 13035008286 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 13035008287 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 13035008288 [4Fe-4S] binding site [ion binding]; other site 13035008289 molybdopterin cofactor binding site; other site 13035008290 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 13035008291 molybdopterin cofactor binding site; other site 13035008292 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 13035008293 putative substrate translocation pore; other site 13035008294 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 13035008295 ferredoxin-nitrite reductase; Reviewed; Region: nirA; PRK09566 13035008296 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 13035008297 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 13035008298 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 13035008299 cyanate hydratase; Validated; Region: PRK02866 13035008300 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 13035008301 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 13035008302 oligomer interface [polypeptide binding]; other site 13035008303 active site 13035008304 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 13035008305 DNA methylase; Region: N6_N4_Mtase; cl17433 13035008306 Protein of unknown function (DUF3172); Region: DUF3172; pfam11371 13035008307 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 13035008308 putative active site [active] 13035008309 N(2),N(2)-dimethylguanosine tRNA methyltransferase; Provisional; Region: PRK04338 13035008310 radical SAM/Cys-rich domain protein; Region: rSAM_SeCys; TIGR04167 13035008311 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 13035008312 FeS/SAM binding site; other site 13035008313 Protein of unknown function (DUF3641); Region: DUF3641; pfam12345 13035008314 Uncharacterized conserved protein [Function unknown]; Region: COG0398 13035008315 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 13035008316 Predicted flavoprotein [General function prediction only]; Region: COG0431 13035008317 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 13035008318 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 13035008319 carotene isomerase; Region: carot_isom; TIGR02730 13035008320 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_11; cd08866 13035008321 putative hydrophobic ligand binding site [chemical binding]; other site 13035008322 Repair protein; Region: Repair_PSII; pfam04536 13035008323 Domain of unknown function (DUF4346); Region: DUF4346; pfam14251 13035008324 Dihydropteroate synthase and related enzymes [Coenzyme metabolism]; Region: FolP; COG0294 13035008325 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 13035008326 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 13035008327 Probable transposase; Region: OrfB_IS605; pfam01385 13035008328 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 13035008329 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 13035008330 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 13035008331 putative active site [active] 13035008332 putative NTP binding site [chemical binding]; other site 13035008333 putative nucleic acid binding site [nucleotide binding]; other site 13035008334 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 13035008335 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 13035008336 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 13035008337 active site 13035008338 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 13035008339 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 13035008340 ATP binding site [chemical binding]; other site 13035008341 putative Mg++ binding site [ion binding]; other site 13035008342 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 13035008343 nucleotide binding region [chemical binding]; other site 13035008344 ATP-binding site [chemical binding]; other site 13035008345 Photosystem I reaction centre subunit XI; Region: PsaL; pfam02605 13035008346 photosystem I reaction center subunit VIII; Reviewed; Region: psaI; PRK11877 13035008347 NADH dehydrogenase subunit 3; Region: ndhC; CHL00022 13035008348 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl17194 13035008349 NADH dehydrogenase subunit J; Provisional; Region: PRK12494 13035008350 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 13035008351 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 13035008352 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 13035008353 motif II; other site 13035008354 Aminopeptidase N [Amino acid transport and metabolism]; Region: PepN; COG0308 13035008355 Peptidase M1 family Aminopeptidase N; Region: M1_APN_4; cd09603 13035008356 Zn binding site [ion binding]; other site 13035008357 E-Z type HEAT repeats; Region: EZ_HEAT; smart00567 13035008358 HEAT repeat; Region: HEAT; pfam02985 13035008359 Domain of unknown function (DUF4142); Region: DUF4142; cl17876 13035008360 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 13035008361 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 13035008362 putative active site [active] 13035008363 Protein of unknown function (DUF433); Region: DUF433; cl01030 13035008364 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4634 13035008365 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 13035008366 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 13035008367 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 13035008368 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 13035008369 dimer interface [polypeptide binding]; other site 13035008370 active site 13035008371 CoA binding pocket [chemical binding]; other site 13035008372 putative phosphate acyltransferase; Provisional; Region: PRK05331 13035008373 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 13035008374 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 13035008375 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 13035008376 dimer interface [polypeptide binding]; other site 13035008377 substrate binding site [chemical binding]; other site 13035008378 metal binding sites [ion binding]; metal-binding site 13035008379 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 13035008380 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 13035008381 Coenzyme A binding pocket [chemical binding]; other site 13035008382 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 13035008383 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 13035008384 putative NAD(P) binding site [chemical binding]; other site 13035008385 homodimer interface [polypeptide binding]; other site 13035008386 homotetramer interface [polypeptide binding]; other site 13035008387 active site 13035008388 SnoaL-like domain; Region: SnoaL_2; pfam12680 13035008389 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 13035008390 photosystem I assembly protein Ycf3; Provisional; Region: PRK02603 13035008391 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 13035008392 binding surface 13035008393 TPR motif; other site 13035008394 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 13035008395 Glycerol dehydrogenases-like; Region: GlyDH-like1; cd08172 13035008396 putative active site [active] 13035008397 metal binding site [ion binding]; metal-binding site 13035008398 aspartate aminotransferase; Provisional; Region: PRK05942 13035008399 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 13035008400 pyridoxal 5'-phosphate binding site [chemical binding]; other site 13035008401 homodimer interface [polypeptide binding]; other site 13035008402 catalytic residue [active] 13035008403 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 13035008404 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 13035008405 Ligand binding site; other site 13035008406 Putative Catalytic site; other site 13035008407 DXD motif; other site 13035008408 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 13035008409 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 13035008410 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 13035008411 putative tRNA-binding site [nucleotide binding]; other site 13035008412 B3/4 domain; Region: B3_4; pfam03483 13035008413 tRNA synthetase B5 domain; Region: B5; smart00874 13035008414 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 13035008415 dimer interface [polypeptide binding]; other site 13035008416 motif 1; other site 13035008417 motif 3; other site 13035008418 motif 2; other site 13035008419 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 13035008420 YciI-like protein; Reviewed; Region: PRK12864 13035008421 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 13035008422 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 13035008423 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 13035008424 P-loop; other site 13035008425 Magnesium ion binding site [ion binding]; other site 13035008426 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 13035008427 Magnesium ion binding site [ion binding]; other site 13035008428 haemagglutination activity domain; Region: Haemagg_act; pfam05860 13035008429 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 13035008430 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 13035008431 metal ion-dependent adhesion site (MIDAS); other site 13035008432 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4995 13035008433 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 13035008434 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 13035008435 Surface antigen; Region: Bac_surface_Ag; pfam01103 13035008436 Protein of unknown function (DUF3747); Region: DUF3747; pfam12565 13035008437 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 13035008438 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 13035008439 phosphopeptide binding site; other site 13035008440 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 13035008441 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 13035008442 phosphopeptide binding site; other site 13035008443 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 13035008444 Eye pigment and drug resistance transporter subfamily G of the ATP-binding cassette superfamily; Region: ABCG_EPDR; cd03213 13035008445 Walker A/P-loop; other site 13035008446 ATP binding site [chemical binding]; other site 13035008447 Q-loop/lid; other site 13035008448 ABC transporter signature motif; other site 13035008449 Walker B; other site 13035008450 D-loop; other site 13035008451 H-loop/switch region; other site 13035008452 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 13035008453 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 13035008454 Alpha/beta hydrolase of unknown function (DUF1400); Region: DUF1400; pfam07176 13035008455 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_aspartate_rich; cd04823 13035008456 dimer interface [polypeptide binding]; other site 13035008457 active site 13035008458 aspartate-rich active site metal binding site; other site 13035008459 allosteric magnesium binding site [ion binding]; other site 13035008460 Schiff base residues; other site 13035008461 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 13035008462 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 13035008463 Walker A/P-loop; other site 13035008464 ATP binding site [chemical binding]; other site 13035008465 Q-loop/lid; other site 13035008466 ABC transporter signature motif; other site 13035008467 Walker B; other site 13035008468 D-loop; other site 13035008469 H-loop/switch region; other site 13035008470 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 13035008471 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 13035008472 active site 13035008473 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 13035008474 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 13035008475 Uncharacterized conserved protein [Function unknown]; Region: COG5464 13035008476 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 13035008477 binding surface 13035008478 TPR motif; other site 13035008479 Tetratricopeptide repeat; Region: TPR_16; pfam13432 13035008480 Repair protein; Region: Repair_PSII; pfam04536 13035008481 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 13035008482 active site 13035008483 ribulose/triose binding site [chemical binding]; other site 13035008484 phosphate binding site [ion binding]; other site 13035008485 substrate (anthranilate) binding pocket [chemical binding]; other site 13035008486 product (indole) binding pocket [chemical binding]; other site 13035008487 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 13035008488 homodimer interface [polypeptide binding]; other site 13035008489 pyridoxal 5'-phosphate binding site [chemical binding]; other site 13035008490 catalytic residue [active] 13035008491 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 13035008492 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3330 13035008493 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 13035008494 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 13035008495 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 13035008496 DNA binding residues [nucleotide binding] 13035008497 Putative zinc-finger; Region: zf-HC2; pfam13490 13035008498 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 13035008499 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 13035008500 motif 1; other site 13035008501 active site 13035008502 motif 2; other site 13035008503 motif 3; other site 13035008504 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 13035008505 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 13035008506 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 13035008507 ABC transporter; Region: ABC_tran_2; pfam12848 13035008508 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 13035008509 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 13035008510 Homeodomain-like domain; Region: HTH_23; pfam13384 13035008511 Winged helix-turn helix; Region: HTH_29; pfam13551 13035008512 Homeodomain-like domain; Region: HTH_32; pfam13565 13035008513 DDE superfamily endonuclease; Region: DDE_3; pfam13358 13035008514 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 13035008515 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 13035008516 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 13035008517 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 13035008518 putative active site [active] 13035008519 XisI protein; Region: XisI; pfam08869 13035008520 XisH protein; Region: XisH; pfam08814 13035008521 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 13035008522 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 13035008523 substrate binding site [chemical binding]; other site 13035008524 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 13035008525 substrate binding site [chemical binding]; other site 13035008526 ligand binding site [chemical binding]; other site 13035008527 Glycoside hydrolase families 71, 99, and related domains; Region: GH99_GH71_like; cl01529 13035008528 Integral membrane protein TerC family; Region: TerC; cl10468 13035008529 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 13035008530 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 13035008531 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 13035008532 metal-binding site [ion binding] 13035008533 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 13035008534 Soluble P-type ATPase [General function prediction only]; Region: COG4087 13035008535 Uncharacterized conserved protein [Function unknown]; Region: COG0397 13035008536 hypothetical protein; Validated; Region: PRK00029 13035008537 hypothetical protein; Provisional; Region: PRK07394 13035008538 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 13035008539 Transcriptional regulator [Transcription]; Region: LysR; COG0583 13035008540 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 13035008541 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 13035008542 dimerization interface [polypeptide binding]; other site 13035008543 HEAT repeats; Region: HEAT_2; pfam13646 13035008544 HEAT repeats; Region: HEAT_2; pfam13646 13035008545 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 13035008546 protein binding surface [polypeptide binding]; other site 13035008547 HEAT repeats; Region: HEAT_2; pfam13646 13035008548 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 13035008549 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 13035008550 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 13035008551 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 13035008552 Methyltransferase domain; Region: Methyltransf_25; pfam13649 13035008553 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 13035008554 acetolactate synthase 3 catalytic subunit; Reviewed; Region: PRK07418 13035008555 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 13035008556 PYR/PP interface [polypeptide binding]; other site 13035008557 dimer interface [polypeptide binding]; other site 13035008558 TPP binding site [chemical binding]; other site 13035008559 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 13035008560 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 13035008561 TPP-binding site [chemical binding]; other site 13035008562 dimer interface [polypeptide binding]; other site 13035008563 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 13035008564 Uncharacterized conserved protein [Function unknown]; Region: COG0393 13035008565 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 13035008566 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 13035008567 B12 binding site [chemical binding]; other site 13035008568 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 13035008569 FeS/SAM binding site; other site 13035008570 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; cl02090 13035008571 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 13035008572 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 13035008573 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 13035008574 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 13035008575 putative active site [active] 13035008576 putative NTP binding site [chemical binding]; other site 13035008577 putative nucleic acid binding site [nucleotide binding]; other site 13035008578 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 13035008579 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 13035008580 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 13035008581 active site 13035008582 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 13035008583 NADPH bind site [chemical binding]; other site 13035008584 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 13035008585 putative FMN binding site [chemical binding]; other site 13035008586 NADPH bind site [chemical binding]; other site 13035008587 AAA domain; Region: AAA_12; pfam13087 13035008588 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 13035008589 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 13035008590 P-loop; other site 13035008591 Magnesium ion binding site [ion binding]; other site 13035008592 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 13035008593 Magnesium ion binding site [ion binding]; other site 13035008594 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 13035008595 putative active site [active] 13035008596 AAA domain; Region: AAA_11; pfam13086 13035008597 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; cd01983 13035008598 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 13035008599 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 13035008600 VWA subgroup: 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_subgroup; cd01465 13035008601 metal ion-dependent adhesion site (MIDAS); other site 13035008602 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 13035008603 Mechanosensitive ion channel; Region: MS_channel; pfam00924 13035008604 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 13035008605 Domain of unknown function (DUF4351); Region: DUF4351; pfam14261 13035008606 Domain of unknown function (DUF4351); Region: DUF4351; pfam14261 13035008607 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 13035008608 active site 13035008609 NTP binding site [chemical binding]; other site 13035008610 metal binding triad [ion binding]; metal-binding site 13035008611 antibiotic binding site [chemical binding]; other site 13035008612 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 13035008613 D-xylulose kinase; Region: XylB; TIGR01312 13035008614 nucleotide binding site [chemical binding]; other site 13035008615 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 13035008616 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 13035008617 active site 13035008618 dimer interface [polypeptide binding]; other site 13035008619 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 13035008620 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 13035008621 active site 13035008622 FMN binding site [chemical binding]; other site 13035008623 substrate binding site [chemical binding]; other site 13035008624 3Fe-4S cluster binding site [ion binding]; other site 13035008625 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 13035008626 domain interface; other site 13035008627 Mg-protoporyphyrin IX chelatase; Region: chlI; CHL00081 13035008628 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 13035008629 Walker A/P-loop; other site 13035008630 ATP binding site [chemical binding]; other site 13035008631 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 13035008632 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 13035008633 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 13035008634 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 13035008635 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 13035008636 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 13035008637 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 13035008638 putative active site [active] 13035008639 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 13035008640 putative active site [active] 13035008641 Protein of unknown function (DUF3148); Region: DUF3148; pfam11347 13035008642 Uncharacterized protein family (UPF0175); Region: UPF0175; cl01085 13035008643 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 13035008644 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: COG2405 13035008645 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 13035008646 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 13035008647 ATP binding site [chemical binding]; other site 13035008648 putative Mg++ binding site [ion binding]; other site 13035008649 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 13035008650 nucleotide binding region [chemical binding]; other site 13035008651 ATP-binding site [chemical binding]; other site 13035008652 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 13035008653 HRDC domain; Region: HRDC; pfam00570 13035008654 EVE domain; Region: EVE; cl00728 13035008655 Protein of unknown function (DUF3120); Region: DUF3120; pfam11318 13035008656 MOSC domain; Region: MOSC; pfam03473 13035008657 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 13035008658 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 13035008659 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 13035008660 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 13035008661 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 13035008662 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 13035008663 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 13035008664 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 13035008665 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 13035008666 Coenzyme A binding pocket [chemical binding]; other site 13035008667 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 13035008668 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 13035008669 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 13035008670 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 13035008671 catalytic site [active] 13035008672 AAA ATPase domain; Region: AAA_16; pfam13191 13035008673 Walker A motif; other site 13035008674 ATP binding site [chemical binding]; other site 13035008675 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 13035008676 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 13035008677 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 13035008678 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 13035008679 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 13035008680 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 13035008681 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 13035008682 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 13035008683 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 13035008684 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 13035008685 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 13035008686 homopentamer interface [polypeptide binding]; other site 13035008687 active site 13035008688 photosystem II reaction center protein Z; Provisional; Region: psbZ; PRK02576 13035008689 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 13035008690 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 13035008691 putative active site [active] 13035008692 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 13035008693 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 13035008694 putative catalytic cysteine [active] 13035008695 Family description; Region: UvrD_C_2; pfam13538 13035008696 hydrolase, alpha/beta fold family protein; Region: PLN02824 13035008697 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 13035008698 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 13035008699 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 13035008700 Walker A/P-loop; other site 13035008701 ATP binding site [chemical binding]; other site 13035008702 Q-loop/lid; other site 13035008703 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 13035008704 ABC transporter signature motif; other site 13035008705 Walker B; other site 13035008706 D-loop; other site 13035008707 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 13035008708 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 13035008709 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 13035008710 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 13035008711 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 13035008712 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 13035008713 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 13035008714 Protein of unknown function (DUF2811); Region: DUF2811; pfam10929 13035008715 protoporphyrinogen oxidase; Region: PLN02576 13035008716 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 13035008717 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 13035008718 putative active site [active] 13035008719 catalytic residue [active] 13035008720 Predicted transcriptional regulators [Transcription]; Region: COG1725 13035008721 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 13035008722 DNA-binding site [nucleotide binding]; DNA binding site 13035008723 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 13035008724 EamA-like transporter family; Region: EamA; pfam00892 13035008725 EamA-like transporter family; Region: EamA; pfam00892 13035008726 Bacterial protein of unknown function (DUF948); Region: DUF948; cl01972 13035008727 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 13035008728 putative active site [active] 13035008729 Domain of unknown function (DUF4281); Region: DUF4281; pfam14108 13035008730 Domain of unknown function (DUF1995); Region: DUF1995; pfam09353 13035008731 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 13035008732 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 13035008733 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 13035008734 catalytic residue [active] 13035008735 glutamate-1-semialdehyde 2,1-aminomutase; Region: PLN02482 13035008736 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 13035008737 inhibitor-cofactor binding pocket; inhibition site 13035008738 pyridoxal 5'-phosphate binding site [chemical binding]; other site 13035008739 catalytic residue [active] 13035008740 magnesium chelatase subunit H; Provisional; Region: PRK12493 13035008741 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 13035008742 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 13035008743 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 13035008744 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 13035008745 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 13035008746 Abi-like protein; Region: Abi_2; pfam07751 13035008747 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 13035008748 active site 13035008749 NTP binding site [chemical binding]; other site 13035008750 metal binding triad [ion binding]; metal-binding site 13035008751 antibiotic binding site [chemical binding]; other site 13035008752 Uncharacterized protein family (UPF0175); Region: UPF0175; cl01085 13035008753 Domain of unknown function (DUF3368); Region: DUF3368; pfam11848 13035008754 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 13035008755 PLD-like domain; Region: PLDc_2; pfam13091 13035008756 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 13035008757 putative active site [active] 13035008758 catalytic site [active] 13035008759 DEAD-like helicases superfamily; Region: DEXDc; smart00487 13035008760 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 13035008761 ATP binding site [chemical binding]; other site 13035008762 putative Mg++ binding site [ion binding]; other site 13035008763 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 13035008764 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 13035008765 nucleotide binding region [chemical binding]; other site 13035008766 ATP-binding site [chemical binding]; other site 13035008767 FtsH Extracellular; Region: FtsH_ext; pfam06480 13035008768 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 13035008769 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 13035008770 Walker A motif; other site 13035008771 ATP binding site [chemical binding]; other site 13035008772 Walker B motif; other site 13035008773 arginine finger; other site 13035008774 Peptidase family M41; Region: Peptidase_M41; pfam01434 13035008775 recombination regulator RecX; Reviewed; Region: recX; PRK00117 13035008776 Hydrophobic surface binding protein A; Region: HsbA; pfam12296 13035008777 RIP metalloprotease RseP; Region: TIGR00054 13035008778 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 13035008779 active site 13035008780 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 13035008781 protein binding site [polypeptide binding]; other site 13035008782 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 13035008783 putative substrate binding region [chemical binding]; other site 13035008784 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 13035008785 endonuclease III; Region: ENDO3c; smart00478 13035008786 minor groove reading motif; other site 13035008787 helix-hairpin-helix signature motif; other site 13035008788 substrate binding pocket [chemical binding]; other site 13035008789 active site 13035008790 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 13035008791 ribosomal protein S14; Region: rps14; CHL00074 13035008792 amidophosphoribosyltransferase; Provisional; Region: PRK07349 13035008793 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 13035008794 active site 13035008795 tetramer interface [polypeptide binding]; other site 13035008796 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 13035008797 active site 13035008798 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 13035008799 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 13035008800 Walker A/P-loop; other site 13035008801 ATP binding site [chemical binding]; other site 13035008802 Q-loop/lid; other site 13035008803 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 13035008804 ABC transporter signature motif; other site 13035008805 Walker B; other site 13035008806 D-loop; other site 13035008807 H-loop/switch region; other site 13035008808 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 13035008809 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 13035008810 purine monophosphate binding site [chemical binding]; other site 13035008811 dimer interface [polypeptide binding]; other site 13035008812 putative catalytic residues [active] 13035008813 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 13035008814 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 13035008815 circadian clock protein KaiC; Reviewed; Region: PRK09302 13035008816 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 13035008817 Walker A motif; other site 13035008818 ATP binding site [chemical binding]; other site 13035008819 Walker B motif; other site 13035008820 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 13035008821 ATP binding site [chemical binding]; other site 13035008822 Walker B motif; other site 13035008823 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 13035008824 tetramer interface [polypeptide binding]; other site 13035008825 dimer interface [polypeptide binding]; other site 13035008826 KaiA domain; Region: KaiA; pfam07688 13035008827 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 13035008828 FOG: CBS domain [General function prediction only]; Region: COG0517 13035008829 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 13035008830 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 13035008831 dimer interface [polypeptide binding]; other site 13035008832 phosphorylation site [posttranslational modification] 13035008833 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 13035008834 ATP binding site [chemical binding]; other site 13035008835 Mg2+ binding site [ion binding]; other site 13035008836 G-X-G motif; other site 13035008837 Response regulator receiver domain; Region: Response_reg; pfam00072 13035008838 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 13035008839 active site 13035008840 phosphorylation site [posttranslational modification] 13035008841 intermolecular recognition site; other site 13035008842 dimerization interface [polypeptide binding]; other site 13035008843 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 13035008844 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 13035008845 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 13035008846 Sulfate transporter family; Region: Sulfate_transp; pfam00916 13035008847 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 13035008848 reverse gyrase; Provisional; Region: PRK14701 13035008849 cytochrome c biogenesis protein; Region: ccsA; CHL00045 13035008850 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 13035008851 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 13035008852 Ligand Binding Site [chemical binding]; other site 13035008853 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 13035008854 Two component signalling adaptor domain; Region: CheW; smart00260 13035008855 Tetratricopeptide repeat; Region: TPR_16; pfam13432 13035008856 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 13035008857 binding surface 13035008858 TPR motif; other site 13035008859 HAMP domain; Region: HAMP; pfam00672 13035008860 dimerization interface [polypeptide binding]; other site 13035008861 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 13035008862 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 13035008863 dimer interface [polypeptide binding]; other site 13035008864 putative CheW interface [polypeptide binding]; other site 13035008865 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 13035008866 Permease; Region: Permease; cl00510 13035008867 Protein of unknown function (DUF3119); Region: DUF3119; pfam11317 13035008868 Protein of unknown function (DUF3086); Region: DUF3086; pfam11285 13035008869 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 13035008870 Fasciclin domain; Region: Fasciclin; pfam02469 13035008871 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 13035008872 EamA-like transporter family; Region: EamA; pfam00892 13035008873 EamA-like transporter family; Region: EamA; pfam00892 13035008874 Condensation domain; Region: Condensation; pfam00668 13035008875 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 13035008876 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 13035008877 The adenylation domain of nonribosomal peptide synthetases (NRPS), including salinosporamide A polyketide synthase; Region: A_NRPS_Ta1_like; cd12116 13035008878 acyl-activating enzyme (AAE) consensus motif; other site 13035008879 AMP binding site [chemical binding]; other site 13035008880 Methyltransferase domain; Region: Methyltransf_31; pfam13847 13035008881 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 13035008882 S-adenosylmethionine binding site [chemical binding]; other site 13035008883 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 13035008884 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 13035008885 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 13035008886 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 13035008887 S-adenosylmethionine binding site [chemical binding]; other site 13035008888 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 13035008889 atypical (a) SDRs, subgroup 1; Region: SDR_a1; cd05265 13035008890 putative NAD(P) binding site [chemical binding]; other site 13035008891 active site 13035008892 Protein of unknown function (DUF4065); Region: DUF4065; cl01445 13035008893 PsbP; Region: PsbP; pfam01789 13035008894 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 13035008895 active site 13035008896 dimer interface [polypeptide binding]; other site 13035008897 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 13035008898 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 13035008899 active site residue [active] 13035008900 Predicted permease [General function prediction only]; Region: COG3329 13035008901 NAD(P)H-quinone oxidoreductase subunit 4; Provisional; Region: PRK02546 13035008902 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 13035008903 NAD(P)H-quinone oxidoreductase subunit F; Validated; Region: PRK07376 13035008904 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 13035008905 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 13035008906 NADH-Ubiquinone oxidoreductase (complex I) subunit C-terminus; Region: Oxidored_q1_C; pfam01010 13035008907 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 13035008908 LabA_like proteins; Region: LabA_like; cd06167 13035008909 putative metal binding site [ion binding]; other site 13035008910 3-polyprenyl-4-hydroxybenzoate decarboxylase and related decarboxylases [Coenzyme metabolism]; Region: UbiD; COG0043 13035008911 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 13035008912 Peptidase family M50; Region: Peptidase_M50; pfam02163 13035008913 active site 13035008914 putative substrate binding region [chemical binding]; other site 13035008915 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 13035008916 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 13035008917 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in a group of uncharacterized proteins from archaea and bacteria; Region: NTP-PPase_COG4997; cd11532 13035008918 metal binding site [ion binding]; metal-binding site 13035008919 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 13035008920 active site 13035008921 putative DNA-binding cleft [nucleotide binding]; other site 13035008922 dimer interface [polypeptide binding]; other site 13035008923 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 13035008924 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 13035008925 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 13035008926 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 13035008927 GTP binding site; other site 13035008928 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 13035008929 FAD binding domain; Region: FAD_binding_4; pfam01565 13035008930 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 13035008931 Prophage maintenance system killer protein [General function prediction only]; Region: Doc; COG3654 13035008932 acetohydroxyacid synthase small subunit; Region: ilvH; CHL00100 13035008933 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 13035008934 putative valine binding site [chemical binding]; other site 13035008935 dimer interface [polypeptide binding]; other site 13035008936 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 13035008937 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 13035008938 NifU-like domain; Region: NifU; pfam01106 13035008939 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 13035008940 Peptidase family M50; Region: Peptidase_M50; pfam02163 13035008941 active site 13035008942 putative substrate binding region [chemical binding]; other site 13035008943 ribonuclease Z; Region: RNase_Z; TIGR02651 13035008944 DnaJ domain; Region: DnaJ; pfam00226 13035008945 HSP70 interaction site [polypeptide binding]; other site 13035008946 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 13035008947 TPR repeat; Region: TPR_11; pfam13414 13035008948 binding surface 13035008949 TPR motif; other site 13035008950 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 13035008951 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 13035008952 active site 13035008953 dimerization interface [polypeptide binding]; other site 13035008954 ATP synthase CF1 beta subunit; Region: atpB; CHL00060 13035008955 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 13035008956 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 13035008957 alpha subunit interaction interface [polypeptide binding]; other site 13035008958 Walker A motif; other site 13035008959 ATP binding site [chemical binding]; other site 13035008960 Walker B motif; other site 13035008961 inhibitor binding site; inhibition site 13035008962 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 13035008963 ATP synthase CF1 epsilon subunit; Region: atpE; CHL00063 13035008964 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 13035008965 gamma subunit interface [polypeptide binding]; other site 13035008966 epsilon subunit interface [polypeptide binding]; other site 13035008967 LBP interface [polypeptide binding]; other site 13035008968 Plastid and cyanobacterial ribosomal protein (PSRP-3 / Ycf65); Region: PSRP-3_Ycf65; cl04793 13035008969 haloacid dehalogenase superfamily, subfamily IA hydrolase, TIGR01548; Region: HAD-SF-IA-hyp1 13035008970 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 13035008971 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 13035008972 CTP synthetase; Validated; Region: pyrG; PRK05380 13035008973 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 13035008974 Catalytic site [active] 13035008975 active site 13035008976 UTP binding site [chemical binding]; other site 13035008977 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 13035008978 active site 13035008979 putative oxyanion hole; other site 13035008980 catalytic triad [active] 13035008981 Ribosomal protein S6; Region: Ribosomal_S6; pfam01250 13035008982 Protoheme ferro-lyase (ferrochelatase) [Coenzyme metabolism]; Region: HemH; COG0276 13035008983 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 13035008984 C-terminal domain interface [polypeptide binding]; other site 13035008985 active site 13035008986 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 13035008987 active site 13035008988 N-terminal domain interface [polypeptide binding]; other site 13035008989 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 13035008990 NAD(P) binding pocket [chemical binding]; other site 13035008991 Protein of unknown function (DUF2997); Region: DUF2997; pfam11211 13035008992 Ycf35; Provisional; Region: ycf35; CHL00193 13035008993 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 13035008994 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 13035008995 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 13035008996 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 13035008997 AAA domain; Region: AAA_23; pfam13476 13035008998 Walker A/P-loop; other site 13035008999 ATP binding site [chemical binding]; other site 13035009000 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 13035009001 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 13035009002 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 13035009003 [2Fe-2S] cluster binding site [ion binding]; other site 13035009004 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 13035009005 alpha subunit interface [polypeptide binding]; other site 13035009006 active site 13035009007 substrate binding site [chemical binding]; other site 13035009008 Fe binding site [ion binding]; other site 13035009009 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 13035009010 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 13035009011 Walker A/P-loop; other site 13035009012 ATP binding site [chemical binding]; other site 13035009013 Q-loop/lid; other site 13035009014 ABC transporter signature motif; other site 13035009015 Walker B; other site 13035009016 D-loop; other site 13035009017 H-loop/switch region; other site 13035009018 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 13035009019 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 13035009020 dimer interface [polypeptide binding]; other site 13035009021 conserved gate region; other site 13035009022 putative PBP binding loops; other site 13035009023 ABC-ATPase subunit interface; other site 13035009024 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 13035009025 ABC transporter periplasmic binding protein, urea carboxylase region; Region: ABC_peri_uca; TIGR03427 13035009026 hydrogenase nickel insertion protein HypA; Region: hypA; TIGR00100 13035009027 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 13035009028 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 13035009029 agmatinase; Region: agmatinase; TIGR01230 13035009030 Agmatinase-like family; Region: Agmatinase-like; cd09990 13035009031 active site 13035009032 oligomer interface [polypeptide binding]; other site 13035009033 Mn binding site [ion binding]; other site 13035009034 ykkC-yxkD leader; IMG reference gene:2509555936; Dacsa_3550 13035009035 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 13035009036 Major Facilitator Superfamily; Region: MFS_1; pfam07690 13035009037 putative substrate translocation pore; other site 13035009038 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 13035009039 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 13035009040 catalytic triad [active] 13035009041 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 13035009042 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 13035009043 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 13035009044 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 13035009045 substrate binding pocket [chemical binding]; other site 13035009046 membrane-bound complex binding site; other site 13035009047 hinge residues; other site 13035009048 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 13035009049 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 13035009050 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 13035009051 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 13035009052 putative active site [active] 13035009053 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 13035009054 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 13035009055 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 13035009056 Domain of unknown function (DUF1989); Region: DUF1989; pfam09347 13035009057 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 13035009058 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 13035009059 This CD includes the putative hydrocarbon oxygenase, MocD, a bacterial rhizopine (3-O-methyl-scyllo-inosamine, 3-O-MSI) oxygenase, and other related proteins. It has been proposed that MocD, MocE (Rieske-like ferredoxin), and MocF (ferredoxin reductase)...; Region: Rhizopine-oxygenase-like; cd03511 13035009060 Fatty acid desaturase; Region: FA_desaturase; pfam00487 13035009061 putative di-iron ligands [ion binding]; other site 13035009062 hypothetical protein; Validated; Region: PRK07581 13035009063 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 13035009064 glutamine synthetase, type III; Region: gln_synth_III; TIGR03105 13035009065 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 13035009066 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 13035009067 Ligand Binding Site [chemical binding]; other site 13035009068 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 13035009069 Ligand Binding Site [chemical binding]; other site 13035009070 Protein of unknown function (DUF2993); Region: DUF2993; pfam11209 13035009071 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 13035009072 active site 13035009073 NTP binding site [chemical binding]; other site 13035009074 metal binding triad [ion binding]; metal-binding site 13035009075 antibiotic binding site [chemical binding]; other site 13035009076 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 13035009077 putative active site [active] 13035009078 Predicted helicase [General function prediction only]; Region: COG4889 13035009079 Methyltransferase domain; Region: Methyltransf_26; pfam13659 13035009080 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 13035009081 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 13035009082 substrate binding site [chemical binding]; other site 13035009083 glutamase interaction surface [polypeptide binding]; other site 13035009084 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 13035009085 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 13035009086 Walker A motif; other site 13035009087 ATP binding site [chemical binding]; other site 13035009088 Walker B motif; other site 13035009089 arginine finger; other site 13035009090 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 13035009091 Uncharacterized conserved protein [Function unknown]; Region: COG2361 13035009092 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 13035009093 active site 13035009094 NTP binding site [chemical binding]; other site 13035009095 metal binding triad [ion binding]; metal-binding site 13035009096 antibiotic binding site [chemical binding]; other site 13035009097 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 13035009098 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 13035009099 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 13035009100 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 13035009101 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 13035009102 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 13035009103 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 13035009104 core domain interface [polypeptide binding]; other site 13035009105 delta subunit interface [polypeptide binding]; other site 13035009106 epsilon subunit interface [polypeptide binding]; other site 13035009107 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 13035009108 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 13035009109 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 13035009110 beta subunit interaction interface [polypeptide binding]; other site 13035009111 Walker A motif; other site 13035009112 ATP binding site [chemical binding]; other site 13035009113 Walker B motif; other site 13035009114 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 13035009115 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 13035009116 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 13035009117 F0F1 ATP synthase subunit B; Validated; Region: PRK07352 13035009118 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 13035009119 F0F1 ATP synthase subunit B'; Validated; Region: PRK07353 13035009120 ATP synthase B/B' CF(0); Region: ATP-synt_B; pfam00430 13035009121 ATP synthase CF0 C subunit; Region: atpH; CHL00061 13035009122 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 13035009123 ATP synthase CF0 A subunit; Region: atpI; CHL00046 13035009124 ATP synthase I chain; Region: ATP_synt_I; pfam03899 13035009125 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 13035009126 PsaD; Region: PsaD; pfam02531 13035009127 Low molecular weight phosphatase family; Region: LMWPc; cd00115 13035009128 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 13035009129 active site 13035009130 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 13035009131 arsenical-resistance protein; Region: acr3; TIGR00832 13035009132 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 13035009133 oxyanion hole [active] 13035009134 Protein of unknown function (DUF3153); Region: DUF3153; pfam11353 13035009135 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 13035009136 arginine decarboxylase; Provisional; Region: PRK05354 13035009137 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 13035009138 dimer interface [polypeptide binding]; other site 13035009139 active site 13035009140 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 13035009141 catalytic residues [active] 13035009142 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 13035009143 ribosomal protein L32; Validated; Region: rpl32; CHL00152 13035009144 Domain of unknown function (DUF1768); Region: DUF1768; pfam08719 13035009145 PAP_fibrillin; Region: PAP_fibrillin; pfam04755 13035009146 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 13035009147 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 13035009148 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 13035009149 active site 13035009150 metal binding site [ion binding]; metal-binding site 13035009151 Protein of unknown function (DUF2973); Region: DUF2973; pfam11189 13035009152 Protein of unknown function (DUF2605); Region: DUF2605; pfam10792 13035009153 Na(+)/iodide (NIS) and Na(+)/multivitamin (SMVT) cotransporters, and related proteins; solute binding domain; Region: SLC5sbd_NIS-like; cd10326 13035009154 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 13035009155 Na binding site [ion binding]; other site 13035009156 signal recognition particle protein; Provisional; Region: PRK10867 13035009157 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 13035009158 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 13035009159 P loop; other site 13035009160 GTP binding site [chemical binding]; other site 13035009161 Signal peptide binding domain; Region: SRP_SPB; pfam02978 13035009162 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 13035009163 YcfA-like protein; Region: YcfA; pfam07927 13035009164 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_29; cd04688 13035009165 nudix motif; other site 13035009166 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnF; Provisional; Region: PRK02971 13035009167 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 13035009168 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 13035009169 Ligand binding site; other site 13035009170 Putative Catalytic site; other site 13035009171 DXD motif; other site 13035009172 6-pyruvoyl-tetrahydropterin synthase related domain; membrane protein; Region: PTPS_related; pfam10131 13035009173 gamma-glutamyl kinase; Provisional; Region: PRK05429 13035009174 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 13035009175 nucleotide binding site [chemical binding]; other site 13035009176 homotetrameric interface [polypeptide binding]; other site 13035009177 putative phosphate binding site [ion binding]; other site 13035009178 putative allosteric binding site; other site 13035009179 PUA domain; Region: PUA; pfam01472 13035009180 Predicted hydrolase of the HAD superfamily [General function prediction only]; Region: COG2179 13035009181 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 13035009182 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 13035009183 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein; Region: SSP411; cd02955 13035009184 catalytic residues [active] 13035009185 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 13035009186 Aerobic Cyclase System Fe-containing subunit (ACSF), ferritin-like diiron-binding domain; Region: ACSF; cd01047 13035009187 diiron binding motif [ion binding]; other site 13035009188 Mg-protoporphyrin IX methyl transferase; Validated; Region: PRK07580 13035009189 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 13035009190 S-adenosylmethionine binding site [chemical binding]; other site 13035009191 Magnesium-protoporphyrin IX methyltransferase C-terminus; Region: Mg-por_mtran_C; pfam07109 13035009192 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 13035009193 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 13035009194 active site 13035009195 dimer interface [polypeptide binding]; other site 13035009196 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 13035009197 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 13035009198 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 13035009199 Sm and related proteins; Region: Sm_like; cl00259 13035009200 heptamer interface [polypeptide binding]; other site 13035009201 Sm1 motif; other site 13035009202 hexamer interface [polypeptide binding]; other site 13035009203 RNA binding site [nucleotide binding]; other site 13035009204 Sm2 motif; other site 13035009205 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 13035009206 Peptidase family M23; Region: Peptidase_M23; pfam01551 13035009207 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 13035009208 RibD C-terminal domain; Region: RibD_C; cl17279 13035009209 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 13035009210 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 13035009211 dimerization interface [polypeptide binding]; other site 13035009212 active site 13035009213 metal binding site [ion binding]; metal-binding site 13035009214 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 13035009215 dsRNA binding site [nucleotide binding]; other site 13035009216 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 13035009217 S-adenosylmethionine binding site [chemical binding]; other site 13035009218 Methyltransferase domain; Region: Methyltransf_23; pfam13489 13035009219 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 13035009220 S-adenosylmethionine binding site [chemical binding]; other site 13035009221 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 13035009222 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 13035009223 GSH binding site [chemical binding]; other site 13035009224 catalytic residues [active] 13035009225 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 13035009226 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 13035009227 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 13035009228 putative active site [active] 13035009229 putative NTP binding site [chemical binding]; other site 13035009230 putative nucleic acid binding site [nucleotide binding]; other site 13035009231 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 13035009232 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 13035009233 active site 13035009234 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 13035009235 nucleoside/Zn binding site; other site 13035009236 dimer interface [polypeptide binding]; other site 13035009237 catalytic motif [active] 13035009238 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 13035009239 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 13035009240 catalytic motif [active] 13035009241 Zn binding site [ion binding]; other site 13035009242 RibD C-terminal domain; Region: RibD_C; cl17279 13035009243 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 13035009244 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 13035009245 motif II; other site 13035009246 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreD; COG2891 13035009247 RRXRR protein; Region: RRXRR; pfam14239 13035009248 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 13035009249 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 13035009250 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 13035009251 putative active site [active] 13035009252 putative NTP binding site [chemical binding]; other site 13035009253 putative nucleic acid binding site [nucleotide binding]; other site 13035009254 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 13035009255 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 13035009256 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 13035009257 active site 13035009258 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 13035009259 metal ion-dependent adhesion site (MIDAS); other site 13035009260 NADH-quinone oxidoreductase cyanobacterial subunit N; Region: NdhN; pfam11909 13035009261 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 13035009262 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 13035009263 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 13035009264 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 13035009265 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 13035009266 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 13035009267 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 13035009268 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 13035009269 putative translocon binding site; other site 13035009270 protein-rRNA interface [nucleotide binding]; other site 13035009271 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 13035009272 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 13035009273 G-X-X-G motif; other site 13035009274 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 13035009275 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 13035009276 23S rRNA interface [nucleotide binding]; other site 13035009277 5S rRNA interface [nucleotide binding]; other site 13035009278 putative antibiotic binding site [chemical binding]; other site 13035009279 L25 interface [polypeptide binding]; other site 13035009280 L27 interface [polypeptide binding]; other site 13035009281 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 13035009282 putative translocon interaction site; other site 13035009283 23S rRNA interface [nucleotide binding]; other site 13035009284 signal recognition particle (SRP54) interaction site; other site 13035009285 L23 interface [polypeptide binding]; other site 13035009286 trigger factor interaction site; other site 13035009287 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 13035009288 ribosomal protein L14; Region: rpl14; CHL00057 13035009289 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 13035009290 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 13035009291 RNA binding site [nucleotide binding]; other site 13035009292 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 13035009293 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 13035009294 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 13035009295 ribosomal protein S8; Region: rps8; CHL00042 13035009296 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 13035009297 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 13035009298 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 13035009299 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 13035009300 23S rRNA interface [nucleotide binding]; other site 13035009301 L21e interface [polypeptide binding]; other site 13035009302 5S rRNA interface [nucleotide binding]; other site 13035009303 L27 interface [polypeptide binding]; other site 13035009304 L5 interface [polypeptide binding]; other site 13035009305 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 13035009306 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 13035009307 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 13035009308 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 13035009309 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 13035009310 SecY translocase; Region: SecY; pfam00344 13035009311 adenylate kinase; Reviewed; Region: adk; PRK00279 13035009312 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 13035009313 AMP-binding site [chemical binding]; other site 13035009314 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 13035009315 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 13035009316 rRNA binding site [nucleotide binding]; other site 13035009317 predicted 30S ribosome binding site; other site 13035009318 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 13035009319 30S ribosomal protein S13; Region: bact_S13; TIGR03631 13035009320 30S ribosomal protein S11; Validated; Region: PRK05309 13035009321 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 13035009322 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 13035009323 alphaNTD homodimer interface [polypeptide binding]; other site 13035009324 alphaNTD - beta interaction site [polypeptide binding]; other site 13035009325 alphaNTD - beta' interaction site [polypeptide binding]; other site 13035009326 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 13035009327 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 13035009328 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 13035009329 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 13035009330 dimerization interface 3.5A [polypeptide binding]; other site 13035009331 active site 13035009332 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 13035009333 23S rRNA interface [nucleotide binding]; other site 13035009334 L3 interface [polypeptide binding]; other site 13035009335 ribosomal protein S9; Region: rps9; CHL00079 13035009336 ribosomal protein L31; Validated; Region: rpl31; CHL00136 13035009337 peptide chain release factor 1; Validated; Region: prfA; PRK00591 13035009338 This domain is found in peptide chain release factors; Region: PCRF; smart00937 13035009339 RF-1 domain; Region: RF-1; pfam00472 13035009340 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 13035009341 phosphoglyceromutase; Provisional; Region: PRK05434 13035009342 preprotein translocase subunit SecG; Reviewed; Region: secG; PRK06870