-- dump date 20140619_085718 -- class Genbank::misc_feature -- table misc_feature_note -- id note 444450000001 RTX toxin acyltransferase family; Region: HlyC; pfam02794 444450000002 RTX N-terminal domain; Region: RTX; pfam02382 444450000003 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 444450000004 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 444450000005 RTX C-terminal domain; Region: RTX_C; pfam08339 444450000006 A sub-family of peptidase C39 which contains Cyclolysin and Hemolysin processing peptidases. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine...; Region: Peptidase_C39_likeA; cd02417 444450000007 type I secretion system ABC transporter, HlyB family; Region: type_I_sec_HlyB; TIGR01846 444450000008 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 444450000009 ATP-binding cassette domain of hemolysin B, subfamily C; Region: ABCC_Hemolysin; cd03252 444450000010 Walker A/P-loop; other site 444450000011 ATP binding site [chemical binding]; other site 444450000012 Q-loop/lid; other site 444450000013 ABC transporter signature motif; other site 444450000014 Walker B; other site 444450000015 D-loop; other site 444450000016 H-loop/switch region; other site 444450000017 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 444450000018 HlyD family secretion protein; Region: HlyD_3; pfam13437 444450000019 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 444450000020 active site 444450000021 catalytic residues [active] 444450000022 DNA binding site [nucleotide binding] 444450000023 Int/Topo IB signature motif; other site 444450000024 Initiator Replication protein; Region: Rep_3; cl03080 444450000025 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 444450000026 plasmid maintenance protein CcdA; Provisional; Region: PRK13710 444450000027 putative transposase OrfB; Reviewed; Region: PHA02517 444450000028 HTH-like domain; Region: HTH_21; pfam13276 444450000029 Integrase core domain; Region: rve; pfam00665 444450000030 Integrase core domain; Region: rve_3; pfam13683 444450000031 Transposase; Region: HTH_Tnp_1; cl17663 444450000032 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 444450000033 plasmid maintenance protein CcdB; Provisional; Region: PRK13708 444450000034 Phage integrase family; Region: Phage_integrase; pfam00589 444450000035 active site 444450000036 DNA binding site [nucleotide binding] 444450000037 Int/Topo IB signature motif; other site 444450000038 putative transposase OrfB; Reviewed; Region: PHA02517 444450000039 HTH-like domain; Region: HTH_21; pfam13276 444450000040 Integrase core domain; Region: rve; pfam00665 444450000041 Integrase core domain; Region: rve_3; pfam13683 444450000042 Transposase; Region: HTH_Tnp_1; cl17663 444450000043 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 444450000044 plasmid-partitioning protein SopA; Provisional; Region: PRK13705 444450000045 MerR family regulatory protein; Region: MerR; pfam00376 444450000046 DNA binding residues [nucleotide binding] 444450000047 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 444450000048 P-loop; other site 444450000049 Magnesium ion binding site [ion binding]; other site 444450000050 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 444450000051 Magnesium ion binding site [ion binding]; other site 444450000052 plasmid-partitioning protein; Provisional; Region: PRK13698 444450000053 ParB-like nuclease domain; Region: ParB; smart00470 444450000054 Protein of unknown function (DUF1281); Region: DUF1281; pfam06924 444450000055 putative methylase; Provisional; Region: PRK13699 444450000056 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 444450000057 Protein of unknown function (DUF1380); Region: DUF1380; pfam07128 444450000058 Antirestriction protein; Region: Antirestrict; pfam03230 444450000059 Protein of unknown function (DUF1380); Region: DUF1380; pfam07128 444450000060 Domain of unknown function (DUF3560); Region: DUF3560; pfam12083 444450000061 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 444450000062 S-adenosylmethionine binding site [chemical binding]; other site 444450000063 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 444450000064 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 444450000065 dimer interface [polypeptide binding]; other site 444450000066 ssDNA binding site [nucleotide binding]; other site 444450000067 tetramer (dimer of dimers) interface [polypeptide binding]; other site 444450000068 Bacterial protein of unknown function (DUF905); Region: DUF905; pfam06006 444450000069 ParB-like nuclease domain; Region: ParBc; pfam02195 444450000070 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 444450000071 KorB domain; Region: KorB; pfam08535 444450000072 plasmid SOS inhibition protein B; Provisional; Region: psiB; PRK13701 444450000073 plasmid SOS inhibition protein A; Provisional; Region: PRK13704 444450000074 small toxic polypeptide; Provisional; Region: PRK09738 444450000075 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 444450000076 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 444450000077 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cl17402 444450000078 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 444450000079 TcdB toxin N-terminal helical domain; Region: TcdB_N; pfam12918 444450000080 TcdA/TcdB catalytic glycosyltransferase domain; Region: TcdA_TcdB; pfam12919 444450000081 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 444450000082 cysteine protease domain, YopT-type; Region: yopT_cys_prot; TIGR01586 444450000083 Protein of unknown function (DUF3491); Region: DUF3491; pfam11996 444450000084 Transposase; Region: HTH_Tnp_1; cl17663 444450000085 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 444450000086 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 444450000087 DNA helicase TraI; Region: TraI; pfam07057 444450000088 conjugal transfer pilus acetylation protein TraX; Provisional; Region: PRK13706 444450000089 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 444450000090 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 444450000091 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 444450000092 conjugal transfer fertility inhibition protein FinO; Provisional; Region: PRK13754 444450000093 Fertility inhibition protein N terminal; Region: FinO_N; pfam12602 444450000094 FinO bacterial conjugation repressor domain; the basic protein FinO is part of the the two component FinOP system which is responsible for repressing bacterial conjugation; the FinOP system represses the transfer (tra) operon of the F-plasmid which...; Region: FinO_conjug_rep; cd00236 444450000095 putative RNA binding sites [nucleotide binding]; other site 444450000096 Staphylococcal nuclease homologues; Region: SNc; smart00318 444450000097 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 444450000098 Catalytic site; other site 444450000099 Haemolysin expression modulating protein; Region: HHA; pfam05321 444450000100 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 444450000101 replication protein; Provisional; Region: PRK13702 444450000102 replication protein; Provisional; Region: PRK13750 444450000103 Predicted transcriptional regulator [Transcription]; Region: COG3905 444450000104 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 444450000105 Putative transposase; Region: Y2_Tnp; pfam04986 444450000106 Integrase core domain; Region: rve; pfam00665 444450000107 Integrase core domain; Region: rve_3; pfam13683 444450000108 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 444450000109 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 444450000110 dimer interface [polypeptide binding]; other site 444450000111 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 444450000112 active site 444450000113 heme binding site [chemical binding]; other site 444450000114 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 444450000115 Cytochrome b562; Region: Cytochrom_B562; pfam07361 444450000116 putative transposase OrfB; Reviewed; Region: PHA02517 444450000117 HTH-like domain; Region: HTH_21; pfam13276 444450000118 Integrase core domain; Region: rve; pfam00665 444450000119 Integrase core domain; Region: rve_3; pfam13683 444450000120 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 444450000121 Immunoglobulin A1 protease; Region: Peptidase_S6; pfam02395 444450000122 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 1, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of Neisseria and Haemophilus IgA1 proteases; Region: PL1_Passenger_AT; cd01343 444450000123 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 444450000124 Autotransporter beta-domain; Region: Autotransporter; pfam03797 444450000125 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 444450000126 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 444450000127 Putative catalytic NodB homology domain of a hypothetical protein Ecf1 from Escherichia coli and similar proteins; Region: CE4_Ecf1_like_5s; cd10969 444450000128 putative active site [active] 444450000129 putative metal binding site [ion binding]; other site 444450000130 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 444450000131 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 444450000132 hypothetical protein; Provisional; Region: PRK10649 444450000133 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 444450000134 Sulfatase; Region: Sulfatase; pfam00884 444450000135 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 444450000136 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 444450000137 putative acyl-acceptor binding pocket; other site 444450000138 Transposase; Region: HTH_Tnp_1; pfam01527 444450000139 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 444450000140 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 444450000141 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 444450000142 Dimerization/Docking domain of Cyclic GMP-dependent Protein Kinase I; Region: DD_cGKI; cl17044 444450000143 homodimer interface [polypeptide binding]; other site 444450000144 putative GKAP docking site [polypeptide binding]; other site 444450000145 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 444450000146 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 444450000147 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 444450000148 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 444450000149 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 444450000150 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 444450000151 Transposase; Region: HTH_Tnp_1; cl17663 444450000152 Peptidase M66; Region: Peptidase_M66; pfam10462 444450000153 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 444450000154 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 444450000155 type II secretion system protein D; Region: type_II_gspD; TIGR02517 444450000156 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 444450000157 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 444450000158 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 444450000159 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 444450000160 type II secretion system protein E; Region: type_II_gspE; TIGR02533 444450000161 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 444450000162 Walker A motif; other site 444450000163 ATP binding site [chemical binding]; other site 444450000164 Walker B motif; other site 444450000165 type II secretion system protein F; Region: GspF; TIGR02120 444450000166 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 444450000167 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 444450000168 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 444450000169 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 444450000170 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 444450000171 type II secretion system protein I; Region: gspI; TIGR01707 444450000172 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 444450000173 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 444450000174 Prokaryotic N-terminal methylation motif; Region: N_methyl; pfam07963 444450000175 type II secretion system protein J; Region: gspJ; TIGR01711 444450000176 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 444450000177 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 444450000178 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 444450000179 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 444450000180 GspL periplasmic domain; Region: GspL_C; pfam12693 444450000181 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 444450000182 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 444450000183 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 444450000184 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 444450000185 lipoprotein, PulS/OutS family; Region: PulS_OutS; TIGR01004 444450000186 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 444450000187 Transposase; Region: HTH_Tnp_1; pfam01527 444450000188 Initiator Replication protein; Region: Rep_3; pfam01051 444450000189 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 444450000190 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 444450000191 P-type DNA transfer protein VirB5; Region: VirB5; TIGR02791 444450000192 Type IV secretion system proteins; Region: T4SS; pfam07996 444450000193 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 444450000194 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 444450000195 N-acetyl-D-glucosamine binding site [chemical binding]; other site 444450000196 catalytic residue [active] 444450000197 TrbC/VIRB2 family; Region: TrbC; cl01583 444450000198 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 444450000199 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 444450000200 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 444450000201 VirB8 protein; Region: VirB8; pfam04335 444450000202 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 444450000203 VirB7 interaction site; other site 444450000204 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 444450000205 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 444450000206 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 444450000207 Walker A motif; other site 444450000208 ATP binding site [chemical binding]; other site 444450000209 Walker B motif; other site 444450000210 Type IV secretory system Conjugative DNA transfer; Region: T4SS-DNA_transf; pfam02534 444450000211 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 444450000212 Walker A motif; other site 444450000213 ATP binding site [chemical binding]; other site 444450000214 Walker B motif; other site 444450000215 TrbM; Region: TrbM; pfam07424 444450000216 YadA-like C-terminal region; Region: YadA; pfam03895 444450000217 DNA topoisomerase III; Provisional; Region: PRK07726 444450000218 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 444450000219 active site 444450000220 putative interdomain interaction site [polypeptide binding]; other site 444450000221 putative metal-binding site [ion binding]; other site 444450000222 putative nucleotide binding site [chemical binding]; other site 444450000223 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 444450000224 domain I; other site 444450000225 DNA binding groove [nucleotide binding] 444450000226 phosphate binding site [ion binding]; other site 444450000227 domain II; other site 444450000228 domain III; other site 444450000229 nucleotide binding site [chemical binding]; other site 444450000230 catalytic site [active] 444450000231 domain IV; other site 444450000232 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 444450000233 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 444450000234 active site 444450000235 catalytic residues [active] 444450000236 DNA binding site [nucleotide binding] 444450000237 Int/Topo IB signature motif; other site 444450000238 ParA-like protein; Provisional; Region: PHA02518 444450000239 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 444450000240 P-loop; other site 444450000241 Magnesium ion binding site [ion binding]; other site 444450000242 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 444450000243 conjugal transfer protein TraL; Provisional; Region: PRK13886 444450000244 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 444450000245 YcfA-like protein; Region: YcfA; pfam07927 444450000246 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 444450000247 non-specific DNA binding site [nucleotide binding]; other site 444450000248 salt bridge; other site 444450000249 sequence-specific DNA binding site [nucleotide binding]; other site 444450000250 Threonine operon leader 444450000251 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 444450000252 AAK_AK-HSDH: Amino Acid Kinase Superfamily (AAK), AK-HSDH; this CD includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK - homoserine dehydrogenase (HSDH). These aspartokinases are found in bacteria (E. coli...; Region: AAK_AK-HSDH; cd04257 444450000253 putative catalytic residues [active] 444450000254 putative nucleotide binding site [chemical binding]; other site 444450000255 putative aspartate binding site [chemical binding]; other site 444450000256 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 444450000257 dimer interface [polypeptide binding]; other site 444450000258 putative threonine allosteric regulatory site; other site 444450000259 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 444450000260 putative threonine allosteric regulatory site; other site 444450000261 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 444450000262 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 444450000263 homoserine kinase; Region: thrB; TIGR00191 444450000264 Protein of unknown function; Region: YhfT; pfam10797 444450000265 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 444450000266 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 444450000267 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 444450000268 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444450000269 catalytic residue [active] 444450000270 Protein of unknown function (DUF2502); Region: DUF2502; pfam10697 444450000271 hypothetical protein; Validated; Region: PRK02101 444450000272 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 444450000273 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 444450000274 transaldolase-like protein; Provisional; Region: PTZ00411 444450000275 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 444450000276 active site 444450000277 dimer interface [polypeptide binding]; other site 444450000278 catalytic residue [active] 444450000279 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 444450000280 MPT binding site; other site 444450000281 trimer interface [polypeptide binding]; other site 444450000282 hypothetical protein; Provisional; Region: PRK10659 444450000283 hypothetical protein; Provisional; Region: PRK10236 444450000284 Domain of unknown function (DUF3944); Region: DUF3944; pfam13099 444450000285 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4735 444450000286 hypothetical protein; Provisional; Region: PRK10154 444450000287 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 444450000288 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 444450000289 nucleotide binding site [chemical binding]; other site 444450000290 NEF interaction site [polypeptide binding]; other site 444450000291 SBD interface [polypeptide binding]; other site 444450000292 chaperone protein DnaJ; Provisional; Region: PRK10767 444450000293 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 444450000294 HSP70 interaction site [polypeptide binding]; other site 444450000295 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 444450000296 substrate binding site [polypeptide binding]; other site 444450000297 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 444450000298 Zn binding sites [ion binding]; other site 444450000299 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 444450000300 dimer interface [polypeptide binding]; other site 444450000301 Hok/gef family; Region: HOK_GEF; pfam01848 444450000302 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09561 444450000303 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 444450000304 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 444450000305 The C-terminal substrate binding domain of LysR-type transcriptional activator of the nhaA gene, encoding Na+/H+ antiporter, contains the type 2 periplasmic binding fold; Region: PBP2_NhaR; cd08429 444450000306 putative dimerization interface [polypeptide binding]; other site 444450000307 putative fimbrial assembly chaperone protein StcB; Provisional; Region: PRK15253 444450000308 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 444450000309 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 444450000310 Fimbrial protein; Region: Fimbrial; cl01416 444450000311 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 444450000312 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 444450000313 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 444450000314 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 444450000315 active site 444450000316 Riboflavin kinase; Region: Flavokinase; smart00904 444450000317 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 444450000318 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 444450000319 HIGH motif; other site 444450000320 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 444450000321 active site 444450000322 KMSKS motif; other site 444450000323 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 444450000324 tRNA binding surface [nucleotide binding]; other site 444450000325 anticodon binding site; other site 444450000326 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 444450000327 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 444450000328 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 444450000329 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 444450000330 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 444450000331 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 444450000332 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 444450000333 active site 444450000334 tetramer interface [polypeptide binding]; other site 444450000335 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 444450000336 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 444450000337 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 444450000338 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 444450000339 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 444450000340 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 444450000341 catalytic site [active] 444450000342 subunit interface [polypeptide binding]; other site 444450000343 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 444450000344 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 444450000345 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 444450000346 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 444450000347 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 444450000348 ATP-grasp domain; Region: ATP-grasp_4; cl17255 444450000349 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 444450000350 IMP binding site; other site 444450000351 dimer interface [polypeptide binding]; other site 444450000352 interdomain contacts; other site 444450000353 partial ornithine binding site; other site 444450000354 DNA-binding transcriptional activator CaiF; Provisional; Region: PRK11476 444450000355 carnitine operon protein CaiE; Provisional; Region: PRK13627 444450000356 paaY-like: This group is composed by uncharacterized proteins with similarity to the protein product of the E. coli paaY gene, which is part of the paa gene cluster responsible for phenylacetic acid degradation. Proteins in this group are expected to...; Region: LbH_paaY_like; cd04745 444450000357 putative trimer interface [polypeptide binding]; other site 444450000358 putative metal binding site [ion binding]; other site 444450000359 carnitinyl-CoA dehydratase; Provisional; Region: PRK03580 444450000360 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 444450000361 substrate binding site [chemical binding]; other site 444450000362 oxyanion hole (OAH) forming residues; other site 444450000363 trimer interface [polypeptide binding]; other site 444450000364 putative crotonobetaine/carnitine-CoA ligase; Validated; Region: caiC; PRK08008 444450000365 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_DitJ_like; cd05934 444450000366 acyl-activating enzyme (AAE) consensus motif; other site 444450000367 putative AMP binding site [chemical binding]; other site 444450000368 putative active site [active] 444450000369 putative CoA binding site [chemical binding]; other site 444450000370 crotonobetainyl-CoA:carnitine CoA-transferase; Provisional; Region: PRK03525 444450000371 CoA-transferase family III; Region: CoA_transf_3; pfam02515 444450000372 crotonobetainyl-CoA dehydrogenase; Validated; Region: PRK03354 444450000373 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 444450000374 active site 444450000375 L-carnitine/gamma-butyrobetaine antiporter; Provisional; Region: PRK03356 444450000376 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 444450000377 Ligand binding site [chemical binding]; other site 444450000378 Electron transfer flavoprotein domain; Region: ETF; pfam01012 444450000379 putative electron transfer flavoprotein FixB; Provisional; Region: fixB; PRK03363 444450000380 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF; cd01985 444450000381 Ligand binding site [chemical binding]; other site 444450000382 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 444450000383 putative oxidoreductase FixC; Provisional; Region: PRK10157 444450000384 ferredoxin-like protein FixX; Provisional; Region: PRK15449 444450000385 benzoate transport; Region: 2A0115; TIGR00895 444450000386 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 444450000387 putative substrate translocation pore; other site 444450000388 glutathione-regulated potassium-efflux system ancillary protein KefF; Provisional; Region: PRK00871 444450000389 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 444450000390 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 444450000391 TrkA-N domain; Region: TrkA_N; pfam02254 444450000392 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 444450000393 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 444450000394 folate binding site [chemical binding]; other site 444450000395 NADP+ binding site [chemical binding]; other site 444450000396 Post-segregation antitoxin CcdA; Region: CcdA; pfam07362 444450000397 CcdB protein; Region: CcdB; pfam01845 444450000398 bis(5'-nucleosyl)-tetraphosphatase (symmetrical); Region: apaH; TIGR00668 444450000399 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 444450000400 active site 444450000401 metal binding site [ion binding]; metal-binding site 444450000402 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 444450000403 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 444450000404 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 444450000405 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 444450000406 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 444450000407 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 444450000408 SurA N-terminal domain; Region: SurA_N; pfam09312 444450000409 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 444450000410 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 444450000411 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 444450000412 OstA-like protein; Region: OstA; pfam03968 444450000413 Organic solvent tolerance protein; Region: OstA_C; pfam04453 444450000414 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 444450000415 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 444450000416 putative metal binding site [ion binding]; other site 444450000417 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 444450000418 HSP70 interaction site [polypeptide binding]; other site 444450000419 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 444450000420 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 444450000421 active site 444450000422 ATP-dependent helicase HepA; Validated; Region: PRK04914 444450000423 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 444450000424 ATP binding site [chemical binding]; other site 444450000425 putative Mg++ binding site [ion binding]; other site 444450000426 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 444450000427 nucleotide binding region [chemical binding]; other site 444450000428 ATP-binding site [chemical binding]; other site 444450000429 DNA polymerase II; Reviewed; Region: PRK05762 444450000430 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 444450000431 active site 444450000432 catalytic site [active] 444450000433 substrate binding site [chemical binding]; other site 444450000434 DNA polymerase type-II subfamily catalytic domain. Bacteria contain five DNA polymerases (I, II, III, IV and V). DNA polymerase II (Pol II) is a prototype for the B-family of polymerases. The role of Pol II in a variety of cellular activities, such as...; Region: POLBc_Pol_II; cd05537 444450000435 active site 444450000436 metal-binding site 444450000437 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 444450000438 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cd00398 444450000439 intersubunit interface [polypeptide binding]; other site 444450000440 active site 444450000441 Zn2+ binding site [ion binding]; other site 444450000442 L-arabinose isomerase; Provisional; Region: PRK02929 444450000443 L-Arabinose isomerase (AI) catalyzes the isomerization of L-arabinose to L-ribulose, the first reaction in its conversion into D-xylulose-5-phosphate, an intermediate in the pentose phosphate pathway, which allows L-arabinose to be used as a carbon...; Region: L-arabinose_isomerase; cd03557 444450000444 putative hexamer (dimer of trimers) interface [polypeptide binding]; other site 444450000445 trimer interface [polypeptide binding]; other site 444450000446 putative substrate binding site [chemical binding]; other site 444450000447 putative metal binding site [ion binding]; other site 444450000448 ribulokinase; Provisional; Region: PRK04123 444450000449 Ribulokinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_RBK; cd07781 444450000450 N- and C-terminal domain interface [polypeptide binding]; other site 444450000451 active site 444450000452 MgATP binding site [chemical binding]; other site 444450000453 catalytic site [active] 444450000454 metal binding site [ion binding]; metal-binding site 444450000455 carbohydrate binding site [chemical binding]; other site 444450000456 homodimer interface [polypeptide binding]; other site 444450000457 DNA-binding transcriptional regulator AraC; Provisional; Region: PRK10572 444450000458 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 444450000459 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 444450000460 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 444450000461 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 444450000462 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 444450000463 thiamine transporter ATP-binding subunit; Provisional; Region: thiQ; PRK10771 444450000464 ATP-binding cassette domain of the thiamine transport system; Region: ABC_ThiQ_thiamine_transporter; cd03298 444450000465 Walker A/P-loop; other site 444450000466 ATP binding site [chemical binding]; other site 444450000467 Q-loop/lid; other site 444450000468 ABC transporter signature motif; other site 444450000469 Walker B; other site 444450000470 D-loop; other site 444450000471 H-loop/switch region; other site 444450000472 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 444450000473 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 444450000474 dimer interface [polypeptide binding]; other site 444450000475 conserved gate region; other site 444450000476 putative PBP binding loops; other site 444450000477 ABC-ATPase subunit interface; other site 444450000478 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 444450000479 dimer interface [polypeptide binding]; other site 444450000480 conserved gate region; other site 444450000481 putative PBP binding loops; other site 444450000482 ABC-ATPase subunit interface; other site 444450000483 thiamine transporter substrate binding subunit; Provisional; Region: tbpA; PRK11205 444450000484 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 444450000485 transcriptional regulator SgrR; Provisional; Region: PRK13626 444450000486 Sugar transport-related sRNA regulator N-term; Region: SgrR_N; pfam12793 444450000487 The C-terminal solute-binding domain of DNA-binding transcriptional regulator SgrR is related to the ABC-type oligopeptide-binding proteins and contains the type 2 periplasmic-binding fold; Region: PBP2_SgrR_like; cd08507 444450000488 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 444450000489 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 444450000490 substrate binding site [chemical binding]; other site 444450000491 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 444450000492 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 444450000493 substrate binding site [chemical binding]; other site 444450000494 ligand binding site [chemical binding]; other site 444450000495 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 444450000496 tartrate dehydrogenase; Region: TTC; TIGR02089 444450000497 2-isopropylmalate synthase; Validated; Region: PRK00915 444450000498 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 444450000499 active site 444450000500 catalytic residues [active] 444450000501 metal binding site [ion binding]; metal-binding site 444450000502 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 444450000503 Leucine operon leader 444450000504 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 444450000505 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 444450000506 The C-terminal substrate binding domain of LysR-type transcriptional regulator LeuO, an activator of leucine synthesis operon, contains the type 2 periplasmic binding fold; Region: PBP2_LeuO; cd08466 444450000507 putative substrate binding pocket [chemical binding]; other site 444450000508 putative dimerization interface [polypeptide binding]; other site 444450000509 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK07979 444450000510 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 444450000511 PYR/PP interface [polypeptide binding]; other site 444450000512 dimer interface [polypeptide binding]; other site 444450000513 TPP binding site [chemical binding]; other site 444450000514 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 444450000515 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 444450000516 TPP-binding site [chemical binding]; other site 444450000517 dimer interface [polypeptide binding]; other site 444450000518 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 444450000519 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 444450000520 putative valine binding site [chemical binding]; other site 444450000521 dimer interface [polypeptide binding]; other site 444450000522 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 444450000523 DNA-binding transcriptional regulator FruR; Provisional; Region: PRK11303 444450000524 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 444450000525 DNA binding site [nucleotide binding] 444450000526 domain linker motif; other site 444450000527 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 444450000528 dimerization interface [polypeptide binding]; other site 444450000529 ligand binding site [chemical binding]; other site 444450000530 mraZ protein; Region: TIGR00242 444450000531 MraZ protein; Region: MraZ; pfam02381 444450000532 MraZ protein; Region: MraZ; pfam02381 444450000533 16S rRNA (cytosine(1402)-N(4))-methyltransferase; Region: TIGR00006 444450000534 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 444450000535 cell division protein FtsL; Provisional; Region: PRK10772 444450000536 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 444450000537 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 444450000538 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 444450000539 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 444450000540 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 444450000541 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 444450000542 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 444450000543 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 444450000544 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 444450000545 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 444450000546 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 444450000547 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 444450000548 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 444450000549 Mg++ binding site [ion binding]; other site 444450000550 putative catalytic motif [active] 444450000551 putative substrate binding site [chemical binding]; other site 444450000552 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03806 444450000553 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 444450000554 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 444450000555 cell division protein FtsW; Provisional; Region: PRK10774 444450000556 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 444450000557 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 444450000558 active site 444450000559 homodimer interface [polypeptide binding]; other site 444450000560 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 444450000561 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 444450000562 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 444450000563 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 444450000564 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 444450000565 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 444450000566 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 444450000567 cell division protein FtsQ; Provisional; Region: PRK10775 444450000568 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 444450000569 Cell division protein FtsQ; Region: FtsQ; pfam03799 444450000570 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 444450000571 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 444450000572 Cell division protein FtsA; Region: FtsA; pfam14450 444450000573 cell division protein FtsZ; Validated; Region: PRK09330 444450000574 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 444450000575 nucleotide binding site [chemical binding]; other site 444450000576 SulA interaction site; other site 444450000577 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 444450000578 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 444450000579 SecA regulator SecM; Provisional; Region: PRK02943 444450000580 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 444450000581 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 444450000582 SEC-C motif; Region: SEC-C; pfam02810 444450000583 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 444450000584 active site 444450000585 8-oxo-dGMP binding site [chemical binding]; other site 444450000586 nudix motif; other site 444450000587 metal binding site [ion binding]; metal-binding site 444450000588 DNA gyrase inhibitor; Reviewed; Region: PRK00418 444450000589 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4582 444450000590 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 444450000591 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 444450000592 CoA-binding site [chemical binding]; other site 444450000593 ATP-binding [chemical binding]; other site 444450000594 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05096 444450000595 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 444450000596 active site 444450000597 type IV pilin biogenesis protein; Provisional; Region: PRK10573 444450000598 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 444450000599 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 444450000600 hypothetical protein; Provisional; Region: PRK10436 444450000601 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 444450000602 Walker A motif; other site 444450000603 ATP binding site [chemical binding]; other site 444450000604 Walker B motif; other site 444450000605 putative major pilin subunit; Provisional; Region: PRK10574 444450000606 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 444450000607 Pilin (bacterial filament); Region: Pilin; pfam00114 444450000608 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 444450000609 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 444450000610 dimerization interface [polypeptide binding]; other site 444450000611 active site 444450000612 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 444450000613 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 444450000614 amidase catalytic site [active] 444450000615 Zn binding residues [ion binding]; other site 444450000616 substrate binding site [chemical binding]; other site 444450000617 regulatory protein AmpE; Provisional; Region: PRK10987 444450000618 aromatic amino acid transporter; Provisional; Region: PRK10238 444450000619 Transcriptional regulators [Transcription]; Region: FadR; COG2186 444450000620 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 444450000621 DNA-binding site [nucleotide binding]; DNA binding site 444450000622 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 444450000623 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 444450000624 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 444450000625 dimer interface [polypeptide binding]; other site 444450000626 TPP-binding site [chemical binding]; other site 444450000627 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 444450000628 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 444450000629 E3 interaction surface; other site 444450000630 lipoyl attachment site [posttranslational modification]; other site 444450000631 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 444450000632 E3 interaction surface; other site 444450000633 lipoyl attachment site [posttranslational modification]; other site 444450000634 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 444450000635 E3 interaction surface; other site 444450000636 lipoyl attachment site [posttranslational modification]; other site 444450000637 e3 binding domain; Region: E3_binding; pfam02817 444450000638 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 444450000639 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 444450000640 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 444450000641 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 444450000642 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 444450000643 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 444450000644 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 444450000645 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 444450000646 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 444450000647 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 444450000648 substrate binding site [chemical binding]; other site 444450000649 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 444450000650 substrate binding site [chemical binding]; other site 444450000651 ligand binding site [chemical binding]; other site 444450000652 hypothetical protein; Provisional; Region: PRK05248 444450000653 S-adenosylmethionine decarboxylase; Provisional; Region: PRK05462 444450000654 spermidine synthase; Provisional; Region: PRK00811 444450000655 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 444450000656 S-adenosylmethionine binding site [chemical binding]; other site 444450000657 Bacterial chaperone lipoprotein (PulS_OutS); Region: PulS_OutS; cl09898 444450000658 multicopper oxidase; Provisional; Region: PRK10965 444450000659 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 444450000660 Multicopper oxidase; Region: Cu-oxidase; pfam00394 444450000661 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 444450000662 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 444450000663 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 444450000664 Trp docking motif [polypeptide binding]; other site 444450000665 putative active site [active] 444450000666 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 444450000667 active site 444450000668 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 444450000669 active site clefts [active] 444450000670 zinc binding site [ion binding]; other site 444450000671 dimer interface [polypeptide binding]; other site 444450000672 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 444450000673 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 444450000674 Walker A/P-loop; other site 444450000675 ATP binding site [chemical binding]; other site 444450000676 Q-loop/lid; other site 444450000677 ABC transporter signature motif; other site 444450000678 Walker B; other site 444450000679 D-loop; other site 444450000680 H-loop/switch region; other site 444450000681 inner membrane transport permease; Provisional; Region: PRK15066 444450000682 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 444450000683 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 444450000684 active pocket/dimerization site; other site 444450000685 active site 444450000686 phosphorylation site [posttranslational modification] 444450000687 Putative catalytic polysaccharide deacetylase domain of uncharacterized protein yadE and similar proteins; Region: CE4_yadE_5s; cd10966 444450000688 putative active site [active] 444450000689 putative metal binding site [ion binding]; other site 444450000690 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 444450000691 tetramerization interface [polypeptide binding]; other site 444450000692 active site 444450000693 Uncharacterized conserved protein [Function unknown]; Region: COG5464 444450000694 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 444450000695 pantoate--beta-alanine ligase; Region: panC; TIGR00018 444450000696 Pantoate-beta-alanine ligase; Region: PanC; cd00560 444450000697 active site 444450000698 ATP-binding site [chemical binding]; other site 444450000699 pantoate-binding site; other site 444450000700 HXXH motif; other site 444450000701 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 444450000702 oligomerization interface [polypeptide binding]; other site 444450000703 active site 444450000704 metal binding site [ion binding]; metal-binding site 444450000705 Fimbrial protein; Region: Fimbrial; cl01416 444450000706 putative fimbrial protein StaF; Provisional; Region: PRK15262 444450000707 putative fimbrial protein StaE; Provisional; Region: PRK15263 444450000708 Fimbrial protein; Region: Fimbrial; cl01416 444450000709 putative fimbrial outer membrane usher protein; Provisional; Region: PRK09828 444450000710 PapC N-terminal domain; Region: PapC_N; pfam13954 444450000711 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 444450000712 PapC C-terminal domain; Region: PapC_C; pfam13953 444450000713 putative chaperone protein EcpD; Provisional; Region: PRK09926 444450000714 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 444450000715 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 444450000716 Fimbrial protein; Region: Fimbrial; cl01416 444450000717 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 444450000718 catalytic center binding site [active] 444450000719 ATP binding site [chemical binding]; other site 444450000720 poly(A) polymerase I; Provisional; Region: pcnB; PRK11623 444450000721 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 444450000722 active site 444450000723 NTP binding site [chemical binding]; other site 444450000724 metal binding triad [ion binding]; metal-binding site 444450000725 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 444450000726 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 444450000727 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 444450000728 tRNA synthetases class I (E and Q), catalytic domain; Region: tRNA-synt_1c; pfam00749 444450000729 active site 444450000730 nucleotide binding site [chemical binding]; other site 444450000731 HIGH motif; other site 444450000732 KMSKS motif; other site 444450000733 RNA polymerase-binding transcription factor; Provisional; Region: dksA; PRK10778 444450000734 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 444450000735 2'-5' RNA ligase; Provisional; Region: PRK15124 444450000736 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 444450000737 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 444450000738 ATP-dependent RNA helicase HrpB; Provisional; Region: PRK11664 444450000739 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 444450000740 ATP binding site [chemical binding]; other site 444450000741 putative Mg++ binding site [ion binding]; other site 444450000742 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 444450000743 nucleotide binding region [chemical binding]; other site 444450000744 ATP-binding site [chemical binding]; other site 444450000745 Helicase associated domain (HA2) Add an annotation; Region: HA2; smart00847 444450000746 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 444450000747 bifunctional glycosyl transferase/transpeptidase; Reviewed; Region: mrcB; PRK09506 444450000748 Transglycosylase; Region: Transgly; pfam00912 444450000749 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 444450000750 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 444450000751 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 444450000752 N-terminal plug; other site 444450000753 ligand-binding site [chemical binding]; other site 444450000754 iron-hydroxamate transporter ATP-binding subunit; Provisional; Region: PRK10575 444450000755 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 444450000756 Walker A/P-loop; other site 444450000757 ATP binding site [chemical binding]; other site 444450000758 Q-loop/lid; other site 444450000759 ABC transporter signature motif; other site 444450000760 Walker B; other site 444450000761 D-loop; other site 444450000762 H-loop/switch region; other site 444450000763 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 444450000764 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 444450000765 siderophore binding site; other site 444450000766 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 444450000767 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 444450000768 ABC-ATPase subunit interface; other site 444450000769 dimer interface [polypeptide binding]; other site 444450000770 putative PBP binding regions; other site 444450000771 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 444450000772 ABC-ATPase subunit interface; other site 444450000773 dimer interface [polypeptide binding]; other site 444450000774 putative PBP binding regions; other site 444450000775 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 444450000776 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 444450000777 inhibitor-cofactor binding pocket; inhibition site 444450000778 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444450000779 catalytic residue [active] 444450000780 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 444450000781 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 444450000782 Cl- selectivity filter; other site 444450000783 Cl- binding residues [ion binding]; other site 444450000784 pore gating glutamate residue; other site 444450000785 dimer interface [polypeptide binding]; other site 444450000786 H+/Cl- coupling transport residue; other site 444450000787 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 444450000788 hypothetical protein; Provisional; Region: PRK10578 444450000789 UPF0126 domain; Region: UPF0126; pfam03458 444450000790 UPF0126 domain; Region: UPF0126; pfam03458 444450000791 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 444450000792 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 444450000793 cobalamin binding residues [chemical binding]; other site 444450000794 putative BtuC binding residues; other site 444450000795 dimer interface [polypeptide binding]; other site 444450000796 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 444450000797 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 444450000798 deoxyguanosinetriphosphate triphosphohydrolase; Provisional; Region: dgt; PRK04926 444450000799 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 444450000800 Zn2+ binding site [ion binding]; other site 444450000801 Mg2+ binding site [ion binding]; other site 444450000802 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 444450000803 serine endoprotease; Provisional; Region: PRK10942 444450000804 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 444450000805 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 444450000806 protein binding site [polypeptide binding]; other site 444450000807 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 444450000808 carbohydrate diacid transcriptional activator CdaR; Provisional; Region: PRK11477 444450000809 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 444450000810 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 444450000811 hypothetical protein; Provisional; Region: PRK13677 444450000812 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 444450000813 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 444450000814 trimer interface [polypeptide binding]; other site 444450000815 active site 444450000816 substrate binding site [chemical binding]; other site 444450000817 CoA binding site [chemical binding]; other site 444450000818 PII uridylyl-transferase; Provisional; Region: PRK05007 444450000819 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 444450000820 metal binding triad; other site 444450000821 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 444450000822 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 444450000823 Zn2+ binding site [ion binding]; other site 444450000824 Mg2+ binding site [ion binding]; other site 444450000825 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 444450000826 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 444450000827 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 444450000828 active site 444450000829 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 444450000830 rRNA interaction site [nucleotide binding]; other site 444450000831 S8 interaction site; other site 444450000832 putative laminin-1 binding site; other site 444450000833 elongation factor Ts; Provisional; Region: tsf; PRK09377 444450000834 UBA/TS-N domain; Region: UBA; pfam00627 444450000835 Elongation factor TS; Region: EF_TS; pfam00889 444450000836 Elongation factor TS; Region: EF_TS; pfam00889 444450000837 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 444450000838 putative nucleotide binding site [chemical binding]; other site 444450000839 uridine monophosphate binding site [chemical binding]; other site 444450000840 homohexameric interface [polypeptide binding]; other site 444450000841 ribosome recycling factor; Reviewed; Region: frr; PRK00083 444450000842 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 444450000843 hinge region; other site 444450000844 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 444450000845 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 444450000846 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 444450000847 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 444450000848 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 444450000849 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 444450000850 catalytic residue [active] 444450000851 putative FPP diphosphate binding site; other site 444450000852 putative FPP binding hydrophobic cleft; other site 444450000853 dimer interface [polypeptide binding]; other site 444450000854 putative IPP diphosphate binding site; other site 444450000855 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 444450000856 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 444450000857 zinc metallopeptidase RseP; Provisional; Region: PRK10779 444450000858 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 444450000859 active site 444450000860 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 444450000861 protein binding site [polypeptide binding]; other site 444450000862 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 444450000863 putative substrate binding region [chemical binding]; other site 444450000864 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 444450000865 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 444450000866 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 444450000867 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 444450000868 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 444450000869 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 444450000870 Surface antigen; Region: Bac_surface_Ag; pfam01103 444450000871 periplasmic chaperone; Provisional; Region: PRK10780 444450000872 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 444450000873 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 444450000874 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 444450000875 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 444450000876 trimer interface [polypeptide binding]; other site 444450000877 active site 444450000878 UDP-GlcNAc binding site [chemical binding]; other site 444450000879 lipid binding site [chemical binding]; lipid-binding site 444450000880 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 444450000881 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 444450000882 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 444450000883 active site 444450000884 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 444450000885 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 444450000886 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 444450000887 RNA/DNA hybrid binding site [nucleotide binding]; other site 444450000888 active site 444450000889 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 444450000890 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 444450000891 putative active site [active] 444450000892 putative PHP Thumb interface [polypeptide binding]; other site 444450000893 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 444450000894 generic binding surface II; other site 444450000895 generic binding surface I; other site 444450000896 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 444450000897 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 444450000898 lysine decarboxylase LdcC; Provisional; Region: PRK15399 444450000899 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 444450000900 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 444450000901 homodimer interface [polypeptide binding]; other site 444450000902 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444450000903 catalytic residue [active] 444450000904 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 444450000905 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_1; cd08352 444450000906 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 444450000907 putative metal binding site [ion binding]; other site 444450000908 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 444450000909 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 444450000910 Ligand Binding Site [chemical binding]; other site 444450000911 TilS substrate binding domain; Region: TilS; pfam09179 444450000912 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 444450000913 Rho-binding antiterminator; Provisional; Region: PRK11625 444450000914 hypothetical protein; Provisional; Region: PRK04964 444450000915 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4681 444450000916 hypothetical protein; Provisional; Region: PRK09256 444450000917 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 444450000918 lipoprotein involved with copper homeostasis and adhesion; Provisional; Region: PRK10523 444450000919 NlpE N-terminal domain; Region: NlpE; pfam04170 444450000920 hypothetical protein; Provisional; Region: PRK11479 444450000921 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 444450000922 prolyl-tRNA synthetase; Provisional; Region: PRK09194 444450000923 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 444450000924 dimer interface [polypeptide binding]; other site 444450000925 motif 1; other site 444450000926 active site 444450000927 motif 2; other site 444450000928 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 444450000929 putative deacylase active site [active] 444450000930 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 444450000931 active site 444450000932 motif 3; other site 444450000933 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 444450000934 anticodon binding site; other site 444450000935 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 444450000936 homodimer interaction site [polypeptide binding]; other site 444450000937 cofactor binding site; other site 444450000938 outer membrane lipoprotein; Reviewed; Region: rcsF; PRK10781 444450000939 DL-methionine transporter substrate-binding subunit; Provisional; Region: metQ; PRK11063 444450000940 lipoprotein, YaeC family; Region: TIGR00363 444450000941 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 444450000942 dimer interface [polypeptide binding]; other site 444450000943 conserved gate region; other site 444450000944 ABC-ATPase subunit interface; other site 444450000945 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 444450000946 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 444450000947 Walker A/P-loop; other site 444450000948 ATP binding site [chemical binding]; other site 444450000949 Q-loop/lid; other site 444450000950 ABC transporter signature motif; other site 444450000951 Walker B; other site 444450000952 D-loop; other site 444450000953 H-loop/switch region; other site 444450000954 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 444450000955 D,D-heptose 1,7-bisphosphate phosphatase; Region: GmhB_yaeD; TIGR00213 444450000956 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 444450000957 active site 444450000958 motif I; other site 444450000959 motif II; other site 444450000960 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 444450000961 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 444450000962 active site 444450000963 catalytic tetrad [active] 444450000964 Transcriptional regulator [Transcription]; Region: LysR; COG0583 444450000965 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 444450000966 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA; cd08478 444450000967 putative effector binding pocket; other site 444450000968 dimerization interface [polypeptide binding]; other site 444450000969 hypothetical protein; Provisional; Region: PRK05421 444450000970 putative catalytic site [active] 444450000971 putative metal binding site [ion binding]; other site 444450000972 putative phosphate binding site [ion binding]; other site 444450000973 putative catalytic site [active] 444450000974 putative phosphate binding site [ion binding]; other site 444450000975 putative metal binding site [ion binding]; other site 444450000976 Methyltransferase domain; Region: Methyltransf_31; pfam13847 444450000977 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 444450000978 S-adenosylmethionine binding site [chemical binding]; other site 444450000979 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 444450000980 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 444450000981 N-acetyl-D-glucosamine binding site [chemical binding]; other site 444450000982 catalytic residue [active] 444450000983 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 444450000984 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 444450000985 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 444450000986 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 444450000987 hydroxyacylglutathione hydrolase; Provisional; Region: PRK10241 444450000988 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 444450000989 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 444450000990 RNA/DNA hybrid binding site [nucleotide binding]; other site 444450000991 active site 444450000992 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 444450000993 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 444450000994 active site 444450000995 catalytic site [active] 444450000996 substrate binding site [chemical binding]; other site 444450000997 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3515 444450000998 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 444450000999 ImpA domain protein; Region: DUF3702; pfam12486 444450001000 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 444450001001 type VI secretion-associated protein, VC_A0119 family; Region: VI_chp_7; TIGR03362 444450001002 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3515 444450001003 type VI secretion-associated protein, VC_A0118 family; Region: VI_minor_1; TIGR03360 444450001004 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 444450001005 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 444450001006 Walker A motif; other site 444450001007 ATP binding site [chemical binding]; other site 444450001008 Walker B motif; other site 444450001009 arginine finger; other site 444450001010 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 444450001011 Walker A motif; other site 444450001012 ATP binding site [chemical binding]; other site 444450001013 Walker B motif; other site 444450001014 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 444450001015 Type VI protein secretion system component VasF [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3455 444450001016 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522 444450001017 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 444450001018 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3521 444450001019 Predicted component of the type VI protein secretion system, contains a FHA domain [Intracellular trafficking, secretion, and vesicular transport; Signal transduction mechanisms]; Region: COG3456 444450001020 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3520 444450001021 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 444450001022 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 444450001023 type VI secretion system lysozyme-like protein; Region: VI_zyme; TIGR03357 444450001024 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 444450001025 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3516 444450001026 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 444450001027 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 444450001028 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 444450001029 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 444450001030 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 444450001031 PAAR motif; Region: PAAR_motif; cl15808 444450001032 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 444450001033 RHS Repeat; Region: RHS_repeat; cl11982 444450001034 RHS Repeat; Region: RHS_repeat; pfam05593 444450001035 RHS Repeat; Region: RHS_repeat; pfam05593 444450001036 RHS Repeat; Region: RHS_repeat; cl11982 444450001037 RHS Repeat; Region: RHS_repeat; cl11982 444450001038 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 444450001039 RHS Repeat; Region: RHS_repeat; pfam05593 444450001040 RHS Repeat; Region: RHS_repeat; pfam05593 444450001041 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 444450001042 RHS protein; Region: RHS; pfam03527 444450001043 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 444450001044 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 444450001045 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 444450001046 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 444450001047 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 444450001048 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 444450001049 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 444450001050 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 444450001051 RHS protein; Region: RHS; pfam03527 444450001052 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 444450001053 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 444450001054 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 444450001055 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 444450001056 Transposase [DNA replication, recombination, and repair]; Region: COG5433 444450001057 Transposase [DNA replication, recombination, and repair]; Region: COG5433 444450001058 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 444450001059 Erythromycin esterase; Region: Erythro_esteras; cl17110 444450001060 RHS protein; Region: RHS; pfam03527 444450001061 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 444450001062 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 444450001063 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 444450001064 Transposase [DNA replication, recombination, and repair]; Region: COG5433 444450001065 Transposase [DNA replication, recombination, and repair]; Region: COG5433 444450001066 C-N hydrolase family amidase; Provisional; Region: PRK10438 444450001067 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 444450001068 putative active site [active] 444450001069 catalytic triad [active] 444450001070 dimer interface [polypeptide binding]; other site 444450001071 multimer interface [polypeptide binding]; other site 444450001072 C-lysozyme inhibitor; Provisional; Region: PRK09993 444450001073 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 444450001074 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 444450001075 active site 444450001076 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 444450001077 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 444450001078 dimer interface [polypeptide binding]; other site 444450001079 active site 444450001080 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 444450001081 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 444450001082 putative active site [active] 444450001083 putative dimer interface [polypeptide binding]; other site 444450001084 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 444450001085 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 444450001086 RelB antitoxin; Region: RelB; cl01171 444450001087 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 444450001088 NlpC/P60 family; Region: NLPC_P60; pfam00877 444450001089 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; COG1298 444450001090 FHIPEP family; Region: FHIPEP; pfam00771 444450001091 hypothetical protein; Validated; Region: PRK06778 444450001092 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 444450001093 ligand binding site [chemical binding]; other site 444450001094 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 444450001095 active site 444450001096 DNA polymerase IV; Validated; Region: PRK02406 444450001097 DNA binding site [nucleotide binding] 444450001098 putative antitoxin of the YafO-YafN toxin-antitoxin system; Provisional; Region: PRK09778 444450001099 putative toxin YafO; Provisional; Region: PRK09885 444450001100 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 444450001101 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 444450001102 Coenzyme A binding pocket [chemical binding]; other site 444450001103 Uncharacterized protein family UPF0027; Region: UPF0027; cl17455 444450001104 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 444450001105 peptide chain release factor-like protein; Reviewed; Region: prfH; PRK08179 444450001106 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 444450001107 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 444450001108 metal binding site [ion binding]; metal-binding site 444450001109 dimer interface [polypeptide binding]; other site 444450001110 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 444450001111 active site 444450001112 fermentation/respiration switch protein; Reviewed; Region: frsA; PRK05077 444450001113 DNA-binding transcriptional regulator Crl; Provisional; Region: PRK10984 444450001114 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 444450001115 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 444450001116 trimer interface [polypeptide binding]; other site 444450001117 eyelet of channel; other site 444450001118 gamma-glutamyl kinase; Provisional; Region: PRK05429 444450001119 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 444450001120 nucleotide binding site [chemical binding]; other site 444450001121 homotetrameric interface [polypeptide binding]; other site 444450001122 putative phosphate binding site [ion binding]; other site 444450001123 putative allosteric binding site; other site 444450001124 PUA domain; Region: PUA; pfam01472 444450001125 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 444450001126 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 444450001127 putative catalytic cysteine [active] 444450001128 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 444450001129 P22-like integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial and phage integrases, including those similar to phage P22-like integrases, DLP12 and APSE-1; Region: INT_P22_C; cd01192 444450001130 Int/Topo IB signature motif; other site 444450001131 putative transposase OrfB; Reviewed; Region: PHA02517 444450001132 HTH-like domain; Region: HTH_21; pfam13276 444450001133 Integrase core domain; Region: rve; pfam00665 444450001134 Integrase core domain; Region: rve_3; pfam13683 444450001135 Transposase; Region: HTH_Tnp_1; cl17663 444450001136 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 444450001137 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 444450001138 non-specific DNA binding site [nucleotide binding]; other site 444450001139 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 444450001140 salt bridge; other site 444450001141 sequence-specific DNA binding site [nucleotide binding]; other site 444450001142 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 444450001143 Catalytic site [active] 444450001144 Cro; Region: Cro; pfam09048 444450001145 Bacteriophage CII protein; Region: Phage_CII; pfam05269 444450001146 Replication protein P; Region: Phage_lambda_P; pfam06992 444450001147 Phage Tail Collar Domain; Region: Collar; pfam07484 444450001148 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 444450001149 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 444450001150 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 444450001151 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 444450001152 catalytic residues [active] 444450001153 catalytic nucleophile [active] 444450001154 Presynaptic Site I dimer interface [polypeptide binding]; other site 444450001155 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 444450001156 Synaptic Flat tetramer interface [polypeptide binding]; other site 444450001157 Synaptic Site I dimer interface [polypeptide binding]; other site 444450001158 DNA binding site [nucleotide binding] 444450001159 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 444450001160 DNA-binding interface [nucleotide binding]; DNA binding site 444450001161 GIY-YIG domain of uncharacterized proteins from bacteria and their eukaryotic homologs; Region: GIY-YIG_COG3680; cd10440 444450001162 GIY-YIG motif/motif A; other site 444450001163 putative active site [active] 444450001164 putative metal binding site [ion binding]; other site 444450001165 transcriptional regulator YdeO; Provisional; Region: PRK09940 444450001166 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 444450001167 Integrase core domain; Region: rve; pfam00665 444450001168 Integrase core domain; Region: rve_3; pfam13683 444450001169 integrase; Provisional; Region: PRK09692 444450001170 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 444450001171 active site 444450001172 Int/Topo IB signature motif; other site 444450001173 Phage polarity suppression protein (Psu); Region: Psu; pfam07455 444450001174 Phage polarity suppression protein (Psu); Region: Psu; pfam07455 444450001175 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 444450001176 Ash protein family; Region: Phage_ASH; pfam10554 444450001177 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 444450001178 Zinc-binding domain of primase-helicase; Region: Prim_Zn_Ribbon; smart00778 444450001179 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 444450001180 active site 444450001181 metal binding site [ion binding]; metal-binding site 444450001182 interdomain interaction site; other site 444450001183 D5 N terminal like; Region: D5_N; smart00885 444450001184 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 444450001185 Poxvirus D5 protein-like; Region: Pox_D5; pfam03288 444450001186 Transcriptional regulator [Transcription]; Region: LysR; COG0583 444450001187 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 444450001188 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 444450001189 putative effector binding pocket; other site 444450001190 putative dimerization interface [polypeptide binding]; other site 444450001191 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 444450001192 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444450001193 NAD(P) binding site [chemical binding]; other site 444450001194 active site 444450001195 Transcriptional regulator [Transcription]; Region: LysR; COG0583 444450001196 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 444450001197 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 444450001198 putative effector binding pocket; other site 444450001199 putative dimerization interface [polypeptide binding]; other site 444450001200 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 444450001201 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 444450001202 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 444450001203 putative substrate translocation pore; other site 444450001204 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 444450001205 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 444450001206 XdhC Rossmann domain; Region: XdhC_C; pfam13478 444450001207 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 444450001208 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; pfam01315 444450001209 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 444450001210 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 444450001211 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 444450001212 aldehyde oxidoreductase 2Fe-2S subunit; Provisional; Region: PRK11433 444450001213 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 444450001214 catalytic loop [active] 444450001215 iron binding site [ion binding]; other site 444450001216 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 444450001217 Predicted periplasmic/secreted protein [Function unknown]; Region: COG3477 444450001218 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 444450001219 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 444450001220 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 444450001221 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 444450001222 DNA binding residues [nucleotide binding] 444450001223 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 444450001224 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 444450001225 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 444450001226 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 444450001227 Dimerization/Docking domain of Cyclic GMP-dependent Protein Kinase I; Region: DD_cGKI; cl17044 444450001228 homodimer interface [polypeptide binding]; other site 444450001229 putative GKAP docking site [polypeptide binding]; other site 444450001230 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 444450001231 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 444450001232 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 444450001233 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 444450001234 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 444450001235 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 444450001236 Old yellow enzyme (OYE)-related FMN binding domain, group 4. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_4_FMN; cd04735 444450001237 putative active site [active] 444450001238 putative FMN binding site [chemical binding]; other site 444450001239 putative substrate binding site [chemical binding]; other site 444450001240 putative catalytic residue [active] 444450001241 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 444450001242 Transcriptional regulator [Transcription]; Region: LysR; COG0583 444450001243 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 444450001244 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 444450001245 putative effector binding pocket; other site 444450001246 putative dimerization interface [polypeptide binding]; other site 444450001247 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 444450001248 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 444450001249 active site 444450001250 catalytic tetrad [active] 444450001251 Protein of unknown function (DUF3442); Region: DUF3442; pfam11924 444450001252 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 444450001253 Filamin/ABP280 repeat; Region: Filamin; pfam00630 444450001254 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 444450001255 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 444450001256 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 444450001257 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 444450001258 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 444450001259 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 444450001260 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 444450001261 active site 444450001262 catalytic tetrad [active] 444450001263 Predicted membrane protein [Function unknown]; Region: COG3059 444450001264 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 444450001265 pyridine nucleotide-disulfide oxidoreductase; Provisional; Region: PRK08010 444450001266 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 444450001267 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 444450001268 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 444450001269 Cupin; Region: Cupin_6; pfam12852 444450001270 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 444450001271 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 444450001272 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 444450001273 Cysteine-rich domain; Region: CCG; pfam02754 444450001274 Cysteine-rich domain; Region: CCG; pfam02754 444450001275 iron-sulfur cluster-binding protein; Region: TIGR00273 444450001276 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 444450001277 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 444450001278 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 444450001279 Uncharacterized conserved protein [Function unknown]; Region: COG1556 444450001280 type I secretion system ABC transporter, HlyB family; Region: type_I_sec_HlyB; TIGR01846 444450001281 choline dehydrogenase; Validated; Region: PRK02106 444450001282 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 444450001283 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 444450001284 NAD+-dependent 4-trimethylaminobutyraldehyde dehydrogenase, ALDH family 9A1; Region: ALDH_F9_TMBADH; cd07090 444450001285 tetrameric interface [polypeptide binding]; other site 444450001286 NAD binding site [chemical binding]; other site 444450001287 catalytic residues [active] 444450001288 transcriptional regulator BetI; Validated; Region: PRK00767 444450001289 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 444450001290 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 444450001291 choline transport protein BetT; Provisional; Region: PRK09928 444450001292 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 444450001293 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 444450001294 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 444450001295 Autotransporter beta-domain; Region: Autotransporter; pfam03797 444450001296 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 444450001297 DNA binding residues [nucleotide binding] 444450001298 dimerization interface [polypeptide binding]; other site 444450001299 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 444450001300 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 444450001301 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 444450001302 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 444450001303 Protein of unknown function (DUF2877); Region: DUF2877; pfam11392 444450001304 Succinyl-CoA synthetase, alpha subunit [Energy production and conversion]; Region: SucD; COG0074 444450001305 CoA binding domain; Region: CoA_binding; pfam02629 444450001306 CoA-ligase; Region: Ligase_CoA; pfam00549 444450001307 Protein of unknown function (DUF1116); Region: DUF1116; pfam06545 444450001308 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 444450001309 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 444450001310 putative substrate binding site [chemical binding]; other site 444450001311 nucleotide binding site [chemical binding]; other site 444450001312 nucleotide binding site [chemical binding]; other site 444450001313 homodimer interface [polypeptide binding]; other site 444450001314 putative deaminase; Validated; Region: PRK06846 444450001315 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 444450001316 active site 444450001317 ASC-1 homology domain, subfamily similar to Enterococcus faecalis Ef3133. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to...; Region: ASCH_Ef3133_like; cd06553 444450001318 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 444450001319 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 444450001320 ligand binding site [chemical binding]; other site 444450001321 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 444450001322 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 444450001323 Walker A/P-loop; other site 444450001324 ATP binding site [chemical binding]; other site 444450001325 Q-loop/lid; other site 444450001326 ABC transporter signature motif; other site 444450001327 Walker B; other site 444450001328 D-loop; other site 444450001329 H-loop/switch region; other site 444450001330 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 444450001331 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 444450001332 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 444450001333 TM-ABC transporter signature motif; other site 444450001334 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 444450001335 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 444450001336 TM-ABC transporter signature motif; other site 444450001337 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 444450001338 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 444450001339 putative NAD(P) binding site [chemical binding]; other site 444450001340 putative substrate binding site [chemical binding]; other site 444450001341 catalytic Zn binding site [ion binding]; other site 444450001342 structural Zn binding site [ion binding]; other site 444450001343 dimer interface [polypeptide binding]; other site 444450001344 The Resistance to Homoserine/Threonine (RhtB) Family protein; Region: 2A76; TIGR00949 444450001345 hypothetical protein; Provisional; Region: PRK09929 444450001346 propionate catabolism operon regulatory protein PrpR; Provisional; Region: PRK15424 444450001347 Propionate catabolism activator; Region: PrpR_N; pfam06506 444450001348 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 444450001349 Walker A motif; other site 444450001350 ATP binding site [chemical binding]; other site 444450001351 Walker B motif; other site 444450001352 arginine finger; other site 444450001353 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 444450001354 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 444450001355 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 444450001356 tetramer interface [polypeptide binding]; other site 444450001357 active site 444450001358 Mg2+/Mn2+ binding site [ion binding]; other site 444450001359 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 444450001360 Subgroup of Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS)...; Region: Ec2MCS_like_1; cd06117 444450001361 dimer interface [polypeptide binding]; other site 444450001362 active site 444450001363 citrylCoA binding site [chemical binding]; other site 444450001364 oxalacetate/citrate binding site [chemical binding]; other site 444450001365 coenzyme A binding site [chemical binding]; other site 444450001366 catalytic triad [active] 444450001367 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 444450001368 2-methylcitrate dehydratase; Region: prpD; TIGR02330 444450001369 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 444450001370 Propionyl-CoA synthetase (PrpE); Region: PrpE; cd05967 444450001371 acyl-activating enzyme (AAE) consensus motif; other site 444450001372 putative AMP binding site [chemical binding]; other site 444450001373 putative active site [active] 444450001374 putative CoA binding site [chemical binding]; other site 444450001375 nucleobase-cation-symport-1 (NCS1) transporter CobB-like; solute-binding domain; Region: SLC-NCS1sbd_CobB-like; cd11484 444450001376 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 444450001377 Na binding site [ion binding]; other site 444450001378 putative substrate binding site [chemical binding]; other site 444450001379 cytosine deaminase; Provisional; Region: PRK09230 444450001380 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 444450001381 active site 444450001382 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 444450001383 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 444450001384 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator CynR, contains the type 2 periplasmic binding fold; Region: PBP2_CynR; cd08425 444450001385 dimerization interface [polypeptide binding]; other site 444450001386 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 444450001387 active site clefts [active] 444450001388 zinc binding site [ion binding]; other site 444450001389 dimer interface [polypeptide binding]; other site 444450001390 Cyanate lyase [Inorganic ion transport and metabolism]; Region: CynS; COG1513 444450001391 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 444450001392 oligomer interface [polypeptide binding]; other site 444450001393 active site 444450001394 putative cyanate transporter; Provisional; Region: cynX; PRK09705 444450001395 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 444450001396 galactoside O-acetyltransferase; Reviewed; Region: lacA; PRK09527 444450001397 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 444450001398 active site 444450001399 substrate binding site [chemical binding]; other site 444450001400 trimer interface [polypeptide binding]; other site 444450001401 CoA binding site [chemical binding]; other site 444450001402 LacY proton/sugar symporter; Region: LacY_symp; pfam01306 444450001403 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 444450001404 putative substrate translocation pore; other site 444450001405 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 444450001406 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 444450001407 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 444450001408 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 444450001409 Beta galactosidase small chain; Region: Bgal_small_N; pfam02929 444450001410 lac repressor; Reviewed; Region: lacI; PRK09526 444450001411 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 444450001412 DNA binding site [nucleotide binding] 444450001413 domain linker motif; other site 444450001414 Ligand-binding domain of DNA transcription repressor LacI specific for lactose, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_LacI; cd01574 444450001415 ligand binding site [chemical binding]; other site 444450001416 dimerization interface (open form) [polypeptide binding]; other site 444450001417 dimerization interface (closed form) [polypeptide binding]; other site 444450001418 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 444450001419 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 444450001420 conserved cys residue [active] 444450001421 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 444450001422 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 444450001423 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 444450001424 DNA-binding transcriptional activator MhpR; Provisional; Region: PRK09834 444450001425 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 444450001426 Bacterial transcriptional regulator; Region: IclR; pfam01614 444450001427 3-(3-hydroxyphenyl)propionate hydroxylase; Validated; Region: mhpA; PRK06183 444450001428 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 444450001429 Subunit B of the Class III Extradiol ring-cleavage dioxygenase, 2,3-dihydroxyphenylpropionate 1,2-dioxygenase (MhpB), which catalyzes the oxidization and subsequent ring-opening of 2,3-dihydroxyphenylpropionate; Region: MhpB_like; cd07365 444450001430 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 444450001431 putative active site [active] 444450001432 Fe(II) binding site [ion binding]; other site 444450001433 putative dimer interface [polypeptide binding]; other site 444450001434 putative tetramer interface [polypeptide binding]; other site 444450001435 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase; Region: biphenyl_bphD; TIGR03343 444450001436 2-keto-4-pentenoate hydratase; Provisional; Region: mhpD; PRK11342 444450001437 acetaldehyde dehydrogenase; Validated; Region: PRK08300 444450001438 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 444450001439 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 444450001440 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 444450001441 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 444450001442 active site 444450001443 catalytic residues [active] 444450001444 metal binding site [ion binding]; metal-binding site 444450001445 DmpG-like communication domain; Region: DmpG_comm; pfam07836 444450001446 putative 3-hydroxyphenylpropionic transporter MhpT; Provisional; Region: PRK11551 444450001447 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 444450001448 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 444450001449 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3122 444450001450 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 444450001451 S-formylglutathione hydrolase; Region: PLN02442 444450001452 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 444450001453 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 444450001454 substrate binding site [chemical binding]; other site 444450001455 catalytic Zn binding site [ion binding]; other site 444450001456 NAD binding site [chemical binding]; other site 444450001457 structural Zn binding site [ion binding]; other site 444450001458 dimer interface [polypeptide binding]; other site 444450001459 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 444450001460 putative homodimer-homodimer interface [polypeptide binding]; other site 444450001461 putative allosteric switch controlling residues; other site 444450001462 putative metal binding site [ion binding]; other site 444450001463 ferric transporter ATP-binding subunit; Provisional; Region: fbpC; PRK11432 444450001464 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 444450001465 Walker A/P-loop; other site 444450001466 ATP binding site [chemical binding]; other site 444450001467 Q-loop/lid; other site 444450001468 ABC transporter signature motif; other site 444450001469 Walker B; other site 444450001470 D-loop; other site 444450001471 H-loop/switch region; other site 444450001472 TOBE domain; Region: TOBE_2; pfam08402 444450001473 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 444450001474 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 444450001475 dimer interface [polypeptide binding]; other site 444450001476 conserved gate region; other site 444450001477 putative PBP binding loops; other site 444450001478 ABC-ATPase subunit interface; other site 444450001479 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 444450001480 dimer interface [polypeptide binding]; other site 444450001481 conserved gate region; other site 444450001482 putative PBP binding loops; other site 444450001483 ABC-ATPase subunit interface; other site 444450001484 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 444450001485 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 444450001486 regulatory protein UhpC; Provisional; Region: PRK11663 444450001487 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 444450001488 putative substrate translocation pore; other site 444450001489 Signal transduction histidine kinase, glucose-6-phosphate specific [Signal transduction mechanisms]; Region: UhpB; COG3851 444450001490 MASE1; Region: MASE1; pfam05231 444450001491 Histidine kinase; Region: HisKA_3; pfam07730 444450001492 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 444450001493 ATP binding site [chemical binding]; other site 444450001494 Mg2+ binding site [ion binding]; other site 444450001495 G-X-G motif; other site 444450001496 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 444450001497 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 444450001498 active site 444450001499 phosphorylation site [posttranslational modification] 444450001500 intermolecular recognition site; other site 444450001501 dimerization interface [polypeptide binding]; other site 444450001502 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 444450001503 DNA binding residues [nucleotide binding] 444450001504 dimerization interface [polypeptide binding]; other site 444450001505 ABC-type taurine transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: TauA; COG4521 444450001506 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 444450001507 substrate binding pocket [chemical binding]; other site 444450001508 membrane-bound complex binding site; other site 444450001509 hinge residues; other site 444450001510 taurine transporter ATP-binding subunit; Provisional; Region: tauB; PRK11248 444450001511 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 444450001512 Walker A/P-loop; other site 444450001513 ATP binding site [chemical binding]; other site 444450001514 Q-loop/lid; other site 444450001515 ABC transporter signature motif; other site 444450001516 Walker B; other site 444450001517 D-loop; other site 444450001518 H-loop/switch region; other site 444450001519 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 444450001520 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 444450001521 dimer interface [polypeptide binding]; other site 444450001522 conserved gate region; other site 444450001523 putative PBP binding loops; other site 444450001524 ABC-ATPase subunit interface; other site 444450001525 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 444450001526 taurine dioxygenase; Reviewed; Region: tauD; PRK09553 444450001527 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS; cd00384 444450001528 dimer interface [polypeptide binding]; other site 444450001529 active site 444450001530 Schiff base residues; other site 444450001531 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11832 444450001532 beta-lactam binding protein AmpH; Provisional; Region: PRK10662 444450001533 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 444450001534 microcin B17 transporter; Reviewed; Region: PRK11098 444450001535 Protein of unknown function (DUF1615); Region: DUF1615; pfam07759 444450001536 Protein of unknown function (DUF2755); Region: DUF2755; pfam10954 444450001537 Protein of unknown function (DUF2754); Region: DUF2754; pfam10953 444450001538 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 444450001539 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 444450001540 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 444450001541 anti-RssB factor; Provisional; Region: PRK10244 444450001542 alkaline phosphatase; Provisional; Region: PRK10518 444450001543 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; cd00016 444450001544 dimer interface [polypeptide binding]; other site 444450001545 active site 444450001546 hypothetical protein; Provisional; Region: PRK11505 444450001547 psiF repeat; Region: PsiF_repeat; pfam07769 444450001548 psiF repeat; Region: PsiF_repeat; pfam07769 444450001549 diguanylate cyclase AdrA; Provisional; Region: adrA; PRK10245 444450001550 MASE2 domain; Region: MASE2; pfam05230 444450001551 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 444450001552 metal binding site [ion binding]; metal-binding site 444450001553 active site 444450001554 I-site; other site 444450001555 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 444450001556 pyrroline-5-carboxylate reductase; Region: PLN02688 444450001557 hypothetical protein; Validated; Region: PRK00124 444450001558 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 444450001559 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 444450001560 ADP binding site [chemical binding]; other site 444450001561 magnesium binding site [ion binding]; other site 444450001562 putative shikimate binding site; other site 444450001563 hypothetical protein; Provisional; Region: PRK10380 444450001564 hypothetical protein; Provisional; Region: PRK10481 444450001565 hypothetical protein; Provisional; Region: PRK10579 444450001566 Protein of unknown function (DUF2773); Region: DUF2773; pfam10971 444450001567 DNA recombination-dependent growth factor C [DNA replication, recombination, and repair]; Region: RdgC; COG2974 444450001568 fructokinase; Reviewed; Region: PRK09557 444450001569 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 444450001570 nucleotide binding site [chemical binding]; other site 444450001571 MFS transport protein AraJ; Provisional; Region: PRK10091 444450001572 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 444450001573 putative substrate translocation pore; other site 444450001574 exonuclease subunit SbcC; Provisional; Region: PRK10246 444450001575 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 444450001576 Walker A/P-loop; other site 444450001577 ATP binding site [chemical binding]; other site 444450001578 Q-loop/lid; other site 444450001579 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 444450001580 ABC transporter signature motif; other site 444450001581 Walker B; other site 444450001582 D-loop; other site 444450001583 H-loop/switch region; other site 444450001584 exonuclease subunit SbcD; Provisional; Region: PRK10966 444450001585 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 444450001586 active site 444450001587 metal binding site [ion binding]; metal-binding site 444450001588 DNA binding site [nucleotide binding] 444450001589 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 444450001590 transcriptional regulator PhoB; Provisional; Region: PRK10161 444450001591 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 444450001592 active site 444450001593 phosphorylation site [posttranslational modification] 444450001594 intermolecular recognition site; other site 444450001595 dimerization interface [polypeptide binding]; other site 444450001596 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 444450001597 DNA binding site [nucleotide binding] 444450001598 phosphate regulon sensor protein; Provisional; Region: phoR; PRK11006 444450001599 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 444450001600 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 444450001601 putative active site [active] 444450001602 heme pocket [chemical binding]; other site 444450001603 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 444450001604 dimer interface [polypeptide binding]; other site 444450001605 phosphorylation site [posttranslational modification] 444450001606 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 444450001607 ATP binding site [chemical binding]; other site 444450001608 Mg2+ binding site [ion binding]; other site 444450001609 G-X-G motif; other site 444450001610 branched-chain amino acid transport system 2 carrier protein BrnQ; Provisional; Region: PRK15433 444450001611 putative proline-specific permease; Provisional; Region: proY; PRK10580 444450001612 Spore germination protein; Region: Spore_permease; cl17796 444450001613 maltodextrin glucosidase; Provisional; Region: PRK10785 444450001614 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 444450001615 homodimer interface [polypeptide binding]; other site 444450001616 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 444450001617 active site 444450001618 homodimer interface [polypeptide binding]; other site 444450001619 catalytic site [active] 444450001620 acyl carrier protein phosphodiesterase; Provisional; Region: PRK10045 444450001621 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 444450001622 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 444450001623 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 444450001624 tRNA-guanine family transglycosylase; Region: tgt_general; TIGR00449 444450001625 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 444450001626 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 444450001627 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 444450001628 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 444450001629 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 444450001630 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 444450001631 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 444450001632 Protein export membrane protein; Region: SecD_SecF; pfam02355 444450001633 Uncharacterized protein family (UPF0156); Region: RHH_2; pfam03693 444450001634 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 444450001635 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 444450001636 active site 444450001637 nucleoside-specific channel-forming protein Tsx; Provisional; Region: PRK15106 444450001638 hypothetical protein; Provisional; Region: PRK11530 444450001639 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 444450001640 ATP cone domain; Region: ATP-cone; pfam03477 444450001641 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 444450001642 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 444450001643 catalytic motif [active] 444450001644 Zn binding site [ion binding]; other site 444450001645 riboflavin-specific deaminase C-terminal domain; Region: ribD_Cterm; TIGR00227 444450001646 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 444450001647 homopentamer interface [polypeptide binding]; other site 444450001648 active site 444450001649 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 444450001650 putative RNA binding site [nucleotide binding]; other site 444450001651 thiamine monophosphate kinase; Provisional; Region: PRK05731 444450001652 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 444450001653 ATP binding site [chemical binding]; other site 444450001654 dimerization interface [polypeptide binding]; other site 444450001655 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 444450001656 tetramer interfaces [polypeptide binding]; other site 444450001657 binuclear metal-binding site [ion binding]; other site 444450001658 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 444450001659 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 444450001660 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 444450001661 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 444450001662 active site 444450001663 catalytic tetrad [active] 444450001664 1-deoxy-D-xylulose-5-phosphate synthase; Region: dxs; TIGR00204 444450001665 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 444450001666 TPP-binding site; other site 444450001667 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 444450001668 PYR/PP interface [polypeptide binding]; other site 444450001669 dimer interface [polypeptide binding]; other site 444450001670 TPP binding site [chemical binding]; other site 444450001671 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 444450001672 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 444450001673 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 444450001674 substrate binding pocket [chemical binding]; other site 444450001675 chain length determination region; other site 444450001676 substrate-Mg2+ binding site; other site 444450001677 catalytic residues [active] 444450001678 aspartate-rich region 1; other site 444450001679 active site lid residues [active] 444450001680 aspartate-rich region 2; other site 444450001681 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 444450001682 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 444450001683 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 444450001684 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 444450001685 Ligand Binding Site [chemical binding]; other site 444450001686 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 444450001687 active site residue [active] 444450001688 oxidative-stress-resistance chaperone; Provisional; Region: PRK11574 444450001689 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 444450001690 conserved cys residue [active] 444450001691 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 444450001692 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 444450001693 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 444450001694 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 444450001695 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 444450001696 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 444450001697 Major Facilitator Superfamily; Region: MFS_1; pfam07690 444450001698 putative substrate translocation pore; other site 444450001699 protoheme IX farnesyltransferase; Provisional; Region: PRK13362 444450001700 UbiA prenyltransferase family; Region: UbiA; pfam01040 444450001701 cytochrome o ubiquinol oxidase subunit IV; Provisional; Region: PRK10582 444450001702 Ubiquinol oxidase subunit III subfamily. 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...; Region: Ubiquinol_oxidase_III; cd02863 444450001703 Subunit I/III interface [polypeptide binding]; other site 444450001704 Subunit III/IV interface [polypeptide binding]; other site 444450001705 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 444450001706 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 444450001707 D-pathway; other site 444450001708 Putative ubiquinol binding site [chemical binding]; other site 444450001709 Low-spin heme (heme b) binding site [chemical binding]; other site 444450001710 Putative water exit pathway; other site 444450001711 Binuclear center (heme o3/CuB) [ion binding]; other site 444450001712 K-pathway; other site 444450001713 Putative proton exit pathway; other site 444450001714 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 444450001715 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 444450001716 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 444450001717 muropeptide transporter; Reviewed; Region: ampG; PRK11902 444450001718 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 444450001719 putative substrate translocation pore; other site 444450001720 hypothetical protein; Provisional; Region: PRK11627 444450001721 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 444450001722 Uncharacterized lipoprotein; Region: Lipoprotein_16; pfam03923 444450001723 transcriptional regulator BolA; Provisional; Region: PRK11628 444450001724 trigger factor; Provisional; Region: tig; PRK01490 444450001725 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 444450001726 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 444450001727 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 444450001728 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 444450001729 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 444450001730 Walker A motif; other site 444450001731 ATP binding site [chemical binding]; other site 444450001732 Walker B motif; other site 444450001733 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 444450001734 DNA-binding ATP-dependent protease La; Provisional; Region: PRK10787 444450001735 Found in ATP-dependent protease La (LON); Region: LON; smart00464 444450001736 Found in ATP-dependent protease La (LON); Region: LON; smart00464 444450001737 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 444450001738 Walker A motif; other site 444450001739 ATP binding site [chemical binding]; other site 444450001740 Walker B motif; other site 444450001741 arginine finger; other site 444450001742 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 444450001743 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 444450001744 IHF dimer interface [polypeptide binding]; other site 444450001745 IHF - DNA interface [nucleotide binding]; other site 444450001746 periplasmic folding chaperone; Provisional; Region: PRK10788 444450001747 SurA N-terminal domain; Region: SurA_N_3; cl07813 444450001748 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 444450001749 competence protein ComEA helix-hairpin-helix repeat region; Region: TIGR00426 444450001750 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 444450001751 active site 444450001752 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 444450001753 Ligand Binding Site [chemical binding]; other site 444450001754 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4533 444450001755 Sugar transport-related sRNA regulator N-term; Region: SgrR_N; pfam12793 444450001756 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 444450001757 thiamin pyrimidine pyrophosphate hydrolase; Provisional; Region: PRK15126 444450001758 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 444450001759 active site 444450001760 motif I; other site 444450001761 motif II; other site 444450001762 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 444450001763 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 444450001764 putative DNA binding site [nucleotide binding]; other site 444450001765 putative Zn2+ binding site [ion binding]; other site 444450001766 AsnC family; Region: AsnC_trans_reg; pfam01037 444450001767 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 444450001768 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 444450001769 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 444450001770 Walker A/P-loop; other site 444450001771 ATP binding site [chemical binding]; other site 444450001772 Q-loop/lid; other site 444450001773 ABC transporter signature motif; other site 444450001774 Walker B; other site 444450001775 D-loop; other site 444450001776 H-loop/switch region; other site 444450001777 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10790 444450001778 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 444450001779 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 444450001780 Walker A/P-loop; other site 444450001781 ATP binding site [chemical binding]; other site 444450001782 Q-loop/lid; other site 444450001783 ABC transporter signature motif; other site 444450001784 Walker B; other site 444450001785 D-loop; other site 444450001786 H-loop/switch region; other site 444450001787 nitrogen regulatory protein P-II 2; Provisional; Region: PRK10665 444450001788 Nitrogen regulatory protein P-II; Region: P-II; smart00938 444450001789 ammonium transporter; Provisional; Region: PRK10666 444450001790 acyl-CoA thioesterase II; Provisional; Region: PRK10526 444450001791 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 444450001792 active site 444450001793 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 444450001794 catalytic triad [active] 444450001795 dimer interface [polypeptide binding]; other site 444450001796 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3126 444450001797 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 444450001798 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 444450001799 DNA binding site [nucleotide binding] 444450001800 active site 444450001801 Uncharacterized conserved protein [Function unknown]; Region: COG5507 444450001802 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 444450001803 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 444450001804 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 444450001805 sigma70 family sigma factor YlaC; Region: YlaC; pfam10777 444450001806 maltose O-acetyltransferase; Provisional; Region: PRK10092 444450001807 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 444450001808 active site 444450001809 substrate binding site [chemical binding]; other site 444450001810 trimer interface [polypeptide binding]; other site 444450001811 CoA binding site [chemical binding]; other site 444450001812 gene expression modulator; Provisional; Region: PRK10945 444450001813 Biofilm formation regulator YbaJ; Region: YbaJ; pfam10757 444450001814 multidrug efflux system protein AcrB; Provisional; Region: PRK15127 444450001815 Protein export membrane protein; Region: SecD_SecF; cl14618 444450001816 Protein export membrane protein; Region: SecD_SecF; cl14618 444450001817 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 444450001818 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 444450001819 HlyD family secretion protein; Region: HlyD_3; pfam13437 444450001820 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 444450001821 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 444450001822 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 444450001823 hypothetical protein; Provisional; Region: PRK11281 444450001824 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 444450001825 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 444450001826 Mechanosensitive ion channel; Region: MS_channel; pfam00924 444450001827 hypothetical protein; Provisional; Region: PRK11038 444450001828 primosomal replication protein N''; Provisional; Region: PRK10093 444450001829 hypothetical protein; Provisional; Region: PRK10527 444450001830 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 444450001831 active site 444450001832 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07994 444450001833 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 444450001834 Walker A motif; other site 444450001835 ATP binding site [chemical binding]; other site 444450001836 Walker B motif; other site 444450001837 DNA polymerase III subunit delta'; Validated; Region: PRK08485 444450001838 arginine finger; other site 444450001839 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 444450001840 DNA polymerase III subunits tau domain IV DnaB-binding; Region: DNA_pol3_tau_4; pfam12168 444450001841 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 444450001842 DnaX ribosomal frameshifting element 444450001843 hypothetical protein; Validated; Region: PRK00153 444450001844 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecR; COG0353 444450001845 RecR protein; Region: RecR; pfam02132 444450001846 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 444450001847 putative active site [active] 444450001848 putative metal-binding site [ion binding]; other site 444450001849 tetramer interface [polypeptide binding]; other site 444450001850 heat shock protein 90; Provisional; Region: PRK05218 444450001851 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 444450001852 ATP binding site [chemical binding]; other site 444450001853 Mg2+ binding site [ion binding]; other site 444450001854 G-X-G motif; other site 444450001855 adenylate kinase; Reviewed; Region: adk; PRK00279 444450001856 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 444450001857 AMP-binding site [chemical binding]; other site 444450001858 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 444450001859 ferrochelatase; Region: hemH; TIGR00109 444450001860 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 444450001861 C-terminal domain interface [polypeptide binding]; other site 444450001862 active site 444450001863 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 444450001864 active site 444450001865 N-terminal domain interface [polypeptide binding]; other site 444450001866 acetyl esterase; Provisional; Region: PRK10162 444450001867 inosine/guanosine kinase; Provisional; Region: PRK15074 444450001868 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 444450001869 putative cation:proton antiport protein; Provisional; Region: PRK10669 444450001870 Kef-type K+ transport system, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: RosB; COG4651 444450001871 TrkA-N domain; Region: TrkA_N; pfam02254 444450001872 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 444450001873 Major Facilitator Superfamily; Region: MFS_1; pfam07690 444450001874 putative substrate translocation pore; other site 444450001875 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 444450001876 Escherichia coli UshA and related proteins, N-terminal metallophosphatase domain; Region: MPP_UshA_N; cd07405 444450001877 active site 444450001878 metal binding site [ion binding]; metal-binding site 444450001879 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 444450001880 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 444450001881 putative deacylase active site [active] 444450001882 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3735 444450001883 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 444450001884 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 444450001885 non-specific DNA binding site [nucleotide binding]; other site 444450001886 salt bridge; other site 444450001887 sequence-specific DNA binding site [nucleotide binding]; other site 444450001888 copper exporting ATPase; Provisional; Region: copA; PRK10671 444450001889 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 444450001890 metal-binding site [ion binding] 444450001891 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 444450001892 metal-binding site [ion binding] 444450001893 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 444450001894 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 444450001895 motif II; other site 444450001896 glutaminase; Reviewed; Region: PRK12356 444450001897 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 444450001898 amino acid transporter; Region: 2A0306; TIGR00909 444450001899 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 444450001900 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 444450001901 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 444450001902 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 444450001903 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 444450001904 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 444450001905 Bacterial Ig-like domain (group 3); Region: Big_3_3; pfam13750 444450001906 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 444450001907 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 444450001908 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 444450001909 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 444450001910 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 444450001911 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 444450001912 putative active site [active] 444450001913 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 444450001914 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 444450001915 Walker A/P-loop; other site 444450001916 ATP binding site [chemical binding]; other site 444450001917 Q-loop/lid; other site 444450001918 ABC transporter signature motif; other site 444450001919 Walker B; other site 444450001920 D-loop; other site 444450001921 H-loop/switch region; other site 444450001922 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 444450001923 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 444450001924 HlyD family secretion protein; Region: HlyD_3; pfam13437 444450001925 DNA-binding transcriptional regulator CueR; Provisional; Region: PRK10227 444450001926 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 444450001927 DNA binding residues [nucleotide binding] 444450001928 dimer interface [polypeptide binding]; other site 444450001929 copper binding site [ion binding]; other site 444450001930 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 444450001931 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 444450001932 YadA-like C-terminal region; Region: YadA; pfam03895 444450001933 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 444450001934 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 444450001935 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 444450001936 putative ABC transporter ATP-binding protein YbbL; Provisional; Region: PRK10247 444450001937 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 444450001938 Walker A/P-loop; other site 444450001939 ATP binding site [chemical binding]; other site 444450001940 Q-loop/lid; other site 444450001941 ABC transporter signature motif; other site 444450001942 Walker B; other site 444450001943 D-loop; other site 444450001944 H-loop/switch region; other site 444450001945 Uncharacterized protein family (UPF0014); Region: UPF0014; pfam03649 444450001946 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 444450001947 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 444450001948 oxidoreductase; Provisional; Region: PRK08017 444450001949 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 444450001950 NADP binding site [chemical binding]; other site 444450001951 active site 444450001952 steroid binding site; other site 444450001953 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 444450001954 active site 444450001955 catalytic triad [active] 444450001956 oxyanion hole [active] 444450001957 switch loop; other site 444450001958 putative ABC transporter ATP-binding protein YbbA; Provisional; Region: PRK10584 444450001959 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 444450001960 Walker A/P-loop; other site 444450001961 ATP binding site [chemical binding]; other site 444450001962 Q-loop/lid; other site 444450001963 ABC transporter signature motif; other site 444450001964 Walker B; other site 444450001965 D-loop; other site 444450001966 H-loop/switch region; other site 444450001967 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 444450001968 FtsX-like permease family; Region: FtsX; pfam02687 444450001969 FtsX-like permease family; Region: FtsX; pfam02687 444450001970 PAAR motif; Region: PAAR_motif; cl15808 444450001971 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 444450001972 RHS Repeat; Region: RHS_repeat; pfam05593 444450001973 RHS Repeat; Region: RHS_repeat; pfam05593 444450001974 RHS Repeat; Region: RHS_repeat; cl11982 444450001975 RHS Repeat; Region: RHS_repeat; pfam05593 444450001976 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 444450001977 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 444450001978 RHS Repeat; Region: RHS_repeat; pfam05593 444450001979 RHS protein; Region: RHS; pfam03527 444450001980 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 444450001981 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 444450001982 Member of the Rhodanese Homology Domain superfamily. This CD includes several putative ATP /GTP binding proteins including E. coli YbbB; Region: RHOD_YbbB; cd01520 444450001983 active site residue [active] 444450001984 DNA-binding transcriptional activator AllS; Provisional; Region: PRK10094 444450001985 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 444450001986 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 444450001987 dimerization interface [polypeptide binding]; other site 444450001988 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 444450001989 ureidoglycolate hydrolase; Provisional; Region: PRK03606 444450001990 DNA-binding transcriptional repressor AllR; Provisional; Region: PRK10163 444450001991 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 444450001992 Bacterial transcriptional regulator; Region: IclR; pfam01614 444450001993 glyoxylate carboligase; Provisional; Region: PRK11269 444450001994 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 444450001995 PYR/PP interface [polypeptide binding]; other site 444450001996 dimer interface [polypeptide binding]; other site 444450001997 TPP binding site [chemical binding]; other site 444450001998 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 444450001999 Thiamine pyrophosphate (TPP) family, Gcl subfamily, TPP-binding module; composed of proteins similar to Escherichia coli glyoxylate carboligase (Gcl). E. coli glyoxylate carboligase, plays a key role in glyoxylate metabolism where it catalyzes the...; Region: TPP_Gcl; cd02006 444450002000 TPP-binding site [chemical binding]; other site 444450002001 hydroxypyruvate isomerase; Provisional; Region: PRK09997 444450002002 tartronate semialdehyde reductase; Provisional; Region: PRK15059 444450002003 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 444450002004 nucleobase-cation-symport-1 (NCS1) transporters; solute-binding domain; Region: SLC-NCS1sbd; cd10323 444450002005 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 444450002006 Na binding site [ion binding]; other site 444450002007 substrate binding site [chemical binding]; other site 444450002008 putative uracil/xanthine transporter; Provisional; Region: PRK11412 444450002009 glycerate kinase II; Provisional; Region: PRK09932 444450002010 Uncharacterized protein, possibly involved in glyoxylate utilization [General function prediction only]; Region: GlxB; COG3257 444450002011 Protein of unknown function (DUF861); Region: Cupin_3; cl17594 444450002012 Cupin domain; Region: Cupin_2; cl17218 444450002013 allantoate amidohydrolase; Region: AllC; TIGR03176 444450002014 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 444450002015 active site 444450002016 metal binding site [ion binding]; metal-binding site 444450002017 dimer interface [polypeptide binding]; other site 444450002018 ureidoglycolate dehydrogenase; Provisional; Region: PRK15025 444450002019 membrane protein FdrA; Validated; Region: PRK06091 444450002020 CoA binding domain; Region: CoA_binding; pfam02629 444450002021 CoA-ligase; Region: Ligase_CoA; pfam00549 444450002022 Protein of unknown function (DUF1116); Region: DUF1116; pfam06545 444450002023 Protein of unknown function (DUF2877); Region: DUF2877; pfam11392 444450002024 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 444450002025 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 444450002026 putative substrate binding site [chemical binding]; other site 444450002027 nucleotide binding site [chemical binding]; other site 444450002028 nucleotide binding site [chemical binding]; other site 444450002029 homodimer interface [polypeptide binding]; other site 444450002030 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 444450002031 ATP-grasp domain; Region: ATP-grasp; pfam02222 444450002032 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 444450002033 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 444450002034 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 444450002035 putative active site [active] 444450002036 putative metal binding site [ion binding]; other site 444450002037 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 444450002038 substrate binding site [chemical binding]; other site 444450002039 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 444450002040 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 444450002041 active site 444450002042 HIGH motif; other site 444450002043 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 444450002044 KMSKS motif; other site 444450002045 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 444450002046 tRNA binding surface [nucleotide binding]; other site 444450002047 anticodon binding site; other site 444450002048 Predicted membrane-bound metal-dependent hydrolases [General function prediction only]; Region: COG1988 444450002049 ribosome-associated protein; Provisional; Region: PRK11507 444450002050 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 444450002051 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 444450002052 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 444450002053 homodimer interface [polypeptide binding]; other site 444450002054 NADP binding site [chemical binding]; other site 444450002055 substrate binding site [chemical binding]; other site 444450002056 type-1 fimbrial protein subunit A; Provisional; Region: PRK15194 444450002057 fimbrial chaperone protein FimC; Provisional; Region: PRK15195 444450002058 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 444450002059 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 444450002060 outer membrane usher protein FimD; Provisional; Region: PRK15198 444450002061 PapC N-terminal domain; Region: PapC_N; pfam13954 444450002062 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 444450002063 PapC C-terminal domain; Region: PapC_C; pfam13953 444450002064 fimbrial-like adhesin; Provisional; Region: fimH; PRK15199 444450002065 Fimbrial protein; Region: Fimbrial; cl01416 444450002066 transcriptional regulator FimZ; Provisional; Region: PRK09935 444450002067 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 444450002068 active site 444450002069 phosphorylation site [posttranslational modification] 444450002070 intermolecular recognition site; other site 444450002071 dimerization interface [polypeptide binding]; other site 444450002072 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 444450002073 DNA binding residues [nucleotide binding] 444450002074 dimerization interface [polypeptide binding]; other site 444450002075 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 444450002076 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 444450002077 hypothetical protein; Provisional; Region: PRK09936 444450002078 bacteriophage N4 receptor, outer membrane subunit; Provisional; Region: PRK09782 444450002079 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 444450002080 TPR motif; other site 444450002081 binding surface 444450002082 Bacteriophage N adsorption protein A C-term; Region: NfrA_C; pfam13283 444450002083 bacteriophage N4 adsorption protein B; Provisional; Region: nfrB; PRK11234 444450002084 active site 444450002085 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 444450002086 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 444450002087 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 444450002088 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 444450002089 Transposase [DNA replication, recombination, and repair]; Region: COG5433 444450002090 Transposase [DNA replication, recombination, and repair]; Region: COG5433 444450002091 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 444450002092 RHS Repeat; Region: RHS_repeat; cl11982 444450002093 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 444450002094 PAAR motif; Region: PAAR_motif; pfam05488 444450002095 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 444450002096 RHS Repeat; Region: RHS_repeat; pfam05593 444450002097 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 444450002098 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 444450002099 RHS Repeat; Region: RHS_repeat; cl11982 444450002100 RHS Repeat; Region: RHS_repeat; pfam05593 444450002101 RHS Repeat; Region: RHS_repeat; cl11982 444450002102 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 444450002103 RHS Repeat; Region: RHS_repeat; cl11982 444450002104 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 444450002105 Uncharacterized conserved protein [Function unknown]; Region: COG5435 444450002106 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 444450002107 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 444450002108 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 444450002109 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 444450002110 sensor kinase CusS; Provisional; Region: PRK09835 444450002111 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 444450002112 dimerization interface [polypeptide binding]; other site 444450002113 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 444450002114 dimer interface [polypeptide binding]; other site 444450002115 phosphorylation site [posttranslational modification] 444450002116 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 444450002117 ATP binding site [chemical binding]; other site 444450002118 Mg2+ binding site [ion binding]; other site 444450002119 G-X-G motif; other site 444450002120 DNA-binding transcriptional activator CusR; Provisional; Region: PRK09836 444450002121 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 444450002122 active site 444450002123 phosphorylation site [posttranslational modification] 444450002124 intermolecular recognition site; other site 444450002125 dimerization interface [polypeptide binding]; other site 444450002126 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 444450002127 DNA binding site [nucleotide binding] 444450002128 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 444450002129 periplasmic copper-binding protein; Provisional; Region: PRK09838 444450002130 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 444450002131 HlyD family secretion protein; Region: HlyD_3; pfam13437 444450002132 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 444450002133 phenylalanine transporter; Provisional; Region: PRK10249 444450002134 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 444450002135 Mechanosensitive ion channel; Region: MS_channel; pfam00924 444450002136 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 444450002137 dimer interface [polypeptide binding]; other site 444450002138 FMN binding site [chemical binding]; other site 444450002139 hypothetical protein; Provisional; Region: PRK10250 444450002140 Protein of unknown function (DUF1158); Region: DUF1158; pfam06643 444450002141 gamma-glutamyl:cysteine ligase; Provisional; Region: PRK13516 444450002142 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 444450002143 Hok/gef family; Region: HOK_GEF; pfam01848 444450002144 phosphopantetheinyltransferase component of enterobactin synthase multienzyme complex; Provisional; Region: PRK10251 444450002145 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 444450002146 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 444450002147 outer membrane receptor FepA; Provisional; Region: PRK13524 444450002148 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 444450002149 N-terminal plug; other site 444450002150 ligand-binding site [chemical binding]; other site 444450002151 enterobactin/ferric enterobactin esterase; Provisional; Region: PRK10439 444450002152 Domain of unknown function (DUF3327); Region: DUF3327; pfam11806 444450002153 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 444450002154 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3251 444450002155 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 444450002156 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 444450002157 acyl-activating enzyme (AAE) consensus motif; other site 444450002158 AMP binding site [chemical binding]; other site 444450002159 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 444450002160 LPS O-antigen length regulator; Provisional; Region: PRK10381 444450002161 Chain length determinant protein; Region: Wzz; pfam02706 444450002162 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 444450002163 iron-enterobactin transporter ATP-binding protein; Provisional; Region: PRK10253 444450002164 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 444450002165 Walker A/P-loop; other site 444450002166 ATP binding site [chemical binding]; other site 444450002167 Q-loop/lid; other site 444450002168 ABC transporter signature motif; other site 444450002169 Walker B; other site 444450002170 D-loop; other site 444450002171 H-loop/switch region; other site 444450002172 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 444450002173 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 444450002174 ABC-ATPase subunit interface; other site 444450002175 dimer interface [polypeptide binding]; other site 444450002176 putative PBP binding regions; other site 444450002177 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 444450002178 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 444450002179 ABC-ATPase subunit interface; other site 444450002180 dimer interface [polypeptide binding]; other site 444450002181 putative PBP binding regions; other site 444450002182 enterobactin exporter EntS; Provisional; Region: PRK10489 444450002183 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 444450002184 putative substrate translocation pore; other site 444450002185 iron-enterobactin transporter periplasmic binding protein; Provisional; Region: PRK10957 444450002186 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 444450002187 siderophore binding site; other site 444450002188 isochorismate synthase EntC; Provisional; Region: PRK15016 444450002189 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 444450002190 enterobactin synthase subunit E; Provisional; Region: entE; PRK10946 444450002191 2,3-dihydroxybenzoate-AMP ligase; Region: 23DHB-AMP_lg; cd05920 444450002192 acyl-activating enzyme (AAE) consensus motif; other site 444450002193 active site 444450002194 AMP binding site [chemical binding]; other site 444450002195 substrate binding site [chemical binding]; other site 444450002196 Isochorismatase, also known as 2,3 dihydro-2,3 dihydroxybenzoate synthase, catalyses the conversion of isochorismate, in the presence of water, to 2,3-dihydroxybenzoate and pyruvate, via the hydrolysis of a vinyl ether, an uncommon reaction in biological...; Region: isochorismatase; cd01013 444450002197 hydrophobic substrate binding pocket; other site 444450002198 Isochorismatase family; Region: Isochorismatase; pfam00857 444450002199 active site 444450002200 conserved cis-peptide bond; other site 444450002201 Aryl carrier domain [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3433 444450002202 2,3-dihydroxybenzoate-2,3-dehydrogenase; Validated; Region: PRK08220 444450002203 2,3 dihydro-2,3 dihydrozybenzoate dehydrogenases, classical (c) SDRs; Region: DH-DHB-DH_SDR_c; cd05331 444450002204 putative NAD(P) binding site [chemical binding]; other site 444450002205 active site 444450002206 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 444450002207 CoenzymeA binding site [chemical binding]; other site 444450002208 subunit interaction site [polypeptide binding]; other site 444450002209 PHB binding site; other site 444450002210 carbon starvation protein A; Provisional; Region: PRK15015 444450002211 Carbon starvation protein CstA; Region: CstA; pfam02554 444450002212 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 444450002213 Uncharacterized small protein [Function unknown]; Region: COG2879 444450002214 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 444450002215 Glycerol dehydrogenases-like; Region: GlyDH-like1; cd08172 444450002216 putative active site [active] 444450002217 metal binding site [ion binding]; metal-binding site 444450002218 methionine aminotransferase; Validated; Region: PRK09082 444450002219 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 444450002220 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444450002221 homodimer interface [polypeptide binding]; other site 444450002222 catalytic residue [active] 444450002223 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 444450002224 ParB-like nuclease domain; Region: ParBc; pfam02195 444450002225 Predicted phosphoadenosine phosphosulfate sulfotransferase [General function prediction only]; Region: COG3969 444450002226 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 444450002227 Active Sites [active] 444450002228 Domain of unknown function (DUF3440); Region: DUF3440; pfam11922 444450002229 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11482 444450002230 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 444450002231 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 444450002232 disulfide isomerase/thiol-disulfide oxidase; Provisional; Region: dsbG; PRK11657 444450002233 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 444450002234 dimerization domain [polypeptide binding]; other site 444450002235 dimer interface [polypeptide binding]; other site 444450002236 catalytic residues [active] 444450002237 alkyl hydroperoxide reductase subunit C; Provisional; Region: PRK10382 444450002238 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 444450002239 dimer interface [polypeptide binding]; other site 444450002240 decamer (pentamer of dimers) interface [polypeptide binding]; other site 444450002241 catalytic triad [active] 444450002242 peroxidatic and resolving cysteines [active] 444450002243 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 444450002244 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 444450002245 catalytic residue [active] 444450002246 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 444450002247 catalytic residues [active] 444450002248 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 444450002249 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 444450002250 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 444450002251 Ligand Binding Site [chemical binding]; other site 444450002252 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 444450002253 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 444450002254 NAD binding site [chemical binding]; other site 444450002255 catalytic Zn binding site [ion binding]; other site 444450002256 structural Zn binding site [ion binding]; other site 444450002257 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 444450002258 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 444450002259 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2_prok; cd01062 444450002260 B1 nucleotide binding pocket [chemical binding]; other site 444450002261 B2 nucleotide binding pocket [chemical binding]; other site 444450002262 CAS motifs; other site 444450002263 active site 444450002264 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 444450002265 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cd00625 444450002266 transmembrane helices; other site 444450002267 triphosphoribosyl-dephospho-CoA synthase; Provisional; Region: citG; PRK10096 444450002268 Phosphoribosyl-dephospho-CoA transferase (holo-ACP synthetase) [Coenzyme metabolism / Lipid metabolism]; Region: CitX; COG3697 444450002269 Citrate lyase, alpha subunit [Energy production and conversion]; Region: CitF; COG3051 444450002270 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 444450002271 Citrate lyase, gamma subunit [Energy production and conversion]; Region: CitD; COG3052 444450002272 Citrate lyase synthetase [Energy production and conversion]; Region: CitC; COG3053 444450002273 Citrate lyase ligase; Region: Citrate_lyase_ligase; cd02169 444450002274 putative active site [active] 444450002275 (T/H)XGH motif; other site 444450002276 sensor histidine kinase DpiB; Provisional; Region: dpiB; PRK15053 444450002277 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 444450002278 putative active site [active] 444450002279 heme pocket [chemical binding]; other site 444450002280 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 444450002281 ATP binding site [chemical binding]; other site 444450002282 Mg2+ binding site [ion binding]; other site 444450002283 G-X-G motif; other site 444450002284 two-component response regulator DpiA; Provisional; Region: dpiA; PRK10046 444450002285 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 444450002286 active site 444450002287 phosphorylation site [posttranslational modification] 444450002288 intermolecular recognition site; other site 444450002289 dimerization interface [polypeptide binding]; other site 444450002290 Transcriptional regulator; Region: CitT; pfam12431 444450002291 C4-dicarboxylate transporter DcuC; Provisional; Region: dcuC; PRK10654 444450002292 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 444450002293 phospholipid:lipid A palmitoyltransferase; Provisional; Region: pagP; PRK11045 444450002294 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 444450002295 DNA-binding site [nucleotide binding]; DNA binding site 444450002296 RNA-binding motif; other site 444450002297 chromosome condensation membrane protein; Provisional; Region: PRK14196 444450002298 Predicted amidohydrolase [General function prediction only]; Region: COG0388 444450002299 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_3; cd07581 444450002300 putative active site [active] 444450002301 catalytic triad [active] 444450002302 putative dimer interface [polypeptide binding]; other site 444450002303 twin arginine translocase protein E; Validated; Region: tatE; PRK03625 444450002304 lipoyl synthase; Provisional; Region: PRK05481 444450002305 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 444450002306 FeS/SAM binding site; other site 444450002307 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11482 444450002308 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 444450002309 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 444450002310 substrate binding pocket [chemical binding]; other site 444450002311 dimerization interface [polypeptide binding]; other site 444450002312 lipoate-protein ligase B; Provisional; Region: PRK14342 444450002313 hypothetical protein; Provisional; Region: PRK04998 444450002314 D-alanyl-D-alanine carboxypeptidase fraction A; Provisional; Region: PRK10793 444450002315 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 444450002316 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 444450002317 rare lipoprotein A; Provisional; Region: PRK10672 444450002318 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 444450002319 Sporulation related domain; Region: SPOR; pfam05036 444450002320 cell wall shape-determining protein; Provisional; Region: PRK10794 444450002321 penicillin-binding protein 2; Provisional; Region: PRK10795 444450002322 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 444450002323 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 444450002324 rRNA large subunit m3Psi methyltransferase RlmH; Region: tRNA_RlmH_YbeA; TIGR00246 444450002325 ribosome-associated protein; Provisional; Region: PRK11538 444450002326 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 444450002327 catalytic core [active] 444450002328 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 444450002329 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 444450002330 active site 444450002331 (T/H)XGH motif; other site 444450002332 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 444450002333 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 444450002334 LPS-assembly lipoprotein RlpB; Provisional; Region: PRK10796 444450002335 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 444450002336 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 444450002337 HIGH motif; other site 444450002338 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 444450002339 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 444450002340 active site 444450002341 KMSKS motif; other site 444450002342 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 444450002343 tRNA binding surface [nucleotide binding]; other site 444450002344 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 444450002345 hypothetical protein; Provisional; Region: PRK11032 444450002346 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 444450002347 Protein of unknown function (DUF1266); Region: DUF1266; pfam06889 444450002348 DnaJ molecular chaperone homology domain; Region: DnaJ; smart00271 444450002349 HSP70 interaction site [polypeptide binding]; other site 444450002350 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 444450002351 Sel1-like repeats; Region: SEL1; smart00671 444450002352 Sel1-like repeats; Region: SEL1; smart00671 444450002353 Sel1-like repeats; Region: SEL1; smart00671 444450002354 Protein of unknown function (DUF1266); Region: DUF1266; pfam06889 444450002355 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 444450002356 Nucleotide-binding domain of Escherichia coli HscC and similar proteins; Region: HscC_like_NBD; cd10235 444450002357 nucleotide binding site [chemical binding]; other site 444450002358 putative NEF/HSP70 interaction site [polypeptide binding]; other site 444450002359 SBD interface [polypeptide binding]; other site 444450002360 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 444450002361 active site 444450002362 tetramer interface [polypeptide binding]; other site 444450002363 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 444450002364 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 444450002365 Walker A/P-loop; other site 444450002366 ATP binding site [chemical binding]; other site 444450002367 Q-loop/lid; other site 444450002368 ABC transporter signature motif; other site 444450002369 Walker B; other site 444450002370 D-loop; other site 444450002371 H-loop/switch region; other site 444450002372 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 444450002373 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 444450002374 dimer interface [polypeptide binding]; other site 444450002375 conserved gate region; other site 444450002376 putative PBP binding loops; other site 444450002377 ABC-ATPase subunit interface; other site 444450002378 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 444450002379 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 444450002380 dimer interface [polypeptide binding]; other site 444450002381 conserved gate region; other site 444450002382 putative PBP binding loops; other site 444450002383 ABC-ATPase subunit interface; other site 444450002384 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 444450002385 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 444450002386 substrate binding pocket [chemical binding]; other site 444450002387 membrane-bound complex binding site; other site 444450002388 hinge residues; other site 444450002389 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 444450002390 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 444450002391 putative active site [active] 444450002392 catalytic triad [active] 444450002393 putative dimer interface [polypeptide binding]; other site 444450002394 magnesium/cobalt efflux protein CorC; Provisional; Region: PRK15094 444450002395 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 444450002396 Transporter associated domain; Region: CorC_HlyC; smart01091 444450002397 metal-binding heat shock protein; Provisional; Region: PRK00016 444450002398 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 444450002399 PhoH-like protein; Region: PhoH; pfam02562 444450002400 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 444450002401 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 444450002402 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 444450002403 FeS/SAM binding site; other site 444450002404 TRAM domain; Region: TRAM; pfam01938 444450002405 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Reviewed; Region: ubiF; PRK08020 444450002406 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 444450002407 asparagine synthetase B; Provisional; Region: asnB; PRK09431 444450002408 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 444450002409 active site 444450002410 dimer interface [polypeptide binding]; other site 444450002411 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 444450002412 Ligand Binding Site [chemical binding]; other site 444450002413 Molecular Tunnel; other site 444450002414 UMP phosphatase; Provisional; Region: PRK10444 444450002415 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 444450002416 active site 444450002417 motif I; other site 444450002418 motif II; other site 444450002419 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 444450002420 MarR family; Region: MarR; pfam01047 444450002421 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 444450002422 ROK family; Region: ROK; pfam00480 444450002423 N-acetylglucosamine-6-phosphate deacetylase; Region: nagA; TIGR00221 444450002424 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 444450002425 active site 444450002426 dimer interface [polypeptide binding]; other site 444450002427 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 444450002428 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 444450002429 active site 444450002430 trimer interface [polypeptide binding]; other site 444450002431 allosteric site; other site 444450002432 active site lid [active] 444450002433 hexamer (dimer of trimers) interface [polypeptide binding]; other site 444450002434 PTS system N-acetyl glucosamine specific transporter subunits IIABC; Provisional; Region: PRK10255 444450002435 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 444450002436 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 444450002437 active site turn [active] 444450002438 phosphorylation site [posttranslational modification] 444450002439 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cd00210 444450002440 HPr interaction site; other site 444450002441 glycerol kinase (GK) interaction site [polypeptide binding]; other site 444450002442 active site 444450002443 phosphorylation site [posttranslational modification] 444450002444 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 444450002445 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 444450002446 active site 444450002447 HIGH motif; other site 444450002448 nucleotide binding site [chemical binding]; other site 444450002449 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 444450002450 KMSKS motif; other site 444450002451 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 444450002452 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12903 444450002453 YbfN-like lipoprotein; Region: YbfN; pfam13982 444450002454 ferric uptake regulator; Provisional; Region: fur; PRK09462 444450002455 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 444450002456 metal binding site 2 [ion binding]; metal-binding site 444450002457 putative DNA binding helix; other site 444450002458 metal binding site 1 [ion binding]; metal-binding site 444450002459 dimer interface [polypeptide binding]; other site 444450002460 structural Zn2+ binding site [ion binding]; other site 444450002461 flavodoxin FldA; Validated; Region: PRK09267 444450002462 LexA regulated protein; Provisional; Region: PRK11675 444450002463 acyl-CoA esterase; Provisional; Region: PRK10673 444450002464 PGAP1-like protein; Region: PGAP1; pfam07819 444450002465 replication initiation regulator SeqA; Provisional; Region: PRK11187 444450002466 phosphoglucomutase, alpha-D-glucose phosphate-specific; Region: pgm; TIGR01132 444450002467 This bacterial PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible intramolecular phosphoryl...; Region: PGM_like3; cd05801 444450002468 active site 444450002469 substrate binding site [chemical binding]; other site 444450002470 metal binding site [ion binding]; metal-binding site 444450002471 putrescine transporter; Provisional; Region: potE; PRK10655 444450002472 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 444450002473 ornithine decarboxylase; Provisional; Region: PRK13578 444450002474 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 444450002475 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 444450002476 homodimer interface [polypeptide binding]; other site 444450002477 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444450002478 catalytic residue [active] 444450002479 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 444450002480 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 444450002481 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 444450002482 active site 444450002483 phosphorylation site [posttranslational modification] 444450002484 intermolecular recognition site; other site 444450002485 dimerization interface [polypeptide binding]; other site 444450002486 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 444450002487 DNA binding site [nucleotide binding] 444450002488 sensor protein KdpD; Provisional; Region: PRK10490 444450002489 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 444450002490 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 444450002491 Ligand Binding Site [chemical binding]; other site 444450002492 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 444450002493 GAF domain; Region: GAF_3; pfam13492 444450002494 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 444450002495 dimer interface [polypeptide binding]; other site 444450002496 phosphorylation site [posttranslational modification] 444450002497 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 444450002498 ATP binding site [chemical binding]; other site 444450002499 Mg2+ binding site [ion binding]; other site 444450002500 G-X-G motif; other site 444450002501 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 444450002502 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 444450002503 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 444450002504 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 444450002505 Protein of unknown function (DUF2517); Region: DUF2517; pfam10725 444450002506 PAAR motif; Region: PAAR_motif; cl15808 444450002507 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 444450002508 RHS Repeat; Region: RHS_repeat; pfam05593 444450002509 RHS Repeat; Region: RHS_repeat; pfam05593 444450002510 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 444450002511 RHS Repeat; Region: RHS_repeat; pfam05593 444450002512 RHS Repeat; Region: RHS_repeat; pfam05593 444450002513 RHS protein; Region: RHS; pfam03527 444450002514 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 444450002515 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 444450002516 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 444450002517 Transposase [DNA replication, recombination, and repair]; Region: COG5433 444450002518 Transposase [DNA replication, recombination, and repair]; Region: COG5433 444450002519 hypothetical protein; Provisional; Region: PRK10167 444450002520 Uncharacterized conserved protein [Function unknown]; Region: COG3272 444450002521 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 444450002522 DNA photolyase; Region: DNA_photolyase; pfam00875 444450002523 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 444450002524 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 444450002525 putative substrate translocation pore; other site 444450002526 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 444450002527 Uncharacterized conserved protein [Function unknown]; Region: COG0327 444450002528 metal-binding protein; Provisional; Region: PRK10799 444450002529 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 444450002530 sensor histidine kinase inhibitor, KipI family; Region: TIGR00370 444450002531 biotin-dependent carboxylase uncharacterized domain; Region: urea_amlyse_rel; TIGR00724 444450002532 Escherichia coli putative lactam utilization protein YbgL and similar proteins; Region: LamB_YcsF_YbgL_like; cd10800 444450002533 putative active site [active] 444450002534 Putative ammonia monooxygenase; Region: AmoA; pfam05145 444450002535 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 444450002536 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 444450002537 Fimbrial protein; Region: Fimbrial; pfam00419 444450002538 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 444450002539 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 444450002540 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 444450002541 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 444450002542 PapC N-terminal domain; Region: PapC_N; pfam13954 444450002543 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 444450002544 PapC C-terminal domain; Region: PapC_C; pfam13953 444450002545 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 444450002546 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 444450002547 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 444450002548 dimer interface [polypeptide binding]; other site 444450002549 active site 444450002550 citrylCoA binding site [chemical binding]; other site 444450002551 NADH binding [chemical binding]; other site 444450002552 cationic pore residues; other site 444450002553 oxalacetate/citrate binding site [chemical binding]; other site 444450002554 coenzyme A binding site [chemical binding]; other site 444450002555 catalytic triad [active] 444450002556 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 444450002557 Iron-sulfur protein interface; other site 444450002558 proximal quinone binding site [chemical binding]; other site 444450002559 SdhD (CybS) interface [polypeptide binding]; other site 444450002560 proximal heme binding site [chemical binding]; other site 444450002561 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. E. coli SQR, a member of this subfamily, reduces the...; Region: SQR_TypeC_SdhD; cd03494 444450002562 SdhC subunit interface [polypeptide binding]; other site 444450002563 proximal heme binding site [chemical binding]; other site 444450002564 cardiolipin binding site; other site 444450002565 Iron-sulfur protein interface; other site 444450002566 proximal quinone binding site [chemical binding]; other site 444450002567 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08958 444450002568 L-aspartate oxidase; Provisional; Region: PRK06175 444450002569 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 444450002570 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 444450002571 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 444450002572 Protein of unknown function (DUF3521); Region: DUF3521; pfam12035 444450002573 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 444450002574 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 444450002575 TPP-binding site [chemical binding]; other site 444450002576 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 444450002577 dimer interface [polypeptide binding]; other site 444450002578 PYR/PP interface [polypeptide binding]; other site 444450002579 TPP binding site [chemical binding]; other site 444450002580 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 444450002581 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 444450002582 E3 interaction surface; other site 444450002583 lipoyl attachment site [posttranslational modification]; other site 444450002584 e3 binding domain; Region: E3_binding; pfam02817 444450002585 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 444450002586 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 444450002587 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 444450002588 CoA-ligase; Region: Ligase_CoA; pfam00549 444450002589 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 444450002590 CoA binding domain; Region: CoA_binding; smart00881 444450002591 CoA-ligase; Region: Ligase_CoA; pfam00549 444450002592 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 444450002593 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 444450002594 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 444450002595 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 444450002596 dimerization interface [polypeptide binding]; other site 444450002597 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 444450002598 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP; Region: CobA_CobO_BtuR; cl17276 444450002599 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 444450002600 homodimer interface [polypeptide binding]; other site 444450002601 Walker A motif; other site 444450002602 ATP binding site [chemical binding]; other site 444450002603 hydroxycobalamin binding site [chemical binding]; other site 444450002604 Walker B motif; other site 444450002605 putative fumarate hydratase; Provisional; Region: PRK15392 444450002606 Tartrate dehydratase alpha subunit/Fumarate hydratase class I, N-terminal domain [Energy production and conversion]; Region: TtdA; COG1951 444450002607 Fumarase C-terminus; Region: Fumerase_C; pfam05683 444450002608 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 444450002609 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 444450002610 Domain of unknown function (DUF4387); Region: DUF4387; pfam14330 444450002611 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 444450002612 Methylaspartate ammonia-lyase [Amino acid transport and metabolism]; Region: Mal; COG3799 444450002613 Methylaspartate ammonia lyase (3-methylaspartase, MAL) is a homodimeric enzyme, catalyzing the magnesium-dependent reversible alpha,beta-elimination of ammonia from L-threo-(2S,3S)-3-methylaspartic acid to mesaconic acid. This reaction is part of the...; Region: MAL; cd03314 444450002614 dimer interface [polypeptide binding]; other site 444450002615 active site 444450002616 Coenzyme B12-dependent glutamate mutase epsilon subunit-like family; contains proteins similar to Clostridium cochlearium glutamate mutase (Glm) and Streptomyces tendae Tu901 NikV. Glm catalyzes a carbon-skeleton rearrangement of L-glutamate to...; Region: Glm_e; cd00245 444450002617 substrate binding site [chemical binding]; other site 444450002618 B12 cofactor binding site [chemical binding]; other site 444450002619 heterodimer (sigma-epsilon) interface [polypeptide binding]; other site 444450002620 homodimer (epsilon-epsilon) interface [polypeptide binding]; other site 444450002621 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 444450002622 conserved hypothetical protein; Region: glmL_fam; TIGR01319 444450002623 nucleotide binding site [chemical binding]; other site 444450002624 B12 binding domain of glutamate mutase (Glm). Glutamate mutase catalysis the conversion of (S)-glutamate with (2S,3S)-3-methylaspartate. The rearrangement reaction is initiated by the extraction of a hydrogen from the protein-bound substrate by a 5'...; Region: Glm_B12_BD; cd02072 444450002625 B12 binding site [chemical binding]; other site 444450002626 heterodimer interface [polypeptide binding]; other site 444450002627 cobalt ligand [ion binding]; other site 444450002628 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 444450002629 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 444450002630 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003 444450002631 Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]; Region: AppB; COG1294 444450002632 Membrane bound YbgT-like protein; Region: YbgT_YccB; cl02039 444450002633 hypothetical protein; Provisional; Region: PRK10588 444450002634 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 444450002635 active site 444450002636 colicin uptake protein TolQ; Provisional; Region: PRK10801 444450002637 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 444450002638 colicin uptake protein TolR; Provisional; Region: PRK11024 444450002639 cell envelope integrity inner membrane protein TolA; Provisional; Region: tolA; PRK09510 444450002640 cell envelope integrity inner membrane protein TolA; Provisional; Region: tolA; PRK09510 444450002641 TolA C-terminal; Region: TolA; pfam06519 444450002642 translocation protein TolB; Provisional; Region: tolB; PRK03629 444450002643 TolB amino-terminal domain; Region: TolB_N; pfam04052 444450002644 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 444450002645 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 444450002646 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 444450002647 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 444450002648 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 444450002649 ligand binding site [chemical binding]; other site 444450002650 tol-pal system protein YbgF; Provisional; Region: PRK10803 444450002651 Tetratricopeptide repeat; Region: TPR_6; pfam13174 444450002652 Tetratricopeptide repeat; Region: TPR_6; pfam13174 444450002653 quinolinate synthetase; Provisional; Region: PRK09375 444450002654 nicotinamide riboside transporter PnuC; Provisional; Region: PRK15397 444450002655 zinc transporter ZitB; Provisional; Region: PRK03557 444450002656 YbgS-like protein; Region: YbgS; pfam13985 444450002657 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 444450002658 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 444450002659 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 444450002660 catalytic core [active] 444450002661 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 444450002662 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 444450002663 active site 444450002664 catalytic residues [active] 444450002665 galactokinase; Provisional; Region: PRK05101 444450002666 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 444450002667 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 444450002668 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 444450002669 Galactose-1-phosphate uridyl transferase (GalT): This enzyme plays a key role in galactose metabolism by catalysing the transfer of a uridine 5'-phosphoryl group from UDP-galactose 1-phosphate. The structure of E.coli GalT reveals that the enzyme...; Region: GalT; cd00608 444450002670 dimer interface [polypeptide binding]; other site 444450002671 active site 444450002672 UDP-galactose-4-epimerase; Provisional; Region: PRK10675 444450002673 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 444450002674 NAD binding site [chemical binding]; other site 444450002675 homodimer interface [polypeptide binding]; other site 444450002676 active site 444450002677 substrate binding site [chemical binding]; other site 444450002678 putative molybdenum transport ATP-binding protein ModF; Provisional; Region: PRK10938 444450002679 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 444450002680 Walker A/P-loop; other site 444450002681 ATP binding site [chemical binding]; other site 444450002682 Q-loop/lid; other site 444450002683 ABC transporter signature motif; other site 444450002684 Walker B; other site 444450002685 D-loop; other site 444450002686 H-loop/switch region; other site 444450002687 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 444450002688 Walker A/P-loop; other site 444450002689 ATP binding site [chemical binding]; other site 444450002690 Q-loop/lid; other site 444450002691 ABC transporter signature motif; other site 444450002692 Walker B; other site 444450002693 D-loop; other site 444450002694 H-loop/switch region; other site 444450002695 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 444450002696 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 444450002697 molybdenum-pterin binding domain; Region: Mop; TIGR00638 444450002698 TOBE domain; Region: TOBE; pfam03459 444450002699 Protein of unknown function (DUF2592); Region: DUF2592; pfam10766 444450002700 molybdate transporter periplasmic protein; Provisional; Region: modA; PRK10677 444450002701 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 444450002702 substrate binding pocket [chemical binding]; other site 444450002703 membrane-bound complex binding site; other site 444450002704 hinge residues; other site 444450002705 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 444450002706 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 444450002707 putative PBP binding loops; other site 444450002708 ABC-ATPase subunit interface; other site 444450002709 molybdate transporter ATP-binding protein; Provisional; Region: modC; PRK11144 444450002710 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 444450002711 Walker A/P-loop; other site 444450002712 ATP binding site [chemical binding]; other site 444450002713 Q-loop/lid; other site 444450002714 ABC transporter signature motif; other site 444450002715 Walker B; other site 444450002716 D-loop; other site 444450002717 H-loop/switch region; other site 444450002718 molybdenum-pterin binding domain; Region: Mop; TIGR00638 444450002719 pyridoxal phosphate (PLP) phosphatase; Provisional; Region: PRK10530 444450002720 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 444450002721 motif II; other site 444450002722 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 444450002723 6-phosphogluconolactonase; Provisional; Region: PRK11028 444450002724 Transcriptional regulator [Transcription]; Region: LysR; COG0583 444450002725 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 444450002726 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 444450002727 putative dimerization interface [polypeptide binding]; other site 444450002728 PrpF protein; Region: PrpF; pfam04303 444450002729 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 444450002730 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cd00625 444450002731 transmembrane helices; other site 444450002732 putative hydratase; Provisional; Region: PRK11413 444450002733 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 444450002734 substrate binding site [chemical binding]; other site 444450002735 ligand binding site [chemical binding]; other site 444450002736 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 444450002737 substrate binding site [chemical binding]; other site 444450002738 acyl-CoA thioesterase; Provisional; Region: PRK10531 444450002739 putative pectinesterase; Region: PLN02432; cl01911 444450002740 Bacteriophage lambda integrase, N-terminal domain; Region: Phage_integ_N; pfam09003 444450002741 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 444450002742 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 444450002743 Lambda integrase, C-terminal catalytic domain. Lambda-type integrases catalyze site-specific integration and excision of temperate bacteriophages and other mobile genetic elements to and from the bacterial host chromosome. They belong to the superfamily...; Region: INT_Lambda_C; cd00800 444450002744 dimer interface [polypeptide binding]; other site 444450002745 active site 444450002746 Int/Topo IB signature motif; other site 444450002747 Protein of unknown function (DUF1382); Region: DUF1382; pfam07131 444450002748 YqaJ-like viral recombinase domain; Region: YqaJ; pfam09588 444450002749 RecT family; Region: RecT; cl04285 444450002750 Bacteriophage Lambda NinG protein; Region: NinG; pfam05766 444450002751 PrpA and PrpB, metallophosphatase domain; Region: MPP_PrpA_PrpB; cd07424 444450002752 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 444450002753 active site 444450002754 metal binding site [ion binding]; metal-binding site 444450002755 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3528 444450002756 Phage antitermination protein Q; Region: Phage_antiter_Q; pfam06323 444450002757 Protein of unknown function (DUF3927); Region: DUF3927; pfam13064 444450002758 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 444450002759 catalytic residues [active] 444450002760 Bacteriophage lysis protein; Region: Phage_lysis; pfam03245 444450002761 Protein of unknown function (DUF1441); Region: DUF1441; pfam07278 444450002762 Phage terminase, large subunit GpA [Replication, recombination and repair]; Region: COG5525 444450002763 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 444450002764 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 444450002765 Clp protease; Region: CLP_protease; pfam00574 444450002766 oligomer interface [polypeptide binding]; other site 444450002767 active site residues [active] 444450002768 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; cl01826 444450002769 Uncharacterized conserved protein [Function unknown]; Region: COG5471 444450002770 ATP-binding sugar transporter from pro-phage; Region: Gifsy-2; pfam13856 444450002771 Prophage minor tail protein Z (GPZ); Region: Minor_tail_Z; pfam06763 444450002772 Phage minor tail protein U; Region: Phage_tail_U; pfam06141 444450002773 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 444450002774 Bacterial Ig-like domain 2; Region: BID_2; smart00635 444450002775 Bacteriophage lambda minor tail protein (GpG); Region: Phage_lambd_GpG; cl06106 444450002776 Minor tail protein T; Region: Phage_tail_T; pfam06223 444450002777 Phage-related minor tail protein [Function unknown]; Region: COG5281 444450002778 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 444450002779 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 444450002780 Phage-related protein [Function unknown]; Region: COG4718 444450002781 Phage-related protein [Function unknown]; Region: gp18; COG4672 444450002782 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) found in proteins also containing NlpC/P60 domains; Region: MPN_NLPC_P60; cd08073 444450002783 MPN+ (JAMM) motif; other site 444450002784 Zinc-binding site [ion binding]; other site 444450002785 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 444450002786 NlpC/P60 family; Region: NLPC_P60; cl17555 444450002787 Phage-related protein, tail component [Function unknown]; Region: COG4723 444450002788 Phage-related protein, tail component [Function unknown]; Region: COG4733 444450002789 Putative phage tail protein; Region: Phage-tail_3; pfam13550 444450002790 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 444450002791 Fibronectin type III protein; Region: DUF3672; pfam12421 444450002792 Enterobacterial Ail/Lom protein; Region: Ail_Lom; pfam06316 444450002793 Prophage tail fibre N-terminal; Region: phage_tail_N; pfam08400 444450002794 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 444450002795 Putative prophage tail fibre C-terminus; Region: Phage_fiber_C; pfam06820 444450002796 Putative prophage tail fibre C-terminus; Region: Phage_fiber_C; pfam06820 444450002797 non-LEE encoded effector protein NleB; Provisional; Region: PRK15382 444450002798 type III secretion system protein; Provisional; Region: PRK15384; cl14665 444450002799 NFkB-p65-degrading zinc protease; Region: Peptidase_M85; pfam13678 444450002800 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 444450002801 substrate binding site [chemical binding]; other site 444450002802 adenosylmethionine--8-amino-7-oxononanoate transaminase; Validated; Region: PRK07986 444450002803 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 444450002804 inhibitor-cofactor binding pocket; inhibition site 444450002805 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444450002806 catalytic residue [active] 444450002807 biotin synthase; Provisional; Region: PRK15108 444450002808 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 444450002809 FeS/SAM binding site; other site 444450002810 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 444450002811 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 444450002812 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 444450002813 substrate-cofactor binding pocket; other site 444450002814 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444450002815 catalytic residue [active] 444450002816 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 444450002817 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 444450002818 S-adenosylmethionine binding site [chemical binding]; other site 444450002819 AAA domain; Region: AAA_26; pfam13500 444450002820 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 444450002821 Dethiobiotin synthetase (DTBS) is the penultimate enzyme in the biotin biosynthesis pathway in Escherichia coli and other microorganisms. The enzyme catalyzes formation of the ureido ring of dethiobiotin from (7R,8S)-7,8-diaminononanoic acid (DAPA) and...; Region: DTBS; cd03109 444450002822 ADP binding site [chemical binding]; other site 444450002823 excinuclease ABC subunit B; Provisional; Region: PRK05298 444450002824 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 444450002825 ATP binding site [chemical binding]; other site 444450002826 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 444450002827 nucleotide binding region [chemical binding]; other site 444450002828 ATP-binding site [chemical binding]; other site 444450002829 Ultra-violet resistance protein B; Region: UvrB; pfam12344 444450002830 UvrB/uvrC motif; Region: UVR; pfam02151 444450002831 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 444450002832 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 444450002833 putative substrate binding pocket [chemical binding]; other site 444450002834 dimer interface [polypeptide binding]; other site 444450002835 phosphate binding site [ion binding]; other site 444450002836 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 444450002837 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 444450002838 FeS/SAM binding site; other site 444450002839 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 444450002840 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 444450002841 MPT binding site; other site 444450002842 trimer interface [polypeptide binding]; other site 444450002843 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 444450002844 trimer interface [polypeptide binding]; other site 444450002845 dimer interface [polypeptide binding]; other site 444450002846 putative active site [active] 444450002847 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 444450002848 MoaE interaction surface [polypeptide binding]; other site 444450002849 MoeB interaction surface [polypeptide binding]; other site 444450002850 thiocarboxylated glycine; other site 444450002851 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 444450002852 MoaE homodimer interface [polypeptide binding]; other site 444450002853 MoaD interaction [polypeptide binding]; other site 444450002854 active site residues [active] 444450002855 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 444450002856 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 444450002857 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 444450002858 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 444450002859 Predicted integral membrane protein [Function unknown]; Region: COG0392 444450002860 cardiolipin synthase 2; Provisional; Region: PRK11263 444450002861 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 444450002862 putative active site [active] 444450002863 catalytic site [active] 444450002864 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 444450002865 putative active site [active] 444450002866 catalytic site [active] 444450002867 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 444450002868 putative catalytic site [active] 444450002869 putative metal binding site [ion binding]; other site 444450002870 putative phosphate binding site [ion binding]; other site 444450002871 Putative inner membrane protein YbhQ; Region: YbhQ; pfam11076 444450002872 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 444450002873 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 444450002874 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 444450002875 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 444450002876 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 444450002877 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 444450002878 Walker A/P-loop; other site 444450002879 ATP binding site [chemical binding]; other site 444450002880 Q-loop/lid; other site 444450002881 ABC transporter signature motif; other site 444450002882 Walker B; other site 444450002883 D-loop; other site 444450002884 H-loop/switch region; other site 444450002885 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 444450002886 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 444450002887 Walker A/P-loop; other site 444450002888 ATP binding site [chemical binding]; other site 444450002889 Q-loop/lid; other site 444450002890 ABC transporter signature motif; other site 444450002891 Walker B; other site 444450002892 D-loop; other site 444450002893 H-loop/switch region; other site 444450002894 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 444450002895 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 444450002896 HlyD family secretion protein; Region: HlyD_3; pfam13437 444450002897 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11552 444450002898 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 444450002899 helicase 45; Provisional; Region: PTZ00424 444450002900 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 444450002901 ATP binding site [chemical binding]; other site 444450002902 Mg++ binding site [ion binding]; other site 444450002903 motif III; other site 444450002904 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 444450002905 nucleotide binding region [chemical binding]; other site 444450002906 ATP-binding site [chemical binding]; other site 444450002907 SopA-like central domain; Region: SopA; pfam13981 444450002908 SopA-like catalytic domain; Region: SopA_C; pfam13979 444450002909 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 444450002910 DEAD_2; Region: DEAD_2; pfam06733 444450002911 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 444450002912 glycosyl transferase family protein; Provisional; Region: PRK08136 444450002913 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 444450002914 putative dehydrogenase; Provisional; Region: PRK10098 444450002915 hypothetical protein; Provisional; Region: PRK10259 444450002916 hypothetical protein; Provisional; Region: PRK11019 444450002917 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 444450002918 catecholate siderophore receptor Fiu; Provisional; Region: PRK09840 444450002919 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 444450002920 N-terminal plug; other site 444450002921 ligand-binding site [chemical binding]; other site 444450002922 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 444450002923 23S rRNA mA1618 methyltransferase; Provisional; Region: PRK11727 444450002924 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 444450002925 putative mechanosensitive channel protein; Provisional; Region: PRK11465 444450002926 Mechanosensitive ion channel; Region: MS_channel; pfam00924 444450002927 glutamine ABC transporter ATP-binding protein; Reviewed; Region: glnQ; PRK09493 444450002928 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 444450002929 Walker A/P-loop; other site 444450002930 ATP binding site [chemical binding]; other site 444450002931 Q-loop/lid; other site 444450002932 ABC transporter signature motif; other site 444450002933 Walker B; other site 444450002934 D-loop; other site 444450002935 H-loop/switch region; other site 444450002936 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 444450002937 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 444450002938 dimer interface [polypeptide binding]; other site 444450002939 conserved gate region; other site 444450002940 putative PBP binding loops; other site 444450002941 ABC-ATPase subunit interface; other site 444450002942 glutamine ABC transporter periplasmic protein; Reviewed; Region: glnH; PRK09495 444450002943 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 444450002944 substrate binding pocket [chemical binding]; other site 444450002945 membrane-bound complex binding site; other site 444450002946 hinge residues; other site 444450002947 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 444450002948 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 444450002949 dimerization interface [polypeptide binding]; other site 444450002950 DPS ferroxidase diiron center [ion binding]; other site 444450002951 ion pore; other site 444450002952 threonine and homoserine efflux system; Provisional; Region: PRK10532 444450002953 EamA-like transporter family; Region: EamA; pfam00892 444450002954 outer membrane protein X; Provisional; Region: ompX; PRK09408 444450002955 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 444450002956 Sulfatase; Region: Sulfatase; pfam00884 444450002957 manganese transport regulator MntR; Provisional; Region: PRK11050 444450002958 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 444450002959 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 444450002960 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 444450002961 Putative anion permease YbiR. Based on sequence similarity, YbiR proteins are predicted to function as anion translocating permeases in eubacteria, archaea and plants. They belong to ArsB/NhaD superfamily of permeases that have been shown to translocate...; Region: YbiR_permease; cd01117 444450002962 transmembrane helices; other site 444450002963 L,D-transpeptidase; Provisional; Region: PRK10260 444450002964 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 444450002965 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 444450002966 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 444450002967 Walker A/P-loop; other site 444450002968 ATP binding site [chemical binding]; other site 444450002969 Q-loop/lid; other site 444450002970 ABC transporter signature motif; other site 444450002971 Walker B; other site 444450002972 D-loop; other site 444450002973 H-loop/switch region; other site 444450002974 ABC transporter; Region: ABC_tran_2; pfam12848 444450002975 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 444450002976 Protein of unknown function (DUF1479); Region: DUF1479; pfam07350 444450002977 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 444450002978 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 444450002979 active site 444450002980 motif I; other site 444450002981 motif II; other site 444450002982 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 444450002983 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 444450002984 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 444450002985 active site 444450002986 intersubunit interactions; other site 444450002987 catalytic residue [active] 444450002988 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 444450002989 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 444450002990 ATP binding site [chemical binding]; other site 444450002991 substrate interface [chemical binding]; other site 444450002992 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 444450002993 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 444450002994 dimer interface [polypeptide binding]; other site 444450002995 putative functional site; other site 444450002996 putative MPT binding site; other site 444450002997 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 444450002998 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 444450002999 Walker A/P-loop; other site 444450003000 ATP binding site [chemical binding]; other site 444450003001 Q-loop/lid; other site 444450003002 ABC transporter signature motif; other site 444450003003 Walker B; other site 444450003004 D-loop; other site 444450003005 H-loop/switch region; other site 444450003006 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 444450003007 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 444450003008 Walker A/P-loop; other site 444450003009 ATP binding site [chemical binding]; other site 444450003010 Q-loop/lid; other site 444450003011 ABC transporter signature motif; other site 444450003012 Walker B; other site 444450003013 D-loop; other site 444450003014 H-loop/switch region; other site 444450003015 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 444450003016 glutathione ABC transporter substrate-binding protein GsiB; Provisional; Region: PRK15413 444450003017 The substrate-binding component of an uncharacterized ABC-type peptide import system Ylib contains the type 2 periplasmic binding fold; Region: PBP2_Ylib_like; cd08499 444450003018 glutathione ABC transporter permease GsiC; Provisional; Region: PRK15081 444450003019 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 444450003020 dimer interface [polypeptide binding]; other site 444450003021 conserved gate region; other site 444450003022 putative PBP binding loops; other site 444450003023 ABC-ATPase subunit interface; other site 444450003024 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 444450003025 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 444450003026 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 444450003027 dimer interface [polypeptide binding]; other site 444450003028 conserved gate region; other site 444450003029 putative PBP binding loops; other site 444450003030 ABC-ATPase subunit interface; other site 444450003031 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 444450003032 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 444450003033 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 444450003034 metal binding site [ion binding]; metal-binding site 444450003035 active site 444450003036 I-site; other site 444450003037 Predicted transcriptional regulator [Transcription]; Region: COG2944 444450003038 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 444450003039 non-specific DNA binding site [nucleotide binding]; other site 444450003040 salt bridge; other site 444450003041 sequence-specific DNA binding site [nucleotide binding]; other site 444450003042 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4737 444450003043 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 444450003044 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 444450003045 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 444450003046 FeS/SAM binding site; other site 444450003047 biofilm formation regulatory protein BssR; Reviewed; Region: bssR; PRK12302 444450003048 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 444450003049 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 444450003050 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 444450003051 GST_N family, unknown subfamily 2; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_2; cd03047 444450003052 putative C-terminal domain interface [polypeptide binding]; other site 444450003053 putative GSH binding site (G-site) [chemical binding]; other site 444450003054 putative dimer interface [polypeptide binding]; other site 444450003055 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 444450003056 N-terminal domain interface [polypeptide binding]; other site 444450003057 dimer interface [polypeptide binding]; other site 444450003058 substrate binding pocket (H-site) [chemical binding]; other site 444450003059 D-alanyl-D-alanine carboxypeptidase fraction C; Provisional; Region: PRK10001 444450003060 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 444450003061 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 444450003062 DNA-binding transcriptional repressor DeoR; Provisional; Region: PRK10681 444450003063 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 444450003064 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 444450003065 PAP2_like proteins, BcrC_like subfamily. Several members of this family have been annotated as bacitracin transport permeases, as it was suspected that they form the permease component of an ABC transporter system. It was shown, however, that BcrC from...; Region: PAP2_BcrC_like; cd03385 444450003066 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 444450003067 active site 444450003068 multidrug efflux system translocase MdfA; Provisional; Region: PRK15402 444450003069 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 444450003070 putative substrate translocation pore; other site 444450003071 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 444450003072 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 444450003073 active site 444450003074 motif I; other site 444450003075 motif II; other site 444450003076 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 444450003077 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 444450003078 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 444450003079 putative substrate translocation pore; other site 444450003080 Major Facilitator Superfamily; Region: MFS_1; pfam07690 444450003081 transcriptional repressor BetI; Region: betaine_BetI; TIGR03384 444450003082 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 444450003083 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 444450003084 putative transporter; Provisional; Region: PRK04972 444450003085 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 444450003086 TrkA-C domain; Region: TrkA_C; pfam02080 444450003087 TrkA-C domain; Region: TrkA_C; pfam02080 444450003088 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 444450003089 Putative inner membrane protein of Enterobacteriaceae; Region: YbjM; pfam11045 444450003090 Glutaredoxin (GRX) family; composed of GRX, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins such as ribonucleotide...; Region: GRX_family; cd02066 444450003091 GSH binding site [chemical binding]; other site 444450003092 catalytic residues [active] 444450003093 Protein of unknown function (DUF1418); Region: DUF1418; pfam07214 444450003094 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 444450003095 dimer interface [polypeptide binding]; other site 444450003096 FMN binding site [chemical binding]; other site 444450003097 NADPH bind site [chemical binding]; other site 444450003098 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 444450003099 RimK-like ATP-grasp domain; Region: RimK; pfam08443 444450003100 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 444450003101 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 444450003102 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 444450003103 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 444450003104 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 444450003105 Walker A/P-loop; other site 444450003106 ATP binding site [chemical binding]; other site 444450003107 Q-loop/lid; other site 444450003108 ABC transporter signature motif; other site 444450003109 Walker B; other site 444450003110 D-loop; other site 444450003111 H-loop/switch region; other site 444450003112 TOBE domain; Region: TOBE_2; pfam08402 444450003113 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 444450003114 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 444450003115 dimer interface [polypeptide binding]; other site 444450003116 conserved gate region; other site 444450003117 putative PBP binding loops; other site 444450003118 ABC-ATPase subunit interface; other site 444450003119 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 444450003120 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 444450003121 dimer interface [polypeptide binding]; other site 444450003122 conserved gate region; other site 444450003123 putative PBP binding loops; other site 444450003124 ABC-ATPase subunit interface; other site 444450003125 Protein of unknown function (DUF2593); Region: DUF2593; pfam10767 444450003126 23S rRNA (uracil-5-)-methyltransferase RumB; Region: meth_trns_rumB; TIGR02085 444450003127 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 444450003128 S-adenosylmethionine binding site [chemical binding]; other site 444450003129 Uncharacterized protein conserved in bacteria [Function unknown]; Region: SgaT; COG3037 444450003130 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 444450003131 Sulfatase; Region: Sulfatase; cl17466 444450003132 putative ABC transporter arginine-biding protein; Provisional; Region: PRK15007 444450003133 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 444450003134 substrate binding pocket [chemical binding]; other site 444450003135 membrane-bound complex binding site; other site 444450003136 hinge residues; other site 444450003137 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 444450003138 dimer interface [polypeptide binding]; other site 444450003139 conserved gate region; other site 444450003140 putative PBP binding loops; other site 444450003141 ABC-ATPase subunit interface; other site 444450003142 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 444450003143 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 444450003144 dimer interface [polypeptide binding]; other site 444450003145 conserved gate region; other site 444450003146 putative PBP binding loops; other site 444450003147 ABC-ATPase subunit interface; other site 444450003148 putative ABC transporter arginine-biding protein; Provisional; Region: PRK15007 444450003149 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 444450003150 substrate binding pocket [chemical binding]; other site 444450003151 membrane-bound complex binding site; other site 444450003152 hinge residues; other site 444450003153 arginine transporter ATP-binding subunit; Provisional; Region: artP; PRK11124 444450003154 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 444450003155 Walker A/P-loop; other site 444450003156 ATP binding site [chemical binding]; other site 444450003157 Q-loop/lid; other site 444450003158 ABC transporter signature motif; other site 444450003159 Walker B; other site 444450003160 D-loop; other site 444450003161 H-loop/switch region; other site 444450003162 putative lipoprotein; Provisional; Region: PRK10533 444450003163 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 444450003164 hypothetical protein; Provisional; Region: PRK02877 444450003165 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 444450003166 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 444450003167 amidase catalytic site [active] 444450003168 Zn binding residues [ion binding]; other site 444450003169 substrate binding site [chemical binding]; other site 444450003170 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 444450003171 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444450003172 NAD(P) binding site [chemical binding]; other site 444450003173 active site 444450003174 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 444450003175 atypical (a) SDRs, subgroup 2; Region: SDR_a2; cd05245 444450003176 putative NAD(P) binding site [chemical binding]; other site 444450003177 putative active site [active] 444450003178 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 444450003179 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 444450003180 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 444450003181 tetramer interface [polypeptide binding]; other site 444450003182 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444450003183 catalytic residue [active] 444450003184 pyruvate dehydrogenase; Provisional; Region: PRK09124 444450003185 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 444450003186 PYR/PP interface [polypeptide binding]; other site 444450003187 dimer interface [polypeptide binding]; other site 444450003188 tetramer interface [polypeptide binding]; other site 444450003189 TPP binding site [chemical binding]; other site 444450003190 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 444450003191 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 444450003192 TPP-binding site [chemical binding]; other site 444450003193 HCP oxidoreductase, NADH-dependent; Provisional; Region: PRK10684 444450003194 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_1; cd06215 444450003195 FAD binding pocket [chemical binding]; other site 444450003196 FAD binding motif [chemical binding]; other site 444450003197 phosphate binding motif [ion binding]; other site 444450003198 beta-alpha-beta structure motif; other site 444450003199 NAD binding pocket [chemical binding]; other site 444450003200 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 444450003201 catalytic loop [active] 444450003202 iron binding site [ion binding]; other site 444450003203 hybrid cluster protein; Provisional; Region: PRK05290 444450003204 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 444450003205 ACS interaction site; other site 444450003206 CODH interaction site; other site 444450003207 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 444450003208 hybrid metal cluster; other site 444450003209 Predicted membrane protein [Function unknown]; Region: COG2431 444450003210 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 444450003211 amphipathic channel; other site 444450003212 Asn-Pro-Ala signature motifs; other site 444450003213 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 444450003214 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 444450003215 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 444450003216 putative active site [active] 444450003217 putative metal-binding site [ion binding]; other site 444450003218 Protein of unknown function (DUF535); Region: DUF535; pfam04393 444450003219 macrolide transporter subunit MacA; Provisional; Region: PRK11578 444450003220 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 444450003221 HlyD family secretion protein; Region: HlyD_3; pfam13437 444450003222 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 444450003223 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 444450003224 Walker A/P-loop; other site 444450003225 ATP binding site [chemical binding]; other site 444450003226 Q-loop/lid; other site 444450003227 ABC transporter signature motif; other site 444450003228 Walker B; other site 444450003229 D-loop; other site 444450003230 H-loop/switch region; other site 444450003231 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 444450003232 FtsX-like permease family; Region: FtsX; pfam02687 444450003233 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 444450003234 DNA-binding site [nucleotide binding]; DNA binding site 444450003235 RNA-binding motif; other site 444450003236 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 444450003237 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 444450003238 Clp amino terminal domain; Region: Clp_N; pfam02861 444450003239 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 444450003240 Walker A motif; other site 444450003241 ATP binding site [chemical binding]; other site 444450003242 Walker B motif; other site 444450003243 arginine finger; other site 444450003244 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 444450003245 Walker A motif; other site 444450003246 ATP binding site [chemical binding]; other site 444450003247 Walker B motif; other site 444450003248 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 444450003249 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 444450003250 rRNA binding site [nucleotide binding]; other site 444450003251 predicted 30S ribosome binding site; other site 444450003252 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 444450003253 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 444450003254 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 444450003255 ATP-binding cassette domain of CydCD, subfamily C; Region: ABCC_cytochrome_bd; cd03247 444450003256 Walker A/P-loop; other site 444450003257 ATP binding site [chemical binding]; other site 444450003258 Q-loop/lid; other site 444450003259 ABC transporter signature motif; other site 444450003260 Walker B; other site 444450003261 D-loop; other site 444450003262 H-loop/switch region; other site 444450003263 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 444450003264 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 444450003265 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 444450003266 Walker A/P-loop; other site 444450003267 ATP binding site [chemical binding]; other site 444450003268 Q-loop/lid; other site 444450003269 ABC transporter signature motif; other site 444450003270 Walker B; other site 444450003271 D-loop; other site 444450003272 H-loop/switch region; other site 444450003273 thioredoxin reductase; Provisional; Region: PRK10262 444450003274 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 444450003275 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 444450003276 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 444450003277 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 444450003278 putative DNA binding site [nucleotide binding]; other site 444450003279 putative Zn2+ binding site [ion binding]; other site 444450003280 AsnC family; Region: AsnC_trans_reg; pfam01037 444450003281 DNA translocase FtsK; Provisional; Region: PRK10263 444450003282 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 444450003283 DNA translocase FtsK; Provisional; Region: PRK10263 444450003284 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 444450003285 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 444450003286 periplasmic chaperone LolA; Region: lolA; TIGR00547 444450003287 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 444450003288 recombination factor protein RarA; Reviewed; Region: PRK13342 444450003289 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 444450003290 Walker A motif; other site 444450003291 ATP binding site [chemical binding]; other site 444450003292 Walker B motif; other site 444450003293 arginine finger; other site 444450003294 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 444450003295 seryl-tRNA synthetase; Provisional; Region: PRK05431 444450003296 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 444450003297 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 444450003298 dimer interface [polypeptide binding]; other site 444450003299 active site 444450003300 motif 1; other site 444450003301 motif 2; other site 444450003302 motif 3; other site 444450003303 anaerobic dimethyl sulfoxide reductase subunit A; Provisional; Region: PRK14990 444450003304 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 444450003305 This CD (MopB_DmsA-EC) includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_DmsA-EC; cd02770 444450003306 putative [Fe4-S4] binding site [ion binding]; other site 444450003307 putative molybdopterin cofactor binding site [chemical binding]; other site 444450003308 The MopB_CT_DmsA-EC CD includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_CT_DmsA-EC; cd02794 444450003309 putative molybdopterin cofactor binding site; other site 444450003310 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 444450003311 4Fe-4S binding domain; Region: Fer4; pfam00037 444450003312 DMSO reductase anchor subunit (DmsC); Region: DmsC; pfam04976 444450003313 Isochorismatase family; Region: Isochorismatase; pfam00857 444450003314 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 444450003315 catalytic triad [active] 444450003316 dimer interface [polypeptide binding]; other site 444450003317 conserved cis-peptide bond; other site 444450003318 putative MFS family transporter protein; Provisional; Region: PRK03633 444450003319 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 444450003320 putative substrate translocation pore; other site 444450003321 Amino acid permease; Region: AA_permease_2; pfam13520 444450003322 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 444450003323 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 444450003324 FeS/SAM binding site; other site 444450003325 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 444450003326 Pyruvate formate lyase 1; Region: PFL1; cd01678 444450003327 coenzyme A binding site [chemical binding]; other site 444450003328 active site 444450003329 catalytic residues [active] 444450003330 glycine loop; other site 444450003331 formate transporter; Provisional; Region: PRK10805 444450003332 uncharacterized domain; Region: TIGR00702 444450003333 YcaO-like family; Region: YcaO; pfam02624 444450003334 Predicted membrane protein [Function unknown]; Region: COG2323 444450003335 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 444450003336 homodimer interface [polypeptide binding]; other site 444450003337 substrate-cofactor binding pocket; other site 444450003338 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444450003339 catalytic residue [active] 444450003340 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 444450003341 Enol pyruvate transferases family includes EPSP synthases and UDP-N-acetylglucosamine enolpyruvyl transferase. Both enzymes catalyze the reaction of enolpyruvyl transfer; Region: EPT-like; cd01554 444450003342 hinge; other site 444450003343 active site 444450003344 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 444450003345 cytidylate kinase; Provisional; Region: cmk; PRK00023 444450003346 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 444450003347 CMP-binding site; other site 444450003348 The sites determining sugar specificity; other site 444450003349 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 444450003350 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 444450003351 RNA binding site [nucleotide binding]; other site 444450003352 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 444450003353 RNA binding site [nucleotide binding]; other site 444450003354 S1_RPS1_repeat_ec4: 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_ec4; cd05689 444450003355 RNA binding site [nucleotide binding]; other site 444450003356 S1_RPS1_repeat_ec5: 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_ec5; cd05690 444450003357 RNA binding site [nucleotide binding]; other site 444450003358 S1_RPS1_repeat_ec6: 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_ec6; cd05691 444450003359 RNA binding site [nucleotide binding]; other site 444450003360 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 444450003361 IHF dimer interface [polypeptide binding]; other site 444450003362 IHF - DNA interface [nucleotide binding]; other site 444450003363 ComEC family competence protein; Provisional; Region: PRK11539 444450003364 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 444450003365 ComEC/Rec2-related protein; Region: ComEC_N-term; TIGR00360 444450003366 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 444450003367 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 444450003368 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 444450003369 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 444450003370 Walker A/P-loop; other site 444450003371 ATP binding site [chemical binding]; other site 444450003372 Q-loop/lid; other site 444450003373 ABC transporter signature motif; other site 444450003374 Walker B; other site 444450003375 D-loop; other site 444450003376 H-loop/switch region; other site 444450003377 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 444450003378 tetraacyldisaccharide 4'-kinase; Region: lpxK; TIGR00682 444450003379 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 444450003380 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 444450003381 hypothetical protein; Provisional; Region: PRK11827 444450003382 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 444450003383 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 444450003384 Ligand binding site; other site 444450003385 oligomer interface; other site 444450003386 hypothetical protein; Provisional; Region: PRK10593 444450003387 Uncharacterized conserved protein [Function unknown]; Region: COG1434 444450003388 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 444450003389 putative active site [active] 444450003390 Methyltransferase domain; Region: Methyltransf_31; pfam13847 444450003391 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 444450003392 S-adenosylmethionine binding site [chemical binding]; other site 444450003393 condesin subunit F; Provisional; Region: PRK05260 444450003394 condesin subunit E; Provisional; Region: PRK05256 444450003395 Uncharacterized protein involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: MukB; COG3096 444450003396 MukB N-terminal; Region: MukB; pfam04310 444450003397 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 444450003398 murein L,D-transpeptidase; Provisional; Region: PRK10594 444450003399 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 444450003400 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 444450003401 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 444450003402 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 444450003403 Peptidase M15; Region: Peptidase_M15_3; cl01194 444450003404 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 444450003405 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 444450003406 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 444450003407 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444450003408 homodimer interface [polypeptide binding]; other site 444450003409 catalytic residue [active] 444450003410 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 444450003411 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 444450003412 trimer interface [polypeptide binding]; other site 444450003413 eyelet of channel; other site 444450003414 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 444450003415 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 444450003416 putative dimer interface [polypeptide binding]; other site 444450003417 putative anticodon binding site; other site 444450003418 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 444450003419 homodimer interface [polypeptide binding]; other site 444450003420 motif 1; other site 444450003421 motif 2; other site 444450003422 active site 444450003423 motif 3; other site 444450003424 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 444450003425 Nicotinate phosphoribosyltransferase (NAPRTase), related to PncB. 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; Region: PncB_like; cd01401 444450003426 active site 444450003427 aminopeptidase N; Provisional; Region: pepN; PRK14015 444450003428 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 444450003429 active site 444450003430 Zn binding site [ion binding]; other site 444450003431 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 444450003432 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 444450003433 Walker A/P-loop; other site 444450003434 ATP binding site [chemical binding]; other site 444450003435 Q-loop/lid; other site 444450003436 ABC transporter signature motif; other site 444450003437 Walker B; other site 444450003438 D-loop; other site 444450003439 H-loop/switch region; other site 444450003440 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 444450003441 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 444450003442 dimer interface [polypeptide binding]; other site 444450003443 conserved gate region; other site 444450003444 putative PBP binding loops; other site 444450003445 ABC-ATPase subunit interface; other site 444450003446 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 444450003447 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 444450003448 active site 444450003449 dimer interface [polypeptide binding]; other site 444450003450 non-prolyl cis peptide bond; other site 444450003451 insertion regions; other site 444450003452 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 444450003453 substrate binding pocket [chemical binding]; other site 444450003454 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 444450003455 membrane-bound complex binding site; other site 444450003456 hinge residues; other site 444450003457 NAD(P)H-dependent FMN reductase; Provisional; Region: PRK10569 444450003458 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 444450003459 Fimbrial protein; Region: Fimbrial; cl01416 444450003460 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 444450003461 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 444450003462 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 444450003463 Fimbrial protein; Region: Fimbrial; cl01416 444450003464 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 444450003465 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 444450003466 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 444450003467 quinone interaction residues [chemical binding]; other site 444450003468 active site 444450003469 catalytic residues [active] 444450003470 FMN binding site [chemical binding]; other site 444450003471 substrate binding site [chemical binding]; other site 444450003472 Protein of unknown function (DUF1379); Region: DUF1379; pfam07126 444450003473 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 444450003474 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 444450003475 MOSC domain; Region: MOSC; pfam03473 444450003476 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 444450003477 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 444450003478 catalytic loop [active] 444450003479 iron binding site [ion binding]; other site 444450003480 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 444450003481 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 444450003482 Putative RNA methylase family UPF0020; Region: UPF0020; pfam01170 444450003483 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 444450003484 S-adenosylmethionine binding site [chemical binding]; other site 444450003485 ABC transporter ATPase component; Reviewed; Region: PRK11147 444450003486 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 444450003487 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 444450003488 Walker A/P-loop; other site 444450003489 Walker A/P-loop; other site 444450003490 ATP binding site [chemical binding]; other site 444450003491 ATP binding site [chemical binding]; other site 444450003492 Q-loop/lid; other site 444450003493 Q-loop/lid; other site 444450003494 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 444450003495 ABC transporter signature motif; other site 444450003496 Walker B; other site 444450003497 D-loop; other site 444450003498 ABC transporter; Region: ABC_tran_2; pfam12848 444450003499 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 444450003500 paraquat-inducible membrane protein A; Provisional; Region: PRK15103 444450003501 Paraquat-inducible protein A; Region: PqiA; pfam04403 444450003502 Paraquat-inducible protein A; Region: PqiA; pfam04403 444450003503 paraquat-inducible protein B; Provisional; Region: PRK10807 444450003504 mce related protein; Region: MCE; pfam02470 444450003505 mce related protein; Region: MCE; pfam02470 444450003506 mce related protein; Region: MCE; pfam02470 444450003507 DASH complex subunit Duo1; Region: DASH_Duo1; pfam08651 444450003508 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 444450003509 Protein of unknown function (DUF330); Region: DUF330; pfam03886 444450003510 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 444450003511 active site 1 [active] 444450003512 dimer interface [polypeptide binding]; other site 444450003513 active site 2 [active] 444450003514 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 444450003515 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 444450003516 Ter macrodomain organizer matS-binding protein; Provisional; Region: PRK05097 444450003517 outer membrane protein A; Reviewed; Region: PRK10808 444450003518 OmpA-like transmembrane domain; Region: OmpA_membrane; pfam01389 444450003519 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 444450003520 ligand binding site [chemical binding]; other site 444450003521 cell division inhibitor SulA; Region: sula; TIGR00623 444450003522 Regulator of competence-specific genes [Transcription]; Region: TfoX; COG3070 444450003523 TfoX C-terminal domain; Region: TfoX_C; pfam04994 444450003524 TIGR01666 family membrane protein; Region: YCCS 444450003525 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 444450003526 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 444450003527 Predicted membrane protein [Function unknown]; Region: COG3304 444450003528 Domain of unknown function (DUF307); Region: DUF307; pfam03733 444450003529 Domain of unknown function (DUF307); Region: DUF307; pfam03733 444450003530 DNA helicase IV; Provisional; Region: helD; PRK11054 444450003531 DNA helicase IV / RNA helicase N terminal; Region: Nucleolin_N; pfam12462 444450003532 Part of AAA domain; Region: AAA_19; pfam13245 444450003533 Family description; Region: UvrD_C_2; pfam13538 444450003534 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 444450003535 active site 444450003536 dimer interfaces [polypeptide binding]; other site 444450003537 catalytic residues [active] 444450003538 hypothetical protein; Provisional; Region: PRK03641 444450003539 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3110 444450003540 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 444450003541 heat shock protein HspQ; Provisional; Region: PRK14129 444450003542 23S rRNA m(5)C1962 methyltransferase; Provisional; Region: PRK15128 444450003543 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 444450003544 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 444450003545 putative RNA binding site [nucleotide binding]; other site 444450003546 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 444450003547 S-adenosylmethionine binding site [chemical binding]; other site 444450003548 Acylphosphatase; Region: Acylphosphatase; cl00551 444450003549 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 444450003550 sulfur transfer protein TusE; Provisional; Region: PRK11508 444450003551 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 444450003552 YccA-like proteins; Region: YccA_like; cd10433 444450003553 Domain of unknown function (DUF4224); Region: DUF4224; pfam13986 444450003554 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 444450003555 active site 444450003556 substrate binding site [chemical binding]; other site 444450003557 catalytic site [active] 444450003558 Protein of unknown function (DUF1482); Region: DUF1482; pfam07358 444450003559 DicB protein; Region: DicB; pfam05358 444450003560 transcriptional repressor DicA; Reviewed; Region: PRK09706 444450003561 Protein of unknown function (DUF1019); Region: DUF1019; pfam06254 444450003562 primosomal protein DnaI; Provisional; Region: PRK02854 444450003563 putative replication protein; Provisional; Region: PRK12377 444450003564 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 444450003565 Walker A motif; other site 444450003566 ATP binding site [chemical binding]; other site 444450003567 Walker B motif; other site 444450003568 arginine finger; other site 444450003569 Protein of unknown function (DUF1627); Region: DUF1627; pfam07789 444450003570 Bacterial protein of unknown function (DUF977); Region: DUF977; pfam06163 444450003571 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 444450003572 Protein of unknown function (DUF968); Region: DUF968; pfam06147 444450003573 Holliday junction resolvase [DNA replication, recombination, and repair]; Region: Rus; COG4570 444450003574 Phage antitermination protein Q; Region: Phage_antitermQ; pfam06530 444450003575 CAAX protease self-immunity; Region: Abi; pfam02517 444450003576 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 444450003577 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 444450003578 Domain of unknown function (DUF1737); Region: DUF1737; pfam08410 444450003579 Domain of unknown function (DUF303); Region: DUF303; pfam03629 444450003580 Transposase; Region: HTH_Tnp_1; cl17663 444450003581 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 444450003582 putative transposase OrfB; Reviewed; Region: PHA02517 444450003583 HTH-like domain; Region: HTH_21; pfam13276 444450003584 Integrase core domain; Region: rve; pfam00665 444450003585 Integrase core domain; Region: rve_3; pfam13683 444450003586 Bacteriophage lysis protein; Region: Phage_lysis; pfam03245 444450003587 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 444450003588 catalytic residues [active] 444450003589 Lysis protein S; Region: Lysis_S; pfam04971 444450003590 Transposase; Region: HTH_Tnp_1; cl17663 444450003591 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 444450003592 putative transposase OrfB; Reviewed; Region: PHA02517 444450003593 HTH-like domain; Region: HTH_21; pfam13276 444450003594 Integrase core domain; Region: rve; pfam00665 444450003595 Integrase core domain; Region: rve_3; pfam13683 444450003596 Phage DNA packaging protein, Nu1 subunit of terminase [DNA replication, recombination, and repair]; Region: COG4220 444450003597 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 444450003598 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 444450003599 Dimerization/Docking domain of Cyclic GMP-dependent Protein Kinase I; Region: DD_cGKI; cl17044 444450003600 homodimer interface [polypeptide binding]; other site 444450003601 putative GKAP docking site [polypeptide binding]; other site 444450003602 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 444450003603 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 444450003604 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 444450003605 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 444450003606 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 444450003607 Phage DNA packaging protein, Nu1 subunit of terminase [DNA replication, recombination, and repair]; Region: COG4220 444450003608 gpW; Region: gpW; pfam02831 444450003609 Bacteriophage capsid protein [General function prediction only]; Region: COG5511 444450003610 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 444450003611 Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_36K_type; cd07022 444450003612 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 444450003613 tandem repeat interface [polypeptide binding]; other site 444450003614 oligomer interface [polypeptide binding]; other site 444450003615 active site residues [active] 444450003616 Bacteriophage lambda head decoration protein D; Region: HDPD; pfam02924 444450003617 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 444450003618 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 444450003619 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 444450003620 Bacteriophage lambda minor tail protein (GpG); Region: Phage_lambd_GpG; pfam06894 444450003621 Minor tail protein T; Region: Phage_tail_T; cl05636 444450003622 Phage-related minor tail protein [Function unknown]; Region: COG5281 444450003623 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 444450003624 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 444450003625 Phage-related protein [Function unknown]; Region: COG4718 444450003626 Phage-related protein [Function unknown]; Region: gp18; COG4672 444450003627 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) found in proteins also containing NlpC/P60 domains; Region: MPN_NLPC_P60; cd08073 444450003628 MPN+ (JAMM) motif; other site 444450003629 Zinc-binding site [ion binding]; other site 444450003630 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 444450003631 NlpC/P60 family; Region: NLPC_P60; cl17555 444450003632 Phage-related protein, tail component [Function unknown]; Region: COG4723 444450003633 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 444450003634 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 444450003635 E-class dimer interface [polypeptide binding]; other site 444450003636 P-class dimer interface [polypeptide binding]; other site 444450003637 active site 444450003638 Cu2+ binding site [ion binding]; other site 444450003639 Zn2+ binding site [ion binding]; other site 444450003640 Phage-related protein, tail component [Function unknown]; Region: COG4733 444450003641 Putative phage tail protein; Region: Phage-tail_3; pfam13550 444450003642 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 444450003643 Interdomain contacts; other site 444450003644 Cytokine receptor motif; other site 444450003645 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 444450003646 Fibronectin type III protein; Region: DUF3672; pfam12421 444450003647 Enterobacterial Ail/Lom protein; Region: Ail_Lom; pfam06316 444450003648 Prophage tail fibre N-terminal; Region: phage_tail_N; pfam08400 444450003649 Putative prophage tail fibre C-terminus; Region: Phage_fiber_C; pfam06820 444450003650 Putative prophage tail fibre C-terminus; Region: Phage_fiber_C; pfam06820 444450003651 hydrogenase (NiFe) small subunit (hydA); Region: hydA; TIGR00391 444450003652 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 444450003653 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 444450003654 hydrogenase 1 large subunit; Provisional; Region: PRK10170 444450003655 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 444450003656 hydrogenase 1 b-type cytochrome subunit; Provisional; Region: PRK10171 444450003657 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 444450003658 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 444450003659 putative substrate-binding site; other site 444450003660 nickel binding site [ion binding]; other site 444450003661 HyaE family; HyaE is also called HupG and HoxO. They are proteins serving a critical role in the assembly of multimeric [NiFe] hydrogenases, the enzymes that catalyze the oxidation of molecular hydrogen to enable microorganisms to utilize hydrogen as the...; Region: HyaE; cd02965 444450003662 HupH hydrogenase expression protein, C-terminal conserved region; Region: HupH_C; pfam04809 444450003663 cytochrome bd-II oxidase subunit 1; Provisional; Region: PRK15035 444450003664 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 444450003665 cytochrome bd-II oxidase subunit 2; Provisional; Region: PRK15028 444450003666 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 444450003667 glucose-1-phosphatase/inositol phosphatase; Provisional; Region: PRK10173 444450003668 Histidine phosphatase domain found in histidine acid phosphatases and phytases; contains a His residue which is phosphorylated during the reaction; Region: HP_HAP_like; cd07061 444450003669 catalytic core [active] 444450003670 Histidine phosphatase domain found in histidine acid phosphatases and phytases; contains a His residue which is phosphorylated during the reaction; Region: HP_HAP_like; cd07061 444450003671 cryptic autophosphorylating protein tyrosine kinase Etk; Provisional; Region: PRK09841 444450003672 Chain length determinant protein; Region: Wzz; pfam02706 444450003673 Chain length determinant protein; Region: Wzz; cl15801 444450003674 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 444450003675 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 444450003676 Nucleotide binding site [chemical binding]; other site 444450003677 Low molecular weight phosphatase family; Region: LMWPc; cd00115 444450003678 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 444450003679 active site 444450003680 polysaccharide export protein Wza; Provisional; Region: PRK15078 444450003681 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 444450003682 SLBB domain; Region: SLBB; pfam10531 444450003683 SLBB domain; Region: SLBB; pfam10531 444450003684 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 444450003685 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 444450003686 Protein of unknown function (DUF2886); Region: DUF2886; pfam11102 444450003687 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 444450003688 DNA-binding site [nucleotide binding]; DNA binding site 444450003689 RNA-binding motif; other site 444450003690 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 444450003691 DNA-binding site [nucleotide binding]; DNA binding site 444450003692 RNA-binding motif; other site 444450003693 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 444450003694 4Fe-4S binding domain; Region: Fer4_5; pfam12801 444450003695 4Fe-4S binding domain; Region: Fer4_5; pfam12801 444450003696 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 444450003697 hybrid sensory histidine kinase TorS; Provisional; Region: PRK11466 444450003698 HAMP domain; Region: HAMP; pfam00672 444450003699 dimerization interface [polypeptide binding]; other site 444450003700 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 444450003701 dimer interface [polypeptide binding]; other site 444450003702 phosphorylation site [posttranslational modification] 444450003703 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 444450003704 ATP binding site [chemical binding]; other site 444450003705 Mg2+ binding site [ion binding]; other site 444450003706 G-X-G motif; other site 444450003707 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 444450003708 active site 444450003709 phosphorylation site [posttranslational modification] 444450003710 intermolecular recognition site; other site 444450003711 dimerization interface [polypeptide binding]; other site 444450003712 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 444450003713 putative binding surface; other site 444450003714 active site 444450003715 TMAO reductase system periplasmic protein TorT; Provisional; Region: PRK10936 444450003716 TorT-like proteins, a periplasmic binding protein family that activates induction of the Tor respiratory system upon trimethylamine N-oxide (TMAO) electron-acceptor binding in bacteria; Region: PBP1_TorT-like; cd06306 444450003717 putative ligand binding site [chemical binding]; other site 444450003718 DNA-binding transcriptional regulator TorR; Provisional; Region: PRK10766 444450003719 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 444450003720 active site 444450003721 phosphorylation site [posttranslational modification] 444450003722 intermolecular recognition site; other site 444450003723 dimerization interface [polypeptide binding]; other site 444450003724 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 444450003725 DNA binding site [nucleotide binding] 444450003726 trimethylamine N-oxide reductase cytochrome c-type subunit; Provisional; Region: PRK15032 444450003727 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 444450003728 trimethylamine N-oxide reductase I catalytic subunit; Provisional; Region: PRK15102 444450003729 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 444450003730 molybdopterin cofactor binding site [chemical binding]; other site 444450003731 substrate binding site [chemical binding]; other site 444450003732 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 444450003733 molybdopterin cofactor binding site; other site 444450003734 chaperone protein TorD; Validated; Region: torD; PRK04976 444450003735 chaperone-modulator protein CbpM; Provisional; Region: PRK10265 444450003736 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 444450003737 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 444450003738 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 444450003739 HSP70 interaction site [polypeptide binding]; other site 444450003740 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 444450003741 substrate binding site [polypeptide binding]; other site 444450003742 dimer interface [polypeptide binding]; other site 444450003743 glucose-1-phosphatase/inositol phosphatase; Provisional; Region: PRK10173 444450003744 Histidine phosphatase domain found in histidine acid phosphatases and phytases; contains a His residue which is phosphorylated during the reaction; Region: HP_HAP_like; cd07061 444450003745 catalytic core [active] 444450003746 Histidine phosphatase domain found in histidine acid phosphatases and phytases; contains a His residue which is phosphorylated during the reaction; Region: HP_HAP_like; cd07061 444450003747 hypothetical protein; Provisional; Region: PRK10174 444450003748 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 444450003749 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 444450003750 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 444450003751 pyrimidine utilization flavin reductase protein F; Region: RutF; TIGR03615 444450003752 Nitroreductase-like family 5. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_5; cd02148 444450003753 putative FMN binding site [chemical binding]; other site 444450003754 pyrimidine utilization protein D; Region: RutD; TIGR03611 444450003755 Isochorismatase family; Region: Isochorismatase; pfam00857 444450003756 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 444450003757 catalytic triad [active] 444450003758 conserved cis-peptide bond; other site 444450003759 pyrimidine utilization protein A; Region: RutA; TIGR03612 444450003760 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 444450003761 active site 444450003762 dimer interface [polypeptide binding]; other site 444450003763 non-prolyl cis peptide bond; other site 444450003764 insertion regions; other site 444450003765 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 444450003766 HTH-type transcriptional regulator RutR; Provisional; Region: PRK15008 444450003767 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 444450003768 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 444450003769 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 444450003770 Predicted transcriptional regulator [Transcription]; Region: COG3905 444450003771 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 444450003772 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 444450003773 Glutamate binding site [chemical binding]; other site 444450003774 NAD binding site [chemical binding]; other site 444450003775 catalytic residues [active] 444450003776 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 444450003777 Na binding site [ion binding]; other site 444450003778 FTR1 family protein; Region: TIGR00145 444450003779 inactive ferrous ion transporter periplasmic protein EfeO; Provisional; Region: PRK10378 444450003780 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 444450003781 Imelysin; Region: Peptidase_M75; pfam09375 444450003782 Tat-translocated enzyme; Region: tat_substr_1; TIGR01412 444450003783 Predicted iron-dependent peroxidase [Inorganic ion transport and metabolism]; Region: COG2837 444450003784 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 444450003785 hypothetical protein; Provisional; Region: PRK10536 444450003786 putative PGA biosynthesis protein; Provisional; Region: pgaD; PRK14585 444450003787 N-glycosyltransferase; Provisional; Region: PRK11204 444450003788 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 444450003789 DXD motif; other site 444450003790 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 444450003791 outer membrane N-deacetylase; Provisional; Region: pgaB; PRK14582 444450003792 N-terminal putative catalytic polysaccharide deacetylase domain of bacterial poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB, and similar proteins; Region: CE4_PgaB_5s; cd10964 444450003793 putative active site [active] 444450003794 putative metal binding site [ion binding]; other site 444450003795 outer membrane protein PgaA; Provisional; Region: pgaA; PRK10049 444450003796 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 444450003797 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 444450003798 metal binding site [ion binding]; metal-binding site 444450003799 active site 444450003800 I-site; other site 444450003801 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 444450003802 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 444450003803 DNA-binding winged-HTH domains [Transcription]; Region: CadC; COG3710 444450003804 DNA binding site [nucleotide binding] 444450003805 2-deoxy-D-gluconate 3-dehydrogenase; Provisional; Region: PRK06935 444450003806 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 444450003807 NADP binding site [chemical binding]; other site 444450003808 homodimer interface [polypeptide binding]; other site 444450003809 active site 444450003810 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 444450003811 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 444450003812 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 444450003813 Fimbrial protein; Region: Fimbrial; cl01416 444450003814 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 444450003815 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 444450003816 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 444450003817 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 444450003818 haemagglutination activity domain; Region: Haemagg_act; pfam05860 444450003819 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 444450003820 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 444450003821 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 444450003822 Phosphopantetheinyl transferase (holo-ACP synthase) [Lipid metabolism]; Region: AcpS; COG0736 444450003823 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 444450003824 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444450003825 NAD(P) binding site [chemical binding]; other site 444450003826 active site 444450003827 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 444450003828 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 444450003829 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 444450003830 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 444450003831 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 444450003832 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 444450003833 dimer interface [polypeptide binding]; other site 444450003834 active site 444450003835 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 444450003836 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 444450003837 active site 444450003838 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 444450003839 "elongating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type I and II and polyketide synthases.They are characterized by the utlization of acyl carrier protein (ACP)...; Region: elong_cond_enzymes; cd00828 444450003840 active site 444450003841 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 444450003842 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 444450003843 Walker A/P-loop; other site 444450003844 ATP binding site [chemical binding]; other site 444450003845 Q-loop/lid; other site 444450003846 ABC transporter signature motif; other site 444450003847 Walker B; other site 444450003848 D-loop; other site 444450003849 H-loop/switch region; other site 444450003850 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 444450003851 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 444450003852 FtsX-like permease family; Region: FtsX; pfam02687 444450003853 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 444450003854 integrase; Provisional; Region: PRK09692 444450003855 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 444450003856 active site 444450003857 Int/Topo IB signature motif; other site 444450003858 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 444450003859 putative transposase OrfB; Reviewed; Region: PHA02517 444450003860 HTH-like domain; Region: HTH_21; pfam13276 444450003861 Integrase core domain; Region: rve; pfam00665 444450003862 Integrase core domain; Region: rve_3; pfam13683 444450003863 Transposase; Region: HTH_Tnp_1; cl17663 444450003864 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 444450003865 Protein of unknown function (DUF3296); Region: DUF3296; pfam11726 444450003866 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 444450003867 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4951 444450003868 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 444450003869 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 444450003870 ATP binding site [chemical binding]; other site 444450003871 putative Mg++ binding site [ion binding]; other site 444450003872 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 444450003873 nucleotide binding region [chemical binding]; other site 444450003874 ATP-binding site [chemical binding]; other site 444450003875 Dimerization/Docking domain of Cyclic GMP-dependent Protein Kinase I; Region: DD_cGKI; cl17044 444450003876 homodimer interface [polypeptide binding]; other site 444450003877 putative GKAP docking site [polypeptide binding]; other site 444450003878 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 444450003879 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 444450003880 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 444450003881 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 444450003882 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 444450003883 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 444450003884 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 444450003885 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 444450003886 DNA-binding interface [nucleotide binding]; DNA binding site 444450003887 Helix-turn-helix domain; Region: HTH_38; pfam13936 444450003888 putative transposase OrfB; Reviewed; Region: PHA02517 444450003889 Integrase core domain; Region: rve; pfam00665 444450003890 Integrase core domain; Region: rve_3; pfam13683 444450003891 Enterobacterial TraT complement resistance protein; Region: TraT; pfam05818 444450003892 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 444450003893 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 444450003894 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 444450003895 Sulfatase; Region: Sulfatase; pfam00884 444450003896 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 444450003897 alpha-gamma subunit interface [polypeptide binding]; other site 444450003898 beta-gamma subunit interface [polypeptide binding]; other site 444450003899 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 444450003900 gamma-beta subunit interface [polypeptide binding]; other site 444450003901 alpha-beta subunit interface [polypeptide binding]; other site 444450003902 urease subunit alpha; Reviewed; Region: ureC; PRK13207 444450003903 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 444450003904 subunit interactions [polypeptide binding]; other site 444450003905 active site 444450003906 flap region; other site 444450003907 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 444450003908 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 444450003909 dimer interface [polypeptide binding]; other site 444450003910 catalytic residues [active] 444450003911 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 444450003912 UreF; Region: UreF; pfam01730 444450003913 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 444450003914 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 444450003915 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 444450003916 Transposase; Region: HTH_Tnp_1; pfam01527 444450003917 conjugal transfer surface exclusion protein TraT; Provisional; Region: PRK13731 444450003918 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 444450003919 Hok/gef family; Region: HOK_GEF; pfam01848 444450003920 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 444450003921 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 444450003922 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 444450003923 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 444450003924 Transposase; Region: HTH_Tnp_1; pfam01527 444450003925 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 444450003926 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 444450003927 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 444450003928 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 444450003929 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 444450003930 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 444450003931 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 444450003932 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 444450003933 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 444450003934 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 444450003935 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 444450003936 Predicted transcriptional regulator [Transcription]; Region: COG2378 444450003937 Protein of unknown function (DUF4236); Region: DUF4236; pfam14020 444450003938 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 444450003939 Protein of unknown function (DUF2983); Region: DUF2983; pfam11202 444450003940 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 444450003941 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 444450003942 active site 444450003943 Protein of unknown function (DUF3706); Region: DUF3706; pfam12500 444450003944 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 444450003945 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 444450003946 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 444450003947 putative metal binding site [ion binding]; other site 444450003948 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 444450003949 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 444450003950 putative metal binding site [ion binding]; other site 444450003951 Uncharacterized protein involved in stress response [General function prediction only]; Region: COG4110 444450003952 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 444450003953 putative metal binding site [ion binding]; other site 444450003954 tellurite resistance protein terB; Region: terB; cd07176 444450003955 putative metal binding site [ion binding]; other site 444450003956 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 444450003957 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 444450003958 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 444450003959 putative metal binding site [ion binding]; other site 444450003960 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 444450003961 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 444450003962 putative metal binding site [ion binding]; other site 444450003963 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 444450003964 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 444450003965 putative metal binding site [ion binding]; other site 444450003966 bifunctional enterobactin receptor/adhesin protein; Provisional; Region: PRK13486 444450003967 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 444450003968 N-terminal plug; other site 444450003969 ligand-binding site [chemical binding]; other site 444450003970 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 444450003971 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 444450003972 homodimer interface [polypeptide binding]; other site 444450003973 TDP-binding site; other site 444450003974 Enterochelin esterase and related enzymes [Inorganic ion transport and metabolism]; Region: Fes; COG2382 444450003975 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 444450003976 Helix-turn-helix domain; Region: HTH_39; pfam14090 444450003977 Domain of unknown function (DUF4222); Region: DUF4222; pfam13973 444450003978 putative transposase OrfB; Reviewed; Region: PHA02517 444450003979 HTH-like domain; Region: HTH_21; pfam13276 444450003980 Integrase core domain; Region: rve; pfam00665 444450003981 Integrase core domain; Region: rve_3; pfam13683 444450003982 Transposase; Region: HTH_Tnp_1; cl17663 444450003983 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 444450003984 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 444450003985 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 444450003986 Predicted phosphoadenosine phosphosulfate sulfotransferase [General function prediction only]; Region: COG3969 444450003987 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 444450003988 Active Sites [active] 444450003989 Domain of unknown function (DUF3440); Region: DUF3440; pfam11922 444450003990 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 444450003991 ParB-like nuclease domain; Region: ParB; smart00470 444450003992 PerC transcriptional activator; Region: PerC; pfam06069 444450003993 Integrase core domain; Region: rve_3; cl15866 444450003994 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 444450003995 Transposase; Region: HTH_Tnp_1; pfam01527 444450003996 Predicted GTPase [General function prediction only]; Region: COG3596 444450003997 YfjP GTPase; Region: YfjP; cd11383 444450003998 G1 box; other site 444450003999 GTP/Mg2+ binding site [chemical binding]; other site 444450004000 Switch I region; other site 444450004001 G2 box; other site 444450004002 Switch II region; other site 444450004003 G3 box; other site 444450004004 G4 box; other site 444450004005 G5 box; other site 444450004006 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 444450004007 Type V secretory pathway, adhesin AidA [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: AidA; COG3468 444450004008 hypothetical protein; Provisional; Region: PRK09945 444450004009 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 444450004010 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 444450004011 Autotransporter beta-domain; Region: Autotransporter; smart00869 444450004012 hypothetical protein; Provisional; Region: PRK09866 444450004013 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 444450004014 G1 box; other site 444450004015 GTP/Mg2+ binding site [chemical binding]; other site 444450004016 G2 box; other site 444450004017 Switch I region; other site 444450004018 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 444450004019 G3 box; other site 444450004020 Switch II region; other site 444450004021 GTP/Mg2+ binding site [chemical binding]; other site 444450004022 G4 box; other site 444450004023 G5 box; other site 444450004024 YjcZ-like protein; Region: YjcZ; pfam13990 444450004025 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 444450004026 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 444450004027 nucleophile elbow; other site 444450004028 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 444450004029 Domain of unknown function (DUF932); Region: DUF932; pfam06067 444450004030 Antirestriction protein; Region: Antirestrict; pfam03230 444450004031 DNA repair proteins [DNA replication, recombination, and repair]; Region: RadC; COG2003 444450004032 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 444450004033 MPN+ (JAMM) motif; other site 444450004034 Zinc-binding site [ion binding]; other site 444450004035 Protein of unknown function (DUF987); Region: DUF987; pfam06174 444450004036 YagB/YeeU/YfjZ family; Region: YagB_YeeU_YfjZ; pfam06154 444450004037 Protein of unknown function (DUF1219); Region: DUF1219; pfam06755 444450004038 Enterobacterial protein of unknown function (DUF957); Region: DUF957; pfam06117 444450004039 Methyltransferase domain; Region: Methyltransf_27; pfam13708 444450004040 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 444450004041 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 444450004042 putative ligand binding site [chemical binding]; other site 444450004043 NAD binding site [chemical binding]; other site 444450004044 dimerization interface [polypeptide binding]; other site 444450004045 catalytic site [active] 444450004046 putative hydrolase; Validated; Region: PRK09248 444450004047 Polymerase and Histidinol Phosphatase domain of Ycdx like; Region: PHP_HisPPase_Ycdx_like; cd07437 444450004048 active site 444450004049 Uncharacterized component of anaerobic dehydrogenases [General function prediction only]; Region: TorD; COG3381 444450004050 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 444450004051 curli production assembly/transport protein CsgG; Provisional; Region: PRK15184 444450004052 curli assembly protein CsgF; Provisional; Region: PRK10050 444450004053 curli assembly protein CsgE; Provisional; Region: PRK10386 444450004054 DNA-binding transcriptional regulator CsgD; Provisional; Region: PRK10100 444450004055 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 444450004056 DNA binding residues [nucleotide binding] 444450004057 dimerization interface [polypeptide binding]; other site 444450004058 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 444450004059 Curlin associated repeat; Region: Curlin_rpt; pfam07012 444450004060 Curlin associated repeat; Region: Curlin_rpt; pfam07012 444450004061 major curlin subunit; Provisional; Region: csgA; PRK10051 444450004062 Curlin associated repeat; Region: Curlin_rpt; pfam07012 444450004063 Curlin associated repeat; Region: Curlin_rpt; pfam07012 444450004064 curli assembly protein CsgC; Provisional; Region: csgC; PRK10102 444450004065 Fimbrial protein; Region: Fimbrial; cl01416 444450004066 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 444450004067 putative ADP-ribose binding site [chemical binding]; other site 444450004068 putative active site [active] 444450004069 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 444450004070 PLD-like domain; Region: PLDc_2; pfam13091 444450004071 putative active site [active] 444450004072 catalytic site [active] 444450004073 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 444450004074 PLD-like domain; Region: PLDc_2; pfam13091 444450004075 putative active site [active] 444450004076 catalytic site [active] 444450004077 glucans biosynthesis protein; Provisional; Region: opgC; PRK03854 444450004078 Acyltransferase family; Region: Acyl_transf_3; pfam01757 444450004079 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 444450004080 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; pfam04349 444450004081 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 444450004082 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 444450004083 Ligand binding site; other site 444450004084 DXD motif; other site 444450004085 lipoprotein; Provisional; Region: PRK10175 444450004086 secY/secA suppressor protein; Provisional; Region: PRK11467 444450004087 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 444450004088 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 444450004089 putative acyl-acceptor binding pocket; other site 444450004090 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 444450004091 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 444450004092 active site residue [active] 444450004093 hypothetical protein; Provisional; Region: PRK03757 444450004094 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 444450004095 Protein of unknown function (DUF2770); Region: DUF2770; pfam10968 444450004096 N-methyltryptophan oxidase; Provisional; Region: solA; PRK11259 444450004097 hydroxyglutarate oxidase; Provisional; Region: PRK11728 444450004098 biofilm formation regulatory protein BssS; Reviewed; Region: bssS; PRK12301 444450004099 DNA damage-inducible protein I; Provisional; Region: PRK10597 444450004100 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 444450004101 active site 444450004102 substrate binding pocket [chemical binding]; other site 444450004103 dimer interface [polypeptide binding]; other site 444450004104 lipoprotein; Provisional; Region: PRK10598 444450004105 glutaredoxin 2; Provisional; Region: PRK10387 444450004106 GST_N family, Glutaredoxin 2 (GRX2) subfamily; composed of bacterial proteins similar to E. coli GRX2, an atypical GRX with a molecular mass of about 24kD, compared with other GRXs which are 9-12kD in size. GRX2 adopts a GST fold containing an N-terminal...; Region: GST_N_GRX2; cd03037 444450004107 C-terminal domain interface [polypeptide binding]; other site 444450004108 GSH binding site (G-site) [chemical binding]; other site 444450004109 catalytic residues [active] 444450004110 putative dimer interface [polypeptide binding]; other site 444450004111 C-terminal, alpha helical domain of Glutaredoxin 2; Region: GST_C_GRX2; cd03199 444450004112 N-terminal domain interface [polypeptide binding]; other site 444450004113 multidrug resistance protein MdtH; Provisional; Region: PRK11646 444450004114 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 444450004115 putative substrate translocation pore; other site 444450004116 ribosomal-protein-S5-alanine N-acetyltransferase; Provisional; Region: PRK10809 444450004117 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 444450004118 hypothetical protein; Provisional; Region: PRK11239 444450004119 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3132 444450004120 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 444450004121 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 444450004122 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 444450004123 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 444450004124 MviN-like protein; Region: MVIN; pfam03023 444450004125 flagella synthesis chaperone protein FlgN; Provisional; Region: PRK15459 444450004126 anti-sigma28 factor FlgM; Provisional; Region: PRK10810 444450004127 Flagellar basal body P-ring biosynthesis protein [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FlgA; COG1261 444450004128 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 444450004129 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 444450004130 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 444450004131 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 444450004132 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 444450004133 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 444450004134 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 444450004135 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 444450004136 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 444450004137 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 444450004138 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 444450004139 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 444450004140 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 444450004141 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 444450004142 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgF; COG4787 444450004143 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 444450004144 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 444450004145 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 444450004146 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 444450004147 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 444450004148 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 444450004149 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 444450004150 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 444450004151 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 444450004152 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 444450004153 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 444450004154 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 444450004155 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08147 444450004156 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 444450004157 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 444450004158 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08027 444450004159 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 444450004160 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 444450004161 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 444450004162 homodimer interface [polypeptide binding]; other site 444450004163 oligonucleotide binding site [chemical binding]; other site 444450004164 Polyribonucleotide phosphorylase C terminal; Region: PNPase_C; pfam12111 444450004165 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 444450004166 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 444450004167 RNA binding surface [nucleotide binding]; other site 444450004168 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 444450004169 active site 444450004170 Maf-like protein; Region: Maf; pfam02545 444450004171 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 444450004172 active site 444450004173 dimer interface [polypeptide binding]; other site 444450004174 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 444450004175 putative phosphate acyltransferase; Provisional; Region: PRK05331 444450004176 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 444450004177 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 444450004178 dimer interface [polypeptide binding]; other site 444450004179 active site 444450004180 CoA binding pocket [chemical binding]; other site 444450004181 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 444450004182 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 444450004183 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 444450004184 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 444450004185 NAD(P) binding site [chemical binding]; other site 444450004186 homotetramer interface [polypeptide binding]; other site 444450004187 homodimer interface [polypeptide binding]; other site 444450004188 active site 444450004189 acyl carrier protein; Provisional; Region: acpP; PRK00982 444450004190 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 444450004191 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 444450004192 dimer interface [polypeptide binding]; other site 444450004193 active site 444450004194 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 444450004195 ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most...; Region: ADCL_like; cd01559 444450004196 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444450004197 catalytic residue [active] 444450004198 conserved hypothetical protein, YceG family; Region: TIGR00247 444450004199 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 444450004200 dimerization interface [polypeptide binding]; other site 444450004201 thymidylate kinase; Validated; Region: tmk; PRK00698 444450004202 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 444450004203 TMP-binding site; other site 444450004204 ATP-binding site [chemical binding]; other site 444450004205 DNA polymerase III subunit delta'; Validated; Region: PRK07993 444450004206 DNA polymerase III, delta subunit, C terminal; Region: DNApol3-delta_C; pfam09115 444450004207 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 444450004208 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 444450004209 active site 444450004210 PTS system glucose-specific transporter subunits IIBC; Provisional; Region: PRK11089 444450004211 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 444450004212 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 444450004213 active site turn [active] 444450004214 phosphorylation site [posttranslational modification] 444450004215 ferric-rhodotorulic acid outer membrane transporter; Provisional; Region: PRK10003 444450004216 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 444450004217 N-terminal plug; other site 444450004218 ligand-binding site [chemical binding]; other site 444450004219 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 444450004220 nucleotide binding site/active site [active] 444450004221 HIT family signature motif; other site 444450004222 catalytic residue [active] 444450004223 Predicted periplasmic lipoprotein [General function prediction only]; Region: COG5633 444450004224 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 444450004225 putative dimer interface [polypeptide binding]; other site 444450004226 Collagen-binding surface adhesin SpaP (antigen I/II family) [General function prediction only]; Region: FlgN; COG3417 444450004227 thiamine kinase; Region: ycfN_thiK; TIGR02721 444450004228 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 444450004229 active site 444450004230 substrate binding site [chemical binding]; other site 444450004231 ATP binding site [chemical binding]; other site 444450004232 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 444450004233 beta-hexosaminidase; Provisional; Region: PRK05337 444450004234 hypothetical protein; Provisional; Region: PRK04940 444450004235 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 444450004236 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 444450004237 hypothetical protein; Provisional; Region: PRK11280 444450004238 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 444450004239 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 444450004240 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 444450004241 L,D-transpeptidase; Provisional; Region: PRK10260 444450004242 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 444450004243 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 444450004244 transcription-repair coupling factor; Provisional; Region: PRK10689 444450004245 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 444450004246 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 444450004247 ATP binding site [chemical binding]; other site 444450004248 putative Mg++ binding site [ion binding]; other site 444450004249 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 444450004250 nucleotide binding region [chemical binding]; other site 444450004251 ATP-binding site [chemical binding]; other site 444450004252 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 444450004253 Predicted membrane protein [Function unknown]; Region: COG4763 444450004254 Acyltransferase family; Region: Acyl_transf_3; pfam01757 444450004255 outer membrane-specific lipoprotein transporter subunit LolC; Provisional; Region: PRK10814 444450004256 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 444450004257 FtsX-like permease family; Region: FtsX; pfam02687 444450004258 lipoprotein transporter ATP-binding subunit; Provisional; Region: lolD; PRK11629 444450004259 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 444450004260 Walker A/P-loop; other site 444450004261 ATP binding site [chemical binding]; other site 444450004262 Q-loop/lid; other site 444450004263 ABC transporter signature motif; other site 444450004264 Walker B; other site 444450004265 D-loop; other site 444450004266 H-loop/switch region; other site 444450004267 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 444450004268 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 444450004269 FtsX-like permease family; Region: FtsX; pfam02687 444450004270 fructokinase; Reviewed; Region: PRK09557 444450004271 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 444450004272 nucleotide binding site [chemical binding]; other site 444450004273 NAD-dependent deacetylase; Provisional; Region: PRK00481 444450004274 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 444450004275 NAD+ binding site [chemical binding]; other site 444450004276 substrate binding site [chemical binding]; other site 444450004277 Zn binding site [ion binding]; other site 444450004278 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 444450004279 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 444450004280 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 444450004281 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 444450004282 dimer interface [polypeptide binding]; other site 444450004283 conserved gate region; other site 444450004284 putative PBP binding loops; other site 444450004285 ABC-ATPase subunit interface; other site 444450004286 Bacteriophage lambda integrase, N-terminal domain; Region: Phage_integ_N; pfam09003 444450004287 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 444450004288 Lambda integrase, C-terminal catalytic domain. Lambda-type integrases catalyze site-specific integration and excision of temperate bacteriophages and other mobile genetic elements to and from the bacterial host chromosome. They belong to the superfamily...; Region: INT_Lambda_C; cd00800 444450004289 dimer interface [polypeptide binding]; other site 444450004290 active site 444450004291 Int/Topo IB signature motif; other site 444450004292 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 444450004293 active site 444450004294 substrate binding site [chemical binding]; other site 444450004295 catalytic site [active] 444450004296 Protein of unknown function (DUF1391); Region: DUF1391; pfam07151 444450004297 Protein of unknown function (DUF1019); Region: DUF1019; pfam06254 444450004298 Pyocin large subunit [General function prediction only]; Region: COG5529 444450004299 primosomal protein DnaI; Provisional; Region: PRK02854 444450004300 Replication protein P; Region: Phage_lambda_P; pfam06992 444450004301 Protein of unknown function (DUF1627); Region: DUF1627; pfam07789 444450004302 Domain of unknown function (DUF4406); Region: DUF4406; pfam14359 444450004303 Ead/Ea22-like protein; Region: Ead_Ea22; pfam13935 444450004304 Protein of unknown function (DUF551); Region: DUF551; pfam04448 444450004305 Protein of unknown function (DUF968); Region: DUF968; pfam06147 444450004306 Endodeoxyribonuclease RusA; Region: RusA; cl01885 444450004307 Domain of unknown function (DUF303); Region: DUF303; pfam03629 444450004308 Protein of unknown function (DUF1378); Region: DUF1378; pfam07125 444450004309 Protein of unknown function (DUF826); Region: DUF826; pfam05696 444450004310 Lysis protein S; Region: Lysis_S; pfam04971 444450004311 Protein of unknown function (DUF1327); Region: DUF1327; pfam07041 444450004312 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 444450004313 catalytic residues [active] 444450004314 P22_AR N-terminal domain; Region: P22_AR_N; pfam10547 444450004315 ORF11CD3 domain; Region: ORF11CD3; pfam10549 444450004316 Bacteriophage lysis protein; Region: Phage_lysis; pfam03245 444450004317 Domain of unknown function (DUF3950); Region: DUF3950; pfam13132 444450004318 Phage terminase, small subunit [DNA replication, recombination, and repair]; Region: XtmA; COG3728 444450004319 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 444450004320 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 444450004321 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 444450004322 Phage capsid family; Region: Phage_capsid; pfam05065 444450004323 Phage-related protein [Function unknown]; Region: COG4695 444450004324 phage portal protein, HK97 family; Region: portal_HK97; TIGR01537 444450004325 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 444450004326 oligomerization interface [polypeptide binding]; other site 444450004327 Bacteriophage head-tail adaptor [General function prediction only]; Region: COG5614 444450004328 phage protein, HK97 gp10 family; Region: phge_HK97_gp10; TIGR01725 444450004329 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 444450004330 Phage tail assembly chaperone; Region: Phage_TAC; pfam06222 444450004331 Protein of unknown function (DUF4035); Region: DUF4035; pfam13227 444450004332 Phage-related minor tail protein [Function unknown]; Region: COG5281 444450004333 tape measure domain; Region: tape_meas_nterm; TIGR02675 444450004334 Tail length tape measure protein; Region: Phage_HK97_TLTM; pfam06120 444450004335 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 444450004336 Phage-related protein [Function unknown]; Region: COG4718 444450004337 Phage-related protein [Function unknown]; Region: gp18; COG4672 444450004338 Prophage antirepressor [Transcription]; Region: COG3617 444450004339 BRO family, N-terminal domain; Region: Bro-N; smart01040 444450004340 Phage anti-repressor protein [Transcription]; Region: COG3561 444450004341 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) found in proteins also containing NlpC/P60 domains; Region: MPN_NLPC_P60; cd08073 444450004342 MPN+ (JAMM) motif; other site 444450004343 Zinc-binding site [ion binding]; other site 444450004344 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 444450004345 NlpC/P60 family; Region: NLPC_P60; cl17555 444450004346 Phage-related protein, tail component [Function unknown]; Region: COG4723 444450004347 E3 ubiquitin-protein ligase SopA; Provisional; Region: PRK15377 444450004348 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 444450004349 SopA-like central domain; Region: SopA; pfam13981 444450004350 SopA-like catalytic domain; Region: SopA_C; pfam13979 444450004351 type III secretion protein GogB; Provisional; Region: PRK15386 444450004352 IS2 transposase TnpB; Reviewed; Region: PRK09409 444450004353 HTH-like domain; Region: HTH_21; pfam13276 444450004354 Integrase core domain; Region: rve; pfam00665 444450004355 Integrase core domain; Region: rve_3; pfam13683 444450004356 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 444450004357 type III secretion protein GogB; Provisional; Region: PRK15386 444450004358 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 444450004359 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 444450004360 dimer interface [polypeptide binding]; other site 444450004361 conserved gate region; other site 444450004362 putative PBP binding loops; other site 444450004363 ABC-ATPase subunit interface; other site 444450004364 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 444450004365 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 444450004366 Walker A/P-loop; other site 444450004367 ATP binding site [chemical binding]; other site 444450004368 Q-loop/lid; other site 444450004369 ABC transporter signature motif; other site 444450004370 Walker B; other site 444450004371 D-loop; other site 444450004372 H-loop/switch region; other site 444450004373 TOBE domain; Region: TOBE_2; pfam08402 444450004374 Di- and tripeptidases [Amino acid transport and metabolism]; Region: PepD; COG2195 444450004375 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 444450004376 metal binding site [ion binding]; metal-binding site 444450004377 dimer interface [polypeptide binding]; other site 444450004378 Uncharacterized conserved protein [Function unknown]; Region: COG2850 444450004379 Cupin-like domain; Region: Cupin_8; pfam13621 444450004380 integrase; Provisional; Region: PRK09692 444450004381 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 444450004382 active site 444450004383 Int/Topo IB signature motif; other site 444450004384 Domain of unknown function (DUF4222); Region: DUF4222; pfam13973 444450004385 AAA domain; Region: AAA_25; pfam13481 444450004386 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 444450004387 Walker A motif; other site 444450004388 ATP binding site [chemical binding]; other site 444450004389 Walker B motif; other site 444450004390 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 444450004391 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 444450004392 ssDNA binding site [nucleotide binding]; other site 444450004393 dimer interface [polypeptide binding]; other site 444450004394 tetramer (dimer of dimers) interface [polypeptide binding]; other site 444450004395 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 444450004396 Bacteriophage lambda head decoration protein D; Region: HDPD; pfam02924 444450004397 Phage DNA packaging protein Nu1; Region: Phage_Nu1; cl01720 444450004398 sensor protein PhoQ; Provisional; Region: PRK10815 444450004399 PhoQ Sensor; Region: PhoQ_Sensor; pfam08918 444450004400 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; cl01054 444450004401 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 444450004402 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 444450004403 ATP binding site [chemical binding]; other site 444450004404 Mg2+ binding site [ion binding]; other site 444450004405 G-X-G motif; other site 444450004406 DNA-binding transcriptional regulator PhoP; Provisional; Region: PRK10816 444450004407 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 444450004408 active site 444450004409 phosphorylation site [posttranslational modification] 444450004410 intermolecular recognition site; other site 444450004411 dimerization interface [polypeptide binding]; other site 444450004412 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 444450004413 DNA binding site [nucleotide binding] 444450004414 adenylosuccinate lyase; Provisional; Region: PRK09285 444450004415 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 444450004416 tetramer interface [polypeptide binding]; other site 444450004417 active site 444450004418 putative lysogenization regulator; Reviewed; Region: PRK00218 444450004419 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 444450004420 tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase; Region: trmU; TIGR00420 444450004421 Contains a crystal structure of the Nudix hydrolase from Nitrosomonas europaea, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_2; cd03675 444450004422 nudix motif; other site 444450004423 23S rRNA pseudouridine synthase E; Provisional; Region: PRK11394 444450004424 Pseudouridine synthase, Escherichia coli RluE; Region: PseudoU_synth_RluE; cd02566 444450004425 probable active site [active] 444450004426 isocitrate dehydrogenase; Validated; Region: PRK07362 444450004427 isocitrate dehydrogenase; Reviewed; Region: PRK07006 444450004428 Bacteriophage lambda integrase, N-terminal domain; Region: Phage_integ_N; pfam09003 444450004429 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 444450004430 Lambda integrase, C-terminal catalytic domain. Lambda-type integrases catalyze site-specific integration and excision of temperate bacteriophages and other mobile genetic elements to and from the bacterial host chromosome. They belong to the superfamily...; Region: INT_Lambda_C; cd00800 444450004431 dimer interface [polypeptide binding]; other site 444450004432 active site 444450004433 Int/Topo IB signature motif; other site 444450004434 Bacteriophage replication protein O; Region: Phage_rep_O; cl04545 444450004435 Replication protein P; Region: Phage_lambda_P; pfam06992 444450004436 multidrug efflux protein; Reviewed; Region: emrE; PRK09541 444450004437 hypothetical protein; Provisional; Region: PRK09741 444450004438 prophage protein NinE; Provisional; Region: PRK09689 444450004439 Protein of unknown function (DUF1364); Region: DUF1364; pfam07102 444450004440 endodeoxyribonuclease RUS; Reviewed; Region: PRK09786 444450004441 Phage antitermination protein Q; Region: Phage_antiter_Q; pfam06323 444450004442 The lysozyme from bacteriophage lambda hydrolyses the beta-1,4-glycosidic bond between N-acetylmuramic acid (MurNAc) and N-acetylglucosamine (GlcNAc), as do other lysozymes. But unlike other lysozymes, bacteriophage lambda does not produce a reducing...; Region: bacteriophage_lambda_lysozyme; cd00736 444450004443 N-acetyl-D-glucosamine binding site [chemical binding]; other site 444450004444 catalytic residue [active] 444450004445 Bacteriophage lysis protein; Region: Phage_lysis; pfam03245 444450004446 Bor protein; Region: Lambda_Bor; pfam06291 444450004447 Protein of unknown function (DUF1398); Region: DUF1398; pfam07166 444450004448 Domain of unknown function (DUF3950); Region: DUF3950; pfam13132 444450004449 Phage DNA packaging protein Nu1; Region: Phage_Nu1; pfam07471 444450004450 Phage terminase, large subunit GpA [Replication, recombination and repair]; Region: COG5525 444450004451 gpW; Region: gpW; pfam02831 444450004452 Bacteriophage capsid protein [General function prediction only]; Region: COG5511 444450004453 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 444450004454 Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_36K_type; cd07022 444450004455 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 444450004456 tandem repeat interface [polypeptide binding]; other site 444450004457 oligomer interface [polypeptide binding]; other site 444450004458 active site residues [active] 444450004459 Bacteriophage lambda head decoration protein D; Region: HDPD; pfam02924 444450004460 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 444450004461 DNA packaging protein FI; Region: Packaging_FI; pfam14000 444450004462 Phage Head-Tail Attachment; Region: Phage_attach; pfam05354 444450004463 Prophage minor tail protein Z (GPZ); Region: Minor_tail_Z; pfam06763 444450004464 Phage minor tail protein U; Region: Phage_tail_U; pfam06141 444450004465 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 444450004466 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 444450004467 phage minor tail protein G; Region: phage_lambda_G; TIGR01674 444450004468 Minor tail protein T; Region: Phage_tail_T; pfam06223 444450004469 Phage-related minor tail protein [Function unknown]; Region: COG5281 444450004470 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 444450004471 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 444450004472 Phage-related protein [Function unknown]; Region: COG4718 444450004473 Phage-related protein [Function unknown]; Region: gp18; COG4672 444450004474 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) found in proteins also containing NlpC/P60 domains; Region: MPN_NLPC_P60; cd08073 444450004475 MPN+ (JAMM) motif; other site 444450004476 Zinc-binding site [ion binding]; other site 444450004477 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 444450004478 NlpC/P60 family; Region: NLPC_P60; cl17555 444450004479 Phage-related protein, tail component [Function unknown]; Region: COG4723 444450004480 Phage-related protein, tail component [Function unknown]; Region: COG4733 444450004481 Putative phage tail protein; Region: Phage-tail_3; pfam13550 444450004482 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 444450004483 Fibronectin type III protein; Region: DUF3672; pfam12421 444450004484 Enterobacterial Ail/Lom protein; Region: Ail_Lom; pfam06316 444450004485 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 444450004486 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 444450004487 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 444450004488 Phage Tail Collar Domain; Region: Collar; pfam07484 444450004489 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 444450004490 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 444450004491 dimanganese center [ion binding]; other site 444450004492 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3685 444450004493 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 444450004494 dimerization interface [polypeptide binding]; other site 444450004495 metal binding site [ion binding]; metal-binding site 444450004496 General stress protein [General function prediction only]; Region: GsiB; COG3729 444450004497 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 444450004498 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 444450004499 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 444450004500 Dimerization/Docking domain of Cyclic GMP-dependent Protein Kinase I; Region: DD_cGKI; cl17044 444450004501 homodimer interface [polypeptide binding]; other site 444450004502 putative GKAP docking site [polypeptide binding]; other site 444450004503 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 444450004504 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 444450004505 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 444450004506 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 444450004507 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 444450004508 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 444450004509 TAP-like protein; Region: Abhydrolase_4; pfam08386 444450004510 outer membrane protease; Reviewed; Region: PRK10993 444450004511 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 444450004512 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 444450004513 sequence-specific DNA binding site [nucleotide binding]; other site 444450004514 salt bridge; other site 444450004515 Transposase; Region: HTH_Tnp_1; cl17663 444450004516 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 444450004517 putative transposase OrfB; Reviewed; Region: PHA02517 444450004518 HTH-like domain; Region: HTH_21; pfam13276 444450004519 Integrase core domain; Region: rve; pfam00665 444450004520 Integrase core domain; Region: rve_3; pfam13683 444450004521 Autotransporter beta-domain; Region: Autotransporter; smart00869 444450004522 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 444450004523 cell division inhibitor MinD; Provisional; Region: PRK10818 444450004524 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 444450004525 Switch I; other site 444450004526 Switch II; other site 444450004527 septum formation inhibitor; Reviewed; Region: minC; PRK03511 444450004528 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 444450004529 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 444450004530 Fels-1 Prophage Protein-like; Region: Fels1; pfam05666 444450004531 Fels-1 Prophage Protein-like; Region: Fels1; pfam05666 444450004532 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 444450004533 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3100 444450004534 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 444450004535 hypothetical protein; Provisional; Region: PRK10691 444450004536 hypothetical protein; Provisional; Region: PRK05170 444450004537 hemolysin E; Provisional; Region: hlyE; PRK11376 444450004538 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 444450004539 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 444450004540 Catalytic site [active] 444450004541 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 444450004542 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 444450004543 active site 444450004544 DNA binding site [nucleotide binding] 444450004545 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 444450004546 disulfide bond formation protein B; Provisional; Region: PRK01749 444450004547 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cd00625 444450004548 transmembrane helices; other site 444450004549 fatty acid metabolism regulator; Provisional; Region: PRK04984 444450004550 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 444450004551 DNA-binding site [nucleotide binding]; DNA binding site 444450004552 FadR C-terminal domain; Region: FadR_C; pfam07840 444450004553 SpoVR family protein; Provisional; Region: PRK11767 444450004554 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 444450004555 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 444450004556 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 444450004557 alanine racemase; Reviewed; Region: dadX; PRK03646 444450004558 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 444450004559 active site 444450004560 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 444450004561 substrate binding site [chemical binding]; other site 444450004562 catalytic residues [active] 444450004563 dimer interface [polypeptide binding]; other site 444450004564 NhaP-type Na+/H+ and K+/H+ antiporters with a unique C-terminal domain [Inorganic ion transport and metabolism]; Region: COG3263 444450004565 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 444450004566 TrkA-C domain; Region: TrkA_C; pfam02080 444450004567 Transporter associated domain; Region: CorC_HlyC; smart01091 444450004568 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 444450004569 dimer interface [polypeptide binding]; other site 444450004570 catalytic triad [active] 444450004571 lytic murein endotransglycosylase E; Provisional; Region: emtA; PRK15470 444450004572 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 444450004573 N-acetyl-D-glucosamine binding site [chemical binding]; other site 444450004574 catalytic residue [active] 444450004575 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 444450004576 GTP-binding protein YchF; Reviewed; Region: PRK09601 444450004577 YchF GTPase; Region: YchF; cd01900 444450004578 G1 box; other site 444450004579 GTP/Mg2+ binding site [chemical binding]; other site 444450004580 Switch I region; other site 444450004581 G2 box; other site 444450004582 Switch II region; other site 444450004583 G3 box; other site 444450004584 G4 box; other site 444450004585 G5 box; other site 444450004586 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 444450004587 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 444450004588 putative active site [active] 444450004589 catalytic residue [active] 444450004590 hypothetical protein; Provisional; Region: PRK10692 444450004591 putative transporter; Provisional; Region: PRK11660 444450004592 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 444450004593 Sulfate transporter family; Region: Sulfate_transp; pfam00916 444450004594 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 444450004595 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 444450004596 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 444450004597 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 444450004598 active site 444450004599 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 444450004600 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 444450004601 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 444450004602 outer membrane lipoprotein LolB; Region: lolB; TIGR00548 444450004603 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 444450004604 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 444450004605 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 444450004606 tRNA; other site 444450004607 putative tRNA binding site [nucleotide binding]; other site 444450004608 putative NADP binding site [chemical binding]; other site 444450004609 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 444450004610 peptide chain release factor 1; Validated; Region: prfA; PRK00591 444450004611 This domain is found in peptide chain release factors; Region: PCRF; smart00937 444450004612 RF-1 domain; Region: RF-1; pfam00472 444450004613 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 444450004614 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 444450004615 hypothetical protein; Provisional; Region: PRK10278 444450004616 hypothetical protein; Provisional; Region: PRK10941 444450004617 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 444450004618 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 444450004619 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 444450004620 calcium/sodium:proton antiporter; Provisional; Region: PRK10599 444450004621 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 444450004622 cation transport regulator; Reviewed; Region: chaB; PRK09582 444450004623 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 444450004624 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 444450004625 putative active site pocket [active] 444450004626 dimerization interface [polypeptide binding]; other site 444450004627 putative catalytic residue [active] 444450004628 Uncharacterized conserved protein involved in intracellular sulfur reduction [Inorganic ion transport and metabolism]; Region: DsrE; COG1553 444450004629 putative invasin; Provisional; Region: PRK10177 444450004630 Protein of unknown function (DUF3442); Region: DUF3442; pfam11924 444450004631 transcriptional regulator NarL; Provisional; Region: PRK10651 444450004632 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 444450004633 active site 444450004634 phosphorylation site [posttranslational modification] 444450004635 intermolecular recognition site; other site 444450004636 dimerization interface [polypeptide binding]; other site 444450004637 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 444450004638 DNA binding residues [nucleotide binding] 444450004639 dimerization interface [polypeptide binding]; other site 444450004640 nitrate/nitrite sensor protein NarX; Provisional; Region: PRK10600 444450004641 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 444450004642 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 444450004643 dimerization interface [polypeptide binding]; other site 444450004644 Histidine kinase; Region: HisKA_3; pfam07730 444450004645 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 444450004646 ATP binding site [chemical binding]; other site 444450004647 Mg2+ binding site [ion binding]; other site 444450004648 G-X-G motif; other site 444450004649 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 444450004650 respiratory nitrate reductase, alpha subunit; Region: narG; TIGR01580 444450004651 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 444450004652 [4Fe-4S] binding site [ion binding]; other site 444450004653 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 444450004654 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 444450004655 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 444450004656 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 444450004657 molybdopterin cofactor binding site; other site 444450004658 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 444450004659 4Fe-4S binding domain; Region: Fer4; cl02805 444450004660 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 444450004661 respiratory nitrate reductase, gamma subunit; Region: narI; TIGR00351 444450004662 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 444450004663 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 444450004664 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 444450004665 putative active site [active] 444450004666 putative substrate binding site [chemical binding]; other site 444450004667 putative cosubstrate binding site; other site 444450004668 catalytic site [active] 444450004669 SEC-C motif; Region: SEC-C; pfam02810 444450004670 hypothetical protein; Provisional; Region: PRK04233 444450004671 hypothetical protein; Provisional; Region: PRK10279 444450004672 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 444450004673 active site 444450004674 nucleophile elbow; other site 444450004675 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 444450004676 active site 444450004677 response regulator of RpoS; Provisional; Region: PRK10693 444450004678 phosphorylation site [posttranslational modification] 444450004679 intermolecular recognition site; other site 444450004680 dimerization interface [polypeptide binding]; other site 444450004681 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 444450004682 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 444450004683 active site 444450004684 tetramer interface; other site 444450004685 global DNA-binding transcriptional dual regulator H-NS; Provisional; Region: PRK10947 444450004686 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 444450004687 thymidine kinase; Provisional; Region: PRK04296 444450004688 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 444450004689 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 444450004690 putative catalytic cysteine [active] 444450004691 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 444450004692 putative active site [active] 444450004693 metal binding site [ion binding]; metal-binding site 444450004694 hypothetical protein; Provisional; Region: PRK11111 444450004695 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 444450004696 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 444450004697 peptide binding site [polypeptide binding]; other site 444450004698 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 444450004699 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 444450004700 dimer interface [polypeptide binding]; other site 444450004701 conserved gate region; other site 444450004702 putative PBP binding loops; other site 444450004703 ABC-ATPase subunit interface; other site 444450004704 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 444450004705 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 444450004706 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 444450004707 dimer interface [polypeptide binding]; other site 444450004708 conserved gate region; other site 444450004709 putative PBP binding loops; other site 444450004710 ABC-ATPase subunit interface; other site 444450004711 oligopeptide transporter ATP-binding component; Provisional; Region: oppD; PRK09473 444450004712 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 444450004713 Walker A/P-loop; other site 444450004714 ATP binding site [chemical binding]; other site 444450004715 Q-loop/lid; other site 444450004716 ABC transporter signature motif; other site 444450004717 Walker B; other site 444450004718 D-loop; other site 444450004719 H-loop/switch region; other site 444450004720 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 444450004721 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 444450004722 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 444450004723 Walker A/P-loop; other site 444450004724 ATP binding site [chemical binding]; other site 444450004725 Q-loop/lid; other site 444450004726 ABC transporter signature motif; other site 444450004727 Walker B; other site 444450004728 D-loop; other site 444450004729 H-loop/switch region; other site 444450004730 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 444450004731 dsDNA-mimic protein; Reviewed; Region: PRK05094 444450004732 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 444450004733 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 444450004734 Catalytic domain, repeat 1, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_1; cd09152 444450004735 putative active site [active] 444450004736 catalytic site [active] 444450004737 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_2; cd09158 444450004738 putative active site [active] 444450004739 catalytic site [active] 444450004740 voltage-gated potassium channel; Provisional; Region: PRK10537 444450004741 Ion channel; Region: Ion_trans_2; pfam07885 444450004742 TrkA-N domain; Region: TrkA_N; pfam02254 444450004743 YciI-like protein; Reviewed; Region: PRK11370 444450004744 transport protein TonB; Provisional; Region: PRK10819 444450004745 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 444450004746 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 444450004747 intracellular septation protein A; Reviewed; Region: PRK00259 444450004748 outer membrane protein W; Provisional; Region: PRK10959 444450004749 Bacteriophage lambda integrase, N-terminal domain; Region: Phage_integ_N; pfam09003 444450004750 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 444450004751 Lambda integrase, C-terminal catalytic domain. Lambda-type integrases catalyze site-specific integration and excision of temperate bacteriophages and other mobile genetic elements to and from the bacterial host chromosome. They belong to the superfamily...; Region: INT_Lambda_C; cd00800 444450004752 dimer interface [polypeptide binding]; other site 444450004753 active site 444450004754 Int/Topo IB signature motif; other site 444450004755 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 444450004756 active site 444450004757 catalytic site [active] 444450004758 substrate binding site [chemical binding]; other site 444450004759 Protein of unknown function (DUF1482); Region: DUF1482; pfam07358 444450004760 DicB protein; Region: DicB; pfam05358 444450004761 DNA-binding transcriptional regulator DicC; Provisional; Region: PRK09744 444450004762 Pyocin large subunit [General function prediction only]; Region: COG5529 444450004763 Helix-turn-helix domain; Region: HTH_36; pfam13730 444450004764 primosomal protein DnaI; Provisional; Region: PRK02854 444450004765 Accessory colonization factor AcfC, contains ABC-type periplasmic domain [General function prediction only]; Region: AcfC; COG4588 444450004766 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 444450004767 Protein of unknown function (DUF968); Region: DUF968; pfam06147 444450004768 Holliday junction resolvase [DNA replication, recombination, and repair]; Region: Rus; COG4570 444450004769 Protein of unknown function (DUF1133); Region: DUF1133; pfam06576 444450004770 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 444450004771 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 444450004772 DNA methylase; Region: N6_N4_Mtase; pfam01555 444450004773 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 444450004774 Lysis protein S; Region: Lysis_S; pfam04971 444450004775 Protein of unknown function (DUF1327); Region: DUF1327; pfam07041 444450004776 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 444450004777 catalytic residues [active] 444450004778 P22_AR N-terminal domain; Region: P22_AR_N; pfam10547 444450004779 ORF11CD3 domain; Region: ORF11CD3; pfam10549 444450004780 Bacteriophage lysis protein; Region: Phage_lysis; pfam03245 444450004781 Domain of unknown function (DUF3950); Region: DUF3950; pfam13132 444450004782 Phage DNA packaging protein Nu1; Region: Phage_Nu1; pfam07471 444450004783 Phage terminase, large subunit GpA [Replication, recombination and repair]; Region: COG5525 444450004784 gpW; Region: gpW; pfam02831 444450004785 Bacteriophage capsid protein [General function prediction only]; Region: COG5511 444450004786 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 444450004787 Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_36K_type; cd07022 444450004788 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 444450004789 tandem repeat interface [polypeptide binding]; other site 444450004790 oligomer interface [polypeptide binding]; other site 444450004791 active site residues [active] 444450004792 Bacteriophage lambda head decoration protein D; Region: HDPD; pfam02924 444450004793 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 444450004794 DNA packaging protein FI; Region: Packaging_FI; pfam14000 444450004795 Phage Head-Tail Attachment; Region: Phage_attach; pfam05354 444450004796 Prophage minor tail protein Z (GPZ); Region: Minor_tail_Z; pfam06763 444450004797 Phage minor tail protein U; Region: Phage_tail_U; pfam06141 444450004798 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 444450004799 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 444450004800 Minor tail protein T; Region: Phage_tail_T; cl05636 444450004801 Phage-related minor tail protein [Function unknown]; Region: COG5281 444450004802 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 444450004803 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 444450004804 phage tail tape measure protein, lambda family; Region: tape_meas_lam_C; TIGR01541 444450004805 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 444450004806 Phage-related protein [Function unknown]; Region: COG4718 444450004807 Phage-related protein [Function unknown]; Region: gp18; COG4672 444450004808 Phage-related protein, tail component [Function unknown]; Region: COG4723 444450004809 Phage-related protein, tail component [Function unknown]; Region: COG4733 444450004810 Phage-related protein, tail component [Function unknown]; Region: COG4733 444450004811 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 444450004812 Interdomain contacts; other site 444450004813 Cytokine receptor motif; other site 444450004814 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 444450004815 Fibronectin type III protein; Region: DUF3672; pfam12421 444450004816 Enterobacterial Ail/Lom protein; Region: Ail_Lom; pfam06316 444450004817 Prophage tail fibre N-terminal; Region: phage_tail_N; pfam08400 444450004818 Putative prophage tail fibre C-terminus; Region: Phage_fiber_C; pfam06820 444450004819 Putative prophage tail fibre C-terminus; Region: Phage_fiber_C; pfam06820 444450004820 hypothetical protein; Provisional; Region: PHA03031 444450004821 Dimerization/Docking domain of Cyclic GMP-dependent Protein Kinase I; Region: DD_cGKI; cl17044 444450004822 homodimer interface [polypeptide binding]; other site 444450004823 putative GKAP docking site [polypeptide binding]; other site 444450004824 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 444450004825 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 444450004826 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 444450004827 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 444450004828 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 444450004829 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 444450004830 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 444450004831 Protein of unknown function (DUF1076); Region: DUF1076; pfam06416 444450004832 IpaB/EvcA family; Region: IpaB_EvcA; pfam03278 444450004833 OmpW family; Region: OmpW; cl17427 444450004834 Bacteriophage lambda integrase, N-terminal domain; Region: Phage_integ_N; pfam09003 444450004835 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 444450004836 Lambda integrase, C-terminal catalytic domain. Lambda-type integrases catalyze site-specific integration and excision of temperate bacteriophages and other mobile genetic elements to and from the bacterial host chromosome. They belong to the superfamily...; Region: INT_Lambda_C; cd00800 444450004837 dimer interface [polypeptide binding]; other site 444450004838 active site 444450004839 Int/Topo IB signature motif; other site 444450004840 exonuclease VIII; Reviewed; Region: PRK09709 444450004841 Enterobacterial exodeoxyribonuclease VIII; Region: Exonuc_VIII; pfam06630 444450004842 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 444450004843 active site 444450004844 catalytic site [active] 444450004845 substrate binding site [chemical binding]; other site 444450004846 Protein of unknown function (DUF1482); Region: DUF1482; pfam07358 444450004847 Protein of unknown function (DUF1391); Region: DUF1391; pfam07151 444450004848 transcriptional repressor DicA; Reviewed; Region: PRK09706 444450004849 DNA-binding transcriptional regulator DicC; Provisional; Region: PRK09744 444450004850 Protein of unknown function (DUF1019); Region: DUF1019; pfam06254 444450004851 Pyocin large subunit [General function prediction only]; Region: COG5529 444450004852 Helix-turn-helix domain; Region: HTH_36; pfam13730 444450004853 primosomal protein DnaI; Provisional; Region: PRK02854 444450004854 Replication protein P; Region: Phage_lambda_P; pfam06992 444450004855 Protein of unknown function (DUF1627); Region: DUF1627; pfam07789 444450004856 Bacterial protein of unknown function (DUF977); Region: DUF977; pfam06163 444450004857 Protein of unknown function (DUF551); Region: DUF551; pfam04448 444450004858 Protein of unknown function (DUF968); Region: DUF968; pfam06147 444450004859 Holliday junction resolvase [DNA replication, recombination, and repair]; Region: Rus; COG4570 444450004860 Antitermination protein; Region: Antiterm; pfam03589 444450004861 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 444450004862 MarR family; Region: MarR_2; cl17246 444450004863 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 444450004864 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 444450004865 DNA methylase; Region: N6_N4_Mtase; pfam01555 444450004866 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 444450004867 Domain of unknown function (DUF1737); Region: DUF1737; pfam08410 444450004868 Domain of unknown function (DUF303); Region: DUF303; pfam03629 444450004869 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 444450004870 Protein of unknown function (DUF1378); Region: DUF1378; pfam07125 444450004871 Protein of unknown function (DUF826); Region: DUF826; pfam05696 444450004872 Lysis protein S; Region: Lysis_S; pfam04971 444450004873 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 444450004874 catalytic residues [active] 444450004875 Bacteriophage lysis protein; Region: Phage_lysis; pfam03245 444450004876 Protein of unknown function (DUF1441); Region: DUF1441; pfam07278 444450004877 Phage terminase, large subunit GpA [Replication, recombination and repair]; Region: COG5525 444450004878 Bacteriophage capsid protein [General function prediction only]; Region: COG5511 444450004879 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 444450004880 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 444450004881 Clp protease; Region: CLP_protease; pfam00574 444450004882 oligomer interface [polypeptide binding]; other site 444450004883 active site residues [active] 444450004884 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; cl01826 444450004885 Uncharacterized conserved protein [Function unknown]; Region: COG5471 444450004886 ATP-binding sugar transporter from pro-phage; Region: Gifsy-2; pfam13856 444450004887 Prophage minor tail protein Z (GPZ); Region: Minor_tail_Z; pfam06763 444450004888 Phage minor tail protein U; Region: Phage_tail_U; pfam06141 444450004889 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 444450004890 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 444450004891 Bacteriophage lambda minor tail protein (GpG); Region: Phage_lambd_GpG; pfam06894 444450004892 Minor tail protein T; Region: Phage_tail_T; cl05636 444450004893 Phage-related minor tail protein [Function unknown]; Region: COG5281 444450004894 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 444450004895 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 444450004896 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 444450004897 Phage-related protein [Function unknown]; Region: COG4718 444450004898 Phage-related protein [Function unknown]; Region: gp18; COG4672 444450004899 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) found in proteins also containing NlpC/P60 domains; Region: MPN_NLPC_P60; cd08073 444450004900 MPN+ (JAMM) motif; other site 444450004901 Zinc-binding site [ion binding]; other site 444450004902 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 444450004903 NlpC/P60 family; Region: NLPC_P60; cl17555 444450004904 Phage-related protein, tail component [Function unknown]; Region: COG4723 444450004905 Phage-related protein, tail component [Function unknown]; Region: COG4733 444450004906 Putative phage tail protein; Region: Phage-tail_3; pfam13550 444450004907 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 444450004908 Fibronectin type III protein; Region: DUF3672; pfam12421 444450004909 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 444450004910 Putative prophage tail fibre C-terminus; Region: Phage_fiber_C; pfam06820 444450004911 Putative prophage tail fibre C-terminus; Region: Phage_fiber_C; pfam06820 444450004912 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 444450004913 serine/threonine protein kinase; Provisional; Region: PRK14879 444450004914 OmpW family; Region: OmpW; cl17427 444450004915 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3685 444450004916 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 444450004917 dimerization interface [polypeptide binding]; other site 444450004918 metal binding site [ion binding]; metal-binding site 444450004919 General stress protein [General function prediction only]; Region: GsiB; COG3729 444450004920 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 444450004921 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 444450004922 substrate binding site [chemical binding]; other site 444450004923 active site 444450004924 catalytic residues [active] 444450004925 heterodimer interface [polypeptide binding]; other site 444450004926 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 444450004927 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 444450004928 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444450004929 catalytic residue [active] 444450004930 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 444450004931 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 444450004932 active site 444450004933 ribulose/triose binding site [chemical binding]; other site 444450004934 phosphate binding site [ion binding]; other site 444450004935 substrate (anthranilate) binding pocket [chemical binding]; other site 444450004936 product (indole) binding pocket [chemical binding]; other site 444450004937 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 444450004938 active site 444450004939 bifunctional glutamine amidotransferase/anthranilate phosphoribosyltransferase; Provisional; Region: PRK09522 444450004940 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 444450004941 glutamine binding [chemical binding]; other site 444450004942 catalytic triad [active] 444450004943 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 444450004944 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 444450004945 anthranilate synthase component I; Provisional; Region: PRK13564 444450004946 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 444450004947 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 444450004948 Tryptophan operon leader 444450004949 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 444450004950 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 444450004951 active site 444450004952 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 444450004953 hypothetical protein; Provisional; Region: PRK11630 444450004954 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 444450004955 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 444450004956 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 444450004957 RNA binding surface [nucleotide binding]; other site 444450004958 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 444450004959 probable active site [active] 444450004960 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 444450004961 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated; Region: PRK05986 444450004962 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 444450004963 Escherichia coli K-12 YCIK-like, classical (c) SDRs; Region: Ycik_SDR_c; cd05340 444450004964 NADP binding site [chemical binding]; other site 444450004965 homodimer interface [polypeptide binding]; other site 444450004966 active site 444450004967 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 444450004968 putative inner membrane peptidase; Provisional; Region: PRK11778 444450004969 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 444450004970 tandem repeat interface [polypeptide binding]; other site 444450004971 oligomer interface [polypeptide binding]; other site 444450004972 active site residues [active] 444450004973 hypothetical protein; Provisional; Region: PRK11037 444450004974 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 444450004975 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 444450004976 active site 444450004977 interdomain interaction site; other site 444450004978 putative metal-binding site [ion binding]; other site 444450004979 nucleotide binding site [chemical binding]; other site 444450004980 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 444450004981 domain I; other site 444450004982 DNA binding groove [nucleotide binding] 444450004983 phosphate binding site [ion binding]; other site 444450004984 domain II; other site 444450004985 domain III; other site 444450004986 nucleotide binding site [chemical binding]; other site 444450004987 catalytic site [active] 444450004988 domain IV; other site 444450004989 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 444450004990 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 444450004991 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 444450004992 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 444450004993 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 444450004994 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 444450004995 The C-terminal substrate domain of LysR-type transcriptional regulator CysB contains type 2 periplasmic binding fold; Region: PBP2_CysB; cd08443 444450004996 substrate binding site [chemical binding]; other site 444450004997 putative dimerization interface [polypeptide binding]; other site 444450004998 aconitate hydratase; Validated; Region: PRK09277 444450004999 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 444450005000 substrate binding site [chemical binding]; other site 444450005001 ligand binding site [chemical binding]; other site 444450005002 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 444450005003 substrate binding site [chemical binding]; other site 444450005004 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 444450005005 dimerization interface [polypeptide binding]; other site 444450005006 active site 444450005007 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 444450005008 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 444450005009 active site 444450005010 Predicted membrane protein [Function unknown]; Region: COG3771 444450005011 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]; Region: COG2956 444450005012 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 444450005013 TPR motif; other site 444450005014 binding surface 444450005015 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 444450005016 binding surface 444450005017 TPR motif; other site 444450005018 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 444450005019 active site 444450005020 dimer interface [polypeptide binding]; other site 444450005021 translation initiation factor Sui1; Validated; Region: PRK06824 444450005022 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 444450005023 putative rRNA binding site [nucleotide binding]; other site 444450005024 lipoprotein; Provisional; Region: PRK10540 444450005025 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 444450005026 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 444450005027 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 444450005028 hypothetical protein; Provisional; Region: PRK13658 444450005029 exoribonuclease II; Provisional; Region: PRK05054 444450005030 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 444450005031 RNB domain; Region: RNB; pfam00773 444450005032 S1 RNA binding domain; Region: S1; pfam00575 444450005033 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4950 444450005034 Uncharacterized conserved protein [Function unknown]; Region: COG2128 444450005035 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07984 444450005036 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 444450005037 NAD binding site [chemical binding]; other site 444450005038 homotetramer interface [polypeptide binding]; other site 444450005039 homodimer interface [polypeptide binding]; other site 444450005040 substrate binding site [chemical binding]; other site 444450005041 active site 444450005042 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 444450005043 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 444450005044 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 444450005045 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 444450005046 HlyD family secretion protein; Region: HlyD_3; pfam13437 444450005047 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 444450005048 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 444450005049 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 444450005050 putative substrate translocation pore; other site 444450005051 antimicrobial peptide ABC system ATP-binding protein SapF; Provisional; Region: PRK15112 444450005052 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 444450005053 Walker A/P-loop; other site 444450005054 ATP binding site [chemical binding]; other site 444450005055 Q-loop/lid; other site 444450005056 ABC transporter signature motif; other site 444450005057 Walker B; other site 444450005058 D-loop; other site 444450005059 H-loop/switch region; other site 444450005060 antimicrobial peptide ABC transporter ATP-binding protein; Provisional; Region: PRK15093 444450005061 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 444450005062 Walker A/P-loop; other site 444450005063 ATP binding site [chemical binding]; other site 444450005064 Q-loop/lid; other site 444450005065 ABC transporter signature motif; other site 444450005066 Walker B; other site 444450005067 D-loop; other site 444450005068 H-loop/switch region; other site 444450005069 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 444450005070 antimicrobial peptide ABC transporter permease SapC; Provisional; Region: PRK15111 444450005071 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 444450005072 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 444450005073 dimer interface [polypeptide binding]; other site 444450005074 conserved gate region; other site 444450005075 putative PBP binding loops; other site 444450005076 ABC-ATPase subunit interface; other site 444450005077 antimicrobial peptide ABC transporter permease SapB; Provisional; Region: PRK15110 444450005078 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 444450005079 dimer interface [polypeptide binding]; other site 444450005080 conserved gate region; other site 444450005081 putative PBP binding loops; other site 444450005082 ABC-ATPase subunit interface; other site 444450005083 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 444450005084 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 444450005085 peptide binding site [polypeptide binding]; other site 444450005086 Protein of unknown function (DUF2543); Region: DUF2543; pfam10820 444450005087 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 444450005088 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 444450005089 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 444450005090 gamma-glutamyl-gamma-aminobutyrate hydrolase; Provisional; Region: puuD; PRK11366 444450005091 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 444450005092 catalytic triad [active] 444450005093 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 444450005094 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 444450005095 non-specific DNA binding site [nucleotide binding]; other site 444450005096 salt bridge; other site 444450005097 sequence-specific DNA binding site [nucleotide binding]; other site 444450005098 Cupin domain; Region: Cupin_2; pfam07883 444450005099 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 444450005100 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 444450005101 NAD(P) binding site [chemical binding]; other site 444450005102 catalytic residues [active] 444450005103 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 444450005104 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 444450005105 4-aminobutyrate transaminase; Provisional; Region: PRK09792 444450005106 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 444450005107 inhibitor-cofactor binding pocket; inhibition site 444450005108 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444450005109 catalytic residue [active] 444450005110 phage shock protein operon transcriptional activator; Provisional; Region: pspF; PRK11608 444450005111 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 444450005112 Walker A motif; other site 444450005113 ATP binding site [chemical binding]; other site 444450005114 Walker B motif; other site 444450005115 arginine finger; other site 444450005116 phage shock protein PspA; Provisional; Region: PRK10698 444450005117 phage shock protein B; Provisional; Region: pspB; PRK09458 444450005118 DNA-binding transcriptional activator PspC; Provisional; Region: PRK10697 444450005119 phage shock protein C; Region: phageshock_pspC; TIGR02978 444450005120 peripheral inner membrane phage-shock protein; Provisional; Region: PRK10497 444450005121 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 444450005122 active site residue [active] 444450005123 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 444450005124 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 444450005125 dimer interface [polypeptide binding]; other site 444450005126 conserved gate region; other site 444450005127 putative PBP binding loops; other site 444450005128 ABC-ATPase subunit interface; other site 444450005129 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 444450005130 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 444450005131 dimer interface [polypeptide binding]; other site 444450005132 conserved gate region; other site 444450005133 putative PBP binding loops; other site 444450005134 ABC-ATPase subunit interface; other site 444450005135 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 444450005136 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 444450005137 putative NAD(P) binding site [chemical binding]; other site 444450005138 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 444450005139 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 444450005140 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 444450005141 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 444450005142 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 444450005143 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 444450005144 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 444450005145 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 444450005146 beta-phosphoglucomutase; Region: bPGM; TIGR01990 444450005147 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 444450005148 motif II; other site 444450005149 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 444450005150 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 444450005151 Walker A/P-loop; other site 444450005152 ATP binding site [chemical binding]; other site 444450005153 Q-loop/lid; other site 444450005154 ABC transporter signature motif; other site 444450005155 Walker B; other site 444450005156 D-loop; other site 444450005157 H-loop/switch region; other site 444450005158 TOBE domain; Region: TOBE_2; pfam08402 444450005159 Outer membrane protein G (OmpG); Region: Porin_OmpG; pfam09381 444450005160 Transcriptional regulators [Transcription]; Region: PurR; COG1609 444450005161 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 444450005162 DNA binding site [nucleotide binding] 444450005163 domain linker motif; other site 444450005164 Ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors; Region: PBP1_ycjW_transcription_regulator_like; cd06294 444450005165 putative dimerization interface [polypeptide binding]; other site 444450005166 putative ligand binding site [chemical binding]; other site 444450005167 Predicted ATPase [General function prediction only]; Region: COG3106 444450005168 hypothetical protein; Provisional; Region: PRK05415 444450005169 TIGR01620 family protein; Region: hyp_HI0043 444450005170 DNA-binding transcriptional regulator TyrR; Provisional; Region: PRK10820 444450005171 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 444450005172 putative aromatic amino acid binding site; other site 444450005173 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 444450005174 Walker A motif; other site 444450005175 ATP binding site [chemical binding]; other site 444450005176 Walker B motif; other site 444450005177 arginine finger; other site 444450005178 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 444450005179 dimer interface [polypeptide binding]; other site 444450005180 catalytic triad [active] 444450005181 peroxidatic and resolving cysteines [active] 444450005182 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 444450005183 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 444450005184 active site 444450005185 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 444450005186 Peptidase M14-like domain of Escherichia coli Murein Peptide Amidase A and related proteins; Region: M14_MpaA_like; cd06904 444450005187 putative active site [active] 444450005188 Zn binding site [ion binding]; other site 444450005189 atypical (a) SDRs, subgroup 6; Region: SDR_a6; cd05267 444450005190 NADH(P)-binding; Region: NAD_binding_10; pfam13460 444450005191 putative NAD(P) binding site [chemical binding]; other site 444450005192 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 444450005193 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 444450005194 Transcriptional regulator [Transcription]; Region: LysR; COG0583 444450005195 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 444450005196 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 444450005197 putative effector binding pocket; other site 444450005198 putative dimerization interface [polypeptide binding]; other site 444450005199 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 444450005200 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 444450005201 peptide binding site [polypeptide binding]; other site 444450005202 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 444450005203 Mechanosensitive ion channel; Region: MS_channel; pfam00924 444450005204 Protein of unknown function (DUF2534); Region: DUF2534; pfam10749 444450005205 universal stress protein UspE; Provisional; Region: PRK11175 444450005206 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 444450005207 Ligand Binding Site [chemical binding]; other site 444450005208 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 444450005209 Ligand Binding Site [chemical binding]; other site 444450005210 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 444450005211 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 444450005212 ligand binding site [chemical binding]; other site 444450005213 flexible hinge region; other site 444450005214 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 444450005215 putative switch regulator; other site 444450005216 non-specific DNA interactions [nucleotide binding]; other site 444450005217 DNA binding site [nucleotide binding] 444450005218 sequence specific DNA binding site [nucleotide binding]; other site 444450005219 putative cAMP binding site [chemical binding]; other site 444450005220 O-6-alkylguanine-DNA:cysteine-protein methyltransferase; Provisional; Region: PRK10286 444450005221 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 444450005222 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 444450005223 DNA binding site [nucleotide binding] 444450005224 active site 444450005225 putative aminobenzoyl-glutamate transporter; Provisional; Region: abgT; PRK11339 444450005226 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 444450005227 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 444450005228 amidohydrolase; Region: amidohydrolases; TIGR01891 444450005229 putative metal binding site [ion binding]; other site 444450005230 M20 Peptidases Aminoacyclase-1 indole-3-acetic-L-aspartic acid hydrolase from bacteria and archaea; Region: M20_Acy1_IAAspH_bact; cd05665 444450005231 amidohydrolase; Region: amidohydrolases; TIGR01891 444450005232 putative metal binding site [ion binding]; other site 444450005233 dimer interface [polypeptide binding]; other site 444450005234 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 444450005235 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 444450005236 The C-terminal substrate binding domain of LysR-type transcriptional regulator TdcA, which is involved in the degradation of L-serine and L-threonine, contains the type 2 periplasmic binding fold; Region: PBP2_TdcA; cd08418 444450005237 putative substrate binding pocket [chemical binding]; other site 444450005238 putative dimerization interface [polypeptide binding]; other site 444450005239 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 444450005240 Smr domain; Region: Smr; pfam01713 444450005241 PAS domain S-box; Region: sensory_box; TIGR00229 444450005242 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 444450005243 putative active site [active] 444450005244 heme pocket [chemical binding]; other site 444450005245 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 444450005246 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 444450005247 metal binding site [ion binding]; metal-binding site 444450005248 active site 444450005249 I-site; other site 444450005250 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 444450005251 Salmonella typhimurium Zn2+ transporter ZntB-like subgroup; Region: ZntB-like_1; cd12833 444450005252 Cl binding site [ion binding]; other site 444450005253 oligomer interface [polypeptide binding]; other site 444450005254 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 444450005255 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 444450005256 ATP binding site [chemical binding]; other site 444450005257 Mg++ binding site [ion binding]; other site 444450005258 motif III; other site 444450005259 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 444450005260 nucleotide binding region [chemical binding]; other site 444450005261 ATP-binding site [chemical binding]; other site 444450005262 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 444450005263 putative RNA binding site [nucleotide binding]; other site 444450005264 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 444450005265 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine 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_II; cd01993 444450005266 Ligand Binding Site [chemical binding]; other site 444450005267 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 444450005268 Ligand Binding Site [chemical binding]; other site 444450005269 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 444450005270 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 444450005271 dimer interface [polypeptide binding]; other site 444450005272 PYR/PP interface [polypeptide binding]; other site 444450005273 TPP binding site [chemical binding]; other site 444450005274 substrate binding site [chemical binding]; other site 444450005275 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 444450005276 Domain of unknown function; Region: EKR; smart00890 444450005277 4Fe-4S binding domain; Region: Fer4_6; pfam12837 444450005278 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 444450005279 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 444450005280 TPP-binding site [chemical binding]; other site 444450005281 dimer interface [polypeptide binding]; other site 444450005282 Domain of unknown function (DUF333); Region: DUF333; pfam03891 444450005283 heat-inducible protein; Provisional; Region: PRK10449 444450005284 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 444450005285 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 444450005286 putative ligand binding site [chemical binding]; other site 444450005287 putative NAD binding site [chemical binding]; other site 444450005288 catalytic site [active] 444450005289 hypothetical protein; Provisional; Region: PRK10695 444450005290 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 444450005291 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3784 444450005292 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 444450005293 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 444450005294 active site 444450005295 catalytic tetrad [active] 444450005296 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 444450005297 Protein of unknown function (DUF2773); Region: DUF2773; pfam10971 444450005298 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 444450005299 Predicted CDP-diglyceride synthetase/phosphatidate cytidylyltransferase [General function prediction only]; Region: COG4589 444450005300 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 444450005301 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 444450005302 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 444450005303 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 444450005304 S-adenosylmethionine binding site [chemical binding]; other site 444450005305 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 444450005306 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 444450005307 active site 444450005308 Dual specificity phosphatase, catalytic domain; Region: DSPc; smart00195 444450005309 active site 444450005310 catalytic residues [active] 444450005311 azoreductase; Reviewed; Region: PRK00170 444450005312 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 444450005313 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 444450005314 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 444450005315 ATP binding site [chemical binding]; other site 444450005316 putative Mg++ binding site [ion binding]; other site 444450005317 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 444450005318 nucleotide binding region [chemical binding]; other site 444450005319 ATP-binding site [chemical binding]; other site 444450005320 Helicase associated domain (HA2); Region: HA2; pfam04408 444450005321 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 444450005322 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 444450005323 Uncharacterized conserved protein [Function unknown]; Region: COG1434 444450005324 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 444450005325 putative active site [active] 444450005326 Escherichia coli lactaldehyde dehydrogenase AldA-like; Region: ALDH_LactADH-AldA; cd07088 444450005327 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 444450005328 NAD binding site [chemical binding]; other site 444450005329 catalytic residues [active] 444450005330 substrate binding site [chemical binding]; other site 444450005331 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 444450005332 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 444450005333 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 444450005334 cytochrome b561; Provisional; Region: PRK11513 444450005335 hypothetical protein; Provisional; Region: PRK10040 444450005336 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 444450005337 dimer interface [polypeptide binding]; other site 444450005338 ligand binding site [chemical binding]; other site 444450005339 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 444450005340 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 444450005341 dimerization interface [polypeptide binding]; other site 444450005342 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 444450005343 dimer interface [polypeptide binding]; other site 444450005344 putative CheW interface [polypeptide binding]; other site 444450005345 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 444450005346 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 444450005347 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 444450005348 dimerization interface [polypeptide binding]; other site 444450005349 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5383 444450005350 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5383 444450005351 Periplasmic glucans biosynthesis protein [Inorganic ion transport and metabolism]; Region: MdoG; COG3131 444450005352 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 444450005353 hypothetical protein; Provisional; Region: PRK11415 444450005354 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 444450005355 putative trimer interface [polypeptide binding]; other site 444450005356 putative CoA binding site [chemical binding]; other site 444450005357 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; cd00208 444450005358 putative trimer interface [polypeptide binding]; other site 444450005359 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 444450005360 putative CoA binding site [chemical binding]; other site 444450005361 putative trimer interface [polypeptide binding]; other site 444450005362 putative CoA binding site [chemical binding]; other site 444450005363 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 444450005364 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes TehA protein; Region: TDT_TehA; cd09324 444450005365 gating phenylalanine in ion channel; other site 444450005366 tellurite resistance protein TehB; Provisional; Region: PRK11207 444450005367 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 444450005368 S-adenosylmethionine binding site [chemical binding]; other site 444450005369 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 444450005370 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 444450005371 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 444450005372 non-specific DNA binding site [nucleotide binding]; other site 444450005373 salt bridge; other site 444450005374 sequence-specific DNA binding site [nucleotide binding]; other site 444450005375 Cupin domain; Region: Cupin_2; pfam07883 444450005376 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 444450005377 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 444450005378 Peptidase family U32; Region: Peptidase_U32; pfam01136 444450005379 Collagenase; Region: DUF3656; pfam12392 444450005380 Protein of unknown function (DUF2554); Region: DUF2554; pfam10829 444450005381 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 444450005382 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 444450005383 sequence-specific DNA binding site [nucleotide binding]; other site 444450005384 salt bridge; other site 444450005385 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 444450005386 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 444450005387 DNA-binding site [nucleotide binding]; DNA binding site 444450005388 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 444450005389 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444450005390 homodimer interface [polypeptide binding]; other site 444450005391 catalytic residue [active] 444450005392 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 444450005393 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 444450005394 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 444450005395 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 444450005396 Walker A/P-loop; other site 444450005397 ATP binding site [chemical binding]; other site 444450005398 Q-loop/lid; other site 444450005399 ABC transporter signature motif; other site 444450005400 Walker B; other site 444450005401 D-loop; other site 444450005402 H-loop/switch region; other site 444450005403 TOBE domain; Region: TOBE_2; pfam08402 444450005404 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 444450005405 dimer interface [polypeptide binding]; other site 444450005406 conserved gate region; other site 444450005407 putative PBP binding loops; other site 444450005408 ABC-ATPase subunit interface; other site 444450005409 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 444450005410 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 444450005411 ABC-ATPase subunit interface; other site 444450005412 gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK13473 444450005413 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 444450005414 tetrameric interface [polypeptide binding]; other site 444450005415 NAD binding site [chemical binding]; other site 444450005416 catalytic residues [active] 444450005417 substrate binding site [chemical binding]; other site 444450005418 Protein of unknown function (DUF2566); Region: DUF2566; pfam10753 444450005419 Protein of unknown function (DUF2526); Region: DUF2526; pfam10735 444450005420 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3238 444450005421 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 444450005422 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 444450005423 Coenzyme A binding pocket [chemical binding]; other site 444450005424 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 444450005425 Prostaglandin dehydrogenases; Region: PGDH; cd05288 444450005426 NAD(P) binding site [chemical binding]; other site 444450005427 substrate binding site [chemical binding]; other site 444450005428 dimer interface [polypeptide binding]; other site 444450005429 colanic acid/biofilm transcriptional regulator; Provisional; Region: PRK11414 444450005430 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 444450005431 DNA-binding site [nucleotide binding]; DNA binding site 444450005432 FCD domain; Region: FCD; pfam07729 444450005433 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 444450005434 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 444450005435 N-terminal plug; other site 444450005436 ligand-binding site [chemical binding]; other site 444450005437 PQQ-like domain; Region: PQQ_2; pfam13360 444450005438 L-asparagine permease; Provisional; Region: PRK15049 444450005439 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 444450005440 C-terminal domain interface [polypeptide binding]; other site 444450005441 GSH binding site (G-site) [chemical binding]; other site 444450005442 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 444450005443 dimer interface [polypeptide binding]; other site 444450005444 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 444450005445 dimer interface [polypeptide binding]; other site 444450005446 N-terminal domain interface [polypeptide binding]; other site 444450005447 substrate binding pocket (H-site) [chemical binding]; other site 444450005448 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 444450005449 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 444450005450 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 444450005451 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 444450005452 PAAR motif; Region: PAAR_motif; cl15808 444450005453 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 444450005454 RHS Repeat; Region: RHS_repeat; pfam05593 444450005455 RHS Repeat; Region: RHS_repeat; pfam05593 444450005456 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 444450005457 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 444450005458 RHS Repeat; Region: RHS_repeat; pfam05593 444450005459 RHS protein; Region: RHS; pfam03527 444450005460 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 444450005461 4-oxalocrotonate tautomerase; Provisional; Region: PRK01271 444450005462 active site 1 [active] 444450005463 dimer interface [polypeptide binding]; other site 444450005464 hexamer interface [polypeptide binding]; other site 444450005465 active site 2 [active] 444450005466 hypothetical protein; Provisional; Region: PRK10281 444450005467 respiratory nitrate reductase, gamma subunit; Region: narI; TIGR00351 444450005468 nitrate reductase 2 subunit delta; Provisional; Region: PRK15054 444450005469 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 444450005470 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 444450005471 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 444450005472 [4Fe-4S] binding site [ion binding]; other site 444450005473 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 444450005474 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 444450005475 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 444450005476 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 444450005477 molybdopterin cofactor binding site; other site 444450005478 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 444450005479 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 444450005480 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 444450005481 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 444450005482 trimer interface [polypeptide binding]; other site 444450005483 eyelet of channel; other site 444450005484 aromatic amino acid exporter; Provisional; Region: PRK11689 444450005485 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 444450005486 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 444450005487 formate dehydrogenase-N subunit gamma; Provisional; Region: PRK10179 444450005488 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 444450005489 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 444450005490 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 444450005491 non-specific DNA binding site [nucleotide binding]; other site 444450005492 salt bridge; other site 444450005493 sequence-specific DNA binding site [nucleotide binding]; other site 444450005494 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 444450005495 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 444450005496 NAD binding site [chemical binding]; other site 444450005497 substrate binding site [chemical binding]; other site 444450005498 catalytic Zn binding site [ion binding]; other site 444450005499 tetramer interface [polypeptide binding]; other site 444450005500 structural Zn binding site [ion binding]; other site 444450005501 malate dehydrogenase; Provisional; Region: PRK13529 444450005502 Malic enzyme, N-terminal domain; Region: malic; pfam00390 444450005503 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 444450005504 NAD(P) binding site [chemical binding]; other site 444450005505 30S ribosomal subunit S22; Reviewed; Region: rpsV; PRK10057 444450005506 Putative biofilm-dependent modulation protein; Region: BDM; cl11581 444450005507 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 444450005508 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 444450005509 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 444450005510 Walker A/P-loop; other site 444450005511 ATP binding site [chemical binding]; other site 444450005512 Q-loop/lid; other site 444450005513 ABC transporter signature motif; other site 444450005514 Walker B; other site 444450005515 D-loop; other site 444450005516 H-loop/switch region; other site 444450005517 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 444450005518 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 444450005519 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 444450005520 Walker A/P-loop; other site 444450005521 ATP binding site [chemical binding]; other site 444450005522 Q-loop/lid; other site 444450005523 ABC transporter signature motif; other site 444450005524 Walker B; other site 444450005525 D-loop; other site 444450005526 H-loop/switch region; other site 444450005527 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 444450005528 D-ala-D-ala transporter subunit; Provisional; Region: PRK09881 444450005529 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 444450005530 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 444450005531 dimer interface [polypeptide binding]; other site 444450005532 conserved gate region; other site 444450005533 putative PBP binding loops; other site 444450005534 ABC-ATPase subunit interface; other site 444450005535 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 444450005536 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 444450005537 dimer interface [polypeptide binding]; other site 444450005538 conserved gate region; other site 444450005539 putative PBP binding loops; other site 444450005540 ABC-ATPase subunit interface; other site 444450005541 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 444450005542 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_7; cd08512 444450005543 D-alanyl-D-alanine dipeptidase; Provisional; Region: PRK10178 444450005544 Globin domain present in Globin-Coupled-Sensors (GCS). These domains detect changes in intracellular concentrations of oxygen, carbon monoxyde, or nitrous oxide, which result in aerotaxis and/or gene regulation. One subgroup, the HemATs, are aerotactic...; Region: sensor_globin; cd01068 444450005545 heme-binding site [chemical binding]; other site 444450005546 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 444450005547 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 444450005548 metal binding site [ion binding]; metal-binding site 444450005549 active site 444450005550 I-site; other site 444450005551 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 444450005552 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1649 444450005553 glutamate:gamma-aminobutyrate antiporter; Region: 2A0307_GadC; TIGR00910 444450005554 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 444450005555 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444450005556 catalytic residue [active] 444450005557 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 444450005558 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 444450005559 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 444450005560 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 444450005561 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 444450005562 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 444450005563 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 444450005564 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 444450005565 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 444450005566 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 444450005567 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 444450005568 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 444450005569 FeS/SAM binding site; other site 444450005570 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 444450005571 transcriptional regulator YdeO; Provisional; Region: PRK09940 444450005572 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 444450005573 putative oxidoreductase; Provisional; Region: PRK09939 444450005574 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 444450005575 putative molybdopterin cofactor binding site [chemical binding]; other site 444450005576 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 444450005577 putative molybdopterin cofactor binding site; other site 444450005578 Mannose binding domain of FimH and related proteins; Region: FimH_man-bind; cd10466 444450005579 mannosyl binding site [chemical binding]; other site 444450005580 Fimbrial protein; Region: Fimbrial; pfam00419 444450005581 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 444450005582 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 444450005583 PapC N-terminal domain; Region: PapC_N; pfam13954 444450005584 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 444450005585 PapC C-terminal domain; Region: PapC_C; pfam13953 444450005586 fimbrial chaperone protein FimC; Provisional; Region: PRK15195 444450005587 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 444450005588 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 444450005589 Fimbrial protein; Region: Fimbrial; cl01416 444450005590 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 444450005591 HipA-like N-terminal domain; Region: HipA_N; pfam07805 444450005592 HipA-like C-terminal domain; Region: HipA_C; pfam07804 444450005593 putative lipoprotein; Provisional; Region: PRK09707 444450005594 autoinducer-2 (AI-2) kinase; Provisional; Region: PRK10939 444450005595 Autoinducer-2 kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_AI-2K; cd07775 444450005596 putative N- and C-terminal domain interface [polypeptide binding]; other site 444450005597 putative active site [active] 444450005598 putative MgATP binding site [chemical binding]; other site 444450005599 catalytic site [active] 444450005600 metal binding site [ion binding]; metal-binding site 444450005601 putative carbohydrate binding site [chemical binding]; other site 444450005602 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 444450005603 transcriptional regulator LsrR; Provisional; Region: PRK15418 444450005604 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 444450005605 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 444450005606 autoinducer 2 ABC transporter ATP-binding protein LsrA; Provisional; Region: PRK15439 444450005607 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 444450005608 Walker A/P-loop; other site 444450005609 ATP binding site [chemical binding]; other site 444450005610 Q-loop/lid; other site 444450005611 ABC transporter signature motif; other site 444450005612 Walker B; other site 444450005613 D-loop; other site 444450005614 H-loop/switch region; other site 444450005615 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 444450005616 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 444450005617 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 444450005618 TM-ABC transporter signature motif; other site 444450005619 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 444450005620 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 444450005621 TM-ABC transporter signature motif; other site 444450005622 autoinducer 2-binding protein lsrB; Provisional; Region: PRK15408 444450005623 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 444450005624 ligand binding site [chemical binding]; other site 444450005625 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 444450005626 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 444450005627 putative active site; other site 444450005628 catalytic residue [active] 444450005629 autoinducer-2 (AI-2) modifying protein LsrG; Provisional; Region: PRK10486 444450005630 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 444450005631 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 444450005632 S-adenosylmethionine binding site [chemical binding]; other site 444450005633 Predicted membrane protein [Function unknown]; Region: COG3781 444450005634 altronate oxidoreductase; Provisional; Region: PRK03643 444450005635 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 444450005636 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 444450005637 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 444450005638 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 444450005639 metal binding site [ion binding]; metal-binding site 444450005640 active site 444450005641 I-site; other site 444450005642 Domain of unknown function (DUF4186); Region: DUF4186; pfam13811 444450005643 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 444450005644 glutaminase; Provisional; Region: PRK00971 444450005645 putative succinate semialdehyde dehydrogenase; Provisional; Region: PRK13968 444450005646 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 444450005647 NAD(P) binding site [chemical binding]; other site 444450005648 catalytic residues [active] 444450005649 Transcriptional regulator [Transcription]; Region: LysR; COG0583 444450005650 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 444450005651 The C-terminal substrate binding domain of LysR-type transcriptional regulators, YofA and SoxR, contains the type 2 periplasmic binding fold; Region: PBP2_YofA_SoxR_like; cd08442 444450005652 putative dimerization interface [polypeptide binding]; other site 444450005653 putative arabinose transporter; Provisional; Region: PRK03545 444450005654 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 444450005655 putative substrate translocation pore; other site 444450005656 inner membrane protein; Provisional; Region: PRK10995 444450005657 DNA-binding transcriptional repressor MarR; Provisional; Region: PRK11512 444450005658 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 444450005659 DNA-binding transcriptional activator MarA; Provisional; Region: PRK11511 444450005660 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 444450005661 hypothetical protein; Provisional; Region: PRK10106 444450005662 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 444450005663 EamA-like transporter family; Region: EamA; pfam00892 444450005664 EamA-like transporter family; Region: EamA; pfam00892 444450005665 putative transporter; Provisional; Region: PRK10054 444450005666 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 444450005667 putative substrate translocation pore; other site 444450005668 Member of the Rhodanese Homology Domain superfamily. This CD includes the putative rhodanese-like protein, Psp2, of Yersinia pestis biovar Medievalis and other similar uncharacterized proteins; Region: RHOD_PspE2; cd01521 444450005669 active site residue [active] 444450005670 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 444450005671 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 444450005672 conserved cys residue [active] 444450005673 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 444450005674 diguanylate cyclase; Provisional; Region: PRK09894 444450005675 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 444450005676 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 444450005677 metal binding site [ion binding]; metal-binding site 444450005678 active site 444450005679 I-site; other site 444450005680 hypothetical protein; Provisional; Region: PRK10053 444450005681 hypothetical protein; Validated; Region: PRK03657 444450005682 dipeptidyl carboxypeptidase II; Provisional; Region: PRK10280 444450005683 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 444450005684 active site 444450005685 Zn binding site [ion binding]; other site 444450005686 malonic semialdehyde reductase; Provisional; Region: PRK10538 444450005687 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 444450005688 putative NAD(P) binding site [chemical binding]; other site 444450005689 homodimer interface [polypeptide binding]; other site 444450005690 homotetramer interface [polypeptide binding]; other site 444450005691 active site 444450005692 Transcriptional regulators [Transcription]; Region: GntR; COG1802 444450005693 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 444450005694 DNA-binding site [nucleotide binding]; DNA binding site 444450005695 FCD domain; Region: FCD; pfam07729 444450005696 putative selenium-binding protein YdfZ; Region: YdfZ_fam; TIGR03318 444450005697 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 444450005698 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 444450005699 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 444450005700 metabolite-proton symporter; Region: 2A0106; TIGR00883 444450005701 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 444450005702 putative substrate translocation pore; other site 444450005703 DinI-like family; Region: DinI; pfam06183 444450005704 Protein of unknown function (DUF1076); Region: DUF1076; pfam06416 444450005705 Protein of unknown function (DUF1076); Region: DUF1076; pfam06416 444450005706 Protein of unknown function (DUF1076); Region: DUF1076; pfam06416 444450005707 Putative prophage tail fibre C-terminus; Region: Phage_fiber_C; pfam06820 444450005708 Prophage tail fibre N-terminal; Region: phage_tail_N; pfam08400 444450005709 Putative prophage tail fibre C-terminus; Region: Phage_fiber_C; pfam06820 444450005710 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 444450005711 Phage-related protein, tail component [Function unknown]; Region: COG4733 444450005712 Putative phage tail protein; Region: Phage-tail_3; pfam13550 444450005713 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 444450005714 Interdomain contacts; other site 444450005715 Cytokine receptor motif; other site 444450005716 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 444450005717 Fibronectin type III protein; Region: DUF3672; pfam12421 444450005718 Phage-related protein, tail component [Function unknown]; Region: COG4733 444450005719 Putative phage tail protein; Region: Phage-tail_3; pfam13550 444450005720 Phage-related protein, tail component [Function unknown]; Region: COG4723 444450005721 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) found in proteins also containing NlpC/P60 domains; Region: MPN_NLPC_P60; cd08073 444450005722 MPN+ (JAMM) motif; other site 444450005723 Zinc-binding site [ion binding]; other site 444450005724 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 444450005725 NlpC/P60 family; Region: NLPC_P60; cl17555 444450005726 Phage-related protein [Function unknown]; Region: gp18; COG4672 444450005727 Phage-related protein [Function unknown]; Region: COG4718 444450005728 Phage-related minor tail protein [Function unknown]; Region: COG5281 444450005729 tape measure domain; Region: tape_meas_nterm; TIGR02675 444450005730 Tail length tape measure protein; Region: Phage_HK97_TLTM; pfam06120 444450005731 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 444450005732 Protein of unknown function (DUF4035); Region: DUF4035; pfam13227 444450005733 Phage tail assembly chaperone; Region: Phage_TAC; pfam06222 444450005734 Immunoglobulin I-set domain; Region: I-set; pfam07679 444450005735 Immunoglobulin domain; Region: Ig_2; pfam13895 444450005736 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 444450005737 phage protein, HK97 gp10 family; Region: phge_HK97_gp10; TIGR01725 444450005738 Bacteriophage head-tail adaptor [General function prediction only]; Region: COG5614 444450005739 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 444450005740 oligomerization interface [polypeptide binding]; other site 444450005741 Phage capsid family; Region: Phage_capsid; pfam05065 444450005742 Protein of unknown function (DUF1327); Region: DUF1327; pfam07041 444450005743 Lysis protein S; Region: Lysis_S; pfam04971 444450005744 Domain of unknown function (DUF1737); Region: DUF1737; pfam08410 444450005745 Domain of unknown function (DUF303); Region: DUF303; pfam03629 444450005746 Protein of unknown function (DUF3927); Region: DUF3927; pfam13064 444450005747 tellurite resistance protein terB; Region: terB; cd07176 444450005748 putative metal binding site [ion binding]; other site 444450005749 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 444450005750 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 444450005751 Protein of unknown function (DUF1133); Region: DUF1133; pfam06576 444450005752 Protein of unknown function (DUF968); Region: DUF968; pfam06147 444450005753 Periplasmic protein with OB-fold [Function unknown]; Region: COG3111 444450005754 Protein of unknown function (DUF551); Region: DUF551; pfam04448 444450005755 Protein of unknown function (DUF4014); Region: DUF4014; pfam13198 444450005756 Uncharacterized protein conserved in archaea [Function unknown]; Region: COG1710 444450005757 Protein of unknown function (DUF1627); Region: DUF1627; pfam07789 444450005758 primosomal protein DnaI; Provisional; Region: PRK02854 444450005759 Protein of unknown function (DUF1019); Region: DUF1019; pfam06254 444450005760 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 444450005761 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 444450005762 non-specific DNA binding site [nucleotide binding]; other site 444450005763 salt bridge; other site 444450005764 sequence-specific DNA binding site [nucleotide binding]; other site 444450005765 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 444450005766 Catalytic site [active] 444450005767 Protein of unknown function (DUF1391); Region: DUF1391; pfam07151 444450005768 DicB protein; Region: DicB; pfam05358 444450005769 Protein of unknown function (DUF1482); Region: DUF1482; pfam07358 444450005770 DinI-like family; Region: DinI; pfam06183 444450005771 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 444450005772 MULE transposase domain; Region: MULE; pfam10551 444450005773 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 444450005774 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 444450005775 Dimerization/Docking domain of Cyclic GMP-dependent Protein Kinase I; Region: DD_cGKI; cl17044 444450005776 homodimer interface [polypeptide binding]; other site 444450005777 putative GKAP docking site [polypeptide binding]; other site 444450005778 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 444450005779 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 444450005780 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 444450005781 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 444450005782 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 444450005783 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 444450005784 Protein of unknown function (DUF433); Region: DUF433; cl01030 444450005785 Protein of unknown function (DUF1076); Region: DUF1076; pfam06416 444450005786 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 444450005787 Protein of unknown function (DUF1076); Region: DUF1076; pfam06416 444450005788 Putative prophage tail fibre C-terminus; Region: Phage_fiber_C; pfam06820 444450005789 Prophage tail fibre N-terminal; Region: phage_tail_N; pfam08400 444450005790 Putative prophage tail fibre C-terminus; Region: Phage_fiber_C; pfam06820 444450005791 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 444450005792 Phage minor tail protein L; Region: Phage_tail_L; cl01908 444450005793 Phage-related protein [Function unknown]; Region: COG4718 444450005794 Phage-related minor tail protein [Function unknown]; Region: COG5281 444450005795 tape measure domain; Region: tape_meas_nterm; TIGR02675 444450005796 Tail length tape measure protein; Region: Phage_HK97_TLTM; pfam06120 444450005797 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 444450005798 Protein of unknown function (DUF4035); Region: DUF4035; pfam13227 444450005799 Phage tail assembly chaperone; Region: Phage_TAC; pfam06222 444450005800 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 444450005801 phage protein, HK97 gp10 family; Region: phge_HK97_gp10; TIGR01725 444450005802 Bacteriophage head-tail adaptor [General function prediction only]; Region: COG5614 444450005803 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA; cl00391 444450005804 zinc binding site [ion binding]; other site 444450005805 Phage-related protein [Function unknown]; Region: COG4695 444450005806 phage portal protein, HK97 family; Region: portal_HK97; TIGR01537 444450005807 Carbohydrate binding domain; Region: CBM_5_12; pfam02839 444450005808 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 444450005809 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 444450005810 Phage capsid family; Region: Phage_capsid; pfam05065 444450005811 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 444450005812 Phage terminase, small subunit [DNA replication, recombination, and repair]; Region: XtmA; COG3728 444450005813 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 444450005814 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 444450005815 active site 444450005816 Domain of unknown function (DUF3950); Region: DUF3950; pfam13132 444450005817 Bacteriophage lysis protein; Region: Phage_lysis; pfam03245 444450005818 P22_AR N-terminal domain; Region: P22_AR_N; pfam10547 444450005819 ORF11CD3 domain; Region: ORF11CD3; pfam10549 444450005820 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 444450005821 catalytic residues [active] 444450005822 Protein of unknown function (DUF1327); Region: DUF1327; pfam07041 444450005823 Lysis protein S; Region: Lysis_S; pfam04971 444450005824 Domain of unknown function (DUF1737); Region: DUF1737; pfam08410 444450005825 Domain of unknown function (DUF303); Region: DUF303; pfam03629 444450005826 Protein of unknown function (DUF3927); Region: DUF3927; pfam13064 444450005827 Phage antitermination protein Q; Region: Phage_antiter_Q; pfam06323 444450005828 Holliday junction resolvase [DNA replication, recombination, and repair]; Region: Rus; COG4570 444450005829 Protein of unknown function (DUF968); Region: DUF968; pfam06147 444450005830 Protein of unknown function (DUF551); Region: DUF551; pfam04448 444450005831 Bacterial protein of unknown function (DUF977); Region: DUF977; pfam06163 444450005832 putative replication protein; Provisional; Region: PRK12377 444450005833 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 444450005834 Walker A motif; other site 444450005835 ATP binding site [chemical binding]; other site 444450005836 Walker B motif; other site 444450005837 Helix-turn-helix domain; Region: HTH_36; pfam13730 444450005838 primosomal protein DnaI; Provisional; Region: PRK02854 444450005839 Protein of unknown function (DUF1019); Region: DUF1019; pfam06254 444450005840 transcriptional repressor DicA; Reviewed; Region: PRK09706 444450005841 DicB protein; Region: DicB; pfam05358 444450005842 Protein of unknown function (DUF1482); Region: DUF1482; pfam07358 444450005843 exonuclease VIII; Reviewed; Region: PRK09709 444450005844 Transposase; Region: HTH_Tnp_1; cl17663 444450005845 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 444450005846 putative transposase OrfB; Reviewed; Region: PHA02517 444450005847 HTH-like domain; Region: HTH_21; pfam13276 444450005848 Integrase core domain; Region: rve; pfam00665 444450005849 Integrase core domain; Region: rve_3; pfam13683 444450005850 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 444450005851 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 444450005852 active site 444450005853 catalytic site [active] 444450005854 substrate binding site [chemical binding]; other site 444450005855 Putative excisionase (DUF1233); Region: DUF1233; pfam06806 444450005856 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 444450005857 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 444450005858 hypothetical protein; Provisional; Region: PRK02237 444450005859 hypothetical protein; Provisional; Region: PRK13659 444450005860 spermidine N1-acetyltransferase; Provisional; Region: PRK15130 444450005861 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 444450005862 Coenzyme A binding pocket [chemical binding]; other site 444450005863 Uncharacterized protein family (UPF0257); Region: UPF0257; pfam06788 444450005864 Protein of unknown function (DUF1161); Region: DUF1161; pfam06649 444450005865 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 444450005866 This CD (MopB_DmsA-EC) includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_DmsA-EC; cd02770 444450005867 putative [Fe4-S4] binding site [ion binding]; other site 444450005868 putative molybdopterin cofactor binding site [chemical binding]; other site 444450005869 The MopB_CT_DmsA-EC CD includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_CT_DmsA-EC; cd02794 444450005870 putative molybdopterin cofactor binding site; other site 444450005871 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 444450005872 This CD (MopB_DmsA-EC) includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_DmsA-EC; cd02770 444450005873 putative [Fe4-S4] binding site [ion binding]; other site 444450005874 putative molybdopterin cofactor binding site [chemical binding]; other site 444450005875 The MopB_CT_DmsA-EC CD includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_CT_DmsA-EC; cd02794 444450005876 putative molybdopterin cofactor binding site; other site 444450005877 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 444450005878 4Fe-4S binding domain; Region: Fer4; cl02805 444450005879 DMSO reductase anchor subunit (DmsC); Region: DmsC; pfam04976 444450005880 twin-argninine leader-binding protein DmsD; Provisional; Region: PRK11621 444450005881 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 444450005882 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 444450005883 Cl- selectivity filter; other site 444450005884 Cl- binding residues [ion binding]; other site 444450005885 pore gating glutamate residue; other site 444450005886 dimer interface [polypeptide binding]; other site 444450005887 putative dithiobiotin synthetase; Provisional; Region: PRK12374 444450005888 AAA domain; Region: AAA_26; pfam13500 444450005889 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 444450005890 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 444450005891 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 444450005892 nucleotide binding site [chemical binding]; other site 444450005893 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 444450005894 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 444450005895 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 444450005896 dimerization interface [polypeptide binding]; other site 444450005897 substrate binding pocket [chemical binding]; other site 444450005898 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 444450005899 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 444450005900 putative substrate translocation pore; other site 444450005901 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]; Region: COG3591 444450005902 multidrug efflux system protein MdtI; Provisional; Region: PRK10650 444450005903 multidrug efflux system protein MdtJ; Provisional; Region: PRK10452 444450005904 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; PRK12287 444450005905 Domain of unknown function DUF20; Region: UPF0118; pfam01594 444450005906 pyridine nucleotide transhydrogenase; Provisional; Region: pntB; PRK09444 444450005907 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 444450005908 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 444450005909 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 444450005910 ligand binding site [chemical binding]; other site 444450005911 homodimer interface [polypeptide binding]; other site 444450005912 NAD(P) binding site [chemical binding]; other site 444450005913 trimer interface B [polypeptide binding]; other site 444450005914 trimer interface A [polypeptide binding]; other site 444450005915 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 444450005916 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 444450005917 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 444450005918 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 444450005919 transporter, basic amino acid/polyamine antiporter (APA) family; Region: 2A0302; TIGR00905 444450005920 Spore germination protein; Region: Spore_permease; cl17796 444450005921 dihydromonapterin reductase; Provisional; Region: PRK06483 444450005922 pteridine reductase (PR), classical (c) SDRs; Region: PR_SDR_c; cd05357 444450005923 NADP binding site [chemical binding]; other site 444450005924 substrate binding pocket [chemical binding]; other site 444450005925 active site 444450005926 GlpM protein; Region: GlpM; pfam06942 444450005927 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 444450005928 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 444450005929 active site 444450005930 phosphorylation site [posttranslational modification] 444450005931 intermolecular recognition site; other site 444450005932 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 444450005933 DNA binding site [nucleotide binding] 444450005934 sensor protein RstB; Provisional; Region: PRK10604 444450005935 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 444450005936 dimerization interface [polypeptide binding]; other site 444450005937 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 444450005938 dimer interface [polypeptide binding]; other site 444450005939 phosphorylation site [posttranslational modification] 444450005940 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 444450005941 ATP binding site [chemical binding]; other site 444450005942 Mg2+ binding site [ion binding]; other site 444450005943 G-X-G motif; other site 444450005944 DNA replication terminus site-binding protein; Provisional; Region: PRK02951 444450005945 fumarate hydratase; Reviewed; Region: fumC; PRK00485 444450005946 Class II fumarases; Region: Fumarase_classII; cd01362 444450005947 active site 444450005948 tetramer interface [polypeptide binding]; other site 444450005949 fumarate hydratase; Provisional; Region: PRK15389 444450005950 Tartrate dehydratase alpha subunit/Fumarate hydratase class I, N-terminal domain [Energy production and conversion]; Region: TtdA; COG1951 444450005951 Fumarase C-terminus; Region: Fumerase_C; pfam05683 444450005952 mannose-6-phosphate isomerase; Provisional; Region: PRK15131 444450005953 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 444450005954 mannose-6-phosphate isomerase, class I; Region: manA; TIGR00218 444450005955 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 444450005956 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 444450005957 glucuronide transporter; Provisional; Region: PRK09848 444450005958 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 444450005959 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 444450005960 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 444450005961 7-alpha-hydroxysteroid dehydrogenase; Validated; Region: PRK06113 444450005962 7 alpha-hydroxysteroid dehydrogenase (7 alpha-HSDH), classical (c) SDRs; Region: 7_alpha_HSDH_SDR_c; cd05365 444450005963 NAD binding site [chemical binding]; other site 444450005964 substrate binding site [chemical binding]; other site 444450005965 homotetramer interface [polypeptide binding]; other site 444450005966 homodimer interface [polypeptide binding]; other site 444450005967 active site 444450005968 DNA-binding transcriptional repressor MalI; Provisional; Region: PRK10014 444450005969 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 444450005970 DNA binding site [nucleotide binding] 444450005971 domain linker motif; other site 444450005972 Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria; Region: PBP1_MalI_like; cd06289 444450005973 putative dimerization interface [polypeptide binding]; other site 444450005974 putative ligand binding site [chemical binding]; other site 444450005975 bifunctional PTS system maltose and glucose-specific transporter subunits IICB; Provisional; Region: PRK10110 444450005976 PTS system, maltose and glucose-specific subfamily, IIC component; Region: pts-Glc; TIGR00852 444450005977 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 444450005978 active site turn [active] 444450005979 phosphorylation site [posttranslational modification] 444450005980 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 444450005981 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 444450005982 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444450005983 homodimer interface [polypeptide binding]; other site 444450005984 catalytic residue [active] 444450005985 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 444450005986 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 444450005987 active site 444450005988 purine riboside binding site [chemical binding]; other site 444450005989 putative oxidoreductase; Provisional; Region: PRK11579 444450005990 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 444450005991 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 444450005992 oriC-binding nucleoid-associated protein; Provisional; Region: PRK10391 444450005993 Protein of unknown function (DUF2569); Region: DUF2569; pfam10754 444450005994 electron transport complex protein RsxA; Provisional; Region: PRK05151 444450005995 electron transport complex protein RnfB; Provisional; Region: PRK05113 444450005996 Putative Fe-S cluster; Region: FeS; pfam04060 444450005997 4Fe-4S binding domain; Region: Fer4; pfam00037 444450005998 Predicted NADH:ubiquinone oxidoreductase, subunit RnfC [Energy production and conversion]; Region: RnfC; COG4656 444450005999 SLBB domain; Region: SLBB; pfam10531 444450006000 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 444450006001 electron transport complex protein RnfD; Reviewed; Region: rnfD; PRK00816 444450006002 electron transport complex protein RnfG; Validated; Region: PRK01908 444450006003 electron transport complex RsxE subunit; Provisional; Region: PRK12405 444450006004 endonuclease III; Provisional; Region: PRK10702 444450006005 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 444450006006 minor groove reading motif; other site 444450006007 helix-hairpin-helix signature motif; other site 444450006008 substrate binding pocket [chemical binding]; other site 444450006009 active site 444450006010 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 444450006011 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 444450006012 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 444450006013 putative substrate translocation pore; other site 444450006014 POT family; Region: PTR2; pfam00854 444450006015 glutathionine S-transferase; Provisional; Region: PRK10542 444450006016 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 444450006017 C-terminal domain interface [polypeptide binding]; other site 444450006018 GSH binding site (G-site) [chemical binding]; other site 444450006019 dimer interface [polypeptide binding]; other site 444450006020 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 444450006021 N-terminal domain interface [polypeptide binding]; other site 444450006022 dimer interface [polypeptide binding]; other site 444450006023 substrate binding pocket (H-site) [chemical binding]; other site 444450006024 pyridoxamine kinase; Validated; Region: PRK05756 444450006025 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 444450006026 dimer interface [polypeptide binding]; other site 444450006027 pyridoxal binding site [chemical binding]; other site 444450006028 ATP binding site [chemical binding]; other site 444450006029 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 444450006030 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 444450006031 active site 444450006032 HIGH motif; other site 444450006033 dimer interface [polypeptide binding]; other site 444450006034 KMSKS motif; other site 444450006035 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 444450006036 RNA binding surface [nucleotide binding]; other site 444450006037 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 444450006038 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 444450006039 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 444450006040 lysozyme inhibitor; Provisional; Region: PRK11372 444450006041 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 444450006042 Uncharacterized protein family (UPF0075); Region: UPF0075; pfam03702 444450006043 Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: SlyB; COG3133 444450006044 transcriptional regulator SlyA; Provisional; Region: PRK03573 444450006045 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 444450006046 Protein of unknown function (DUF1656); Region: DUF1656; cl11658 444450006047 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 444450006048 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 444450006049 HlyD family secretion protein; Region: HlyD_3; pfam13437 444450006050 Fusaric acid resistance protein family; Region: FUSC; pfam04632 444450006051 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 444450006052 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 444450006053 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 444450006054 E-class dimer interface [polypeptide binding]; other site 444450006055 P-class dimer interface [polypeptide binding]; other site 444450006056 active site 444450006057 Cu2+ binding site [ion binding]; other site 444450006058 Zn2+ binding site [ion binding]; other site 444450006059 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 444450006060 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 444450006061 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 444450006062 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 444450006063 FMN binding site [chemical binding]; other site 444450006064 active site 444450006065 substrate binding site [chemical binding]; other site 444450006066 catalytic residue [active] 444450006067 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 444450006068 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 444450006069 dimer interface [polypeptide binding]; other site 444450006070 active site 444450006071 metal binding site [ion binding]; metal-binding site 444450006072 glutathione binding site [chemical binding]; other site 444450006073 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 444450006074 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 444450006075 dimer interface [polypeptide binding]; other site 444450006076 catalytic site [active] 444450006077 putative active site [active] 444450006078 putative substrate binding site [chemical binding]; other site 444450006079 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 444450006080 putative ATP-dependent helicase Lhr; Provisional; Region: PRK09751 444450006081 ATP binding site [chemical binding]; other site 444450006082 putative Mg++ binding site [ion binding]; other site 444450006083 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 444450006084 nucleotide binding region [chemical binding]; other site 444450006085 ATP-binding site [chemical binding]; other site 444450006086 DEAD/H associated; Region: DEAD_assoc; pfam08494 444450006087 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 444450006088 putative GSH binding site [chemical binding]; other site 444450006089 catalytic residues [active] 444450006090 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 444450006091 NlpC/P60 family; Region: NLPC_P60; pfam00877 444450006092 superoxide dismutase; Provisional; Region: PRK10543 444450006093 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 444450006094 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 444450006095 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 444450006096 Major Facilitator Superfamily; Region: MFS_1; pfam07690 444450006097 putative substrate translocation pore; other site 444450006098 hypothetical protein; Provisional; Region: PRK14756 444450006099 DNA-binding transcriptional repressor PurR; Provisional; Region: PRK10703 444450006100 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 444450006101 DNA binding site [nucleotide binding] 444450006102 domain linker motif; other site 444450006103 Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli; Region: PBP1_PurR; cd06275 444450006104 dimerization interface [polypeptide binding]; other site 444450006105 ligand binding site [chemical binding]; other site 444450006106 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 444450006107 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 444450006108 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 444450006109 dimerization interface [polypeptide binding]; other site 444450006110 putative transporter; Provisional; Region: PRK11043 444450006111 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 444450006112 putative substrate translocation pore; other site 444450006113 cyclopropane fatty acyl phospholipid synthase; Provisional; Region: PRK11705 444450006114 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 444450006115 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 444450006116 S-adenosylmethionine binding site [chemical binding]; other site 444450006117 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 444450006118 Lumazine binding domain; Region: Lum_binding; pfam00677 444450006119 Lumazine binding domain; Region: Lum_binding; pfam00677 444450006120 multidrug efflux protein; Reviewed; Region: PRK01766 444450006121 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 444450006122 cation binding site [ion binding]; other site 444450006123 hypothetical protein; Provisional; Region: PRK09945 444450006124 Type V secretory pathway, adhesin AidA [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: AidA; COG3468 444450006125 putative monooxygenase; Provisional; Region: PRK11118 444450006126 hypothetical protein; Provisional; Region: PRK09897 444450006127 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 444450006128 hypothetical protein; Provisional; Region: PRK09946 444450006129 thiosulfate reductase cytochrome B subunit; Provisional; Region: PRK15006 444450006130 Thiosulfate reductase cytochrome B subunit (membrane anchoring protein) [Energy production and conversion]; Region: COG4117 444450006131 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 444450006132 hypothetical protein; Provisional; Region: PRK09947 444450006133 putative oxidoreductase; Provisional; Region: PRK09849 444450006134 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 444450006135 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 444450006136 hypothetical protein; Provisional; Region: PRK09898 444450006137 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 444450006138 hypothetical protein; Provisional; Region: PRK10292 444450006139 pyruvate kinase; Provisional; Region: PRK09206 444450006140 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; cd00288 444450006141 domain interfaces; other site 444450006142 active site 444450006143 murein lipoprotein; Provisional; Region: PRK15396 444450006144 L,D-transpeptidase; Provisional; Region: PRK10190 444450006145 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 444450006146 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 444450006147 cysteine desufuration protein SufE; Provisional; Region: PRK09296 444450006148 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 444450006149 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 444450006150 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 444450006151 catalytic residue [active] 444450006152 cysteine desulfurase activator complex subunit SufD; Provisional; Region: PRK10948 444450006153 FeS assembly protein SufD; Region: sufD; TIGR01981 444450006154 cysteine desulfurase ATPase component; Reviewed; Region: sufC; PRK09580 444450006155 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 444450006156 Walker A/P-loop; other site 444450006157 ATP binding site [chemical binding]; other site 444450006158 Q-loop/lid; other site 444450006159 ABC transporter signature motif; other site 444450006160 Walker B; other site 444450006161 D-loop; other site 444450006162 H-loop/switch region; other site 444450006163 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 444450006164 putative ABC transporter; Region: ycf24; CHL00085 444450006165 iron-sulfur cluster assembly scaffold protein; Provisional; Region: sufA; PRK09504 444450006166 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 444450006167 CoenzymeA binding site [chemical binding]; other site 444450006168 subunit interaction site [polypeptide binding]; other site 444450006169 PHB binding site; other site 444450006170 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 444450006171 FAD binding domain; Region: FAD_binding_4; pfam01565 444450006172 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 444450006173 putative inner membrane protein; Provisional; Region: PRK10983 444450006174 Domain of unknown function DUF20; Region: UPF0118; pfam01594 444450006175 Domain of unknown function (DUF1870); Region: DUF1870; pfam08965 444450006176 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 444450006177 putative substrate translocation pore; other site 444450006178 Major Facilitator Superfamily; Region: MFS_1; pfam07690 444450006179 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 444450006180 putative substrate translocation pore; other site 444450006181 quinate/shikimate dehydrogenase; Reviewed; Region: PRK12749 444450006182 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 444450006183 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 444450006184 shikimate binding site; other site 444450006185 NAD(P) binding site [chemical binding]; other site 444450006186 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 444450006187 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 444450006188 active site 444450006189 catalytic residue [active] 444450006190 dimer interface [polypeptide binding]; other site 444450006191 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 444450006192 Coenzyme A transferase; Region: CoA_trans; smart00882 444450006193 Coenzyme A transferase; Region: CoA_trans; cl17247 444450006194 putative acyl-CoA dehydrogenase; Provisional; Region: PRK12341 444450006195 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 444450006196 active site 444450006197 Cupin domain; Region: Cupin_2; pfam07883 444450006198 Winged helix DNA-binding domain (DUF1495); Region: DUF1495; cl01336 444450006199 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 444450006200 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 444450006201 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 444450006202 Ligand binding site [chemical binding]; other site 444450006203 Electron transfer flavoprotein domain; Region: ETF; pfam01012 444450006204 electron transfer flavoprotein subunit YdiR; Provisional; Region: PRK11916 444450006205 Electron transfer flavoprotein domain; Region: ETF; smart00893 444450006206 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 444450006207 oxidoreductase; Provisional; Region: PRK10015 444450006208 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 444450006209 phosphoenolpyruvate synthase; Validated; Region: PRK06464 444450006210 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 444450006211 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 444450006212 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 444450006213 PEP synthetase regulatory protein; Provisional; Region: PRK05339 444450006214 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12756 444450006215 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 444450006216 Hemin uptake protein [Inorganic ion transport and metabolism]; Region: HemP; COG4256 444450006217 Uncharacterized conserved protein [Function unknown]; Region: COG0397 444450006218 hypothetical protein; Validated; Region: PRK00029 444450006219 c-di-GMP phosphodiesterase class I (EAL domain) [Signal transduction mechanisms]; Region: Rtn; COG2200 444450006220 NlpC/P60 family; Region: NLPC_P60; pfam00877 444450006221 vitamin B12-transporter ATPase; Provisional; Region: PRK03695 444450006222 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 444450006223 Walker A/P-loop; other site 444450006224 ATP binding site [chemical binding]; other site 444450006225 Q-loop/lid; other site 444450006226 ABC transporter signature motif; other site 444450006227 Walker B; other site 444450006228 D-loop; other site 444450006229 H-loop/switch region; other site 444450006230 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 444450006231 catalytic residues [active] 444450006232 dimer interface [polypeptide binding]; other site 444450006233 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 444450006234 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 444450006235 ABC-ATPase subunit interface; other site 444450006236 dimer interface [polypeptide binding]; other site 444450006237 putative PBP binding regions; other site 444450006238 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 444450006239 IHF dimer interface [polypeptide binding]; other site 444450006240 IHF - DNA interface [nucleotide binding]; other site 444450006241 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 444450006242 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 444450006243 putative tRNA-binding site [nucleotide binding]; other site 444450006244 B3/4 domain; Region: B3_4; pfam03483 444450006245 tRNA synthetase B5 domain; Region: B5; smart00874 444450006246 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 444450006247 dimer interface [polypeptide binding]; other site 444450006248 motif 1; other site 444450006249 motif 3; other site 444450006250 motif 2; other site 444450006251 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 444450006252 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 444450006253 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 444450006254 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 444450006255 dimer interface [polypeptide binding]; other site 444450006256 motif 1; other site 444450006257 active site 444450006258 motif 2; other site 444450006259 motif 3; other site 444450006260 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 444450006261 23S rRNA binding site [nucleotide binding]; other site 444450006262 L21 binding site [polypeptide binding]; other site 444450006263 L13 binding site [polypeptide binding]; other site 444450006264 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 444450006265 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 444450006266 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 444450006267 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 444450006268 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 444450006269 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 444450006270 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 444450006271 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 444450006272 active site 444450006273 dimer interface [polypeptide binding]; other site 444450006274 motif 1; other site 444450006275 motif 2; other site 444450006276 motif 3; other site 444450006277 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 444450006278 anticodon binding site; other site 444450006279 ShET2 enterotoxin, N-terminal region; Region: Toxin_15; pfam07906 444450006280 Putative salt-induced outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG3137 444450006281 6-phosphofructokinase 2; Provisional; Region: PRK10294 444450006282 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 444450006283 putative substrate binding site [chemical binding]; other site 444450006284 putative ATP binding site [chemical binding]; other site 444450006285 Protein of unknown function (DUF2622); Region: DUF2622; pfam11080 444450006286 Phosphotransferase enzyme family; Region: APH; pfam01636 444450006287 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 444450006288 active site 444450006289 ATP binding site [chemical binding]; other site 444450006290 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 444450006291 YniB-like protein; Region: YniB; pfam14002 444450006292 2-deoxyglucose-6-phosphatase; Provisional; Region: PRK10826 444450006293 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 444450006294 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 444450006295 motif II; other site 444450006296 inner membrane protein; Provisional; Region: PRK11648 444450006297 Predicted Na+/dicarboxylate symporter [General function prediction only]; Region: COG1823 444450006298 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 444450006299 cell division modulator; Provisional; Region: PRK10113 444450006300 hydroperoxidase II; Provisional; Region: katE; PRK11249 444450006301 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 444450006302 tetramer interface [polypeptide binding]; other site 444450006303 heme binding pocket [chemical binding]; other site 444450006304 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 444450006305 domain interactions; other site 444450006306 Enterococcus faecalis EF3048 and similar proteins; Region: YdjC_EF3048_like; cd10803 444450006307 putative active site [active] 444450006308 YdjC motif; other site 444450006309 Mg binding site [ion binding]; other site 444450006310 putative homodimer interface [polypeptide binding]; other site 444450006311 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 444450006312 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 444450006313 NAD binding site [chemical binding]; other site 444450006314 sugar binding site [chemical binding]; other site 444450006315 divalent metal binding site [ion binding]; other site 444450006316 tetramer (dimer of dimers) interface [polypeptide binding]; other site 444450006317 dimer interface [polypeptide binding]; other site 444450006318 DNA-binding transcriptional regulator ChbR; Provisional; Region: PRK10296 444450006319 Cupin domain; Region: Cupin_2; pfam07883 444450006320 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 444450006321 PTS_IIA, PTS system, lactose/cellobiose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_lac; cd00215 444450006322 methionine cluster; other site 444450006323 active site 444450006324 phosphorylation site [posttranslational modification] 444450006325 metal binding site [ion binding]; metal-binding site 444450006326 PTS system N,N'-diacetylchitobiose-specific transporter subunit IIC; Provisional; Region: PRK10297 444450006327 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 444450006328 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 444450006329 active site 444450006330 P-loop; other site 444450006331 phosphorylation site [posttranslational modification] 444450006332 DNA-binding transcriptional activator OsmE; Provisional; Region: PRK11251 444450006333 NAD+ synthetase; Region: nadE; TIGR00552 444450006334 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 444450006335 homodimer interface [polypeptide binding]; other site 444450006336 NAD binding pocket [chemical binding]; other site 444450006337 ATP binding pocket [chemical binding]; other site 444450006338 Mg binding site [ion binding]; other site 444450006339 active-site loop [active] 444450006340 nucleotide excision repair endonuclease; Provisional; Region: PRK10545 444450006341 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 444450006342 GIY-YIG motif/motif A; other site 444450006343 active site 444450006344 catalytic site [active] 444450006345 putative DNA binding site [nucleotide binding]; other site 444450006346 metal binding site [ion binding]; metal-binding site 444450006347 hypothetical protein; Provisional; Region: PRK11396 444450006348 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 444450006349 dimer interface [polypeptide binding]; other site 444450006350 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 444450006351 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 444450006352 putative active site [active] 444450006353 Zn binding site [ion binding]; other site 444450006354 succinylarginine dihydrolase; Provisional; Region: PRK13281 444450006355 succinylglutamic semialdehyde dehydrogenase; Region: arg_catab_astD; TIGR03240 444450006356 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 444450006357 NAD(P) binding site [chemical binding]; other site 444450006358 catalytic residues [active] 444450006359 arginine succinyltransferase; Provisional; Region: PRK10456 444450006360 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 444450006361 bifunctional succinylornithine transaminase/acetylornithine transaminase; Provisional; Region: PRK12381 444450006362 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 444450006363 inhibitor-cofactor binding pocket; inhibition site 444450006364 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444450006365 catalytic residue [active] 444450006366 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 444450006367 putative catalytic site [active] 444450006368 putative phosphate binding site [ion binding]; other site 444450006369 active site 444450006370 metal binding site A [ion binding]; metal-binding site 444450006371 DNA binding site [nucleotide binding] 444450006372 putative AP binding site [nucleotide binding]; other site 444450006373 putative metal binding site B [ion binding]; other site 444450006374 Uncharacterized conserved protein [Function unknown]; Region: COG0398 444450006375 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 444450006376 Uncharacterized conserved protein [Function unknown]; Region: COG0398 444450006377 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 444450006378 Uncharacterized conserved protein [Function unknown]; Region: COG2128 444450006379 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 444450006380 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 444450006381 hypothetical protein; Provisional; Region: PRK11622 444450006382 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4135 444450006383 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 444450006384 dimer interface [polypeptide binding]; other site 444450006385 conserved gate region; other site 444450006386 putative PBP binding loops; other site 444450006387 ABC-ATPase subunit interface; other site 444450006388 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4136 444450006389 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 444450006390 Walker A/P-loop; other site 444450006391 ATP binding site [chemical binding]; other site 444450006392 Q-loop/lid; other site 444450006393 ABC transporter signature motif; other site 444450006394 Walker B; other site 444450006395 D-loop; other site 444450006396 H-loop/switch region; other site 444450006397 Rhodanese Homology Domain; Region: RHOD; smart00450 444450006398 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 444450006399 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 444450006400 active site residue [active] 444450006401 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 444450006402 active site residue [active] 444450006403 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 444450006404 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 444450006405 active site 444450006406 8-oxo-dGMP binding site [chemical binding]; other site 444450006407 nudix motif; other site 444450006408 metal binding site [ion binding]; metal-binding site 444450006409 Protein of unknown function (DUF1496); Region: DUF1496; pfam07383 444450006410 glutamate dehydrogenase; Provisional; Region: PRK09414 444450006411 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 444450006412 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 444450006413 NAD(P) binding site [chemical binding]; other site 444450006414 hypothetical protein; Provisional; Region: PRK11380 444450006415 DNA topoisomerase III; Provisional; Region: PRK07726 444450006416 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 444450006417 active site 444450006418 putative interdomain interaction site [polypeptide binding]; other site 444450006419 putative metal-binding site [ion binding]; other site 444450006420 putative nucleotide binding site [chemical binding]; other site 444450006421 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 444450006422 domain I; other site 444450006423 DNA binding groove [nucleotide binding] 444450006424 phosphate binding site [ion binding]; other site 444450006425 domain II; other site 444450006426 domain III; other site 444450006427 nucleotide binding site [chemical binding]; other site 444450006428 catalytic site [active] 444450006429 domain IV; other site 444450006430 selenophosphate synthetase; Provisional; Region: PRK00943 444450006431 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 444450006432 dimerization interface [polypeptide binding]; other site 444450006433 putative ATP binding site [chemical binding]; other site 444450006434 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 444450006435 putative FMN binding site [chemical binding]; other site 444450006436 protease 4; Provisional; Region: PRK10949 444450006437 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 444450006438 tandem repeat interface [polypeptide binding]; other site 444450006439 oligomer interface [polypeptide binding]; other site 444450006440 active site residues [active] 444450006441 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_1; cd07019 444450006442 tandem repeat interface [polypeptide binding]; other site 444450006443 oligomer interface [polypeptide binding]; other site 444450006444 active site residues [active] 444450006445 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2859 444450006446 Uncharacterized conserved protein [Function unknown]; Region: COG2968 444450006447 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 444450006448 active site 444450006449 homodimer interface [polypeptide binding]; other site 444450006450 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 444450006451 Isochorismatase family; Region: Isochorismatase; pfam00857 444450006452 catalytic triad [active] 444450006453 metal binding site [ion binding]; metal-binding site 444450006454 conserved cis-peptide bond; other site 444450006455 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 444450006456 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 444450006457 Transposase; Region: HTH_Tnp_1; cl17663 444450006458 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 444450006459 putative transposase OrfB; Reviewed; Region: PHA02517 444450006460 HTH-like domain; Region: HTH_21; pfam13276 444450006461 Integrase core domain; Region: rve; pfam00665 444450006462 Integrase core domain; Region: rve_3; pfam13683 444450006463 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 444450006464 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 444450006465 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 444450006466 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 444450006467 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 444450006468 active site 444450006469 catalytic tetrad [active] 444450006470 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 444450006471 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 444450006472 substrate binding site [chemical binding]; other site 444450006473 ATP binding site [chemical binding]; other site 444450006474 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 444450006475 intersubunit interface [polypeptide binding]; other site 444450006476 active site 444450006477 zinc binding site [ion binding]; other site 444450006478 Na+ binding site [ion binding]; other site 444450006479 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 444450006480 Sorbitol dehydrogenase; Region: sorbitol_DH; cd05285 444450006481 inhibitor binding site; inhibition site 444450006482 catalytic Zn binding site [ion binding]; other site 444450006483 structural Zn binding site [ion binding]; other site 444450006484 NADP binding site [chemical binding]; other site 444450006485 tetramer interface [polypeptide binding]; other site 444450006486 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 444450006487 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 444450006488 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 444450006489 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH4; cd08258 444450006490 putative NAD(P) binding site [chemical binding]; other site 444450006491 catalytic Zn binding site [ion binding]; other site 444450006492 structural Zn binding site [ion binding]; other site 444450006493 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3139 444450006494 methionine sulfoxide reductase B; Provisional; Region: PRK00222 444450006495 SelR domain; Region: SelR; pfam01641 444450006496 glyceraldehyde-3-phosphate dehydrogenase A; Provisional; Region: gapA; PRK15425 444450006497 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 444450006498 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 444450006499 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 444450006500 active site 444450006501 phosphate binding residues; other site 444450006502 catalytic residues [active] 444450006503 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 444450006504 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 444450006505 active site 444450006506 catalytic tetrad [active] 444450006507 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 444450006508 PrkA family serine protein kinase; Provisional; Region: PRK15455 444450006509 AAA ATPase domain; Region: AAA_16; pfam13191 444450006510 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 444450006511 hypothetical protein; Provisional; Region: PRK05325 444450006512 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 444450006513 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 444450006514 metal binding site [ion binding]; metal-binding site 444450006515 active site 444450006516 I-site; other site 444450006517 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 444450006518 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 444450006519 metal binding site [ion binding]; metal-binding site 444450006520 active site 444450006521 I-site; other site 444450006522 YeaK is an uncharacterized Echerichia coli protein with a YbaK-like domain of unknown function. The YbaK-like domain family includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting...; Region: YeaK; cd04336 444450006523 putative deacylase active site [active] 444450006524 Predicted membrane protein [Function unknown]; Region: COG2707 444450006525 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 444450006526 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 444450006527 cyanate transporter; Region: CynX; TIGR00896 444450006528 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 444450006529 Uncharacterized conserved protein [Function unknown]; Region: COG3189 444450006530 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 444450006531 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 444450006532 Domain of unknown function (DUF333); Region: DUF333; pfam03891 444450006533 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 444450006534 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 444450006535 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 444450006536 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 444450006537 metal binding site [ion binding]; metal-binding site 444450006538 active site 444450006539 I-site; other site 444450006540 hypothetical protein; Provisional; Region: PRK14760 444450006541 hypothetical protein; Provisional; Region: PRK10457 444450006542 Domain of unknown function (DUF1869); Region: DUF1869; pfam08956 444450006543 Uncharacterized protein/domain, possibly involved in tellurite resistance [Inorganic ion transport and metabolism]; Region: TehB; COG3615 444450006544 leucine export protein LeuE; Provisional; Region: PRK10958 444450006545 transcriptional activator TtdR; Provisional; Region: PRK09801 444450006546 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 444450006547 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_9; cd08479 444450006548 putative effector binding pocket; other site 444450006549 putative dimerization interface [polypeptide binding]; other site 444450006550 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 444450006551 tartrate dehydrogenase; Region: TTC; TIGR02089 444450006552 putative transporter; Provisional; Region: PRK09950 444450006553 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 444450006554 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 444450006555 [2Fe-2S] cluster binding site [ion binding]; other site 444450006556 C-terminal catalytic domain of the oxygenase alpha subunit of an uncharacterized subgroup of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C_2; cd08886 444450006557 putative alpha subunit interface [polypeptide binding]; other site 444450006558 putative active site [active] 444450006559 putative substrate binding site [chemical binding]; other site 444450006560 Fe binding site [ion binding]; other site 444450006561 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 444450006562 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 444450006563 FMN-binding pocket [chemical binding]; other site 444450006564 flavin binding motif; other site 444450006565 phosphate binding motif [ion binding]; other site 444450006566 beta-alpha-beta structure motif; other site 444450006567 NAD binding pocket [chemical binding]; other site 444450006568 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 444450006569 catalytic loop [active] 444450006570 iron binding site [ion binding]; other site 444450006571 ribonuclease D; Provisional; Region: PRK10829 444450006572 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 444450006573 catalytic site [active] 444450006574 putative active site [active] 444450006575 putative substrate binding site [chemical binding]; other site 444450006576 Helicase and RNase D C-terminal; Region: HRDC; smart00341 444450006577 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 444450006578 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 444450006579 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 444450006580 acyl-activating enzyme (AAE) consensus motif; other site 444450006581 putative AMP binding site [chemical binding]; other site 444450006582 putative active site [active] 444450006583 putative CoA binding site [chemical binding]; other site 444450006584 Starvation-inducible outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: Slp; COG3065 444450006585 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 444450006586 Glycoprotease family; Region: Peptidase_M22; pfam00814 444450006587 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 444450006588 DEAD/DEAH box helicase; Region: DEAD; pfam00270 444450006589 DEAD_2; Region: DEAD_2; pfam06733 444450006590 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 444450006591 This group of proteins belong to a large family of YjgF/YER057c/UK114-like 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...; Region: YjgF_YER057c_UK114_like_2; cd06150 444450006592 homotrimer interaction site [polypeptide binding]; other site 444450006593 putative active site [active] 444450006594 Domain of unknown function (DUF1889); Region: DUF1889; pfam08986 444450006595 hypothetical protein; Provisional; Region: PRK05114 444450006596 aminodeoxychorismate synthase subunit I; Provisional; Region: pabB; PRK15465 444450006597 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 444450006598 aminodeoxychorismate synthase, component I, bacterial clade; Region: pabB; TIGR00553 444450006599 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 444450006600 putative active site [active] 444450006601 putative CoA binding site [chemical binding]; other site 444450006602 nudix motif; other site 444450006603 metal binding site [ion binding]; metal-binding site 444450006604 L-serine deaminase; Provisional; Region: PRK15023 444450006605 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 444450006606 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 444450006607 phage resistance protein; Provisional; Region: PRK10551 444450006608 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 444450006609 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 444450006610 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 444450006611 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 444450006612 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 444450006613 Transporter associated domain; Region: CorC_HlyC; smart01091 444450006614 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 444450006615 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 444450006616 active pocket/dimerization site; other site 444450006617 active site 444450006618 phosphorylation site [posttranslational modification] 444450006619 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cd00001 444450006620 active site 444450006621 phosphorylation site [posttranslational modification] 444450006622 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 444450006623 PTS system mannose-specific transporter subunit IID; Provisional; Region: PRK11103 444450006624 Predicted membrane protein [Function unknown]; Region: COG4811 444450006625 yybP-ykoY leader 444450006626 hypothetical protein; Provisional; Region: PRK11469 444450006627 Domain of unknown function DUF; Region: DUF204; pfam02659 444450006628 Domain of unknown function DUF; Region: DUF204; pfam02659 444450006629 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 444450006630 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 444450006631 S-adenosylmethionine binding site [chemical binding]; other site 444450006632 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 444450006633 DNA-binding site [nucleotide binding]; DNA binding site 444450006634 RNA-binding motif; other site 444450006635 Protein of unknown function (DUF2627); Region: DUF2527; pfam10736 444450006636 YebO-like protein; Region: YebO; pfam13974 444450006637 PhoPQ regulatory protein; Provisional; Region: PRK10299 444450006638 YobH-like protein; Region: YobH; pfam13996 444450006639 DNA-binding transcriptional regulator KdgR; Provisional; Region: PRK15090 444450006640 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 444450006641 dimerization interface [polypeptide binding]; other site 444450006642 putative Zn2+ binding site [ion binding]; other site 444450006643 putative DNA binding site [nucleotide binding]; other site 444450006644 Bacterial transcriptional regulator; Region: IclR; pfam01614 444450006645 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 444450006646 Major Facilitator Superfamily; Region: MFS_1; pfam07690 444450006647 putative substrate translocation pore; other site 444450006648 Predicted integral membrane protein [Function unknown]; Region: COG5521 444450006649 heat shock protein HtpX; Provisional; Region: PRK05457 444450006650 carboxy-terminal protease; Provisional; Region: PRK11186 444450006651 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 444450006652 protein binding site [polypeptide binding]; other site 444450006653 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 444450006654 Catalytic dyad [active] 444450006655 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 444450006656 ProP expression regulator; Provisional; Region: PRK04950 444450006657 ProQ/FINO family; Region: ProQ; pfam04352 444450006658 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 444450006659 GAF domain; Region: GAF_2; pfam13185 444450006660 integral membrane protein, PqiA family; Region: pqiA_fam; TIGR00155 444450006661 Paraquat-inducible protein A; Region: PqiA; pfam04403 444450006662 Paraquat-inducible protein A; Region: PqiA; pfam04403 444450006663 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 444450006664 mce related protein; Region: MCE; pfam02470 444450006665 mce related protein; Region: MCE; pfam02470 444450006666 mce related protein; Region: MCE; pfam02470 444450006667 mce related protein; Region: MCE; pfam02470 444450006668 mce related protein; Region: MCE; pfam02470 444450006669 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 444450006670 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 444450006671 S-adenosylmethionine binding site [chemical binding]; other site 444450006672 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 444450006673 Protein of unknown function (DUF1480); Region: DUF1480; pfam07351 444450006674 Protein of unknown function (DUF1482); Region: DUF1482; pfam07358 444450006675 serine/threonine protein phosphatase 1; Provisional; Region: pphA; PRK11439 444450006676 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 444450006677 Protein of unknown function (DUF2511); Region: DUF2511; pfam10709 444450006678 Putative copper export protein [Inorganic ion transport and metabolism]; Region: PcoD; COG1276 444450006679 hypothetical protein; Provisional; Region: PRK10301 444450006680 DNA polymerase III subunit theta; Reviewed; Region: PRK10969 444450006681 Predicted amidohydrolase [General function prediction only]; Region: COG0388 444450006682 Carbon-nitrogen hydrolase; Region: CN_hydrolase; pfam00795 444450006683 exodeoxyribonuclease X; Provisional; Region: PRK07983 444450006684 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 444450006685 active site 444450006686 catalytic site [active] 444450006687 substrate binding site [chemical binding]; other site 444450006688 protease 2; Provisional; Region: PRK10115 444450006689 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 444450006690 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2979 444450006691 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 444450006692 putative metal binding site [ion binding]; other site 444450006693 hypothetical protein; Provisional; Region: PRK13680 444450006694 DNA damage-inducible protein YebG; Provisional; Region: PRK10061 444450006695 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 444450006696 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444450006697 ATP-grasp domain; Region: ATP-grasp; pfam02222 444450006698 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 444450006699 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 444450006700 active site 444450006701 intersubunit interface [polypeptide binding]; other site 444450006702 catalytic residue [active] 444450006703 phosphogluconate dehydratase; Validated; Region: PRK09054 444450006704 6-phosphogluconate dehydratase; Region: edd; TIGR01196 444450006705 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 444450006706 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 444450006707 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 444450006708 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 444450006709 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 444450006710 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 444450006711 putative active site [active] 444450006712 pyruvate kinase; Provisional; Region: PRK05826 444450006713 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 444450006714 domain interfaces; other site 444450006715 active site 444450006716 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 444450006717 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 444450006718 putative acyl-acceptor binding pocket; other site 444450006719 putative peptidase; Provisional; Region: PRK11649 444450006720 Opacity-associated protein A N-terminal motif; Region: OapA_N; pfam08525 444450006721 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 444450006722 Peptidase family M23; Region: Peptidase_M23; pfam01551 444450006723 high-affinity zinc transporter periplasmic component; Reviewed; Region: znuA; PRK09545 444450006724 Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism; Region: ZnuA; cd01019 444450006725 metal binding site [ion binding]; metal-binding site 444450006726 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 444450006727 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 444450006728 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 444450006729 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 444450006730 ABC-ATPase subunit interface; other site 444450006731 dimer interface [polypeptide binding]; other site 444450006732 putative PBP binding regions; other site 444450006733 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 444450006734 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 444450006735 Walker A motif; other site 444450006736 ATP binding site [chemical binding]; other site 444450006737 Walker B motif; other site 444450006738 arginine finger; other site 444450006739 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 444450006740 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 444450006741 RuvA N terminal domain; Region: RuvA_N; pfam01330 444450006742 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 444450006743 hypothetical protein; Provisional; Region: PRK11470 444450006744 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 444450006745 active site 444450006746 putative DNA-binding cleft [nucleotide binding]; other site 444450006747 dimer interface [polypeptide binding]; other site 444450006748 hypothetical protein; Validated; Region: PRK00110 444450006749 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_7; cd04664 444450006750 nudix motif; other site 444450006751 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 444450006752 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 444450006753 dimer interface [polypeptide binding]; other site 444450006754 anticodon binding site; other site 444450006755 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 444450006756 homodimer interface [polypeptide binding]; other site 444450006757 motif 1; other site 444450006758 active site 444450006759 motif 2; other site 444450006760 GAD domain; Region: GAD; pfam02938 444450006761 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 444450006762 motif 3; other site 444450006763 Isochorismatase family; Region: Isochorismatase; pfam00857 444450006764 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 444450006765 catalytic triad [active] 444450006766 conserved cis-peptide bond; other site 444450006767 hypothetical protein; Provisional; Region: PRK10302 444450006768 Uncharacterized relative of glutathione S-transferase, MAPEG superfamily [General function prediction only]; Region: COG3788 444450006769 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 444450006770 S-adenosylmethionine binding site [chemical binding]; other site 444450006771 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 444450006772 S-adenosylmethionine binding site [chemical binding]; other site 444450006773 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 444450006774 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 444450006775 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 444450006776 molybdopterin cofactor binding site [chemical binding]; other site 444450006777 substrate binding site [chemical binding]; other site 444450006778 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 444450006779 molybdopterin cofactor binding site; other site 444450006780 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 444450006781 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 444450006782 copper homeostasis protein CutC; Provisional; Region: PRK11572 444450006783 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_4; cd07268 444450006784 putative metal binding site [ion binding]; other site 444450006785 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 444450006786 arginyl-tRNA synthetase; Region: argS; TIGR00456 444450006787 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 444450006788 active site 444450006789 HIGH motif; other site 444450006790 KMSK motif region; other site 444450006791 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 444450006792 tRNA binding surface [nucleotide binding]; other site 444450006793 anticodon binding site; other site 444450006794 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3755 444450006795 Flagellar protein FlhE; Region: FlhE; pfam06366 444450006796 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 444450006797 FHIPEP family; Region: FHIPEP; pfam00771 444450006798 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 444450006799 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 444450006800 chemotaxis regulator CheZ; Provisional; Region: PRK11166 444450006801 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 444450006802 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 444450006803 active site 444450006804 phosphorylation site [posttranslational modification] 444450006805 intermolecular recognition site; other site 444450006806 dimerization interface [polypeptide binding]; other site 444450006807 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 444450006808 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 444450006809 active site 444450006810 phosphorylation site [posttranslational modification] 444450006811 intermolecular recognition site; other site 444450006812 dimerization interface [polypeptide binding]; other site 444450006813 CheB methylesterase; Region: CheB_methylest; pfam01339 444450006814 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 444450006815 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 444450006816 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 444450006817 S-adenosylmethionine binding site [chemical binding]; other site 444450006818 methyl-accepting protein IV; Provisional; Region: PRK09793 444450006819 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 444450006820 dimer interface [polypeptide binding]; other site 444450006821 ligand binding site [chemical binding]; other site 444450006822 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 444450006823 dimerization interface [polypeptide binding]; other site 444450006824 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 444450006825 dimer interface [polypeptide binding]; other site 444450006826 putative CheW interface [polypeptide binding]; other site 444450006827 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 444450006828 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 444450006829 dimer interface [polypeptide binding]; other site 444450006830 ligand binding site [chemical binding]; other site 444450006831 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 444450006832 dimerization interface [polypeptide binding]; other site 444450006833 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 444450006834 dimer interface [polypeptide binding]; other site 444450006835 putative CheW interface [polypeptide binding]; other site 444450006836 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 444450006837 putative CheA interaction surface; other site 444450006838 chemotaxis protein CheA; Provisional; Region: PRK10547 444450006839 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 444450006840 putative binding surface; other site 444450006841 active site 444450006842 CheY binding; Region: CheY-binding; pfam09078 444450006843 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 444450006844 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 444450006845 ATP binding site [chemical binding]; other site 444450006846 Mg2+ binding site [ion binding]; other site 444450006847 G-X-G motif; other site 444450006848 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 444450006849 flagellar motor protein MotB; Validated; Region: motB; PRK09041 444450006850 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 444450006851 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 444450006852 ligand binding site [chemical binding]; other site 444450006853 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 444450006854 flagellar motor protein MotA; Validated; Region: PRK09110 444450006855 transcriptional activator FlhC; Provisional; Region: PRK12722 444450006856 transcriptional activator FlhD; Provisional; Region: PRK02909 444450006857 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 444450006858 Ligand Binding Site [chemical binding]; other site 444450006859 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 444450006860 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 444450006861 active site 444450006862 homotetramer interface [polypeptide binding]; other site 444450006863 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187 444450006864 Trehalose-6-phosphatase [Carbohydrate transport and metabolism]; Region: OtsB; COG1877 444450006865 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 444450006866 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 444450006867 TM-ABC transporter signature motif; other site 444450006868 L-arabinose transporter ATP-binding protein; Provisional; Region: araG; PRK11288 444450006869 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 444450006870 Walker A/P-loop; other site 444450006871 ATP binding site [chemical binding]; other site 444450006872 Q-loop/lid; other site 444450006873 ABC transporter signature motif; other site 444450006874 Walker B; other site 444450006875 D-loop; other site 444450006876 H-loop/switch region; other site 444450006877 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 444450006878 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 444450006879 Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily; Region: PBP1_arabinose_binding; cd01540 444450006880 ligand binding site [chemical binding]; other site 444450006881 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 444450006882 Ferritin-like domain; Region: Ferritin; pfam00210 444450006883 ferroxidase diiron center [ion binding]; other site 444450006884 Protein of unknown function (DUF2766); Region: DUF2766; pfam10964 444450006885 YecR-like lipoprotein; Region: YecR; pfam13992 444450006886 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 444450006887 Ferritin-like domain; Region: Ferritin; pfam00210 444450006888 ferroxidase diiron center [ion binding]; other site 444450006889 probable metal-binding protein; Region: matur_matur; TIGR03853 444450006890 tyrosine transporter TyrP; Provisional; Region: PRK15132 444450006891 aromatic amino acid transport protein; Region: araaP; TIGR00837 444450006892 hypothetical protein; Provisional; Region: PRK10396 444450006893 yecA family protein; Region: ygfB_yecA; TIGR02292 444450006894 SEC-C motif; Region: SEC-C; pfam02810 444450006895 integrase; Provisional; Region: int; PHA02601 444450006896 Phage HP1 integrase, C-terminal catalytic domain. Bacteriophage HP1 and related integrases are found in eubacteria, plasmids and temperate bacteriophages of the P2 family. They belong to the DNA breaking-rejoining enzyme superfamily, which includes...; Region: HP1_INT_C; cd00797 444450006897 dimer interface [polypeptide binding]; other site 444450006898 active site 444450006899 catalytic residues [active] 444450006900 Int/Topo IB signature motif; other site 444450006901 Protein of unknown function (DUF2511); Region: DUF2511; pfam10709 444450006902 flagella biosynthesis regulator; Provisional; Region: flk; PRK10715 444450006903 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; pfam05840 444450006904 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 444450006905 Mg binding site [ion binding]; other site 444450006906 nucleotide binding site [chemical binding]; other site 444450006907 putative protofilament interface [polypeptide binding]; other site 444450006908 HTH-like domain; Region: HTH_21; pfam13276 444450006909 Integrase core domain; Region: rve; pfam00665 444450006910 Transposase; Region: HTH_Tnp_1; cl17663 444450006911 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 444450006912 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 444450006913 Serine acetyltransferase [Amino acid transport and metabolism]; Region: CysE; COG1045 444450006914 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 444450006915 trimer interface [polypeptide binding]; other site 444450006916 active site 444450006917 substrate binding site [chemical binding]; other site 444450006918 CoA binding site [chemical binding]; other site 444450006919 Phage protein U [General function prediction only]; Region: COG3499 444450006920 Phage P2 GpE; Region: Phage_P2_GpE; pfam06528 444450006921 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 444450006922 Phage tail tube protein FII [General function prediction only]; Region: COG3498 444450006923 Phage tail sheath protein FI [General function prediction only]; Region: COG3497 444450006924 Phage protein D [General function prediction only]; Region: COG3500 444450006925 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 444450006926 Helix-turn-helix domain; Region: HTH_38; pfam13936 444450006927 Homeodomain-like domain; Region: HTH_32; pfam13565 444450006928 Integrase core domain; Region: rve; pfam00665 444450006929 Transposase; Region: HTH_Tnp_1; cl17663 444450006930 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 444450006931 putative transposase OrfB; Reviewed; Region: PHA02517 444450006932 HTH-like domain; Region: HTH_21; pfam13276 444450006933 Integrase core domain; Region: rve; pfam00665 444450006934 Integrase core domain; Region: rve_3; pfam13683 444450006935 phosphatidylglycerophosphate synthetase; Provisional; Region: PRK10832 444450006936 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 444450006937 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 444450006938 GIY-YIG motif/motif A; other site 444450006939 active site 444450006940 catalytic site [active] 444450006941 putative DNA binding site [nucleotide binding]; other site 444450006942 metal binding site [ion binding]; metal-binding site 444450006943 UvrB/uvrC motif; Region: UVR; pfam02151 444450006944 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 444450006945 Helix-hairpin-helix motif; Region: HHH; pfam00633 444450006946 response regulator; Provisional; Region: PRK09483 444450006947 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 444450006948 active site 444450006949 phosphorylation site [posttranslational modification] 444450006950 intermolecular recognition site; other site 444450006951 dimerization interface [polypeptide binding]; other site 444450006952 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 444450006953 DNA binding residues [nucleotide binding] 444450006954 dimerization interface [polypeptide binding]; other site 444450006955 hypothetical protein; Provisional; Region: PRK10613 444450006956 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 444450006957 Autoinducer binding domain; Region: Autoind_bind; pfam03472 444450006958 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 444450006959 DNA binding residues [nucleotide binding] 444450006960 dimerization interface [polypeptide binding]; other site 444450006961 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional; Region: PRK11264 444450006962 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 444450006963 Walker A/P-loop; other site 444450006964 ATP binding site [chemical binding]; other site 444450006965 Q-loop/lid; other site 444450006966 ABC transporter signature motif; other site 444450006967 Walker B; other site 444450006968 D-loop; other site 444450006969 H-loop/switch region; other site 444450006970 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 444450006971 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 444450006972 dimer interface [polypeptide binding]; other site 444450006973 conserved gate region; other site 444450006974 putative PBP binding loops; other site 444450006975 ABC-ATPase subunit interface; other site 444450006976 D-cysteine desulfhydrase; Validated; Region: PRK03910 444450006977 Aminocyclopropane-1-carboxylate deaminase (ACCD): Pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of 1-aminocyclopropane-L-carboxylate (ACC), a precursor of the plant hormone ethylene, to alpha-ketobutyrate and ammonia; Region: ACCD; cd06449 444450006978 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444450006979 catalytic residue [active] 444450006980 cystine transporter subunit; Provisional; Region: PRK11260 444450006981 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 444450006982 substrate binding pocket [chemical binding]; other site 444450006983 membrane-bound complex binding site; other site 444450006984 hinge residues; other site 444450006985 flagella biosynthesis protein FliZ; Provisional; Region: PRK11582 444450006986 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 444450006987 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 444450006988 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 444450006989 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 444450006990 DNA binding residues [nucleotide binding] 444450006991 flagellin; Validated; Region: PRK08026 444450006992 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 444450006993 Flagellin protein; Region: FliC; pfam12445 444450006994 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 444450006995 flagellar capping protein; Reviewed; Region: fliD; PRK08032 444450006996 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 444450006997 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 444450006998 Flagellar protein FliS; Region: FliS; cl00654 444450006999 flagellar biosynthesis protein FliT; Provisional; Region: PRK10548 444450007000 cytoplasmic alpha-amylase; Reviewed; Region: PRK09441 444450007001 Alpha amylase catalytic domain found in bacterial and fungal Alpha amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac_fung_AmyA; cd11318 444450007002 active site 444450007003 Na/Ca binding site [ion binding]; other site 444450007004 catalytic site [active] 444450007005 lipoprotein; Provisional; Region: PRK10397 444450007006 putative inner membrane protein; Provisional; Region: PRK11099 444450007007 YedF is a bacterial SirA-like protein of unknown function. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system...; Region: YedF; cd03422 444450007008 CPxP motif; other site 444450007009 hypothetical protein; Provisional; Region: PRK09951 444450007010 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 444450007011 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 444450007012 Coenzyme A binding pocket [chemical binding]; other site 444450007013 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 444450007014 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 444450007015 Coenzyme A binding pocket [chemical binding]; other site 444450007016 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 444450007017 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00253 444450007018 flagellar basal-body M-ring protein/flagellar hook-basal body protein (fliF); Region: fliF; TIGR00206 444450007019 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 444450007020 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 444450007021 flagellar motor switch protein FliG; Region: fliG; TIGR00207 444450007022 FliG C-terminal domain; Region: FliG_C; pfam01706 444450007023 flagellar assembly protein H; Validated; Region: fliH; PRK05687 444450007024 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 444450007025 Flagellar assembly protein FliH; Region: FliH; pfam02108 444450007026 flagellum-specific ATP synthase; Validated; Region: fliI; PRK07960 444450007027 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 444450007028 Walker A motif/ATP binding site; other site 444450007029 Walker B motif; other site 444450007030 Flagellar biosynthesis chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliJ; COG2882 444450007031 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 444450007032 Flagellar hook-length control protein [Cell motility and secretion]; Region: FliK; COG3144 444450007033 flagellar hook-length control protein; Provisional; Region: PRK10118 444450007034 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07021 444450007035 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 444450007036 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 444450007037 flagellar motor switch protein FliN; Validated; Region: fliN; PRK07963 444450007038 flagellar motor switch protein; Validated; Region: fliN; PRK05698 444450007039 flagellar biosynthesis protein FliO; Provisional; Region: PRK11486 444450007040 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 444450007041 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 444450007042 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 444450007043 colanic acid capsular biosynthesis activation protein A; Provisional; Region: rcsA; PRK15411 444450007044 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 444450007045 DNA binding residues [nucleotide binding] 444450007046 dimerization interface [polypeptide binding]; other site 444450007047 hypothetical protein; Provisional; Region: PRK10708 444450007048 Protein of unknown function (DUF2525); Region: DUF2525; pfam10733 444450007049 mannosyl-3-phosphoglycerate phosphatase; Reviewed; Region: PRK03669 444450007050 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 444450007051 active site 444450007052 motif I; other site 444450007053 motif II; other site 444450007054 putative diguanylate cyclase YedQ; Provisional; Region: PRK15426 444450007055 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 444450007056 metal binding site [ion binding]; metal-binding site 444450007057 active site 444450007058 I-site; other site 444450007059 hypothetical protein; Provisional; Region: PRK10062 444450007060 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 444450007061 EamA-like transporter family; Region: EamA; pfam00892 444450007062 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 444450007063 additional DNA contacts [nucleotide binding]; other site 444450007064 mismatch recognition site; other site 444450007065 active site 444450007066 zinc binding site [ion binding]; other site 444450007067 DNA intercalation site [nucleotide binding]; other site 444450007068 DNA cytosine methylase; Provisional; Region: PRK10458 444450007069 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 444450007070 cofactor binding site; other site 444450007071 DNA binding site [nucleotide binding] 444450007072 substrate interaction site [chemical binding]; other site 444450007073 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 444450007074 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 444450007075 Zn2+ binding site [ion binding]; other site 444450007076 Mg2+ binding site [ion binding]; other site 444450007077 chaperone protein HchA; Provisional; Region: PRK04155 444450007078 Type 1 glutamine amidotransferase (GATase1)-like domain found in Escherichia coli Hsp31 protein (EcHsp31); Region: GATase1_EcHsp31_like; cd03148 444450007079 dimer interface [polypeptide binding]; other site 444450007080 metal binding site [ion binding]; metal-binding site 444450007081 potential oxyanion hole; other site 444450007082 potential catalytic triad [active] 444450007083 conserved cys residue [active] 444450007084 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 444450007085 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 444450007086 dimer interface [polypeptide binding]; other site 444450007087 phosphorylation site [posttranslational modification] 444450007088 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 444450007089 ATP binding site [chemical binding]; other site 444450007090 Mg2+ binding site [ion binding]; other site 444450007091 G-X-G motif; other site 444450007092 transcriptional regulatory protein YedW; Provisional; Region: PRK11517 444450007093 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 444450007094 active site 444450007095 phosphorylation site [posttranslational modification] 444450007096 intermolecular recognition site; other site 444450007097 dimerization interface [polypeptide binding]; other site 444450007098 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 444450007099 DNA binding site [nucleotide binding] 444450007100 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 444450007101 active site 444450007102 homotetramer interface [polypeptide binding]; other site 444450007103 TMAO/DMSO reductase; Reviewed; Region: PRK05363 444450007104 YedY_like molybdopterin cofactor (Moco) binding domain, a subgroup of the sulfite oxidase (SO) family of molybdopterin binding domains. Escherichia coli YedY has been propsed to form a heterodimer, consisting of a soluble catalytic subunit termed YedY; Region: YedY_like_Moco; cd02107 444450007105 Moco binding site; other site 444450007106 metal coordination site [ion binding]; other site 444450007107 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 444450007108 zinc/cadmium-binding protein; Provisional; Region: PRK10306 444450007109 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 444450007110 AvrPphF-ORF-2; Region: AvrPphF-ORF-2; pfam09143 444450007111 EspF protein repeat; Region: EspF; pfam04806 444450007112 EspF protein repeat; Region: EspF; pfam04806 444450007113 EspF protein repeat; Region: EspF; pfam04806 444450007114 EspF protein repeat; Region: EspF; pfam04806 444450007115 EspF protein repeat; Region: EspF; pfam04806 444450007116 Putative prophage tail fibre C-terminus; Region: Phage_fiber_C; pfam06820 444450007117 Prophage tail fibre N-terminal; Region: phage_tail_N; pfam08400 444450007118 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 444450007119 Putative prophage tail fibre C-terminus; Region: Phage_fiber_C; pfam06820 444450007120 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 444450007121 Phage-related protein, tail component [Function unknown]; Region: COG4733 444450007122 Putative phage tail protein; Region: Phage-tail_3; pfam13550 444450007123 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 444450007124 Interdomain contacts; other site 444450007125 Cytokine receptor motif; other site 444450007126 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 444450007127 Fibronectin type III protein; Region: DUF3672; pfam12421 444450007128 Phage-related protein, tail component [Function unknown]; Region: COG4723 444450007129 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) found in proteins also containing NlpC/P60 domains; Region: MPN_NLPC_P60; cd08073 444450007130 MPN+ (JAMM) motif; other site 444450007131 Zinc-binding site [ion binding]; other site 444450007132 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 444450007133 NlpC/P60 family; Region: NLPC_P60; cl17555 444450007134 Phage-related protein [Function unknown]; Region: gp18; COG4672 444450007135 Phage-related protein [Function unknown]; Region: COG4718 444450007136 Phage-related minor tail protein [Function unknown]; Region: COG5281 444450007137 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 444450007138 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 444450007139 Minor tail protein T; Region: Phage_tail_T; cl05636 444450007140 Bacteriophage lambda minor tail protein (GpG); Region: Phage_lambd_GpG; pfam06894 444450007141 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 444450007142 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 444450007143 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 444450007144 Bacteriophage lambda head decoration protein D; Region: HDPD; pfam02924 444450007145 Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_36K_type; cd07022 444450007146 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 444450007147 tandem repeat interface [polypeptide binding]; other site 444450007148 oligomer interface [polypeptide binding]; other site 444450007149 active site residues [active] 444450007150 Bacteriophage capsid protein [General function prediction only]; Region: COG5511 444450007151 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 444450007152 gpW; Region: gpW; pfam02831 444450007153 Phage DNA packaging protein, Nu1 subunit of terminase [DNA replication, recombination, and repair]; Region: COG4220 444450007154 Domain of unknown function (DUF3950); Region: DUF3950; pfam13132 444450007155 Bacteriophage lysis protein; Region: Phage_lysis; pfam03245 444450007156 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 444450007157 catalytic residues [active] 444450007158 Protein of unknown function (DUF1327); Region: DUF1327; pfam07041 444450007159 Lysis protein S; Region: Lysis_S; pfam04971 444450007160 Transposase; Region: HTH_Tnp_1; cl17663 444450007161 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 444450007162 putative transposase OrfB; Reviewed; Region: PHA02517 444450007163 HTH-like domain; Region: HTH_21; pfam13276 444450007164 Integrase core domain; Region: rve; pfam00665 444450007165 Integrase core domain; Region: rve_3; pfam13683 444450007166 Domain of unknown function (DUF1737); Region: DUF1737; pfam08410 444450007167 Domain of unknown function (DUF303); Region: DUF303; pfam03629 444450007168 Protein of unknown function (DUF3927); Region: DUF3927; pfam13064 444450007169 Phage antitermination protein Q; Region: Phage_antiter_Q; pfam06323 444450007170 Holliday junction resolvase [DNA replication, recombination, and repair]; Region: Rus; COG4570 444450007171 Protein of unknown function (DUF968); Region: DUF968; pfam06147 444450007172 Protein of unknown function (DUF1627); Region: DUF1627; pfam07789 444450007173 Pyocin large subunit [General function prediction only]; Region: COG5529 444450007174 primosomal protein DnaI; Provisional; Region: PRK02854 444450007175 Protein of unknown function (DUF1019); Region: DUF1019; pfam06254 444450007176 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 444450007177 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 444450007178 non-specific DNA binding site [nucleotide binding]; other site 444450007179 salt bridge; other site 444450007180 sequence-specific DNA binding site [nucleotide binding]; other site 444450007181 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 444450007182 Catalytic site [active] 444450007183 Protein of unknown function (DUF1391); Region: DUF1391; pfam07151 444450007184 DicB protein; Region: DicB; pfam05358 444450007185 Protein of unknown function (DUF1482); Region: DUF1482; pfam07358 444450007186 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 444450007187 active site 444450007188 substrate binding site [chemical binding]; other site 444450007189 catalytic site [active] 444450007190 Domain of unknown function (DUF4224); Region: DUF4224; pfam13986 444450007191 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 444450007192 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 444450007193 active site 444450007194 DNA binding site [nucleotide binding] 444450007195 Int/Topo IB signature motif; other site 444450007196 DgsA anti-repressor MtfA; Provisional; Region: PRK15410 444450007197 Protein of unknown function (DUF3442); Region: DUF3442; pfam11924 444450007198 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 444450007199 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 444450007200 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 444450007201 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 444450007202 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 444450007203 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 444450007204 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 444450007205 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 444450007206 Bacterial Ig-like domain (group 1); Region: Big_1; pfam02369 444450007207 Bacterial Ig-like domain (group 1); Region: Big_1; pfam02369 444450007208 Bacterial Ig-like domain (group 1); Region: Big_1; pfam02369 444450007209 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 444450007210 Bacterial Ig-like domain (group 1); Region: Big_1; pfam02369 444450007211 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 444450007212 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 444450007213 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 444450007214 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 444450007215 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 444450007216 shikimate transporter; Provisional; Region: PRK09952 444450007217 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 444450007218 putative substrate translocation pore; other site 444450007219 AMP nucleosidase; Provisional; Region: PRK08292 444450007220 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 444450007221 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 444450007222 hypothetical protein; Provisional; Region: PRK12378 444450007223 MATE family multidrug exporter; Provisional; Region: PRK10189 444450007224 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 444450007225 transcriptional regulator Cbl; Reviewed; Region: cbl; PRK12679 444450007226 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 444450007227 The C-terminal substrate binding domain of LysR-type transcriptional regulator Cbl, which is required for expression of sulfate starvation-inducible (ssi) genes, contains the type 2 periplasmic binding fold; Region: PBP2_Cbl; cd08444 444450007228 putative substrate binding site [chemical binding]; other site 444450007229 dimerization interface [polypeptide binding]; other site 444450007230 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 444450007231 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 444450007232 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 444450007233 putative dimerization interface [polypeptide binding]; other site 444450007234 L,D-transpeptidase; Provisional; Region: PRK10190 444450007235 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 444450007236 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 444450007237 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 444450007238 putative dimer interface [polypeptide binding]; other site 444450007239 active site pocket [active] 444450007240 putative cataytic base [active] 444450007241 cobalamin 5'-phosphate synthase/cobalamin synthase; Region: cobS; TIGR00317 444450007242 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 444450007243 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 444450007244 Dimerization/Docking domain of Cyclic GMP-dependent Protein Kinase I; Region: DD_cGKI; cl17044 444450007245 homodimer interface [polypeptide binding]; other site 444450007246 putative GKAP docking site [polypeptide binding]; other site 444450007247 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 444450007248 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 444450007249 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 444450007250 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 444450007251 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 444450007252 putative transposase OrfB; Reviewed; Region: PHA02517 444450007253 HTH-like domain; Region: HTH_21; pfam13276 444450007254 Integrase core domain; Region: rve; pfam00665 444450007255 Integrase core domain; Region: rve_3; pfam13683 444450007256 Transposase; Region: HTH_Tnp_1; cl17663 444450007257 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 444450007258 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 444450007259 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 444450007260 N-terminal plug; other site 444450007261 ligand-binding site [chemical binding]; other site 444450007262 hypothetical protein; Provisional; Region: PRK09866 444450007263 YjcZ-like protein; Region: YjcZ; pfam13990 444450007264 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 444450007265 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 444450007266 nucleophile elbow; other site 444450007267 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 444450007268 Domain of unknown function (DUF932); Region: DUF932; pfam06067 444450007269 Antirestriction protein; Region: Antirestrict; pfam03230 444450007270 DNA repair proteins [DNA replication, recombination, and repair]; Region: RadC; COG2003 444450007271 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 444450007272 MPN+ (JAMM) motif; other site 444450007273 Zinc-binding site [ion binding]; other site 444450007274 Protein of unknown function (DUF987); Region: DUF987; pfam06174 444450007275 YagB/YeeU/YfjZ family; Region: YagB_YeeU_YfjZ; pfam06154 444450007276 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 444450007277 hypothetical protein; Provisional; Region: PRK05423 444450007278 Predicted membrane protein [Function unknown]; Region: COG1289 444450007279 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 444450007280 DNA gyrase inhibitor; Provisional; Region: PRK10016 444450007281 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 444450007282 D-alanyl-D-alanine carboxypeptidase; Provisional; Region: dacD; PRK11397 444450007283 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 444450007284 Protein of unknown function (DUF1076); Region: DUF1076; pfam06416 444450007285 Putative prophage tail fibre C-terminus; Region: Phage_fiber_C; pfam06820 444450007286 Prophage tail fibre N-terminal; Region: phage_tail_N; pfam08400 444450007287 Putative prophage tail fibre C-terminus; Region: Phage_fiber_C; pfam06820 444450007288 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 444450007289 Phage-related protein, tail component [Function unknown]; Region: COG4733 444450007290 Putative phage tail protein; Region: Phage-tail_3; pfam13550 444450007291 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 444450007292 Interdomain contacts; other site 444450007293 Cytokine receptor motif; other site 444450007294 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 444450007295 Fibronectin type III protein; Region: DUF3672; pfam12421 444450007296 Phage-related protein, tail component [Function unknown]; Region: COG4723 444450007297 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) found in proteins also containing NlpC/P60 domains; Region: MPN_NLPC_P60; cd08073 444450007298 MPN+ (JAMM) motif; other site 444450007299 Zinc-binding site [ion binding]; other site 444450007300 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 444450007301 NlpC/P60 family; Region: NLPC_P60; cl17555 444450007302 P22_AR N-terminal domain; Region: P22_AR_N; pfam10547 444450007303 Phage anti-repressor protein [Transcription]; Region: COG3561 444450007304 Phage-related protein [Function unknown]; Region: COG4718 444450007305 Phage-related minor tail protein [Function unknown]; Region: COG5281 444450007306 tape measure domain; Region: tape_meas_nterm; TIGR02675 444450007307 Tail length tape measure protein; Region: Phage_HK97_TLTM; pfam06120 444450007308 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 444450007309 Protein of unknown function (DUF4035); Region: DUF4035; pfam13227 444450007310 Phage tail assembly chaperone; Region: Phage_TAC; pfam06222 444450007311 Immunoglobulin I-set domain; Region: I-set; pfam07679 444450007312 Immunoglobulin domain; Region: Ig_2; pfam13895 444450007313 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 444450007314 phage protein, HK97 gp10 family; Region: phge_HK97_gp10; TIGR01725 444450007315 Bacteriophage head-tail adaptor [General function prediction only]; Region: COG5614 444450007316 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 444450007317 oligomerization interface [polypeptide binding]; other site 444450007318 Phage-related protein [Function unknown]; Region: COG4695 444450007319 phage portal protein, HK97 family; Region: portal_HK97; TIGR01537 444450007320 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 444450007321 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 444450007322 Phage capsid family; Region: Phage_capsid; pfam05065 444450007323 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 444450007324 Phage terminase, small subunit [DNA replication, recombination, and repair]; Region: XtmA; COG3728 444450007325 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 444450007326 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 444450007327 active site 444450007328 Domain of unknown function (DUF3950); Region: DUF3950; pfam13132 444450007329 KilA-N domain; Region: KilA-N; pfam04383 444450007330 ORF11CD3 domain; Region: ORF11CD3; pfam10549 444450007331 Bacteriophage lysis protein; Region: Phage_lysis; pfam03245 444450007332 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 444450007333 catalytic residues [active] 444450007334 Lysis protein S; Region: Lysis_S; pfam04971 444450007335 Protein of unknown function (DUF826); Region: DUF826; pfam05696 444450007336 Protein of unknown function (DUF1378); Region: DUF1378; pfam07125 444450007337 Domain of unknown function (DUF1737); Region: DUF1737; pfam08410 444450007338 Domain of unknown function (DUF303); Region: DUF303; pfam03629 444450007339 Shiga-like toxin beta subunit; Region: SLT_beta; pfam02258 444450007340 Ribosome inactivating protein; Region: RIP; pfam00161 444450007341 Phage antitermination protein Q; Region: Phage_antitermQ; pfam06530 444450007342 PrpA and PrpB, metallophosphatase domain; Region: MPP_PrpA_PrpB; cd07424 444450007343 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 444450007344 active site 444450007345 metal binding site [ion binding]; metal-binding site 444450007346 Bacteriophage Lambda NinG protein; Region: NinG; pfam05766 444450007347 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 444450007348 Uncharacterized phage-encoded protein [Function unknown]; Region: COG3645 444450007349 ORF6N domain; Region: ORF6N; pfam10543 444450007350 Phage anti-repressor protein [Transcription]; Region: COG3561 444450007351 ORF6N domain; Region: ORF6N; pfam10543 444450007352 phage N-6-adenine-methyltransferase; Region: phage_N6A_met; TIGR01712 444450007353 NinB protein; Region: NinB; pfam05772 444450007354 restriction alleviation protein, Lar family; Region: anti_R_Lar; TIGR03655 444450007355 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 444450007356 DnaB-like helicase C terminal domain; Region: DnaB_C; pfam03796 444450007357 DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a...; Region: DnaB_C; cd00984 444450007358 Walker A motif; other site 444450007359 ATP binding site [chemical binding]; other site 444450007360 Walker B motif; other site 444450007361 DNA binding loops [nucleotide binding] 444450007362 Bacteriophage replication protein O; Region: Phage_rep_O; pfam04492 444450007363 Bacteriophage CII protein; Region: Phage_CII; pfam05269 444450007364 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 444450007365 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 444450007366 non-specific DNA binding site [nucleotide binding]; other site 444450007367 salt bridge; other site 444450007368 sequence-specific DNA binding site [nucleotide binding]; other site 444450007369 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 444450007370 Catalytic site [active] 444450007371 Protein of unknown function (DUF2528); Region: DUF2528; pfam10800 444450007372 Bacteriophage lambda Kil protein; Region: Lambda_Kil; pfam06301 444450007373 Host-nuclease inhibitor protein Gam; Region: Gam; pfam06064 444450007374 phage recombination protein Bet; Region: bet_lambda; TIGR01913 444450007375 putative transposase OrfB; Reviewed; Region: PHA02517 444450007376 HTH-like domain; Region: HTH_21; pfam13276 444450007377 Integrase core domain; Region: rve; pfam00665 444450007378 Integrase core domain; Region: rve_3; pfam13683 444450007379 Transposase; Region: HTH_Tnp_1; cl17663 444450007380 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 444450007381 YqaJ-like viral recombinase domain; Region: YqaJ; pfam09588 444450007382 Protein of unknown function (DUF1382); Region: DUF1382; pfam07131 444450007383 Ead/Ea22-like protein; Region: Ead_Ea22; pfam13935 444450007384 Protein of unknown function (DUF551); Region: DUF551; pfam04448 444450007385 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 444450007386 integrase; Provisional; Region: PRK09692 444450007387 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 444450007388 active site 444450007389 Int/Topo IB signature motif; other site 444450007390 exonuclease I; Provisional; Region: sbcB; PRK11779 444450007391 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 444450007392 active site 444450007393 catalytic site [active] 444450007394 substrate binding site [chemical binding]; other site 444450007395 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 444450007396 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 444450007397 CPxP motif; other site 444450007398 putative selenium metabolism protein, YedE family; Region: seleno_YedE; TIGR04112 444450007399 Sulphur transport; Region: Sulf_transp; pfam04143 444450007400 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 444450007401 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 444450007402 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 444450007403 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 444450007404 dimerization interface [polypeptide binding]; other site 444450007405 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 444450007406 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 444450007407 putative NAD(P) binding site [chemical binding]; other site 444450007408 Histidine operon leader 444450007409 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 444450007410 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 444450007411 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 444450007412 Histidinol dehydrogenase; Region: Histidinol_dh; pfam00815 444450007413 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 444450007414 NAD binding site [chemical binding]; other site 444450007415 dimerization interface [polypeptide binding]; other site 444450007416 product binding site; other site 444450007417 substrate binding site [chemical binding]; other site 444450007418 zinc binding site [ion binding]; other site 444450007419 catalytic residues [active] 444450007420 histidinol-phosphate aminotransferase; Provisional; Region: PRK01688 444450007421 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 444450007422 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444450007423 homodimer interface [polypeptide binding]; other site 444450007424 catalytic residue [active] 444450007425 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 444450007426 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 444450007427 active site 444450007428 motif I; other site 444450007429 motif II; other site 444450007430 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 444450007431 putative active site pocket [active] 444450007432 4-fold oligomerization interface [polypeptide binding]; other site 444450007433 metal binding residues [ion binding]; metal-binding site 444450007434 3-fold/trimer interface [polypeptide binding]; other site 444450007435 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 444450007436 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 444450007437 putative active site [active] 444450007438 oxyanion strand; other site 444450007439 catalytic triad [active] 444450007440 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 444450007441 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 444450007442 catalytic residues [active] 444450007443 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 444450007444 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 444450007445 substrate binding site [chemical binding]; other site 444450007446 glutamase interaction surface [polypeptide binding]; other site 444450007447 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 444450007448 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 444450007449 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 444450007450 metal binding site [ion binding]; metal-binding site 444450007451 chain length determinant protein WzzB; Provisional; Region: PRK15471 444450007452 Chain length determinant protein; Region: Wzz; pfam02706 444450007453 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 444450007454 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 444450007455 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 444450007456 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 444450007457 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 444450007458 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 444450007459 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 444450007460 phosphomannomutase CpsG; Provisional; Region: PRK15414 444450007461 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 444450007462 active site 444450007463 substrate binding site [chemical binding]; other site 444450007464 metal binding site [ion binding]; metal-binding site 444450007465 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 444450007466 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 444450007467 Substrate binding site; other site 444450007468 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 444450007469 GDP-mannose glycosyl hydrolase (AKA GDP-mannose mannosyl hydrolase (GDPMH)) is a member of the Nudix hydrolase superfamily. This class of enzymes is unique from other members of the superfamily in two aspects. First, it contains a modified Nudix...; Region: GDPMH; cd03430 444450007470 active site 444450007471 GDP-Mannose binding site [chemical binding]; other site 444450007472 dimer interface [polypeptide binding]; other site 444450007473 modified nudix motif 444450007474 metal binding site [ion binding]; metal-binding site 444450007475 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 444450007476 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 444450007477 NADP binding site [chemical binding]; other site 444450007478 active site 444450007479 putative substrate binding site [chemical binding]; other site 444450007480 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 444450007481 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 444450007482 NADP-binding site; other site 444450007483 homotetramer interface [polypeptide binding]; other site 444450007484 substrate binding site [chemical binding]; other site 444450007485 homodimer interface [polypeptide binding]; other site 444450007486 active site 444450007487 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 444450007488 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 444450007489 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 444450007490 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 444450007491 inhibitor-cofactor binding pocket; inhibition site 444450007492 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444450007493 catalytic residue [active] 444450007494 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 444450007495 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 444450007496 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 444450007497 active site 444450007498 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 444450007499 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 444450007500 active site 444450007501 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 444450007502 active site 444450007503 tetramer interface; other site 444450007504 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 444450007505 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 444450007506 putative NAD(P) binding site [chemical binding]; other site 444450007507 active site 444450007508 putative substrate binding site [chemical binding]; other site 444450007509 putative colanic acid biosynthesis protein; Provisional; Region: wcaM; PRK10123 444450007510 colanic acid biosynthesis glycosyltransferase WcaL; Region: wcaL; TIGR04005 444450007511 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 444450007512 putative ADP-binding pocket [chemical binding]; other site 444450007513 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; COG2327 444450007514 colanic acid biosynthesis pyruvyl transferase WcaK; Region: wcaK; TIGR04006 444450007515 colanic acid exporter; Provisional; Region: PRK10459 444450007516 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 444450007517 putative UDP-glucose lipid carrier transferase; Provisional; Region: PRK10124 444450007518 Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]; Region: WcaJ; COG2148 444450007519 phosphomannomutase CpsG; Provisional; Region: PRK15414 444450007520 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 444450007521 active site 444450007522 substrate binding site [chemical binding]; other site 444450007523 metal binding site [ion binding]; metal-binding site 444450007524 mannose-1-phosphate guanyltransferase; Provisional; Region: cpsB; PRK15460 444450007525 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 444450007526 Substrate binding site; other site 444450007527 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 444450007528 colanic acid biosynthesis glycosyl transferase WcaI; Region: wcaI; TIGR04007 444450007529 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 444450007530 GDP-mannose glycosyl hydrolase (AKA GDP-mannose mannosyl hydrolase (GDPMH)) is a member of the Nudix hydrolase superfamily. This class of enzymes is unique from other members of the superfamily in two aspects. First, it contains a modified Nudix...; Region: GDPMH; cd03430 444450007531 active site 444450007532 GDP-Mannose binding site [chemical binding]; other site 444450007533 dimer interface [polypeptide binding]; other site 444450007534 modified nudix motif 444450007535 metal binding site [ion binding]; metal-binding site 444450007536 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 444450007537 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 444450007538 NADP binding site [chemical binding]; other site 444450007539 active site 444450007540 putative substrate binding site [chemical binding]; other site 444450007541 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 444450007542 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 444450007543 NADP-binding site; other site 444450007544 homotetramer interface [polypeptide binding]; other site 444450007545 substrate binding site [chemical binding]; other site 444450007546 homodimer interface [polypeptide binding]; other site 444450007547 active site 444450007548 colanic acid biosynthesis acetyltransferase WcaF; Region: WcaF; TIGR04008 444450007549 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 444450007550 putative trimer interface [polypeptide binding]; other site 444450007551 putative active site [active] 444450007552 putative substrate binding site [chemical binding]; other site 444450007553 putative CoA binding site [chemical binding]; other site 444450007554 putative glycosyl transferase; Provisional; Region: PRK10063 444450007555 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 444450007556 metal-binding site 444450007557 putative colanic acid polymerase WcaD; Region: WcaD; TIGR04010 444450007558 colanic acid biosynthesis glycosyl transferase WcaC; Region: WcaC; TIGR04015 444450007559 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 444450007560 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 444450007561 putative acyl transferase; Provisional; Region: PRK10191 444450007562 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 444450007563 trimer interface [polypeptide binding]; other site 444450007564 active site 444450007565 substrate binding site [chemical binding]; other site 444450007566 CoA binding site [chemical binding]; other site 444450007567 putative glycosyl transferase; Provisional; Region: PRK10018 444450007568 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 444450007569 active site 444450007570 tyrosine kinase; Provisional; Region: PRK11519 444450007571 Chain length determinant protein; Region: Wzz; pfam02706 444450007572 Chain length determinant protein; Region: Wzz; cl15801 444450007573 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 444450007574 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 444450007575 Low molecular weight phosphatase family; Region: LMWPc; cd00115 444450007576 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 444450007577 active site 444450007578 polysaccharide export protein Wza; Provisional; Region: PRK15078 444450007579 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 444450007580 SLBB domain; Region: SLBB; pfam10531 444450007581 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 444450007582 FOG: CBS domain [General function prediction only]; Region: COG0517 444450007583 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 444450007584 Transporter associated domain; Region: CorC_HlyC; smart01091 444450007585 Phage-related protein [Function unknown]; Region: COG4679 444450007586 Uncharacterized conserved small protein [Function unknown]; Region: COG5606 444450007587 putative assembly protein; Provisional; Region: PRK10833 444450007588 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 444450007589 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 444450007590 trimer interface [polypeptide binding]; other site 444450007591 active site 444450007592 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 444450007593 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 444450007594 ATP-binding site [chemical binding]; other site 444450007595 Sugar specificity; other site 444450007596 Pyrimidine base specificity; other site 444450007597 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 444450007598 AlkA N-terminal domain; Region: AlkA_N; smart01009 444450007599 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 444450007600 minor groove reading motif; other site 444450007601 helix-hairpin-helix signature motif; other site 444450007602 substrate binding pocket [chemical binding]; other site 444450007603 active site 444450007604 putative chaperone; Provisional; Region: PRK11678 444450007605 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 444450007606 nucleotide binding site [chemical binding]; other site 444450007607 putative NEF/HSP70 interaction site [polypeptide binding]; other site 444450007608 SBD interface [polypeptide binding]; other site 444450007609 Uncharacterized protein with protein kinase and helix-hairpin-helix DNA-binding domains [General function prediction only]; Region: COG4248 444450007610 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 444450007611 substrate binding site [chemical binding]; other site 444450007612 activation loop (A-loop); other site 444450007613 Protein phosphatase 2C; Region: PP2C_2; pfam13672 444450007614 VWA subfamily: 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_subfamily; cd01464 444450007615 metal ion-dependent adhesion site (MIDAS); other site 444450007616 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 444450007617 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 444450007618 HlyD family secretion protein; Region: HlyD_3; pfam13437 444450007619 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 444450007620 Protein export membrane protein; Region: SecD_SecF; cl14618 444450007621 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 444450007622 putative transporter; Provisional; Region: PRK10504 444450007623 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 444450007624 putative substrate translocation pore; other site 444450007625 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 444450007626 signal transduction histidine-protein kinase BaeS; Provisional; Region: PRK10549 444450007627 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 444450007628 dimerization interface [polypeptide binding]; other site 444450007629 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 444450007630 dimer interface [polypeptide binding]; other site 444450007631 phosphorylation site [posttranslational modification] 444450007632 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 444450007633 ATP binding site [chemical binding]; other site 444450007634 Mg2+ binding site [ion binding]; other site 444450007635 G-X-G motif; other site 444450007636 DNA-binding transcriptional regulator BaeR; Provisional; Region: PRK10710 444450007637 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 444450007638 active site 444450007639 phosphorylation site [posttranslational modification] 444450007640 intermolecular recognition site; other site 444450007641 dimerization interface [polypeptide binding]; other site 444450007642 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 444450007643 DNA binding site [nucleotide binding] 444450007644 Uncharacterized conserved protein [Function unknown]; Region: COG3422 444450007645 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 444450007646 putative protease; Provisional; Region: PRK15452 444450007647 Peptidase family U32; Region: Peptidase_U32; pfam01136 444450007648 DNA-binding transcriptional regulator; Provisional; Region: PRK09678 444450007649 Ogr/Delta-like zinc finger; Region: Ogr_Delta; pfam04606 444450007650 tail protein; Provisional; Region: D; PHA02561 444450007651 Phage P2 GpU; Region: Phage_P2_GpU; pfam06995 444450007652 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 444450007653 major tail tube protein; Provisional; Region: FII; PHA02600 444450007654 major tail sheath protein; Provisional; Region: FI; PHA02560 444450007655 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 444450007656 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 444450007657 catalytic residues [active] 444450007658 catalytic nucleophile [active] 444450007659 Presynaptic Site I dimer interface [polypeptide binding]; other site 444450007660 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 444450007661 Synaptic Flat tetramer interface [polypeptide binding]; other site 444450007662 Synaptic Site I dimer interface [polypeptide binding]; other site 444450007663 DNA binding site [nucleotide binding] 444450007664 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 444450007665 DNA-binding interface [nucleotide binding]; DNA binding site 444450007666 Phage Tail Collar Domain; Region: Collar; pfam07484 444450007667 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 444450007668 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 444450007669 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 444450007670 Bacteriophage P2-related tail formation protein [General function prediction only]; Region: gpI; COG4385 444450007671 baseplate assembly protein; Provisional; Region: J; PHA02568 444450007672 baseplate wedge subunit; Provisional; Region: W; PHA02516 444450007673 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 444450007674 Phage P2 baseplate assembly protein gpV [General function prediction only]; Region: gpV; COG4540 444450007675 Phage virion morphogenesis family; Region: Phage_tail_S; pfam05069 444450007676 P2 phage tail completion protein R (GpR); Region: P2_Phage_GpR; pfam06891 444450007677 phage lysis regulatory protein, LysB family; Region: phage_LysB; TIGR03495 444450007678 The lysozyme from bacteriophage lambda hydrolyses the beta-1,4-glycosidic bond between N-acetylmuramic acid (MurNAc) and N-acetylglucosamine (GlcNAc), as do other lysozymes. But unlike other lysozymes, bacteriophage lambda does not produce a reducing...; Region: bacteriophage_lambda_lysozyme; cd00736 444450007679 N-acetyl-D-glucosamine binding site [chemical binding]; other site 444450007680 catalytic residue [active] 444450007681 Phage holin family 2; Region: Phage_holin_2; pfam04550 444450007682 Phage Tail Protein X; Region: Phage_tail_X; pfam05489 444450007683 Phage head completion protein (GPL); Region: Phage_GPL; pfam05926 444450007684 terminase endonuclease subunit; Provisional; Region: M; PHA02537 444450007685 Phage small terminase subunit; Region: Phage_term_smal; pfam05944 444450007686 Phage major capsid protein, P2 family; Region: Phage_cap_P2; pfam05125 444450007687 Phage capsid scaffolding protein (GPO) serine peptidase; Region: Phage_GPO; pfam05929 444450007688 terminase ATPase subunit; Provisional; Region: P; PHA02535 444450007689 Putative ATPase subunit of terminase (gpP-like); Region: Terminase_5; pfam06056 444450007690 portal vertex protein; Provisional; Region: Q; PHA02536 444450007691 Phage portal protein; Region: Phage_portal; pfam04860 444450007692 AAA domain; Region: AAA_23; pfam13476 444450007693 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 444450007694 Walker A/P-loop; other site 444450007695 ATP binding site [chemical binding]; other site 444450007696 Putative serine esterase (DUF676); Region: DUF676; pfam05057 444450007697 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; pfam05840 444450007698 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 444450007699 Protein of unknown function (DUF2732); Region: DUF2732; pfam10809 444450007700 Regulatory phage protein cox; Region: Phage_Cox; pfam10743 444450007701 integrase; Provisional; Region: int; PHA02601 444450007702 Phage HP1 integrase, C-terminal catalytic domain. Bacteriophage HP1 and related integrases are found in eubacteria, plasmids and temperate bacteriophages of the P2 family. They belong to the DNA breaking-rejoining enzyme superfamily, which includes...; Region: HP1_INT_C; cd00797 444450007703 dimer interface [polypeptide binding]; other site 444450007704 active site 444450007705 catalytic residues [active] 444450007706 Int/Topo IB signature motif; other site 444450007707 lipid kinase; Reviewed; Region: PRK13054 444450007708 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 444450007709 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 444450007710 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 444450007711 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 444450007712 galactitol-1-phosphate dehydrogenase; Provisional; Region: PRK10309 444450007713 NAD(P)-dependent sugar dehydrogenases; Region: sugar_DH; cd08236 444450007714 putative NAD(P) binding site [chemical binding]; other site 444450007715 catalytic Zn binding site [ion binding]; other site 444450007716 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 444450007717 PTS system, galactitol-specific IIC component; Region: EIIC-GAT; TIGR00827 444450007718 PTS_IIB_galactitol: subunit IIB of enzyme II (EII) of the galactitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a galactitol-specific permease with two cytoplasmic domains (IIA and IIB) and a...; Region: PTS_IIB_galactitol; cd05566 444450007719 active site 444450007720 P-loop; other site 444450007721 phosphorylation site [posttranslational modification] 444450007722 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 444450007723 active site 444450007724 phosphorylation site [posttranslational modification] 444450007725 D-tagatose-1,6-bisphosphate aldolase subunit GatZ; Provisional; Region: PRK15052 444450007726 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 444450007727 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 444450007728 intersubunit interface [polypeptide binding]; other site 444450007729 active site 444450007730 zinc binding site [ion binding]; other site 444450007731 Na+ binding site [ion binding]; other site 444450007732 fructose-bisphosphate aldolase; Provisional; Region: PRK09250 444450007733 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 444450007734 putative active site; other site 444450007735 catalytic residue [active] 444450007736 nucleoside transporter; Region: 2A0110; TIGR00889 444450007737 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 444450007738 putative substrate translocation pore; other site 444450007739 ADP-ribosylglycohydrolase [Posttranslational modification, protein turnover, chaperones]; Region: DraG; COG1397 444450007740 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 444450007741 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 444450007742 substrate binding site [chemical binding]; other site 444450007743 ATP binding site [chemical binding]; other site 444450007744 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 444450007745 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 444450007746 DNA-binding site [nucleotide binding]; DNA binding site 444450007747 UTRA domain; Region: UTRA; pfam07702 444450007748 Lyzozyme M1 (1,4-beta-N-acetylmuramidase) [Cell envelope biogenesis, outer membrane]; Region: Acm; COG3757 444450007749 YegX is an uncharacterized bacterial protein with a glycosyl hydrolase family 25 (GH25) catalytic domain that is similar in sequence to the CH-type (Chalaropsis-type) lysozymes of the GH25 family of endolysins; Region: GH25_YegX-like; cd06524 444450007750 active site 444450007751 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 444450007752 dimer interface [polypeptide binding]; other site 444450007753 substrate binding site [chemical binding]; other site 444450007754 ATP binding site [chemical binding]; other site 444450007755 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 444450007756 substrate binding site [chemical binding]; other site 444450007757 multimerization interface [polypeptide binding]; other site 444450007758 ATP binding site [chemical binding]; other site 444450007759 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 444450007760 putative metal binding site [ion binding]; other site 444450007761 putative homodimer interface [polypeptide binding]; other site 444450007762 putative homotetramer interface [polypeptide binding]; other site 444450007763 putative homodimer-homodimer interface [polypeptide binding]; other site 444450007764 putative allosteric switch controlling residues; other site 444450007765 nickel/cobalt efflux protein RcnA; Provisional; Region: PRK10019 444450007766 Predicted integral membrane protein [Function unknown]; Region: COG5455 444450007767 putative fimbrial-like adhesin protein StcD; Provisional; Region: PRK15252 444450007768 putative fimbrial biosynthesis regulatory protein; Provisional; Region: PRK15216 444450007769 fimbrial outer membrane usher protein; Provisional; Region: PRK15217 444450007770 PapC N-terminal domain; Region: PapC_N; pfam13954 444450007771 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 444450007772 PapC C-terminal domain; Region: PapC_C; pfam13953 444450007773 putative fimbrial assembly chaperone protein StcB; Provisional; Region: PRK15253 444450007774 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 444450007775 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 444450007776 Fimbrial protein; Region: Fimbrial; cl01416 444450007777 Protein of unknown function (DUF2574); Region: DUF2574; pfam10836 444450007778 antiporter inner membrane protein; Provisional; Region: PRK11670 444450007779 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 444450007780 Walker A motif; other site 444450007781 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 444450007782 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 444450007783 active site 444450007784 HIGH motif; other site 444450007785 KMSKS motif; other site 444450007786 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 444450007787 tRNA binding surface [nucleotide binding]; other site 444450007788 anticodon binding site; other site 444450007789 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 444450007790 dimer interface [polypeptide binding]; other site 444450007791 putative tRNA-binding site [nucleotide binding]; other site 444450007792 Domain of unknown function (DUF4132); Region: DUF4132; pfam13569 444450007793 Domain of unknown function (DUF4132); Region: DUF4132; pfam13569 444450007794 MoxR-like ATPases [General function prediction only]; Region: COG0714 444450007795 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 444450007796 Walker A motif; other site 444450007797 ATP binding site [chemical binding]; other site 444450007798 Walker B motif; other site 444450007799 arginine finger; other site 444450007800 VWA domain containing CoxE-like protein; Region: VWA_CoxE; pfam05762 444450007801 VWA YIEM 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_YIEM_type; cd01462 444450007802 metal ion-dependent adhesion site (MIDAS); other site 444450007803 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4808 444450007804 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 444450007805 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 444450007806 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 444450007807 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 444450007808 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 444450007809 active site 444450007810 phosphorylation site [posttranslational modification] 444450007811 intermolecular recognition site; other site 444450007812 dimerization interface [polypeptide binding]; other site 444450007813 LytTr DNA-binding domain; Region: LytTR; pfam04397 444450007814 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 444450007815 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 444450007816 GAF domain; Region: GAF; pfam01590 444450007817 Histidine kinase; Region: His_kinase; pfam06580 444450007818 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 444450007819 ATP binding site [chemical binding]; other site 444450007820 Mg2+ binding site [ion binding]; other site 444450007821 G-X-G motif; other site 444450007822 DinI-like family; Region: DinI; pfam06183 444450007823 Putative prophage tail fibre C-terminus; Region: Phage_fiber_C; pfam06820 444450007824 Prophage tail fibre N-terminal; Region: phage_tail_N; pfam08400 444450007825 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 444450007826 Putative prophage tail fibre C-terminus; Region: Phage_fiber_C; pfam06820 444450007827 Enterobacterial Ail/Lom protein; Region: Ail_Lom; pfam06316 444450007828 Phage-related protein, tail component [Function unknown]; Region: COG4733 444450007829 Putative phage tail protein; Region: Phage-tail_3; pfam13550 444450007830 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 444450007831 Interdomain contacts; other site 444450007832 Cytokine receptor motif; other site 444450007833 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 444450007834 Fibronectin type III protein; Region: DUF3672; pfam12421 444450007835 Phage-related protein, tail component [Function unknown]; Region: COG4723 444450007836 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) found in proteins also containing NlpC/P60 domains; Region: MPN_NLPC_P60; cd08073 444450007837 MPN+ (JAMM) motif; other site 444450007838 Zinc-binding site [ion binding]; other site 444450007839 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 444450007840 NlpC/P60 family; Region: NLPC_P60; cl17555 444450007841 Phage-related protein [Function unknown]; Region: gp18; COG4672 444450007842 Phage-related protein [Function unknown]; Region: COG4718 444450007843 Phage-related minor tail protein [Function unknown]; Region: COG5281 444450007844 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 444450007845 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 444450007846 phage tail tape measure protein, lambda family; Region: tape_meas_lam_C; TIGR01541 444450007847 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 444450007848 Minor tail protein T; Region: Phage_tail_T; cl05636 444450007849 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 444450007850 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 444450007851 Phage minor tail protein U; Region: Phage_tail_U; pfam06141 444450007852 Prophage minor tail protein Z (GPZ); Region: Minor_tail_Z; pfam06763 444450007853 ATP-binding sugar transporter from pro-phage; Region: Gifsy-2; pfam13856 444450007854 Uncharacterized conserved protein [Function unknown]; Region: COG5471 444450007855 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 444450007856 Phage portal protein, lambda family; Region: Phage_portal_2; pfam05136 444450007857 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 444450007858 Clp protease; Region: CLP_protease; pfam00574 444450007859 oligomer interface [polypeptide binding]; other site 444450007860 active site residues [active] 444450007861 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; cl01826 444450007862 Phage terminase, large subunit GpA [Replication, recombination and repair]; Region: COG5525 444450007863 Protein of unknown function (DUF1441); Region: DUF1441; pfam07278 444450007864 Bacteriophage lysis protein; Region: Phage_lysis; pfam03245 444450007865 P22_AR N-terminal domain; Region: P22_AR_N; pfam10547 444450007866 ORF11CD3 domain; Region: ORF11CD3; pfam10549 444450007867 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 444450007868 catalytic residues [active] 444450007869 Lysis protein S; Region: Lysis_S; pfam04971 444450007870 Protein of unknown function (DUF826); Region: DUF826; pfam05696 444450007871 Protein of unknown function (DUF1378); Region: DUF1378; pfam07125 444450007872 Domain of unknown function (DUF1737); Region: DUF1737; pfam08410 444450007873 Domain of unknown function (DUF303); Region: DUF303; pfam03629 444450007874 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 444450007875 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 444450007876 DNA methylase; Region: N6_N4_Mtase; pfam01555 444450007877 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 444450007878 MarR family; Region: MarR_2; cl17246 444450007879 Antitermination protein; Region: Antiterm; pfam03589 444450007880 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 444450007881 Holliday junction resolvase [DNA replication, recombination, and repair]; Region: Rus; COG4570 444450007882 Protein of unknown function (DUF968); Region: DUF968; pfam06147 444450007883 Protein of unknown function (DUF551); Region: DUF551; pfam04448 444450007884 Bacterial protein of unknown function (DUF977); Region: DUF977; pfam06163 444450007885 Protein of unknown function (DUF1627); Region: DUF1627; pfam07789 444450007886 Replication protein P; Region: Phage_lambda_P; pfam06992 444450007887 Pyocin large subunit [General function prediction only]; Region: COG5529 444450007888 Helix-turn-helix domain; Region: HTH_36; pfam13730 444450007889 primosomal protein DnaI; Provisional; Region: PRK02854 444450007890 Protein of unknown function (DUF1019); Region: DUF1019; pfam06254 444450007891 DNA-binding transcriptional regulator DicC; Provisional; Region: PRK09744 444450007892 transcriptional repressor DicA; Reviewed; Region: PRK09706 444450007893 Protein of unknown function (DUF1391); Region: DUF1391; pfam07151 444450007894 Protein of unknown function (DUF1482); Region: DUF1482; pfam07358 444450007895 exonuclease VIII; Reviewed; Region: PRK09709 444450007896 Enterobacterial exodeoxyribonuclease VIII; Region: Exonuc_VIII; pfam06630 444450007897 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 444450007898 active site 444450007899 substrate binding site [chemical binding]; other site 444450007900 catalytic site [active] 444450007901 Bacteriophage lambda integrase, N-terminal domain; Region: Phage_integ_N; pfam09003 444450007902 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 444450007903 Lambda integrase, C-terminal catalytic domain. Lambda-type integrases catalyze site-specific integration and excision of temperate bacteriophages and other mobile genetic elements to and from the bacterial host chromosome. They belong to the superfamily...; Region: INT_Lambda_C; cd00800 444450007904 dimer interface [polypeptide binding]; other site 444450007905 active site 444450007906 Int/Topo IB signature motif; other site 444450007907 OmpW family; Region: OmpW; cl17427 444450007908 serine/threonine protein kinase; Provisional; Region: PRK14879 444450007909 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 444450007910 Putative prophage tail fibre C-terminus; Region: Phage_fiber_C; pfam06820 444450007911 Putative prophage tail fibre C-terminus; Region: Phage_fiber_C; pfam06820 444450007912 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 444450007913 Phage-related protein, tail component [Function unknown]; Region: COG4733 444450007914 Putative phage tail protein; Region: Phage-tail_3; pfam13550 444450007915 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 444450007916 Fibronectin type III protein; Region: DUF3672; pfam12421 444450007917 Phage-related protein, tail component [Function unknown]; Region: COG4723 444450007918 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) found in proteins also containing NlpC/P60 domains; Region: MPN_NLPC_P60; cd08073 444450007919 MPN+ (JAMM) motif; other site 444450007920 Zinc-binding site [ion binding]; other site 444450007921 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 444450007922 NlpC/P60 family; Region: NLPC_P60; cl17555 444450007923 Phage-related protein [Function unknown]; Region: gp18; COG4672 444450007924 Phage-related protein [Function unknown]; Region: COG4718 444450007925 Phage-related minor tail protein [Function unknown]; Region: COG5281 444450007926 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 444450007927 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 444450007928 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 444450007929 Minor tail protein T; Region: Phage_tail_T; cl05636 444450007930 Bacteriophage lambda minor tail protein (GpG); Region: Phage_lambd_GpG; pfam06894 444450007931 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 444450007932 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 444450007933 Phage minor tail protein U; Region: Phage_tail_U; pfam06141 444450007934 Prophage minor tail protein Z (GPZ); Region: Minor_tail_Z; pfam06763 444450007935 ATP-binding sugar transporter from pro-phage; Region: Gifsy-2; pfam13856 444450007936 Uncharacterized conserved protein [Function unknown]; Region: COG5471 444450007937 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 444450007938 Clp protease; Region: CLP_protease; pfam00574 444450007939 oligomer interface [polypeptide binding]; other site 444450007940 active site residues [active] 444450007941 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; cl01826 444450007942 Bacteriophage capsid protein [General function prediction only]; Region: COG5511 444450007943 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 444450007944 Phage terminase, large subunit GpA [Replication, recombination and repair]; Region: COG5525 444450007945 Protein of unknown function (DUF1441); Region: DUF1441; pfam07278 444450007946 Bacteriophage lysis protein; Region: Phage_lysis; pfam03245 444450007947 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 444450007948 catalytic residues [active] 444450007949 Lysis protein S; Region: Lysis_S; pfam04971 444450007950 Protein of unknown function (DUF826); Region: DUF826; pfam05696 444450007951 Protein of unknown function (DUF1378); Region: DUF1378; pfam07125 444450007952 Domain of unknown function (DUF1737); Region: DUF1737; pfam08410 444450007953 Domain of unknown function (DUF303); Region: DUF303; pfam03629 444450007954 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 444450007955 Phage antitermination protein Q; Region: Phage_antitermQ; pfam06530 444450007956 endodeoxyribonuclease RUS; Reviewed; Region: PRK09786 444450007957 Protein of unknown function (DUF1364); Region: DUF1364; pfam07102 444450007958 hypothetical protein; Provisional; Region: PRK09741 444450007959 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 444450007960 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 444450007961 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 444450007962 catalytic residues [active] 444450007963 catalytic nucleophile [active] 444450007964 Recombinase; Region: Recombinase; pfam07508 444450007965 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 444450007966 multidrug efflux protein; Reviewed; Region: emrE; PRK09541 444450007967 Replication protein P; Region: Phage_lambda_P; pfam06992 444450007968 Transposase; Region: HTH_Tnp_1; cl17663 444450007969 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 444450007970 putative transposase OrfB; Reviewed; Region: PHA02517 444450007971 HTH-like domain; Region: HTH_21; pfam13276 444450007972 Integrase core domain; Region: rve; pfam00665 444450007973 Integrase core domain; Region: rve_3; pfam13683 444450007974 Bacteriophage replication protein O; Region: Phage_rep_O; pfam04492 444450007975 Protein of unknown function (DUF1019); Region: DUF1019; pfam06254 444450007976 Uncharacterized protein conserved in bacteria, prophage-related [Function unknown]; Region: COG4197 444450007977 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 444450007978 Predicted transcriptional regulator [Transcription]; Region: COG2932 444450007979 sequence-specific DNA binding site [nucleotide binding]; other site 444450007980 salt bridge; other site 444450007981 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 444450007982 Catalytic site [active] 444450007983 FtsZ inhibitor protein; Reviewed; Region: kil; PRK11354 444450007984 Host-nuclease inhibitor protein Gam; Region: Gam; pfam06064 444450007985 phage recombination protein Bet; Region: bet_lambda; TIGR01913 444450007986 YqaJ-like viral recombinase domain; Region: YqaJ; pfam09588 444450007987 Protein of unknown function (DUF1382); Region: DUF1382; pfam07131 444450007988 Ead/Ea22-like protein; Region: Ead_Ea22; pfam13935 444450007989 Putative excisionase (DUF1233); Region: DUF1233; pfam06806 444450007990 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 444450007991 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 444450007992 phiCTX phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various phage and bacterial integrases, including those similar to phage integrases: Bordetella and...; Region: INT_phiCTX_C; cd01191 444450007993 Int/Topo IB signature motif; other site 444450007994 transcriptional regulator MirA; Provisional; Region: PRK15043 444450007995 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 444450007996 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 444450007997 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 444450007998 dimer interface [polypeptide binding]; other site 444450007999 conserved gate region; other site 444450008000 putative PBP binding loops; other site 444450008001 ABC-ATPase subunit interface; other site 444450008002 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 444450008003 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 444450008004 Walker A/P-loop; other site 444450008005 ATP binding site [chemical binding]; other site 444450008006 Q-loop/lid; other site 444450008007 ABC transporter signature motif; other site 444450008008 Walker B; other site 444450008009 D-loop; other site 444450008010 H-loop/switch region; other site 444450008011 CBS domain; Region: CBS; pfam00571 444450008012 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 444450008013 dimer interface [polypeptide binding]; other site 444450008014 conserved gate region; other site 444450008015 ABC-ATPase subunit interface; other site 444450008016 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 444450008017 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 444450008018 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 444450008019 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 444450008020 D-lactate dehydrogenase; Provisional; Region: PRK11183 444450008021 FAD binding domain; Region: FAD_binding_4; pfam01565 444450008022 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 444450008023 D-alanyl-D-alanine endopeptidase; Provisional; Region: pbpG; PRK11669 444450008024 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 444450008025 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 444450008026 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 444450008027 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 444450008028 oxidoreductase; Provisional; Region: PRK12743 444450008029 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444450008030 NAD(P) binding site [chemical binding]; other site 444450008031 active site 444450008032 multidrug resistance outer membrane protein MdtQ; Provisional; Region: PRK11459 444450008033 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 444450008034 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 444450008035 FMN binding site [chemical binding]; other site 444450008036 active site 444450008037 catalytic residues [active] 444450008038 substrate binding site [chemical binding]; other site 444450008039 salicylate hydroxylase; Provisional; Region: PRK08163 444450008040 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 444450008041 GST_N family, Class Zeta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Zeta; cd03042 444450008042 maleylacetoacetate isomerase; Region: maiA; TIGR01262 444450008043 C-terminal domain interface [polypeptide binding]; other site 444450008044 GSH binding site (G-site) [chemical binding]; other site 444450008045 putative dimer interface [polypeptide binding]; other site 444450008046 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 444450008047 dimer interface [polypeptide binding]; other site 444450008048 N-terminal domain interface [polypeptide binding]; other site 444450008049 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 444450008050 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 444450008051 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 444450008052 gentisate 1,2-dioxygenase; Region: gentisate_1_2; TIGR02272 444450008053 Cupin domain; Region: Cupin_2; pfam07883 444450008054 Cupin domain; Region: Cupin_2; cl17218 444450008055 benzoate transport; Region: 2A0115; TIGR00895 444450008056 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 444450008057 putative substrate translocation pore; other site 444450008058 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 444450008059 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 444450008060 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 444450008061 dimerization interface [polypeptide binding]; other site 444450008062 hypothetical protein; Provisional; Region: PRK01821 444450008063 hypothetical protein; Provisional; Region: PRK10711 444450008064 cytidine deaminase; Provisional; Region: PRK09027 444450008065 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 444450008066 active site 444450008067 catalytic motif [active] 444450008068 Zn binding site [ion binding]; other site 444450008069 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 444450008070 active site 444450008071 catalytic motif [active] 444450008072 Zn binding site [ion binding]; other site 444450008073 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 444450008074 putative active site [active] 444450008075 Protein of unknown function (DUF2542); Region: DUF2542; pfam10808 444450008076 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 444450008077 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 444450008078 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 444450008079 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 444450008080 Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and...; Region: DHPD_FMN; cd02940 444450008081 homodimer interface [polypeptide binding]; other site 444450008082 active site 444450008083 FMN binding site [chemical binding]; other site 444450008084 substrate binding site [chemical binding]; other site 444450008085 4Fe-4S binding domain; Region: Fer4; pfam00037 444450008086 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 444450008087 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 444450008088 TM-ABC transporter signature motif; other site 444450008089 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 444450008090 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional; Region: PRK10982 444450008091 Walker A/P-loop; other site 444450008092 ATP binding site [chemical binding]; other site 444450008093 Q-loop/lid; other site 444450008094 ABC transporter signature motif; other site 444450008095 Walker B; other site 444450008096 D-loop; other site 444450008097 H-loop/switch region; other site 444450008098 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 444450008099 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional; Region: PRK15395 444450008100 Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species; Region: PBP1_GGBP; cd01539 444450008101 ligand binding site [chemical binding]; other site 444450008102 calcium binding site [ion binding]; other site 444450008103 DNA-binding transcriptional regulator GalS; Provisional; Region: PRK10401 444450008104 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 444450008105 DNA binding site [nucleotide binding] 444450008106 domain linker motif; other site 444450008107 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 444450008108 dimerization interface (closed form) [polypeptide binding]; other site 444450008109 ligand binding site [chemical binding]; other site 444450008110 Predicted membrane protein [Function unknown]; Region: COG2311 444450008111 hypothetical protein; Provisional; Region: PRK10835 444450008112 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 444450008113 homodecamer interface [polypeptide binding]; other site 444450008114 GTP cyclohydrolase I; Provisional; Region: PLN03044 444450008115 active site 444450008116 putative catalytic site residues [active] 444450008117 zinc binding site [ion binding]; other site 444450008118 GTP-CH-I/GFRP interaction surface; other site 444450008119 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 444450008120 S-formylglutathione hydrolase; Region: PLN02442 444450008121 catecholate siderophore receptor CirA; Provisional; Region: PRK10064 444450008122 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 444450008123 N-terminal plug; other site 444450008124 ligand-binding site [chemical binding]; other site 444450008125 lysine transporter; Provisional; Region: PRK10836 444450008126 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 444450008127 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 444450008128 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 444450008129 putative dimerization interface [polypeptide binding]; other site 444450008130 conserved hypothetical integral membrane protein; Region: TIGR00698 444450008131 endonuclease IV; Provisional; Region: PRK01060 444450008132 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 444450008133 AP (apurinic/apyrimidinic) site pocket; other site 444450008134 DNA interaction; other site 444450008135 Metal-binding active site; metal-binding site 444450008136 putative kinase; Provisional; Region: PRK09954 444450008137 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 444450008138 YeiC-like sugar kinase. Found in eukaryotes and bacteria, YeiC-like kinase is part of the ribokinase/pfkB sugar kinase superfamily. Its oligomerization state is unknown at this time; Region: YeiC_kinase_like; cd01941 444450008139 substrate binding site [chemical binding]; other site 444450008140 ATP binding site [chemical binding]; other site 444450008141 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 444450008142 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 444450008143 Nucleoside recognition; Region: Gate; pfam07670 444450008144 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 444450008145 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 444450008146 active site 444450008147 tetramer interface [polypeptide binding]; other site 444450008148 DNA-binding transcriptional activator YeiL; Provisional; Region: PRK10402 444450008149 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 444450008150 ligand binding site [chemical binding]; other site 444450008151 flexible hinge region; other site 444450008152 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 444450008153 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 444450008154 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 444450008155 Nucleoside recognition; Region: Gate; pfam07670 444450008156 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 444450008157 Indigoidine synthase A like protein; Region: Indigoidine_A; pfam04227 444450008158 YeiC-like sugar kinase. Found in eukaryotes and bacteria, YeiC-like kinase is part of the ribokinase/pfkB sugar kinase superfamily. Its oligomerization state is unknown at this time; Region: YeiC_kinase_like; cd01941 444450008159 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 444450008160 substrate binding site [chemical binding]; other site 444450008161 ATP binding site [chemical binding]; other site 444450008162 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 444450008163 N-terminal domain of the phosphotransferase system fructose-specific component IIB [Carbohydrate transport and metabolism]; Region: COG3925 444450008164 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 444450008165 active site 444450008166 P-loop; other site 444450008167 phosphorylation site [posttranslational modification] 444450008168 PTS system, fructose subfamily, IIC component; Region: PTS_IIC_fructo; TIGR01427 444450008169 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 444450008170 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 444450008171 putative substrate binding site [chemical binding]; other site 444450008172 putative ATP binding site [chemical binding]; other site 444450008173 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK11109 444450008174 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 444450008175 active site 444450008176 phosphorylation site [posttranslational modification] 444450008177 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 444450008178 dimerization domain swap beta strand [polypeptide binding]; other site 444450008179 regulatory protein interface [polypeptide binding]; other site 444450008180 active site 444450008181 regulatory phosphorylation site [posttranslational modification]; other site 444450008182 sugar efflux transporter B; Provisional; Region: PRK15011 444450008183 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 444450008184 putative substrate translocation pore; other site 444450008185 Flagellin N-methylase; Region: FliB; pfam03692 444450008186 elongation factor P; Provisional; Region: PRK04542 444450008187 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 444450008188 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 444450008189 RNA binding site [nucleotide binding]; other site 444450008190 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 444450008191 RNA binding site [nucleotide binding]; other site 444450008192 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 444450008193 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 444450008194 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 444450008195 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 444450008196 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 444450008197 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 444450008198 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 444450008199 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 444450008200 active site 444450008201 outer membrane lipoprotein; Provisional; Region: spr; PRK10838 444450008202 NlpC/P60 family; Region: NLPC_P60; pfam00877 444450008203 phage resistance protein; Provisional; Region: PRK10551 444450008204 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 444450008205 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 444450008206 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 444450008207 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_14; cd08497 444450008208 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 444450008209 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 444450008210 dimer interface [polypeptide binding]; other site 444450008211 conserved gate region; other site 444450008212 putative PBP binding loops; other site 444450008213 ABC-ATPase subunit interface; other site 444450008214 microcin C ABC transporter permease; Provisional; Region: PRK15021 444450008215 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 444450008216 dimer interface [polypeptide binding]; other site 444450008217 conserved gate region; other site 444450008218 ABC-ATPase subunit interface; other site 444450008219 microcin C ABC transporter ATP-binding protein YejF; Provisional; Region: PRK15134 444450008220 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 444450008221 Walker A/P-loop; other site 444450008222 ATP binding site [chemical binding]; other site 444450008223 Q-loop/lid; other site 444450008224 ABC transporter signature motif; other site 444450008225 Walker B; other site 444450008226 D-loop; other site 444450008227 H-loop/switch region; other site 444450008228 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 444450008229 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 444450008230 Walker A/P-loop; other site 444450008231 ATP binding site [chemical binding]; other site 444450008232 Q-loop/lid; other site 444450008233 ABC transporter signature motif; other site 444450008234 Walker B; other site 444450008235 D-loop; other site 444450008236 H-loop/switch region; other site 444450008237 hypothetical protein; Provisional; Region: PRK11835 444450008238 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 444450008239 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 444450008240 putative substrate translocation pore; other site 444450008241 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 444450008242 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 444450008243 RNA binding surface [nucleotide binding]; other site 444450008244 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 444450008245 active site 444450008246 uracil binding [chemical binding]; other site 444450008247 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 444450008248 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 444450008249 ATP binding site [chemical binding]; other site 444450008250 putative Mg++ binding site [ion binding]; other site 444450008251 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 444450008252 nucleotide binding region [chemical binding]; other site 444450008253 ATP-binding site [chemical binding]; other site 444450008254 Ribosomal L40e family; Region: Ribosomal_L40e; cl00671 444450008255 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 444450008256 5S rRNA interface [nucleotide binding]; other site 444450008257 CTC domain interface [polypeptide binding]; other site 444450008258 L16 interface [polypeptide binding]; other site 444450008259 Nucleoid-associated protein [General function prediction only]; Region: COG3081 444450008260 nucleoid-associated protein NdpA; Validated; Region: PRK00378 444450008261 hypothetical protein; Provisional; Region: PRK13689 444450008262 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 444450008263 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 444450008264 Sulfatase; Region: Sulfatase; pfam00884 444450008265 Type V secretory pathway, adhesin AidA [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: AidA; COG3468 444450008266 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 1, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of Neisseria and Haemophilus IgA1 proteases; Region: PL1_Passenger_AT; cd01343 444450008267 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 444450008268 Autotransporter beta-domain; Region: Autotransporter; pfam03797 444450008269 transcriptional regulator NarP; Provisional; Region: PRK10403 444450008270 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 444450008271 active site 444450008272 phosphorylation site [posttranslational modification] 444450008273 intermolecular recognition site; other site 444450008274 dimerization interface [polypeptide binding]; other site 444450008275 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 444450008276 DNA binding residues [nucleotide binding] 444450008277 dimerization interface [polypeptide binding]; other site 444450008278 Uncharacterized protein involved in biosynthesis of c-type cytochromes [Posttranslational modification, protein turnover, chaperones]; Region: CcmH; COG3088 444450008279 formate-dependent nitrite reductase complex subunit NrfG; Provisional; Region: PRK10370 444450008280 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 444450008281 binding surface 444450008282 TPR motif; other site 444450008283 thiol:disulfide interchange protein DsbE; Provisional; Region: PRK15412 444450008284 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 444450008285 catalytic residues [active] 444450008286 central insert; other site 444450008287 c-type cytochrome biogenesis protein CcmF; Region: nrfE; TIGR00353 444450008288 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13165 444450008289 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 444450008290 heme exporter protein CcmC; Region: ccmC; TIGR01191 444450008291 heme exporter protein CcmB; Region: ccmB; TIGR01190 444450008292 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 444450008293 Cytochrome c biogenesis ATP-binding export protein; Region: ABC_CcmA_heme_exporter; cd03231 444450008294 Walker A/P-loop; other site 444450008295 ATP binding site [chemical binding]; other site 444450008296 Q-loop/lid; other site 444450008297 ABC transporter signature motif; other site 444450008298 Walker B; other site 444450008299 D-loop; other site 444450008300 H-loop/switch region; other site 444450008301 cytochrome c-type protein NapC; Provisional; Region: PRK10617 444450008302 Nitrate/TMAO reductases, membrane-bound tetraheme cytochrome c subunit [Energy production and conversion]; Region: TorC; COG3005 444450008303 nitrate reductase cytochrome C550 subunit; Provisional; Region: napB; PRK11586 444450008304 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 444450008305 4Fe-4S binding domain; Region: Fer4_5; pfam12801 444450008306 4Fe-4S binding domain; Region: Fer4; cl02805 444450008307 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 444450008308 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 444450008309 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 444450008310 [4Fe-4S] binding site [ion binding]; other site 444450008311 molybdopterin cofactor binding site; other site 444450008312 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 444450008313 molybdopterin cofactor binding site; other site 444450008314 assembly protein for periplasmic nitrate reductase; Provisional; Region: PRK10553 444450008315 ferredoxin-type protein; Provisional; Region: PRK10194 444450008316 Protease Inhibitor Ecotin; homodimeric protease inhibitor; Region: Ecotin; cd00242 444450008317 secondary substrate binding site; other site 444450008318 primary substrate binding site; other site 444450008319 inhibition loop; other site 444450008320 dimerization interface [polypeptide binding]; other site 444450008321 malate:quinone oxidoreductase; Validated; Region: PRK05257 444450008322 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 444450008323 multidrug transporter membrane component/ATP-binding component; Provisional; Region: PRK10522 444450008324 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 444450008325 Walker A/P-loop; other site 444450008326 ATP binding site [chemical binding]; other site 444450008327 Q-loop/lid; other site 444450008328 ABC transporter signature motif; other site 444450008329 Walker B; other site 444450008330 D-loop; other site 444450008331 H-loop/switch region; other site 444450008332 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 444450008333 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 444450008334 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 444450008335 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 444450008336 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 444450008337 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 444450008338 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 444450008339 DNA binding site [nucleotide binding] 444450008340 active site 444450008341 thiamine biosynthesis lipoprotein ApbE; Provisional; Region: PRK10461 444450008342 ApbE family; Region: ApbE; pfam02424 444450008343 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 444450008344 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 444450008345 trimer interface [polypeptide binding]; other site 444450008346 eyelet of channel; other site 444450008347 phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional; Region: PRK10618 444450008348 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 444450008349 ATP binding site [chemical binding]; other site 444450008350 G-X-G motif; other site 444450008351 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 444450008352 putative binding surface; other site 444450008353 active site 444450008354 transcriptional regulator RcsB; Provisional; Region: PRK10840 444450008355 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 444450008356 active site 444450008357 phosphorylation site [posttranslational modification] 444450008358 intermolecular recognition site; other site 444450008359 dimerization interface [polypeptide binding]; other site 444450008360 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 444450008361 DNA binding residues [nucleotide binding] 444450008362 dimerization interface [polypeptide binding]; other site 444450008363 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional; Region: PRK10841 444450008364 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 444450008365 dimer interface [polypeptide binding]; other site 444450008366 phosphorylation site [posttranslational modification] 444450008367 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 444450008368 ATP binding site [chemical binding]; other site 444450008369 Mg2+ binding site [ion binding]; other site 444450008370 G-X-G motif; other site 444450008371 RcsC Alpha-Beta-Loop (ABL); Region: RcsC; pfam09456 444450008372 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 444450008373 active site 444450008374 phosphorylation site [posttranslational modification] 444450008375 intermolecular recognition site; other site 444450008376 dimerization interface [polypeptide binding]; other site 444450008377 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4676 444450008378 Uncharacterized protein conserved in bacteria (DUF2135); Region: DUF2135; pfam09906 444450008379 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 444450008380 MG2 domain; Region: A2M_N; pfam01835 444450008381 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cl17457 444450008382 Alpha-2-macroglobulin family; Region: A2M; pfam00207 444450008383 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cl08267 444450008384 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3234 444450008385 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4685 444450008386 DNA gyrase subunit A; Validated; Region: PRK05560 444450008387 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 444450008388 CAP-like domain; other site 444450008389 active site 444450008390 primary dimer interface [polypeptide binding]; other site 444450008391 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 444450008392 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 444450008393 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 444450008394 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 444450008395 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 444450008396 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 444450008397 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 444450008398 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 444450008399 S-adenosylmethionine binding site [chemical binding]; other site 444450008400 adhesin; Provisional; Region: PRK09752 444450008401 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 444450008402 Autotransporter beta-domain; Region: Autotransporter; pfam03797 444450008403 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 444450008404 ATP cone domain; Region: ATP-cone; pfam03477 444450008405 Class I ribonucleotide reductase; Region: RNR_I; cd01679 444450008406 active site 444450008407 dimer interface [polypeptide binding]; other site 444450008408 catalytic residues [active] 444450008409 effector binding site; other site 444450008410 R2 peptide binding site; other site 444450008411 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 444450008412 dimer interface [polypeptide binding]; other site 444450008413 putative radical transfer pathway; other site 444450008414 diiron center [ion binding]; other site 444450008415 tyrosyl radical; other site 444450008416 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 444450008417 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 444450008418 catalytic loop [active] 444450008419 iron binding site [ion binding]; other site 444450008420 hypothetical protein; Provisional; Region: PRK09902 444450008421 Major Facilitator Superfamily; Region: MFS_1; pfam07690 444450008422 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 444450008423 putative substrate translocation pore; other site 444450008424 Transcriptional regulator [Transcription]; Region: LysR; COG0583 444450008425 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 444450008426 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 444450008427 dimerization interface [polypeptide binding]; other site 444450008428 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 444450008429 Glycerophosphodiester phosphodiesterase domain of Escherichia coli (GlpQ) and similar proteins; Region: GDPD_EcGlpQ_like; cd08600 444450008430 active site 444450008431 catalytic site [active] 444450008432 metal binding site [ion binding]; metal-binding site 444450008433 sn-glycerol-3-phosphate transporter; Provisional; Region: glpT; PRK11273 444450008434 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 444450008435 putative substrate translocation pore; other site 444450008436 sn-glycerol-3-phosphate dehydrogenase subunit A; Provisional; Region: glpA; PRK11101 444450008437 hydroxyglutarate oxidase; Provisional; Region: PRK11728 444450008438 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 444450008439 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; COG3075 444450008440 anaerobic glycerol-3-phosphate dehydrogenase subunit B; Validated; Region: PRK05329 444450008441 glycerol-3-phosphate dehydrogenase, anaerobic, C subunit; Region: glycerol3P_GlpC; TIGR03379 444450008442 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 444450008443 Cysteine-rich domain; Region: CCG; pfam02754 444450008444 Cysteine-rich domain; Region: CCG; pfam02754 444450008445 hypothetical protein; Provisional; Region: PRK09956 444450008446 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 444450008447 D-galactonate transporter; Region: 2A0114; TIGR00893 444450008448 Transposase; Region: HTH_Tnp_1; cl17663 444450008449 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 444450008450 putative transposase OrfB; Reviewed; Region: PHA02517 444450008451 HTH-like domain; Region: HTH_21; pfam13276 444450008452 Integrase core domain; Region: rve; pfam00665 444450008453 Integrase core domain; Region: rve_3; pfam13683 444450008454 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 444450008455 putative substrate translocation pore; other site 444450008456 L-rhamnonate dehydratase; Provisional; Region: PRK15440 444450008457 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 2. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic...; Region: MR_like_2; cd03327 444450008458 putative active site pocket [active] 444450008459 putative metal binding site [ion binding]; other site 444450008460 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 444450008461 Transcriptional regulator [Transcription]; Region: IclR; COG1414 444450008462 Bacterial transcriptional regulator; Region: IclR; pfam01614 444450008463 hypothetical protein; Provisional; Region: PRK03673 444450008464 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 444450008465 putative MPT binding site; other site 444450008466 Competence-damaged protein; Region: CinA; cl00666 444450008467 YfaZ precursor; Region: YfaZ; pfam07437 444450008468 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 444450008469 nucleoside triphosphatase NudI; Provisional; Region: PRK15472 444450008470 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 444450008471 catalytic core [active] 444450008472 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 444450008473 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 444450008474 inhibitor-cofactor binding pocket; inhibition site 444450008475 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444450008476 catalytic residue [active] 444450008477 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 444450008478 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 444450008479 Ligand binding site; other site 444450008480 Putative Catalytic site; other site 444450008481 DXD motif; other site 444450008482 bifunctional UDP-glucuronic acid decarboxylase/UDP-4-amino-4-deoxy-L-arabinose formyltransferase; Validated; Region: PRK08125 444450008483 ArnA, N-terminal formyltransferase domain; Region: FMT_core_ArnA_N; cd08644 444450008484 substrate binding site [chemical binding]; other site 444450008485 cosubstrate binding site; other site 444450008486 catalytic site [active] 444450008487 C-terminal subdomain of the formyltransferase domain on ArnA, which modifies lipid A with 4-amino-4-deoxy-l-arabinose; Region: Arna_FMT_C; cd08702 444450008488 active site 444450008489 hexamer interface [polypeptide binding]; other site 444450008490 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 444450008491 NAD binding site [chemical binding]; other site 444450008492 substrate binding site [chemical binding]; other site 444450008493 active site 444450008494 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD; Provisional; Region: PRK15394 444450008495 Catalytic domain of Escherichia coli 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD and other bacterial homologs; Region: CE4_ArnD; cd10939 444450008496 putative active site [active] 444450008497 putative catalytic site [active] 444450008498 putative Zn binding site [ion binding]; other site 444450008499 4-amino-4-deoxy-L-arabinose transferase; Provisional; Region: arnT; PRK13279 444450008500 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 444450008501 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnE; Provisional; Region: PRK15051 444450008502 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnF; Provisional; Region: PRK02971 444450008503 signal transduction protein PmrD; Provisional; Region: PRK15450 444450008504 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK09029 444450008505 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 444450008506 acyl-activating enzyme (AAE) consensus motif; other site 444450008507 putative AMP binding site [chemical binding]; other site 444450008508 putative active site [active] 444450008509 putative CoA binding site [chemical binding]; other site 444450008510 O-succinylbenzoate synthase; Provisional; Region: PRK05105 444450008511 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 444450008512 active site 444450008513 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 444450008514 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 444450008515 substrate binding site [chemical binding]; other site 444450008516 oxyanion hole (OAH) forming residues; other site 444450008517 trimer interface [polypeptide binding]; other site 444450008518 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Provisional; Region: PRK11126 444450008519 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 444450008520 nucleophilic elbow; other site 444450008521 catalytic triad; other site 444450008522 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 444450008523 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 444450008524 dimer interface [polypeptide binding]; other site 444450008525 tetramer interface [polypeptide binding]; other site 444450008526 PYR/PP interface [polypeptide binding]; other site 444450008527 TPP binding site [chemical binding]; other site 444450008528 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 444450008529 TPP-binding site; other site 444450008530 menaquinone-specific isochorismate synthase; Provisional; Region: PRK15012 444450008531 isochorismate synthases; Region: isochor_syn; TIGR00543 444450008532 hypothetical protein; Provisional; Region: PRK10404 444450008533 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 444450008534 Coenzyme A binding pocket [chemical binding]; other site 444450008535 ribonuclease BN; Region: true_RNase_BN; TIGR02649 444450008536 deubiquitinase; Provisional; Region: PRK11836 444450008537 Domain of unknown function (DUF1877); Region: DUF1877; pfam08974 444450008538 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 444450008539 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 444450008540 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 444450008541 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 444450008542 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 444450008543 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 444450008544 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 444450008545 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 444450008546 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 444450008547 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 444450008548 4Fe-4S binding domain; Region: Fer4; pfam00037 444450008549 4Fe-4S binding domain; Region: Fer4; pfam00037 444450008550 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 444450008551 NADH dehydrogenase/NADH:ubiquinone oxidoreductase 75 kD subunit (chain G) [Energy production and conversion]; Region: NuoG; COG1034 444450008552 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 444450008553 catalytic loop [active] 444450008554 iron binding site [ion binding]; other site 444450008555 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 444450008556 MopB_NDH-1_NuoG2-N7: The second domain of the NuoG subunit (with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex in the respiratory...; Region: MopB_NDH-1_NuoG2-N7; cd02771 444450008557 [4Fe-4S] binding site [ion binding]; other site 444450008558 MopB_CT_NDH-1_NuoG2-N7: C-terminal region of the NuoG-like subunit (of the variant with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex...; Region: MopB_CT_NDH-1_NuoG2-N7; cd02788 444450008559 NADH dehydrogenase I subunit F; Provisional; Region: PRK11278 444450008560 SLBB domain; Region: SLBB; pfam10531 444450008561 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 444450008562 NADH dehydrogenase subunit E; Validated; Region: PRK07539 444450008563 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 444450008564 putative dimer interface [polypeptide binding]; other site 444450008565 [2Fe-2S] cluster binding site [ion binding]; other site 444450008566 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 444450008567 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 444450008568 NADH dehydrogenase subunit D; Validated; Region: PRK06075 444450008569 NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-S oxidoreductases [Energy production and conversion]; Region: NuoB; COG0377 444450008570 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 444450008571 DNA-binding transcriptional repressor LrhA; Provisional; Region: PRK15092 444450008572 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 444450008573 The C-terminal substrate domain of LysR-like regulator LrhA (LysR homologue A) and that of closely related homologs, contains the type 2 periplasmic binding fold; Region: PBP2_LrhA_like; cd08439 444450008574 putative dimerization interface [polypeptide binding]; other site 444450008575 aminotransferase AlaT; Validated; Region: PRK09265 444450008576 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 444450008577 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444450008578 homodimer interface [polypeptide binding]; other site 444450008579 catalytic residue [active] 444450008580 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 444450008581 Zn2+ binding site [ion binding]; other site 444450008582 Mg2+ binding site [ion binding]; other site 444450008583 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 444450008584 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 444450008585 TrkA-C domain; Region: TrkA_C; pfam02080 444450008586 TrkA-C domain; Region: TrkA_C; pfam02080 444450008587 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 444450008588 putative phosphatase; Provisional; Region: PRK11587 444450008589 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 444450008590 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 444450008591 motif II; other site 444450008592 hypothetical protein; Validated; Region: PRK05445 444450008593 hypothetical protein; Provisional; Region: PRK01816 444450008594 propionate/acetate kinase; Provisional; Region: PRK12379 444450008595 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 444450008596 phosphate acetyltransferase; Reviewed; Region: PRK05632 444450008597 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 444450008598 DRTGG domain; Region: DRTGG; pfam07085 444450008599 phosphate acetyltransferase; Region: pta; TIGR00651 444450008600 hypothetical protein; Provisional; Region: PRK11588 444450008601 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 444450008602 NUDIX hydrolase YfcD; Provisional; Region: PRK15393 444450008603 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_38; cd04697 444450008604 nudix motif; other site 444450008605 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 444450008606 active site 444450008607 metal binding site [ion binding]; metal-binding site 444450008608 homotetramer interface [polypeptide binding]; other site 444450008609 glutathione S-transferase; Provisional; Region: PRK15113 444450008610 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 444450008611 C-terminal domain interface [polypeptide binding]; other site 444450008612 GSH binding site (G-site) [chemical binding]; other site 444450008613 dimer interface [polypeptide binding]; other site 444450008614 C-terminal, alpha helical domain of an unknown subfamily 4 of Glutathione S-transferases; Region: GST_C_4; cd03195 444450008615 N-terminal domain interface [polypeptide binding]; other site 444450008616 putative dimer interface [polypeptide binding]; other site 444450008617 putative substrate binding pocket (H-site) [chemical binding]; other site 444450008618 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 444450008619 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 444450008620 C-terminal domain interface [polypeptide binding]; other site 444450008621 GSH binding site (G-site) [chemical binding]; other site 444450008622 dimer interface [polypeptide binding]; other site 444450008623 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 444450008624 N-terminal domain interface [polypeptide binding]; other site 444450008625 putative dimer interface [polypeptide binding]; other site 444450008626 active site 444450008627 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 444450008628 homooctamer interface [polypeptide binding]; other site 444450008629 active site 444450008630 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 444450008631 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 444450008632 putative NAD(P) binding site [chemical binding]; other site 444450008633 putative active site [active] 444450008634 putative transposase; Provisional; Region: PRK09857 444450008635 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 444450008636 histidine/lysine/arginine/ornithine transporter subunit; Provisional; Region: PRK10619 444450008637 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 444450008638 Walker A/P-loop; other site 444450008639 ATP binding site [chemical binding]; other site 444450008640 Q-loop/lid; other site 444450008641 ABC transporter signature motif; other site 444450008642 Walker B; other site 444450008643 D-loop; other site 444450008644 H-loop/switch region; other site 444450008645 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 444450008646 dimer interface [polypeptide binding]; other site 444450008647 conserved gate region; other site 444450008648 putative PBP binding loops; other site 444450008649 ABC-ATPase subunit interface; other site 444450008650 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 444450008651 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 444450008652 dimer interface [polypeptide binding]; other site 444450008653 conserved gate region; other site 444450008654 putative PBP binding loops; other site 444450008655 ABC-ATPase subunit interface; other site 444450008656 histidine ABC transporter substrate-binding protein HisJ; Provisional; Region: PRK15437 444450008657 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 444450008658 substrate binding pocket [chemical binding]; other site 444450008659 membrane-bound complex binding site; other site 444450008660 hinge residues; other site 444450008661 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional; Region: PRK15010 444450008662 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 444450008663 substrate binding pocket [chemical binding]; other site 444450008664 membrane-bound complex binding site; other site 444450008665 hinge residues; other site 444450008666 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 444450008667 Flavoprotein; Region: Flavoprotein; pfam02441 444450008668 amidophosphoribosyltransferase; Provisional; Region: PRK09246 444450008669 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 444450008670 active site 444450008671 tetramer interface [polypeptide binding]; other site 444450008672 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 444450008673 active site 444450008674 colicin V production protein; Provisional; Region: PRK10845 444450008675 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 444450008676 cell division protein DedD; Provisional; Region: PRK11633 444450008677 Sporulation related domain; Region: SPOR; pfam05036 444450008678 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 444450008679 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 444450008680 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 444450008681 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 444450008682 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 444450008683 hypothetical protein; Provisional; Region: PRK10847 444450008684 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 444450008685 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 444450008686 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 444450008687 dimerization interface 3.5A [polypeptide binding]; other site 444450008688 active site 444450008689 putative semialdehyde dehydrogenase; Provisional; Region: PRK08040 444450008690 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 444450008691 erythronate-4-phosphate dehydrogenase PdxB; Provisional; Region: PRK15438 444450008692 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 444450008693 ligand binding site [chemical binding]; other site 444450008694 NAD binding site [chemical binding]; other site 444450008695 catalytic site [active] 444450008696 homodimer interface [polypeptide binding]; other site 444450008697 flagella biosynthesis regulator; Provisional; Region: flk; PRK10715 444450008698 putative transporter; Provisional; Region: PRK12382 444450008699 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 444450008700 putative substrate translocation pore; other site 444450008701 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 444450008702 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 444450008703 dimer interface [polypeptide binding]; other site 444450008704 active site 444450008705 Uncharacterized conserved protein [Function unknown]; Region: COG4121 444450008706 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 444450008707 YfcL protein; Region: YfcL; pfam08891 444450008708 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3101 444450008709 hypothetical protein; Provisional; Region: PRK10621 444450008710 Predicted permeases [General function prediction only]; Region: COG0730 444450008711 Murein endopeptidase [Cell envelope biogenesis, outer membrane]; Region: MepA; COG3770 444450008712 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 444450008713 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 444450008714 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 444450008715 Tetramer interface [polypeptide binding]; other site 444450008716 active site 444450008717 FMN-binding site [chemical binding]; other site 444450008718 HemK family putative methylases; Region: hemK_fam; TIGR00536 444450008719 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 444450008720 S-adenosylmethionine binding site [chemical binding]; other site 444450008721 hypothetical protein; Provisional; Region: PRK04946 444450008722 Smr domain; Region: Smr; pfam01713 444450008723 Protein of unknown function (DUF2544); Region: DUF2544; pfam11245 444450008724 Fimbrial protein; Region: Fimbrial; cl01416 444450008725 Fimbrial protein; Region: Fimbrial; cl01416 444450008726 Fimbrial protein; Region: Fimbrial; cl01416 444450008727 Fimbrial protein; Region: Fimbrial; cl01416 444450008728 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 444450008729 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 444450008730 putative fimbrial outer membrane usher protein StfC; Provisional; Region: PRK15284 444450008731 PapC N-terminal domain; Region: PapC_N; pfam13954 444450008732 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 444450008733 PapC C-terminal domain; Region: PapC_C; pfam13953 444450008734 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 444450008735 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 444450008736 catalytic core [active] 444450008737 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 444450008738 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 444450008739 substrate binding site [chemical binding]; other site 444450008740 oxyanion hole (OAH) forming residues; other site 444450008741 trimer interface [polypeptide binding]; other site 444450008742 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 444450008743 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 444450008744 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 444450008745 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 444450008746 dimer interface [polypeptide binding]; other site 444450008747 active site 444450008748 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3691 444450008749 long-chain fatty acid outer membrane transporter; Provisional; Region: PRK10716 444450008750 ABC transporter outer membrane lipoprotein; Provisional; Region: PRK15091 444450008751 Formate/nitrite family of transporters [Inorganic ion transport and metabolism]; Region: FocA; COG2116 444450008752 Hok/gef family; Region: HOK_GEF; pfam01848 444450008753 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 444450008754 Phage-related protein, tail component [Function unknown]; Region: COG4733 444450008755 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 444450008756 Putative prophage tail fibre C-terminus; Region: Phage_fiber_C; pfam06820 444450008757 Prophage tail fibre N-terminal; Region: phage_tail_N; pfam08400 444450008758 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 444450008759 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 444450008760 Putative prophage tail fibre C-terminus; Region: Phage_fiber_C; pfam06820 444450008761 Protein of unknown function (DUF4043); Region: DUF4043; pfam13252 444450008762 Transposase; Region: HTH_Tnp_1; cl17663 444450008763 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 444450008764 putative transposase OrfB; Reviewed; Region: PHA02517 444450008765 HTH-like domain; Region: HTH_21; pfam13276 444450008766 Integrase core domain; Region: rve; pfam00665 444450008767 Integrase core domain; Region: rve_3; pfam13683 444450008768 large terminase protein; Provisional; Region: 17; PHA02533 444450008769 large terminase protein; Provisional; Region: 17; PHA02533 444450008770 Bor protein; Region: Lambda_Bor; pfam06291 444450008771 Bacteriophage lysis protein; Region: Phage_lysis; pfam03245 444450008772 P22_AR N-terminal domain; Region: P22_AR_N; pfam10547 444450008773 ORF11CD3 domain; Region: ORF11CD3; pfam10549 444450008774 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 444450008775 catalytic residues [active] 444450008776 Lysis protein S; Region: Lysis_S; pfam04971 444450008777 Protein of unknown function (DUF826); Region: DUF826; pfam05696 444450008778 Protein of unknown function (DUF1378); Region: DUF1378; pfam07125 444450008779 Domain of unknown function (DUF1737); Region: DUF1737; pfam08410 444450008780 Domain of unknown function (DUF303); Region: DUF303; pfam03629 444450008781 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 444450008782 Shiga-like toxin beta subunit; Region: SLT_beta; pfam02258 444450008783 Ribosome inactivating protein; Region: RIP; pfam00161 444450008784 Phage antitermination protein Q; Region: Phage_antitermQ; pfam06530 444450008785 Phage NinH protein; Region: Phage_NinH; pfam06322 444450008786 Bacteriophage Lambda NinG protein; Region: NinG; pfam05766 444450008787 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 444450008788 Uncharacterized phage-encoded protein [Function unknown]; Region: COG3645 444450008789 ORF6N domain; Region: ORF6N; pfam10543 444450008790 Phage anti-repressor protein [Transcription]; Region: COG3561 444450008791 phage N-6-adenine-methyltransferase; Region: phage_N6A_met; TIGR01712 444450008792 Replication protein P; Region: Phage_lambda_P; pfam06992 444450008793 Bacteriophage replication protein O; Region: Phage_rep_O; pfam04492 444450008794 Bacteriophage CII protein; Region: Phage_CII; pfam05269 444450008795 Helix-turn-helix domain; Region: HTH_17; pfam12728 444450008796 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 444450008797 non-specific DNA binding site [nucleotide binding]; other site 444450008798 salt bridge; other site 444450008799 sequence-specific DNA binding site [nucleotide binding]; other site 444450008800 Predicted transcriptional regulator [Transcription]; Region: COG2932 444450008801 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 444450008802 Catalytic site [active] 444450008803 Protein of unknown function (DUF3024); Region: DUF3024; pfam11225 444450008804 Catalytic domain of Protein Kinases; Region: PKc; cd00180 444450008805 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 444450008806 active site 444450008807 ATP binding site [chemical binding]; other site 444450008808 substrate binding site [chemical binding]; other site 444450008809 activation loop (A-loop); other site 444450008810 Protein of unknown function (DUF2528); Region: DUF2528; pfam10800 444450008811 Bacteriophage lambda Kil protein; Region: Lambda_Kil; pfam06301 444450008812 Host-nuclease inhibitor protein Gam; Region: Gam; pfam06064 444450008813 phage recombination protein Bet; Region: bet_lambda; TIGR01913 444450008814 YqaJ-like viral recombinase domain; Region: YqaJ; pfam09588 444450008815 Protein of unknown function (DUF1382); Region: DUF1382; pfam07131 444450008816 Ead/Ea22-like protein; Region: Ead_Ea22; pfam13935 444450008817 RT_like: Reverse transcriptase (RT, RNA-dependent DNA polymerase)_like family. An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons; Region: RT_like; cl02808 444450008818 Protein of unknown function (DUF4014); Region: DUF4014; pfam13198 444450008819 Phage anti-repressor protein [Transcription]; Region: COG3561 444450008820 P22AR C-terminal domain; Region: P22_AR_C; pfam10548 444450008821 MT-A70; Region: MT-A70; cl01947 444450008822 Protein of unknown function (DUF1382); Region: DUF1382; pfam07131 444450008823 Protein of unknown function (DUF1627); Region: DUF1627; pfam07789 444450008824 Helix-turn-helix domain; Region: HTH_17; cl17695 444450008825 integrase; Provisional; Region: PRK09692 444450008826 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 444450008827 active site 444450008828 Int/Topo IB signature motif; other site 444450008829 integrase; Provisional; Region: PRK09692 444450008830 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 444450008831 active site 444450008832 Int/Topo IB signature motif; other site 444450008833 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 444450008834 Protein involved in polysaccharide intercellular adhesin (PIA) synthesis/biofilm formation [Carbohydrate transport and metabolism]; Region: COG3936 444450008835 Protein of unknown function (DUF2824); Region: DUF2824; cl10279 444450008836 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 444450008837 Serine recombinase (SR) family, Partitioning (par)-Resolvase subfamily, catalytic domain; Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient...; Region: SR_Res_par; cd03767 444450008838 catalytic residues [active] 444450008839 catalytic nucleophile [active] 444450008840 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 444450008841 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 444450008842 putative substrate binding site [chemical binding]; other site 444450008843 putative ATP binding site [chemical binding]; other site 444450008844 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 444450008845 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 444450008846 substrate binding [chemical binding]; other site 444450008847 active site 444450008848 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 444450008849 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 444450008850 DNA binding site [nucleotide binding] 444450008851 domain linker motif; other site 444450008852 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 444450008853 Ligand-binding domain of DNA-binding regulatory proteins specific to sucrose that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_sucrose_transcription_regulator; cd06288 444450008854 putative dimerization interface [polypeptide binding]; other site 444450008855 putative ligand binding site [chemical binding]; other site 444450008856 fructuronate transporter; Provisional; Region: PRK10034; cl15264 444450008857 D-Serine dehydratase is a pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of L- or D-serine to pyruvate and ammonia. D-serine dehydratase serves as a detoxifying enzyme in most E. coli strains where D-serine is a competitive...; Region: D-Ser-dehyd; cd06447 444450008858 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 444450008859 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 444450008860 catalytic residue [active] 444450008861 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 444450008862 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 444450008863 putative substrate translocation pore; other site 444450008864 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 444450008865 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 444450008866 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 444450008867 HlyD family secretion protein; Region: HlyD_3; pfam13437 444450008868 DNA-binding transcriptional activator EvgA; Provisional; Region: PRK09958 444450008869 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 444450008870 active site 444450008871 phosphorylation site [posttranslational modification] 444450008872 intermolecular recognition site; other site 444450008873 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 444450008874 DNA binding residues [nucleotide binding] 444450008875 dimerization interface [polypeptide binding]; other site 444450008876 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional; Region: PRK09959 444450008877 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 444450008878 substrate binding pocket [chemical binding]; other site 444450008879 membrane-bound complex binding site; other site 444450008880 hinge residues; other site 444450008881 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 444450008882 substrate binding pocket [chemical binding]; other site 444450008883 membrane-bound complex binding site; other site 444450008884 hinge residues; other site 444450008885 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 444450008886 dimer interface [polypeptide binding]; other site 444450008887 phosphorylation site [posttranslational modification] 444450008888 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 444450008889 ATP binding site [chemical binding]; other site 444450008890 Mg2+ binding site [ion binding]; other site 444450008891 G-X-G motif; other site 444450008892 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 444450008893 active site 444450008894 phosphorylation site [posttranslational modification] 444450008895 intermolecular recognition site; other site 444450008896 dimerization interface [polypeptide binding]; other site 444450008897 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 444450008898 putative binding surface; other site 444450008899 active site 444450008900 putative transporter YfdV; Provisional; Region: PRK09903 444450008901 putative oxalyl-CoA decarboxylase; Validated; Region: PRK09259 444450008902 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 444450008903 PYR/PP interface [polypeptide binding]; other site 444450008904 dimer interface [polypeptide binding]; other site 444450008905 TPP binding site [chemical binding]; other site 444450008906 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 444450008907 Thiamine pyrophosphate (TPP) family, BZL_OCoD_HPCL subfamily, TPP-binding module; composed of proteins similar to benzaldehyde lyase (BZL), oxalyl-CoA decarboxylase (OCoD) and 2-hydroxyphytanoyl-CoA lyase (2-HPCL). Pseudomonas fluorescens biovar I BZL...; Region: TPP_BZL_OCoD_HPCL; cd02004 444450008908 TPP-binding site; other site 444450008909 dimer interface [polypeptide binding]; other site 444450008910 formyl-coenzyme A transferase; Provisional; Region: PRK05398 444450008911 CoA-transferase family III; Region: CoA_transf_3; pfam02515 444450008912 hypothetical protein; Provisional; Region: PRK10316 444450008913 YfdX protein; Region: YfdX; pfam10938 444450008914 Protein of unknown function (DUF2545); Region: DUF2545; pfam10810 444450008915 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 444450008916 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 444450008917 putative acyl-acceptor binding pocket; other site 444450008918 aminotransferase; Validated; Region: PRK08175 444450008919 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 444450008920 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444450008921 homodimer interface [polypeptide binding]; other site 444450008922 catalytic residue [active] 444450008923 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 444450008924 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 444450008925 GAF domain; Region: GAF; pfam01590 444450008926 Histidine kinase; Region: His_kinase; pfam06580 444450008927 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 444450008928 ATP binding site [chemical binding]; other site 444450008929 Mg2+ binding site [ion binding]; other site 444450008930 G-X-G motif; other site 444450008931 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 444450008932 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 444450008933 active site 444450008934 phosphorylation site [posttranslational modification] 444450008935 intermolecular recognition site; other site 444450008936 dimerization interface [polypeptide binding]; other site 444450008937 LytTr DNA-binding domain; Region: LytTR; pfam04397 444450008938 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 444450008939 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 444450008940 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 444450008941 dimerization domain swap beta strand [polypeptide binding]; other site 444450008942 regulatory protein interface [polypeptide binding]; other site 444450008943 active site 444450008944 regulatory phosphorylation site [posttranslational modification]; other site 444450008945 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 444450008946 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 444450008947 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 444450008948 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 444450008949 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 444450008950 active site 444450008951 phosphorylation site [posttranslational modification] 444450008952 exoaminopeptidase; Provisional; Region: PRK09961 444450008953 M42 Peptidases, also known as glutamyl aminopeptidase family; Region: M42; cd05638 444450008954 oligomer interface [polypeptide binding]; other site 444450008955 active site 444450008956 metal binding site [ion binding]; metal-binding site 444450008957 aminopeptidase; Provisional; Region: PRK09795 444450008958 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 444450008959 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 444450008960 active site 444450008961 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 444450008962 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 444450008963 active site 444450008964 P-loop; other site 444450008965 phosphorylation site [posttranslational modification] 444450008966 glucokinase, proteobacterial type; Region: glk; TIGR00749 444450008967 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 444450008968 nucleotide binding site [chemical binding]; other site 444450008969 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 444450008970 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 444450008971 Cl- selectivity filter; other site 444450008972 Cl- binding residues [ion binding]; other site 444450008973 pore gating glutamate residue; other site 444450008974 dimer interface [polypeptide binding]; other site 444450008975 Protein of unknown function (DUF2502); Region: DUF2502; pfam10697 444450008976 manganese transport protein MntH; Reviewed; Region: PRK00701 444450008977 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 444450008978 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 444450008979 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 444450008980 Nucleoside recognition; Region: Gate; pfam07670 444450008981 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 444450008982 MASE1; Region: MASE1; pfam05231 444450008983 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 444450008984 diguanylate cyclase; Region: GGDEF; smart00267 444450008985 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 444450008986 Putative transcription regulator (DUF1323); Region: DUF1323; pfam07037 444450008987 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 444450008988 salt bridge; other site 444450008989 non-specific DNA binding site [nucleotide binding]; other site 444450008990 sequence-specific DNA binding site [nucleotide binding]; other site 444450008991 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 444450008992 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 444450008993 Probable transposase; Region: OrfB_IS605; pfam01385 444450008994 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 444450008995 Transposase IS200 like; Region: Y1_Tnp; pfam01797 444450008996 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 444450008997 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 444450008998 active site 444450008999 HIGH motif; other site 444450009000 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 444450009001 active site 444450009002 KMSKS motif; other site 444450009003 Transcriptional regulator [Transcription]; Region: LysR; COG0583 444450009004 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 444450009005 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 444450009006 putative dimerization interface [polypeptide binding]; other site 444450009007 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 444450009008 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 444450009009 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3530 444450009010 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 444450009011 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 444450009012 nucleotide binding pocket [chemical binding]; other site 444450009013 K-X-D-G motif; other site 444450009014 catalytic site [active] 444450009015 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 444450009016 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 444450009017 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 444450009018 Dimer interface [polypeptide binding]; other site 444450009019 BRCT sequence motif; other site 444450009020 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cl12038 444450009021 cell division protein ZipA; Provisional; Region: PRK03427 444450009022 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cd00231 444450009023 FtsZ protein binding site [polypeptide binding]; other site 444450009024 putative sulfate transport protein CysZ; Validated; Region: PRK04949 444450009025 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 444450009026 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 444450009027 dimer interface [polypeptide binding]; other site 444450009028 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444450009029 catalytic residue [active] 444450009030 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 444450009031 dimerization domain swap beta strand [polypeptide binding]; other site 444450009032 regulatory protein interface [polypeptide binding]; other site 444450009033 active site 444450009034 regulatory phosphorylation site [posttranslational modification]; other site 444450009035 phosphoenolpyruvate-protein phosphotransferase; Provisional; Region: PRK11177 444450009036 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 444450009037 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 444450009038 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 444450009039 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cd00210 444450009040 HPr interaction site; other site 444450009041 glycerol kinase (GK) interaction site [polypeptide binding]; other site 444450009042 active site 444450009043 phosphorylation site [posttranslational modification] 444450009044 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 444450009045 dimer interface [polypeptide binding]; other site 444450009046 pyridoxamine kinase; Validated; Region: PRK05756 444450009047 pyridoxal binding site [chemical binding]; other site 444450009048 ATP binding site [chemical binding]; other site 444450009049 cysteine synthase B; Region: cysM; TIGR01138 444450009050 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 444450009051 dimer interface [polypeptide binding]; other site 444450009052 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444450009053 catalytic residue [active] 444450009054 sulfate/thiosulfate transporter subunit; Provisional; Region: PRK10851 444450009055 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 444450009056 Walker A/P-loop; other site 444450009057 ATP binding site [chemical binding]; other site 444450009058 Q-loop/lid; other site 444450009059 ABC transporter signature motif; other site 444450009060 Walker B; other site 444450009061 D-loop; other site 444450009062 H-loop/switch region; other site 444450009063 TOBE-like domain; Region: TOBE_3; pfam12857 444450009064 sulfate transport protein; Provisional; Region: cysT; CHL00187 444450009065 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 444450009066 dimer interface [polypeptide binding]; other site 444450009067 conserved gate region; other site 444450009068 putative PBP binding loops; other site 444450009069 ABC-ATPase subunit interface; other site 444450009070 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 444450009071 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 444450009072 dimer interface [polypeptide binding]; other site 444450009073 conserved gate region; other site 444450009074 putative PBP binding loops; other site 444450009075 ABC-ATPase subunit interface; other site 444450009076 thiosulfate transporter subunit; Provisional; Region: PRK10852 444450009077 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 444450009078 short chain dehydrogenase; Provisional; Region: PRK08226 444450009079 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 444450009080 NAD binding site [chemical binding]; other site 444450009081 homotetramer interface [polypeptide binding]; other site 444450009082 homodimer interface [polypeptide binding]; other site 444450009083 active site 444450009084 transcriptional regulator MurR; Provisional; Region: PRK15482 444450009085 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 444450009086 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 444450009087 putative active site [active] 444450009088 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 444450009089 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 444450009090 putative active site [active] 444450009091 PTS system N-acetylmuramic acid transporter subunits EIIBC; Reviewed; Region: murP; PRK09586 444450009092 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 444450009093 active site turn [active] 444450009094 phosphorylation site [posttranslational modification] 444450009095 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 444450009096 putative periplasmic esterase; Provisional; Region: PRK03642 444450009097 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 444450009098 Dyp-type peroxidase family; Region: Dyp_perox; pfam04261 444450009099 RpoE-regulated lipoprotein; Provisional; Region: PRK10718 444450009100 Protein of unknown function (DUF1131); Region: DUF1131; pfam06572 444450009101 Protein of unknown function (DUF2919); Region: DUF2919; pfam11143 444450009102 putative acetyltransferase; Provisional; Region: PRK03624 444450009103 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 444450009104 Coenzyme A binding pocket [chemical binding]; other site 444450009105 N-acetylmuramoyl-l-alanine amidase I; Provisional; Region: PRK10319 444450009106 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 444450009107 active site 444450009108 metal binding site [ion binding]; metal-binding site 444450009109 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 444450009110 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 444450009111 transcriptional regulator EutR; Provisional; Region: PRK10130 444450009112 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 444450009113 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 444450009114 carboxysome structural protein EutK; Provisional; Region: PRK15466 444450009115 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 444450009116 Hexamer interface [polypeptide binding]; other site 444450009117 Hexagonal pore residue; other site 444450009118 FaeA-like protein; Region: FaeA; pfam04703 444450009119 ethanolamine utilization protein EutL; Provisional; Region: PRK15405 444450009120 ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_EutL_repeat1; cd07049 444450009121 putative hexamer interface [polypeptide binding]; other site 444450009122 putative hexagonal pore; other site 444450009123 ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_EutL_repeat2; cd07050 444450009124 putative hexamer interface [polypeptide binding]; other site 444450009125 putative hexagonal pore; other site 444450009126 Ethanolamine ammonia-lyase, small subunit [Amino acid transport and metabolism]; Region: EutC; COG4302 444450009127 Ethanolamine ammonia-lyase, large subunit [Amino acid transport and metabolism]; Region: EutB; COG4303 444450009128 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 444450009129 reactivating factor for ethanolamine ammonia lyase; Provisional; Region: eutA; PRK10719 444450009130 Ethanolamine utilization protein [Amino acid transport and metabolism]; Region: EutH; COG3192 444450009131 ethanol dehydrogenase EutG; Provisional; Region: PRK15454 444450009132 iron-containing alcohol dehydrogenases (Fe-ADH)-like; Region: Fe-ADH; cd08551 444450009133 active site 444450009134 metal binding site [ion binding]; metal-binding site 444450009135 Ethanolamine utilization protein, possible chaperonin [Amino acid transport and metabolism]; Region: EutJ; COG4820 444450009136 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 444450009137 nucleotide binding site [chemical binding]; other site 444450009138 Ethanolamine utilization protein EutE-like; Region: ALDH_EutE; cd07121 444450009139 putative catalytic cysteine [active] 444450009140 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 444450009141 Hexamer/Pentamer interface [polypeptide binding]; other site 444450009142 central pore; other site 444450009143 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 444450009144 1,2-propanediol utilization protein A (PduA), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 444450009145 Hexamer interface [polypeptide binding]; other site 444450009146 Putative hexagonal pore residue; other site 444450009147 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 444450009148 ethanolamine utilization cobalamin adenosyltransferase; Provisional; Region: PRK15020 444450009149 ethanolamine utilization protein EutQ; Provisional; Region: PRK15457 444450009150 Ethanolamine utilization protein [Amino acid transport and metabolism]; Region: EutQ; COG4766 444450009151 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 444450009152 G1 box; other site 444450009153 GTP/Mg2+ binding site [chemical binding]; other site 444450009154 G2 box; other site 444450009155 Switch I region; other site 444450009156 G3 box; other site 444450009157 Switch II region; other site 444450009158 G4 box; other site 444450009159 G5 box; other site 444450009160 1,2-propanediol utilization protein U (PduU)/ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduU-EutS; cd07046 444450009161 putative hexamer interface [polypeptide binding]; other site 444450009162 putative hexagonal pore; other site 444450009163 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 444450009164 Malic enzyme, N-terminal domain; Region: malic; pfam00390 444450009165 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 444450009166 putative NAD(P) binding site [chemical binding]; other site 444450009167 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 444450009168 transaldolase-like protein; Provisional; Region: PTZ00411 444450009169 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 444450009170 active site 444450009171 dimer interface [polypeptide binding]; other site 444450009172 catalytic residue [active] 444450009173 transketolase; Reviewed; Region: PRK12753 444450009174 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 444450009175 TPP-binding site [chemical binding]; other site 444450009176 dimer interface [polypeptide binding]; other site 444450009177 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 444450009178 PYR/PP interface [polypeptide binding]; other site 444450009179 dimer interface [polypeptide binding]; other site 444450009180 TPP binding site [chemical binding]; other site 444450009181 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 444450009182 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 444450009183 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 444450009184 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 444450009185 dimer interface [polypeptide binding]; other site 444450009186 ADP-ribose binding site [chemical binding]; other site 444450009187 active site 444450009188 nudix motif; other site 444450009189 metal binding site [ion binding]; metal-binding site 444450009190 putative oxidoreductase Fe-S binding subunit; Reviewed; Region: PRK12769 444450009191 4Fe-4S binding domain; Region: Fer4; pfam00037 444450009192 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 444450009193 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 444450009194 nitrate/nitrite sensor protein NarQ; Provisional; Region: PRK10935 444450009195 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 444450009196 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 444450009197 dimerization interface [polypeptide binding]; other site 444450009198 Histidine kinase; Region: HisKA_3; pfam07730 444450009199 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 444450009200 ATP binding site [chemical binding]; other site 444450009201 Mg2+ binding site [ion binding]; other site 444450009202 G-X-G motif; other site 444450009203 aminoglycoside/multidrug efflux system; Provisional; Region: PRK10555 444450009204 Protein export membrane protein; Region: SecD_SecF; cl14618 444450009205 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 444450009206 ArsC family; Region: ArsC; pfam03960 444450009207 putative catalytic residues [active] 444450009208 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 444450009209 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 444450009210 metal binding site [ion binding]; metal-binding site 444450009211 dimer interface [polypeptide binding]; other site 444450009212 hypothetical protein; Provisional; Region: PRK13664 444450009213 putative hydrolase; Provisional; Region: PRK11460 444450009214 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 444450009215 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 444450009216 Helicase; Region: Helicase_RecD; pfam05127 444450009217 GNAT acetyltransferase 2; Region: GNAT_acetyltr_2; pfam13718 444450009218 Possible tRNA binding domain; Region: tRNA_bind_2; pfam13725 444450009219 Predicted metalloprotease [General function prediction only]; Region: COG2321 444450009220 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 444450009221 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 444450009222 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 444450009223 ATP binding site [chemical binding]; other site 444450009224 active site 444450009225 substrate binding site [chemical binding]; other site 444450009226 lipoprotein; Provisional; Region: PRK11679 444450009227 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 444450009228 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 444450009229 dihydrodipicolinate synthase; Region: dapA; TIGR00674 444450009230 dimer interface [polypeptide binding]; other site 444450009231 active site 444450009232 catalytic residue [active] 444450009233 glycine cleavage system transcriptional repressor; Provisional; Region: gcvR; PRK11589 444450009234 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_1; cd04893 444450009235 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 444450009236 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 444450009237 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 444450009238 catalytic triad [active] 444450009239 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 444450009240 4Fe-4S binding domain; Region: Fer4; pfam00037 444450009241 hydrogenase 4 subunit B; Validated; Region: PRK06521 444450009242 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 444450009243 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 444450009244 NADH dehydrogenase; Region: NADHdh; cl00469 444450009245 hydrogenase 4 subunit D; Validated; Region: PRK06525 444450009246 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 444450009247 hydrogenase 4 membrane subunit; Provisional; Region: hyfE; PRK11492 444450009248 hydrogenase 4 subunit F; Validated; Region: PRK06458 444450009249 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 444450009250 Ni,Fe-hydrogenase III component G [Energy production and conversion]; Region: HycE; COG3262 444450009251 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 444450009252 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 444450009253 hydrogenase 4 subunit H; Validated; Region: PRK08222 444450009254 4Fe-4S binding domain; Region: Fer4; pfam00037 444450009255 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 444450009256 formate hydrogenlyase maturation protein HycH; Provisional; Region: PRK15084 444450009257 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 444450009258 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 444450009259 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 444450009260 Walker A motif; other site 444450009261 ATP binding site [chemical binding]; other site 444450009262 Walker B motif; other site 444450009263 arginine finger; other site 444450009264 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 444450009265 putative formate transporter; Provisional; Region: focB; PRK09713 444450009266 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 444450009267 Domain of unknown function DUF20; Region: UPF0118; pfam01594 444450009268 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 444450009269 Peptidase family M48; Region: Peptidase_M48; cl12018 444450009270 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 444450009271 ArsC family; Region: ArsC; pfam03960 444450009272 catalytic residues [active] 444450009273 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 444450009274 DNA replication initiation factor; Provisional; Region: PRK08084 444450009275 uracil transporter; Provisional; Region: PRK10720 444450009276 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 444450009277 active site 444450009278 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 444450009279 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 444450009280 dimerization interface [polypeptide binding]; other site 444450009281 putative ATP binding site [chemical binding]; other site 444450009282 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 444450009283 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 444450009284 active site 444450009285 substrate binding site [chemical binding]; other site 444450009286 cosubstrate binding site; other site 444450009287 catalytic site [active] 444450009288 Polyphosphate kinase [Inorganic ion transport and metabolism]; Region: Ppk; COG0855 444450009289 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 444450009290 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 444450009291 Catalytic C-terminal domain, first repeat, of prokaryotic polyphosphate kinase 1 and similar proteins; Region: PLDc_PPK1_C1; cd09114 444450009292 domain interface [polypeptide binding]; other site 444450009293 active site 444450009294 catalytic site [active] 444450009295 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 444450009296 putative active site [active] 444450009297 catalytic site [active] 444450009298 exopolyphosphatase; Provisional; Region: PRK10854 444450009299 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 444450009300 MASE1; Region: MASE1; pfam05231 444450009301 diguanylate cyclase; Region: GGDEF; smart00267 444450009302 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 444450009303 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 444450009304 Protein of unknown function (DUF2633); Region: DUF2633; pfam11119 444450009305 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 444450009306 GMP synthase; Reviewed; Region: guaA; PRK00074 444450009307 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 444450009308 AMP/PPi binding site [chemical binding]; other site 444450009309 candidate oxyanion hole; other site 444450009310 catalytic triad [active] 444450009311 potential glutamine specificity residues [chemical binding]; other site 444450009312 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 444450009313 ATP Binding subdomain [chemical binding]; other site 444450009314 Ligand Binding sites [chemical binding]; other site 444450009315 Dimerization subdomain; other site 444450009316 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 444450009317 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 444450009318 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 444450009319 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 444450009320 active site 444450009321 exodeoxyribonuclease VII, large subunit; Region: xseA; TIGR00237 444450009322 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 444450009323 generic binding surface II; other site 444450009324 generic binding surface I; other site 444450009325 Protein of unknown function (DUF1407); Region: DUF1407; pfam07191 444450009326 GTP-binding protein Der; Reviewed; Region: PRK00093 444450009327 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 444450009328 G1 box; other site 444450009329 GTP/Mg2+ binding site [chemical binding]; other site 444450009330 Switch I region; other site 444450009331 G2 box; other site 444450009332 Switch II region; other site 444450009333 G3 box; other site 444450009334 G4 box; other site 444450009335 G5 box; other site 444450009336 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 444450009337 G1 box; other site 444450009338 GTP/Mg2+ binding site [chemical binding]; other site 444450009339 Switch I region; other site 444450009340 G2 box; other site 444450009341 G3 box; other site 444450009342 Switch II region; other site 444450009343 G4 box; other site 444450009344 G5 box; other site 444450009345 outer membrane biogenesis protein BamB; Provisional; Region: PRK11138 444450009346 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cd00216 444450009347 Trp docking motif [polypeptide binding]; other site 444450009348 active site 444450009349 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 444450009350 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 444450009351 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 444450009352 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 444450009353 dimer interface [polypeptide binding]; other site 444450009354 motif 1; other site 444450009355 active site 444450009356 motif 2; other site 444450009357 motif 3; other site 444450009358 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 444450009359 anticodon binding site; other site 444450009360 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 444450009361 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 444450009362 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 444450009363 cytoskeletal protein RodZ; Provisional; Region: PRK10856 444450009364 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 444450009365 non-specific DNA binding site [nucleotide binding]; other site 444450009366 salt bridge; other site 444450009367 sequence-specific DNA binding site [nucleotide binding]; other site 444450009368 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 444450009369 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 444450009370 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 444450009371 FeS/SAM binding site; other site 444450009372 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 444450009373 active site 444450009374 multimer interface [polypeptide binding]; other site 444450009375 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 444450009376 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 444450009377 DMSO reductase anchor subunit [General function prediction only]; Region: DmsC; COG3302 444450009378 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 444450009379 4Fe-4S binding domain; Region: Fer4; pfam00037 444450009380 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 444450009381 This CD (MopB_DmsA-EC) includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_DmsA-EC; cd02770 444450009382 putative [Fe4-S4] binding site [ion binding]; other site 444450009383 putative molybdopterin cofactor binding site [chemical binding]; other site 444450009384 The MopB_CT_DmsA-EC CD includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_CT_DmsA-EC; cd02794 444450009385 putative molybdopterin cofactor binding site; other site 444450009386 penicillin-binding protein 1C; Provisional; Region: PRK11240 444450009387 Transglycosylase; Region: Transgly; pfam00912 444450009388 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 444450009389 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 444450009390 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 444450009391 MG2 domain; Region: A2M_N; pfam01835 444450009392 Alpha-2-macroglobulin family; Region: A2M; pfam00207 444450009393 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 444450009394 surface patch; other site 444450009395 thioester region; other site 444450009396 specificity defining residues; other site 444450009397 3-mercaptopyruvate sulfurtransferase; Provisional; Region: sseA; PRK11493 444450009398 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 444450009399 active site residue [active] 444450009400 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 444450009401 active site residue [active] 444450009402 enhanced serine sensitivity protein SseB; Provisional; Region: PRK11611 444450009403 aminopeptidase B; Provisional; Region: PRK05015 444450009404 Peptidase; Region: DUF3663; pfam12404 444450009405 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 444450009406 interface (dimer of trimers) [polypeptide binding]; other site 444450009407 Substrate-binding/catalytic site; other site 444450009408 Zn-binding sites [ion binding]; other site 444450009409 hypothetical protein; Provisional; Region: PRK10721 444450009410 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 444450009411 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 444450009412 catalytic loop [active] 444450009413 iron binding site [ion binding]; other site 444450009414 chaperone protein HscA; Provisional; Region: hscA; PRK05183 444450009415 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 444450009416 nucleotide binding site [chemical binding]; other site 444450009417 putative NEF/HSP70 interaction site [polypeptide binding]; other site 444450009418 SBD interface [polypeptide binding]; other site 444450009419 co-chaperone HscB; Provisional; Region: hscB; PRK05014 444450009420 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 444450009421 HSP70 interaction site [polypeptide binding]; other site 444450009422 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 444450009423 iron-sulfur cluster assembly protein; Provisional; Region: iscA; PRK09502 444450009424 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 444450009425 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 444450009426 trimerization site [polypeptide binding]; other site 444450009427 active site 444450009428 cysteine desulfurase; Provisional; Region: PRK14012 444450009429 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 444450009430 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 444450009431 catalytic residue [active] 444450009432 DNA-binding transcriptional regulator IscR; Provisional; Region: PRK10857 444450009433 Rrf2 family protein; Region: rrf2_super; TIGR00738 444450009434 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 444450009435 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 444450009436 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 444450009437 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 444450009438 active site 444450009439 dimerization interface [polypeptide binding]; other site 444450009440 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 444450009441 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 444450009442 stationary phase inducible protein CsiE; Provisional; Region: PRK11564 444450009443 PRD domain; Region: PRD; pfam00874 444450009444 PRD domain; Region: PRD; pfam00874 444450009445 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 444450009446 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 444450009447 putative substrate translocation pore; other site 444450009448 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 444450009449 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 444450009450 The C-terminal substrate binding domain of LysR-type transcriptional regulator HcaR in involved in 3-phenylpropionic acid catabolism, contains the type2 periplasmic binding fold; Region: PBP2_HcaR; cd08450 444450009451 putative dimerization interface [polypeptide binding]; other site 444450009452 putative substrate binding pocket [chemical binding]; other site 444450009453 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 444450009454 inter-subunit interface; other site 444450009455 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 444450009456 [2Fe-2S] cluster binding site [ion binding]; other site 444450009457 2,3-dihydroxy-2,3-dihydrophenylpropionate dehydrogenase; Provisional; Region: PRK06200 444450009458 cis-biphenyl-2,3-dihydrodiol-2,3-dehydrogenase (BphB)-like, classical (c) SDRs; Region: BphB-like_SDR_c; cd05348 444450009459 NAD binding site [chemical binding]; other site 444450009460 active site 444450009461 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 444450009462 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 444450009463 Predicted membrane protein [Function unknown]; Region: COG2259 444450009464 aldose 1-epimerase, similar to Escherichia coli YphB; Region: Aldose_epim_Ec_YphB; cd09021 444450009465 active site 444450009466 catalytic residues [active] 444450009467 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 444450009468 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 444450009469 TM-ABC transporter signature motif; other site 444450009470 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 444450009471 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 444450009472 Walker A/P-loop; other site 444450009473 ATP binding site [chemical binding]; other site 444450009474 Q-loop/lid; other site 444450009475 ABC transporter signature motif; other site 444450009476 Walker B; other site 444450009477 D-loop; other site 444450009478 H-loop/switch region; other site 444450009479 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 444450009480 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 444450009481 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 444450009482 ligand binding site [chemical binding]; other site 444450009483 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 444450009484 TPR motif; other site 444450009485 Tetratricopeptide repeat; Region: TPR_16; pfam13432 444450009486 binding surface 444450009487 TPR repeat; Region: TPR_11; pfam13414 444450009488 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 444450009489 TPR motif; other site 444450009490 binding surface 444450009491 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 444450009492 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 444450009493 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 444450009494 nucleotide binding site [chemical binding]; other site 444450009495 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 444450009496 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 444450009497 dimer interface [polypeptide binding]; other site 444450009498 active site 444450009499 glycine-pyridoxal phosphate binding site [chemical binding]; other site 444450009500 folate binding site [chemical binding]; other site 444450009501 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 444450009502 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 444450009503 heme-binding site [chemical binding]; other site 444450009504 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 444450009505 FAD binding pocket [chemical binding]; other site 444450009506 FAD binding motif [chemical binding]; other site 444450009507 phosphate binding motif [ion binding]; other site 444450009508 beta-alpha-beta structure motif; other site 444450009509 NAD binding pocket [chemical binding]; other site 444450009510 Heme binding pocket [chemical binding]; other site 444450009511 nitrogen regulatory protein P-II 1; Provisional; Region: PRK10858 444450009512 Nitrogen regulatory protein P-II; Region: P-II; smart00938 444450009513 response regulator GlrR; Provisional; Region: PRK15115 444450009514 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 444450009515 active site 444450009516 phosphorylation site [posttranslational modification] 444450009517 intermolecular recognition site; other site 444450009518 dimerization interface [polypeptide binding]; other site 444450009519 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 444450009520 Walker A motif; other site 444450009521 ATP binding site [chemical binding]; other site 444450009522 Walker B motif; other site 444450009523 arginine finger; other site 444450009524 hypothetical protein; Provisional; Region: PRK10722 444450009525 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 444450009526 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 444450009527 dimer interface [polypeptide binding]; other site 444450009528 phosphorylation site [posttranslational modification] 444450009529 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 444450009530 ATP binding site [chemical binding]; other site 444450009531 Mg2+ binding site [ion binding]; other site 444450009532 G-X-G motif; other site 444450009533 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 444450009534 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 444450009535 dimerization interface [polypeptide binding]; other site 444450009536 ATP binding site [chemical binding]; other site 444450009537 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 444450009538 dimerization interface [polypeptide binding]; other site 444450009539 ATP binding site [chemical binding]; other site 444450009540 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 444450009541 putative active site [active] 444450009542 catalytic triad [active] 444450009543 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 444450009544 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 444450009545 substrate binding pocket [chemical binding]; other site 444450009546 membrane-bound complex binding site; other site 444450009547 hinge residues; other site 444450009548 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 444450009549 N-acetyl-D-glucosamine binding site [chemical binding]; other site 444450009550 catalytic residue [active] 444450009551 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 444450009552 nucleoside/Zn binding site; other site 444450009553 dimer interface [polypeptide binding]; other site 444450009554 catalytic motif [active] 444450009555 hypothetical protein; Provisional; Region: PRK11590 444450009556 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 444450009557 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 444450009558 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11557 444450009559 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 444450009560 putative active site [active] 444450009561 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 444450009562 holo-[acyl-carrier-protein] synthase; Region: acpS; TIGR00516 444450009563 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 444450009564 active site 444450009565 hydrophilic channel; other site 444450009566 dimerization interface [polypeptide binding]; other site 444450009567 catalytic residues [active] 444450009568 active site lid [active] 444450009569 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 444450009570 Recombination protein O N terminal; Region: RecO_N; pfam11967 444450009571 Recombination protein O C terminal; Region: RecO_C; pfam02565 444450009572 GTPase Era; Reviewed; Region: era; PRK00089 444450009573 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 444450009574 G1 box; other site 444450009575 GTP/Mg2+ binding site [chemical binding]; other site 444450009576 Switch I region; other site 444450009577 G2 box; other site 444450009578 Switch II region; other site 444450009579 G3 box; other site 444450009580 G4 box; other site 444450009581 G5 box; other site 444450009582 KH domain; Region: KH_2; pfam07650 444450009583 ribonuclease III; Reviewed; Region: rnc; PRK00102 444450009584 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 444450009585 dimerization interface [polypeptide binding]; other site 444450009586 active site 444450009587 metal binding site [ion binding]; metal-binding site 444450009588 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 444450009589 dsRNA binding site [nucleotide binding]; other site 444450009590 rncO 444450009591 signal peptidase I; Provisional; Region: PRK10861 444450009592 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 444450009593 Catalytic site [active] 444450009594 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 444450009595 GTP-binding protein LepA; Provisional; Region: PRK05433 444450009596 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 444450009597 G1 box; other site 444450009598 putative GEF interaction site [polypeptide binding]; other site 444450009599 GTP/Mg2+ binding site [chemical binding]; other site 444450009600 Switch I region; other site 444450009601 G2 box; other site 444450009602 G3 box; other site 444450009603 Switch II region; other site 444450009604 G4 box; other site 444450009605 G5 box; other site 444450009606 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 444450009607 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 444450009608 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 444450009609 SoxR reducing system protein RseC; Provisional; Region: PRK10862 444450009610 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 444450009611 anti-sigma E factor; Provisional; Region: rseB; PRK09455 444450009612 anti-RNA polymerase sigma factor SigE; Provisional; Region: PRK10863 444450009613 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 444450009614 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 444450009615 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 444450009616 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 444450009617 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 444450009618 DNA binding residues [nucleotide binding] 444450009619 L-aspartate oxidase; Provisional; Region: PRK09077 444450009620 L-aspartate oxidase; Provisional; Region: PRK06175 444450009621 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 444450009622 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 444450009623 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 444450009624 S-adenosylmethionine binding site [chemical binding]; other site 444450009625 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 444450009626 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 444450009627 ATP binding site [chemical binding]; other site 444450009628 Mg++ binding site [ion binding]; other site 444450009629 motif III; other site 444450009630 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 444450009631 nucleotide binding region [chemical binding]; other site 444450009632 ATP-binding site [chemical binding]; other site 444450009633 Transcriptional regulator [Transcription]; Region: LysR; COG0583 444450009634 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 444450009635 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 444450009636 dimerization interface [polypeptide binding]; other site 444450009637 cysteine/O-acetylserine exporter; Provisional; Region: PRK10323 444450009638 autonomous glycyl radical cofactor GrcA; Provisional; Region: PRK11127 444450009639 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 444450009640 ligand binding site [chemical binding]; other site 444450009641 active site 444450009642 UGI interface [polypeptide binding]; other site 444450009643 catalytic site [active] 444450009644 putative methyltransferase; Provisional; Region: PRK10864 444450009645 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 444450009646 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 444450009647 thioredoxin 2; Provisional; Region: PRK10996 444450009648 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 444450009649 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 444450009650 catalytic residues [active] 444450009651 Uncharacterized conserved protein [Function unknown]; Region: COG3148 444450009652 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 444450009653 CoA binding domain; Region: CoA_binding_2; pfam13380 444450009654 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 444450009655 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 444450009656 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 444450009657 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 444450009658 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 444450009659 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 444450009660 domain interface [polypeptide binding]; other site 444450009661 putative active site [active] 444450009662 catalytic site [active] 444450009663 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 444450009664 domain interface [polypeptide binding]; other site 444450009665 putative active site [active] 444450009666 catalytic site [active] 444450009667 lipoprotein; Provisional; Region: PRK10759 444450009668 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 444450009669 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 444450009670 putative substrate translocation pore; other site 444450009671 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 444450009672 protein disaggregation chaperone; Provisional; Region: PRK10865 444450009673 Clp amino terminal domain; Region: Clp_N; pfam02861 444450009674 Clp amino terminal domain; Region: Clp_N; pfam02861 444450009675 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 444450009676 Walker A motif; other site 444450009677 ATP binding site [chemical binding]; other site 444450009678 Walker B motif; other site 444450009679 arginine finger; other site 444450009680 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 444450009681 Walker A motif; other site 444450009682 ATP binding site [chemical binding]; other site 444450009683 Walker B motif; other site 444450009684 arginine finger; other site 444450009685 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 444450009686 hypothetical protein; Provisional; Region: PRK10723 444450009687 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 444450009688 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 444450009689 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 444450009690 RNA binding surface [nucleotide binding]; other site 444450009691 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 444450009692 active site 444450009693 outer membrane biogenesis protein BamD; Provisional; Region: PRK10866 444450009694 Protein of unknown function (DUF3897); Region: DUF3897; cl17494 444450009695 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 444450009696 30S subunit binding site; other site 444450009697 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 444450009698 chorismate mutase domain of proteobacterial P-protein, clade 1; Region: CM_P_1; TIGR01797 444450009699 Prephenate dehydratase; Region: PDT; pfam00800 444450009700 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 444450009701 putative L-Phe binding site [chemical binding]; other site 444450009702 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 444450009703 Chorismate mutase type II; Region: CM_2; cl00693 444450009704 prephenate dehydrogenase; Validated; Region: PRK08507 444450009705 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 444450009706 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 444450009707 lipoprotein; Provisional; Region: PRK11443 444450009708 Protein of unknown function (DUF2799); Region: DUF2799; pfam10973 444450009709 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 444450009710 putative inner membrane diguanylate cyclase; Provisional; Region: PRK09966 444450009711 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 444450009712 metal binding site [ion binding]; metal-binding site 444450009713 active site 444450009714 I-site; other site 444450009715 putative outer membrane lipoprotein; Provisional; Region: PRK09967 444450009716 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 444450009717 ligand binding site [chemical binding]; other site 444450009718 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 444450009719 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 444450009720 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 444450009721 RimM N-terminal domain; Region: RimM; pfam01782 444450009722 PRC-barrel domain; Region: PRC; pfam05239 444450009723 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 444450009724 signal recognition particle protein; Provisional; Region: PRK10867 444450009725 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 444450009726 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 444450009727 P loop; other site 444450009728 GTP binding site [chemical binding]; other site 444450009729 Signal peptide binding domain; Region: SRP_SPB; pfam02978 444450009730 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4137 444450009731 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 444450009732 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 444450009733 dimer interface [polypeptide binding]; other site 444450009734 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 444450009735 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03378 444450009736 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 444450009737 recombination and repair protein; Provisional; Region: PRK10869 444450009738 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 444450009739 Walker A/P-loop; other site 444450009740 ATP binding site [chemical binding]; other site 444450009741 Q-loop/lid; other site 444450009742 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 444450009743 Q-loop/lid; other site 444450009744 ABC transporter signature motif; other site 444450009745 Walker B; other site 444450009746 D-loop; other site 444450009747 H-loop/switch region; other site 444450009748 outer membrane biogenesis protein BamE; Provisional; Region: PRK11548 444450009749 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 444450009750 hypothetical protein; Validated; Region: PRK01777 444450009751 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 444450009752 putative coenzyme Q binding site [chemical binding]; other site 444450009753 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 444450009754 SmpB-tmRNA interface; other site 444450009755 DinI-like family; Region: DinI; pfam06183 444450009756 IpaB/EvcA family; Region: IpaB_EvcA; pfam03278 444450009757 Protein of unknown function (DUF1076); Region: DUF1076; pfam06416 444450009758 Putative prophage tail fibre C-terminus; Region: Phage_fiber_C; pfam06820 444450009759 Transposase; Region: HTH_Tnp_1; cl17663 444450009760 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 444450009761 putative transposase OrfB; Reviewed; Region: PHA02517 444450009762 HTH-like domain; Region: HTH_21; pfam13276 444450009763 Integrase core domain; Region: rve; pfam00665 444450009764 Integrase core domain; Region: rve_3; pfam13683 444450009765 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 444450009766 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 444450009767 Phage-related lysozyme (muraminidase) [General function prediction only]; Region: COG3772 444450009768 catalytic residue [active] 444450009769 Protein of unknown function (DUF1327); Region: DUF1327; pfam07041 444450009770 Lysis protein S; Region: Lysis_S; pfam04971 444450009771 Domain of unknown function (DUF1737); Region: DUF1737; pfam08410 444450009772 Domain of unknown function (DUF303); Region: DUF303; pfam03629 444450009773 Protein of unknown function (DUF3927); Region: DUF3927; pfam13064 444450009774 Antitermination protein; Region: Antiterm; pfam03589 444450009775 Antitermination protein; Region: Antiterm; pfam03589 444450009776 PrpA and PrpB, metallophosphatase domain; Region: MPP_PrpA_PrpB; cd07424 444450009777 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 444450009778 active site 444450009779 metal binding site [ion binding]; metal-binding site 444450009780 Bacteriophage Lambda NinG protein; Region: NinG; pfam05766 444450009781 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 444450009782 DNA-binding interface [nucleotide binding]; DNA binding site 444450009783 Helix-turn-helix domain; Region: HTH_38; pfam13936 444450009784 enterobactin synthase subunit E; Provisional; Region: entE; PRK10946 444450009785 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4688 444450009786 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 444450009787 active site 444450009788 catalytic residues [active] 444450009789 DNA binding site [nucleotide binding] 444450009790 Int/Topo IB signature motif; other site 444450009791 Type V secretory pathway, adhesin AidA [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: AidA; COG3468 444450009792 hypothetical protein; Provisional; Region: PRK09945 444450009793 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 1, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of Neisseria and Haemophilus IgA1 proteases; Region: PL1_Passenger_AT; cd01343 444450009794 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 444450009795 Autotransporter beta-domain; Region: Autotransporter; pfam03797 444450009796 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cd00250 444450009797 substrate binding pocket [chemical binding]; other site 444450009798 active site 444450009799 iron coordination sites [ion binding]; other site 444450009800 Predicted dehydrogenase [General function prediction only]; Region: COG0579 444450009801 hydroxyglutarate oxidase; Provisional; Region: PRK11728 444450009802 succinate-semialdehyde dehydrogenase I; Provisional; Region: gabD; PRK11241 444450009803 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 444450009804 tetramerization interface [polypeptide binding]; other site 444450009805 NAD(P) binding site [chemical binding]; other site 444450009806 catalytic residues [active] 444450009807 4-aminobutyrate aminotransferase; Validated; Region: PRK08088 444450009808 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 444450009809 inhibitor-cofactor binding pocket; inhibition site 444450009810 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444450009811 catalytic residue [active] 444450009812 gamma-aminobutyrate transporter; Provisional; Region: PRK10197 444450009813 DNA-binding transcriptional regulator CsiR; Provisional; Region: PRK11534 444450009814 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 444450009815 DNA-binding site [nucleotide binding]; DNA binding site 444450009816 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 444450009817 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 444450009818 bacterial OsmY and nodulation domain; Region: BON; smart00749 444450009819 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 444450009820 Uncharacterized homolog of Blt101 [Function unknown]; Region: COG0401 444450009821 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 444450009822 dimerization interface [polypeptide binding]; other site 444450009823 putative DNA binding site [nucleotide binding]; other site 444450009824 Transcriptional regulators [Transcription]; Region: MarR; COG1846 444450009825 putative Zn2+ binding site [ion binding]; other site 444450009826 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YgaP, and similar uncharacterized putative rhodanese-related sulfurtransferases; Region: RHOD_YgaP; cd01527 444450009827 active site residue [active] 444450009828 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 444450009829 DNA binding protein, nucleoid-associated; Provisional; Region: PRK10328 444450009830 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 444450009831 Protein of unknown function (DUF1144); Region: DUF1144; pfam06610 444450009832 hypothetical protein; Provisional; Region: PRK10556 444450009833 hypothetical protein; Provisional; Region: PRK10132 444450009834 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 444450009835 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 444450009836 DNA-binding site [nucleotide binding]; DNA binding site 444450009837 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 444450009838 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444450009839 homodimer interface [polypeptide binding]; other site 444450009840 catalytic residue [active] 444450009841 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 444450009842 Uncharacterized conserved protein [Function unknown]; Region: COG2128 444450009843 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 444450009844 catalytic residues [active] 444450009845 ribonucleotide reductase stimulatory protein; Reviewed; Region: nrdI; PRK03600 444450009846 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08188 444450009847 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 444450009848 Class I ribonucleotide reductase; Region: RNR_I; cd01679 444450009849 active site 444450009850 dimer interface [polypeptide binding]; other site 444450009851 catalytic residues [active] 444450009852 effector binding site; other site 444450009853 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 444450009854 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 444450009855 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 444450009856 dimer interface [polypeptide binding]; other site 444450009857 putative radical transfer pathway; other site 444450009858 diiron center [ion binding]; other site 444450009859 tyrosyl radical; other site 444450009860 glycine betaine transporter ATP-binding subunit; Provisional; Region: PRK10070 444450009861 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 444450009862 Walker A/P-loop; other site 444450009863 ATP binding site [chemical binding]; other site 444450009864 Q-loop/lid; other site 444450009865 ABC transporter signature motif; other site 444450009866 Walker B; other site 444450009867 D-loop; other site 444450009868 H-loop/switch region; other site 444450009869 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc2; cd04583 444450009870 glycine betaine transporter membrane protein; Provisional; Region: PRK10952 444450009871 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 444450009872 dimer interface [polypeptide binding]; other site 444450009873 conserved gate region; other site 444450009874 putative PBP binding loops; other site 444450009875 ABC-ATPase subunit interface; other site 444450009876 glycine betaine transporter periplasmic subunit; Provisional; Region: proX; PRK11119 444450009877 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 444450009878 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 444450009879 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 444450009880 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 444450009881 putative L-valine exporter; Provisional; Region: PRK10408 444450009882 transcriptional repressor MprA; Provisional; Region: PRK10870 444450009883 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 444450009884 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 444450009885 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 444450009886 HlyD family secretion protein; Region: HlyD_3; pfam13437 444450009887 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 444450009888 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 444450009889 putative substrate translocation pore; other site 444450009890 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 444450009891 S-ribosylhomocysteinase; Provisional; Region: PRK02260 444450009892 glutamate--cysteine ligase; Provisional; Region: PRK02107 444450009893 Predicted membrane protein [Function unknown]; Region: COG1238 444450009894 fructose-1-P/6-phosphogluconate phosphatase; Provisional; Region: PRK10725 444450009895 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 444450009896 motif II; other site 444450009897 carbon storage regulator; Provisional; Region: PRK01712 444450009898 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 444450009899 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 444450009900 motif 1; other site 444450009901 active site 444450009902 motif 2; other site 444450009903 motif 3; other site 444450009904 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 444450009905 DHHA1 domain; Region: DHHA1; pfam02272 444450009906 recombination regulator RecX; Reviewed; Region: recX; PRK00117 444450009907 recombinase A; Provisional; Region: recA; PRK09354 444450009908 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 444450009909 hexamer interface [polypeptide binding]; other site 444450009910 Walker A motif; other site 444450009911 ATP binding site [chemical binding]; other site 444450009912 Walker B motif; other site 444450009913 hypothetical protein; Validated; Region: PRK03661 444450009914 Transglycosylase SLT domain; Region: SLT_2; pfam13406 444450009915 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 444450009916 N-acetyl-D-glucosamine binding site [chemical binding]; other site 444450009917 PTS system glucitol/sorbitol-specific transporter subunit IIA; Provisional; Region: PRK10377 444450009918 sorbitol-6-phosphate dehydrogenase; Provisional; Region: PRK12384 444450009919 Sorbitol 6-phosphate dehydrogenase (SDH), classical (c) SDRs; Region: SDH_SDR_c_like; cd05322 444450009920 putative NAD(P) binding site [chemical binding]; other site 444450009921 active site 444450009922 DNA-binding transcriptional activator GutM; Provisional; Region: PRK10234 444450009923 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 444450009924 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 444450009925 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 444450009926 D-arabinose 5-phosphate isomerase; Provisional; Region: gutQ; PRK11543 444450009927 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 444450009928 putative active site [active] 444450009929 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 444450009930 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 444450009931 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 444450009932 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 444450009933 Walker A motif; other site 444450009934 ATP binding site [chemical binding]; other site 444450009935 Walker B motif; other site 444450009936 arginine finger; other site 444450009937 anaerobic nitric oxide reductase flavorubredoxin; Provisional; Region: PRK05452 444450009938 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 444450009939 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 444450009940 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 444450009941 iron binding site [ion binding]; other site 444450009942 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 444450009943 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 444450009944 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 444450009945 Acylphosphatase; Region: Acylphosphatase; pfam00708 444450009946 HypF finger; Region: zf-HYPF; pfam07503 444450009947 HypF finger; Region: zf-HYPF; pfam07503 444450009948 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 444450009949 formate dehydrogenase-H ferredoxin subunit; Provisional; Region: PRK10330 444450009950 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 444450009951 Transcriptional regulators [Transcription]; Region: PurR; COG1609 444450009952 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 444450009953 DNA binding site [nucleotide binding] 444450009954 domain linker motif; other site 444450009955 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 444450009956 dimerization interface (closed form) [polypeptide binding]; other site 444450009957 ligand binding site [chemical binding]; other site 444450009958 PTS system cellobiose/arbutin/salicin-specific transporter subunits IIBC; Provisional; Region: PRK09796 444450009959 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 444450009960 active site turn [active] 444450009961 phosphorylation site [posttranslational modification] 444450009962 PTS system, maltose and glucose-specific subfamily, IIC component; Region: pts-Glc; TIGR00852 444450009963 cryptic 6-phospho-beta-glucosidase; Provisional; Region: PRK09852 444450009964 beta-galactosidase; Region: BGL; TIGR03356 444450009965 Endopeptidases belonging to membrane-bound hydrogen evolving hydrogenase group. In hydrogenase 3 from E coli, the maturation of the large subunit (HycE) requires the cleavage of a C-terminal peptide by the endopeptidase HycI, before the final formation...; Region: H2MP_MemB-H2evol; cd06067 444450009966 nickel binding site [ion binding]; other site 444450009967 formate hydrogenlyase maturation protein HycH; Provisional; Region: PRK15084 444450009968 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 444450009969 formate hydrogenlyase complex iron-sulfur subunit; Provisional; Region: PRK12387 444450009970 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 444450009971 Ni,Fe-hydrogenase III component G [Energy production and conversion]; Region: HycE; COG3262 444450009972 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 444450009973 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 444450009974 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 444450009975 NADH dehydrogenase; Region: NADHdh; cl00469 444450009976 formate hydrogenlyase subunit 3; Reviewed; Region: PRK08042 444450009977 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 444450009978 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 444450009979 formate hydrogenlyase regulatory protein HycA; Provisional; Region: PRK10198 444450009980 Hydrogenase expression/synthesis hypA family; Region: HypA; cl17671 444450009981 hydrogenase nickel incorporation protein; Validated; Region: hypA; PRK03681 444450009982 hydrogenase nickel incorporation protein HypB; Provisional; Region: PRK10463 444450009983 hydrogenase assembly chaperone; Provisional; Region: PRK10409 444450009984 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 444450009985 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 444450009986 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 444450009987 dimerization interface [polypeptide binding]; other site 444450009988 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 444450009989 ATP binding site [chemical binding]; other site 444450009990 formate hydrogenlyase transcriptional activator FhlA; Provisional; Region: PRK15429 444450009991 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 444450009992 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 444450009993 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 444450009994 Walker A motif; other site 444450009995 ATP binding site [chemical binding]; other site 444450009996 Walker B motif; other site 444450009997 arginine finger; other site 444450009998 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 444450009999 Nitrous oxide-stimulated promoter; Region: YgbA_NO; pfam11756 444450010000 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 444450010001 MutS domain I; Region: MutS_I; pfam01624 444450010002 MutS domain II; Region: MutS_II; pfam05188 444450010003 MutS domain III; Region: MutS_III; pfam05192 444450010004 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 444450010005 Walker A/P-loop; other site 444450010006 ATP binding site [chemical binding]; other site 444450010007 Q-loop/lid; other site 444450010008 ABC transporter signature motif; other site 444450010009 Walker B; other site 444450010010 D-loop; other site 444450010011 H-loop/switch region; other site 444450010012 PrpA and PrpB, metallophosphatase domain; Region: MPP_PrpA_PrpB; cd07424 444450010013 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 444450010014 active site 444450010015 metal binding site [ion binding]; metal-binding site 444450010016 Protein of unknown function (DUF1062); Region: DUF1062; cl01786 444450010017 3-polyprenyl-4-hydroxybenzoate decarboxylase and related decarboxylases [Coenzyme metabolism]; Region: UbiD; COG0043 444450010018 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 444450010019 Flavoprotein; Region: Flavoprotein; pfam02441 444450010020 MarR family; Region: MarR_2; cl17246 444450010021 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 444450010022 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 444450010023 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 444450010024 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 444450010025 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 444450010026 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 444450010027 DNA binding residues [nucleotide binding] 444450010028 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 444450010029 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 444450010030 Peptidase family M23; Region: Peptidase_M23; pfam01551 444450010031 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 444450010032 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 444450010033 S-adenosylmethionine binding site [chemical binding]; other site 444450010034 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 444450010035 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 444450010036 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 444450010037 Permutation of conserved domain; other site 444450010038 active site 444450010039 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 444450010040 homotrimer interaction site [polypeptide binding]; other site 444450010041 zinc binding site [ion binding]; other site 444450010042 CDP-binding sites; other site 444450010043 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 444450010044 substrate binding site; other site 444450010045 dimer interface; other site 444450010046 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 444450010047 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 444450010048 Protein of unknown function (DUF3561); Region: DUF3561; pfam12084 444450010049 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 444450010050 ligand-binding site [chemical binding]; other site 444450010051 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 444450010052 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 444450010053 CysD dimerization site [polypeptide binding]; other site 444450010054 G1 box; other site 444450010055 putative GEF interaction site [polypeptide binding]; other site 444450010056 GTP/Mg2+ binding site [chemical binding]; other site 444450010057 Switch I region; other site 444450010058 G2 box; other site 444450010059 G3 box; other site 444450010060 Switch II region; other site 444450010061 G4 box; other site 444450010062 G5 box; other site 444450010063 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 444450010064 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 444450010065 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 444450010066 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 444450010067 Active Sites [active] 444450010068 alkaline phosphatase isozyme conversion aminopeptidase; Provisional; Region: PRK10199 444450010069 M28 Zn-peptidases include aminopeptidases and carboxypeptidases; Region: M28; cd02690 444450010070 metal binding site [ion binding]; metal-binding site 444450010071 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I-E; cd09648 444450010072 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-E; cd09719 444450010073 CRISPR/Cas system-associated RAMP superfamily protein Cas6e; Region: Cas6_I-E; cd09664 444450010074 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 444450010075 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-E; cd09645 444450010076 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-E; cd09646 444450010077 CRISPR/Cas system-associated protein Cse2; Region: Cse2_I-E; cd09670 444450010078 CRISPR/Cas system-associated protein Cse1; Region: Cse1_I-E; cd09669 444450010079 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 444450010080 CRISPR-associated helicase Cas3 [Defense mechanisms]; Region: COG1203 444450010081 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 444450010082 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 444450010083 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 444450010084 Active Sites [active] 444450010085 sulfite reductase subunit beta; Provisional; Region: PRK13504 444450010086 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 444450010087 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 444450010088 sulfite reductase subunit alpha; Provisional; Region: cysJ; PRK10953 444450010089 Flavodoxin; Region: Flavodoxin_1; pfam00258 444450010090 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR; cd06199 444450010091 FAD binding pocket [chemical binding]; other site 444450010092 FAD binding motif [chemical binding]; other site 444450010093 catalytic residues [active] 444450010094 NAD binding pocket [chemical binding]; other site 444450010095 phosphate binding motif [ion binding]; other site 444450010096 beta-alpha-beta structure motif; other site 444450010097 6-pyruvoyl tetrahydropterin synthase (PTPS). 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 uptake by a...; Region: PTPS; cd00470 444450010098 homohexamer interface [polypeptide binding]; other site 444450010099 putative substrate stabilizing pore; other site 444450010100 pterin binding site; other site 444450010101 putative oxidoreductase FixC; Provisional; Region: PRK10157 444450010102 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 444450010103 Glycerol-3-phosphate responsive antiterminator (mRNA-binding) [Transcription]; Region: GlpP; COG1954 444450010104 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 444450010105 Ligand binding site [chemical binding]; other site 444450010106 Electron transfer flavoprotein domain; Region: ETF; pfam01012 444450010107 Protein of unknown function (DUF2950); Region: DUF2950; pfam11453 444450010108 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 444450010109 FAD binding domain; Region: FAD_binding_4; pfam01565 444450010110 2-deoxy-D-gluconate 3-dehydrogenase; Provisional; Region: PRK06935 444450010111 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 444450010112 NADP binding site [chemical binding]; other site 444450010113 homodimer interface [polypeptide binding]; other site 444450010114 active site 444450010115 Major Facilitator Superfamily; Region: MFS_1; pfam07690 444450010116 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 444450010117 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 444450010118 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 444450010119 nucleotide binding site [chemical binding]; other site 444450010120 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 444450010121 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 444450010122 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 444450010123 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 444450010124 Repair protein; Region: Repair_PSII; pfam04536 444450010125 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 444450010126 Repair protein; Region: Repair_PSII; pfam04536 444450010127 enolase; Provisional; Region: eno; PRK00077 444450010128 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 444450010129 dimer interface [polypeptide binding]; other site 444450010130 metal binding site [ion binding]; metal-binding site 444450010131 substrate binding pocket [chemical binding]; other site 444450010132 CTP synthetase; Validated; Region: pyrG; PRK05380 444450010133 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 444450010134 Catalytic site [active] 444450010135 active site 444450010136 UTP binding site [chemical binding]; other site 444450010137 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 444450010138 active site 444450010139 putative oxyanion hole; other site 444450010140 catalytic triad [active] 444450010141 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 444450010142 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 444450010143 homodimer interface [polypeptide binding]; other site 444450010144 metal binding site [ion binding]; metal-binding site 444450010145 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 444450010146 homodimer interface [polypeptide binding]; other site 444450010147 active site 444450010148 putative chemical substrate binding site [chemical binding]; other site 444450010149 metal binding site [ion binding]; metal-binding site 444450010150 toxin MazF; Provisional; Region: PRK09907 444450010151 antitoxin MazE; Provisional; Region: PRK09798 444450010152 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 444450010153 HD domain; Region: HD_4; pfam13328 444450010154 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 444450010155 synthetase active site [active] 444450010156 NTP binding site [chemical binding]; other site 444450010157 metal binding site [ion binding]; metal-binding site 444450010158 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 444450010159 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 444450010160 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 444450010161 TRAM domain; Region: TRAM; pfam01938 444450010162 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 444450010163 S-adenosylmethionine binding site [chemical binding]; other site 444450010164 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 444450010165 Uncharacterized signal transduction histidine kinase domain (DUF2222); Region: DUF2222; pfam09984 444450010166 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 444450010167 dimerization interface [polypeptide binding]; other site 444450010168 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 444450010169 dimer interface [polypeptide binding]; other site 444450010170 phosphorylation site [posttranslational modification] 444450010171 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 444450010172 ATP binding site [chemical binding]; other site 444450010173 Mg2+ binding site [ion binding]; other site 444450010174 G-X-G motif; other site 444450010175 Uncharacterized domain of BarA-like signal transduction histidine kinases [Signal transduction mechanisms]; Region: COG4999 444450010176 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 444450010177 active site 444450010178 phosphorylation site [posttranslational modification] 444450010179 intermolecular recognition site; other site 444450010180 dimerization interface [polypeptide binding]; other site 444450010181 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 444450010182 putative binding surface; other site 444450010183 active site 444450010184 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 444450010185 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 444450010186 active site 444450010187 tetramer interface [polypeptide binding]; other site 444450010188 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 444450010189 D-galactonate transporter; Region: 2A0114; TIGR00893 444450010190 putative substrate translocation pore; other site 444450010191 flavodoxin; Provisional; Region: PRK08105 444450010192 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 444450010193 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 444450010194 probable active site [active] 444450010195 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3098 444450010196 SecY interacting protein Syd; Provisional; Region: PRK04968 444450010197 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 444450010198 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 444450010199 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 444450010200 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 444450010201 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 444450010202 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 444450010203 serine transporter; Region: stp; TIGR00814 444450010204 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 444450010205 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 444450010206 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 444450010207 flap endonuclease-like protein; Provisional; Region: PRK09482 444450010208 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 444450010209 active site 444450010210 metal binding site 1 [ion binding]; metal-binding site 444450010211 putative 5' ssDNA interaction site; other site 444450010212 metal binding site 3; metal-binding site 444450010213 metal binding site 2 [ion binding]; metal-binding site 444450010214 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 444450010215 putative DNA binding site [nucleotide binding]; other site 444450010216 putative metal binding site [ion binding]; other site 444450010217 L-1,2-propanediol oxidoreductase; Provisional; Region: PRK10624 444450010218 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 444450010219 dimer interface [polypeptide binding]; other site 444450010220 active site 444450010221 metal binding site [ion binding]; metal-binding site 444450010222 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cd00398 444450010223 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 444450010224 intersubunit interface [polypeptide binding]; other site 444450010225 active site 444450010226 Zn2+ binding site [ion binding]; other site 444450010227 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 444450010228 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 444450010229 putative substrate translocation pore; other site 444450010230 L-fucose isomerase; Provisional; Region: fucI; PRK10991 444450010231 L-fucose isomerase (FucIase); FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose during glycolysis). L-fucose (or 6-deoxy-L-galactose) is found in blood group...; Region: L-fucose_isomerase; cd03556 444450010232 hexamer (dimer of trimers) interface [polypeptide binding]; other site 444450010233 trimer interface [polypeptide binding]; other site 444450010234 substrate binding site [chemical binding]; other site 444450010235 Mn binding site [ion binding]; other site 444450010236 L-fuculokinase; Provisional; Region: PRK10331 444450010237 L-fuculose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_FK; cd07773 444450010238 putative N- and C-terminal domain interface [polypeptide binding]; other site 444450010239 putative active site [active] 444450010240 putative MgATP binding site [chemical binding]; other site 444450010241 putative catalytic site [active] 444450010242 metal binding site [ion binding]; metal-binding site 444450010243 putative carbohydrate binding site [chemical binding]; other site 444450010244 L-fucose mutarotase; Provisional; Region: fucU; PRK15420 444450010245 DNA-binding transcriptional activator FucR; Provisional; Region: PRK10411 444450010246 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 444450010247 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 444450010248 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 444450010249 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 444450010250 hypothetical protein; Provisional; Region: PRK10873 444450010251 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 444450010252 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 444450010253 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 444450010254 dimerization interface [polypeptide binding]; other site 444450010255 substrate binding pocket [chemical binding]; other site 444450010256 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 444450010257 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 444450010258 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 444450010259 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 444450010260 catalytic residue [active] 444450010261 CsdA-binding activator; Provisional; Region: PRK15019 444450010262 sulfur acceptor protein CsdL; Provisional; Region: PRK15116 444450010263 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 444450010264 putative ATP binding site [chemical binding]; other site 444450010265 putative substrate interface [chemical binding]; other site 444450010266 murein transglycosylase A; Provisional; Region: mltA; PRK11162 444450010267 MltA specific insert domain; Region: MltA; pfam03562 444450010268 3D domain; Region: 3D; pfam06725 444450010269 AMIN domain; Region: AMIN; pfam11741 444450010270 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 444450010271 active site 444450010272 metal binding site [ion binding]; metal-binding site 444450010273 N-acetylglutamate synthase; Validated; Region: PRK05279 444450010274 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 444450010275 putative feedback inhibition sensing region; other site 444450010276 putative nucleotide binding site [chemical binding]; other site 444450010277 putative substrate binding site [chemical binding]; other site 444450010278 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 444450010279 Coenzyme A binding pocket [chemical binding]; other site 444450010280 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 444450010281 AAA domain; Region: AAA_30; pfam13604 444450010282 Family description; Region: UvrD_C_2; pfam13538 444450010283 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 444450010284 protease3; Provisional; Region: PRK15101 444450010285 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 444450010286 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 444450010287 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 444450010288 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 444450010289 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 444450010290 hypothetical protein; Provisional; Region: PRK10332 444450010291 Prepilin peptidase dependent protein C term (DUF3728); Region: DUF3728; pfam12528 444450010292 hypothetical protein; Provisional; Region: PRK11521 444450010293 hypothetical protein; Provisional; Region: PRK10557 444450010294 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 444450010295 hypothetical protein; Provisional; Region: PRK10506 444450010296 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 444450010297 thymidylate synthase; Reviewed; Region: thyA; PRK01827 444450010298 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 444450010299 dimerization interface [polypeptide binding]; other site 444450010300 active site 444450010301 prolipoprotein diacylglyceryl transferase; Region: lgt; TIGR00544 444450010302 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional; Region: PRK11061 444450010303 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 444450010304 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 444450010305 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 444450010306 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 444450010307 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 444450010308 putative active site [active] 444450010309 Ap4A binding site [chemical binding]; other site 444450010310 nudix motif; other site 444450010311 putative metal binding site [ion binding]; other site 444450010312 MutH is a 28kD endonuclease involved in methyl-directed DNA mismatch repair in gram negative bacteria. MutH is both sequence-specific and methylation-specific, introducing a nick in the unmethylated strand of a hemi-methylated d(GATC) DNA duplex. MutH...; Region: MutH_Sau3AI; cd00583 444450010313 putative DNA-binding cleft [nucleotide binding]; other site 444450010314 putative DNA clevage site; other site 444450010315 molecular lever; other site 444450010316 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 444450010317 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 444450010318 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 444450010319 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 444450010320 active site 444450010321 catalytic tetrad [active] 444450010322 lysophospholipid transporter LplT; Provisional; Region: PRK11195 444450010323 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 444450010324 bifunctional acyl-[acyl carrier protein] synthetase/2-acylglycerophosphoethanolamine acyltransferase; Validated; Region: PRK08043 444450010325 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 444450010326 putative acyl-acceptor binding pocket; other site 444450010327 C-terminal domain of the acyl-acyl carrier protein synthetase (also called 2-acylglycerophosphoethanolamine acyltransferase, Aas); Region: AAS_C; cd05909 444450010328 acyl-activating enzyme (AAE) consensus motif; other site 444450010329 putative AMP binding site [chemical binding]; other site 444450010330 DNA-binding transcriptional regulator GalR; Provisional; Region: PRK10727 444450010331 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 444450010332 DNA binding site [nucleotide binding] 444450010333 domain linker motif; other site 444450010334 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 444450010335 dimerization interface (closed form) [polypeptide binding]; other site 444450010336 ligand binding site [chemical binding]; other site 444450010337 diaminopimelate decarboxylase; Provisional; Region: PRK11165 444450010338 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 444450010339 active site 444450010340 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 444450010341 substrate binding site [chemical binding]; other site 444450010342 catalytic residues [active] 444450010343 dimer interface [polypeptide binding]; other site 444450010344 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 444450010345 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 444450010346 The C-terminal substrate binding domain of LysR, transcriptional regulator for lysine biosynthesis, contains the type 2 periplasmic binding fold; Region: PBP2_LysR; cd08456 444450010347 putative dimerization interface [polypeptide binding]; other site 444450010348 putative racemase; Provisional; Region: PRK10200 444450010349 aspartate racemase; Region: asp_race; TIGR00035 444450010350 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 444450010351 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 444450010352 putative substrate translocation pore; other site 444450010353 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 444450010354 2-deoxy-D-gluconate 3-dehydrogenase; Validated; Region: PRK08993 444450010355 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 444450010356 NADP binding site [chemical binding]; other site 444450010357 homodimer interface [polypeptide binding]; other site 444450010358 active site 444450010359 5-keto-4-deoxyuronate isomerase; Provisional; Region: PRK00924 444450010360 putative acyltransferase; Provisional; Region: PRK05790 444450010361 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 444450010362 dimer interface [polypeptide binding]; other site 444450010363 active site 444450010364 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 444450010365 serine transporter; Region: stp; TIGR00814 444450010366 DNA-binding HTH domain-containing proteins [Transcription]; Region: CsgD; COG2771 444450010367 DNA binding residues [nucleotide binding] 444450010368 DNA-binding winged-HTH domains [Transcription]; Region: CadC; COG3710 444450010369 Uncharacterized protein conserved in Bacteroidetes; Region: Bacuni_01323_like; cd12871 444450010370 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 444450010371 Tetratricopeptide repeat; Region: TPR_3; pfam07720 444450010372 Tetratricopeptide repeat; Region: TPR_3; pfam07720 444450010373 transcriptional regulator; Provisional; Region: PRK11906 444450010374 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 444450010375 DNA binding site [nucleotide binding] 444450010376 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 444450010377 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 444450010378 N-acetyl-D-glucosamine binding site [chemical binding]; other site 444450010379 catalytic residue [active] 444450010380 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 444450010381 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 444450010382 DNA binding residues [nucleotide binding] 444450010383 dimerization interface [polypeptide binding]; other site 444450010384 invasion protein OrgB; Provisional; Region: PRK15322 444450010385 Bacterial type III secretion apparatus protein (OrgA_MxiK); Region: OrgA_MxiK; cl09716 444450010386 Type III secretory pathway, lipoprotein EscJ [Intracellular trafficking and secretion]; Region: EscJ; COG4669 444450010387 type III secretion system needle complex protein PrgJ; Provisional; Region: PRK15325 444450010388 Type III secretion needle MxiH like; Region: MxiH; cl09641 444450010389 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 444450010390 DNA binding residues [nucleotide binding] 444450010391 dimerization interface [polypeptide binding]; other site 444450010392 type III secretion system protein SpaS; Validated; Region: PRK08156 444450010393 type III secretion system protein SpaQ; Provisional; Region: PRK15333 444450010394 type III secretion system protein SpaP; Provisional; Region: spaP; PRK12796 444450010395 Surface presentation of antigens protein; Region: SPAN; pfam02510 444450010396 Salmonella surface presentation of antigen gene type M protein; Region: SPAM; cl03442 444450010397 ATP synthase SpaL; Validated; Region: PRK08149 444450010398 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 444450010399 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 444450010400 Walker A motif; other site 444450010401 ATP binding site [chemical binding]; other site 444450010402 Walker B motif; other site 444450010403 Type III secretory pathway, component EscV [Intracellular trafficking and secretion]; Region: EscV; COG4789 444450010404 type III secretion system protein InvA; Provisional; Region: PRK15337 444450010405 type III secretion system regulator InvE; Provisional; Region: PRK15338 444450010406 HrpJ-like domain; Region: HrpJ; pfam07201 444450010407 type III secretion system outer membrane pore InvG; Provisional; Region: PRK15339 444450010408 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 444450010409 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 444450010410 transcriptional regulator InvF; Provisional; Region: PRK15340 444450010411 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 444450010412 Protein of unknown function (DUF2566); Region: DUF2566; pfam10753 444450010413 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 444450010414 Peptidase family M23; Region: Peptidase_M23; pfam01551 444450010415 xanthine dehydrogenase subunit XdhA; Provisional; Region: PRK09970 444450010416 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; pfam01315 444450010417 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 444450010418 xanthine dehydrogenase subunit XdhB; Provisional; Region: PRK09971 444450010419 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 444450010420 xanthine dehydrogenase subunit XdhC; Provisional; Region: PRK09908 444450010421 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 444450010422 catalytic loop [active] 444450010423 iron binding site [ion binding]; other site 444450010424 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 444450010425 GAF domain; Region: GAF; cl17456 444450010426 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 444450010427 PAS domain; Region: PAS; smart00091 444450010428 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 444450010429 Walker A motif; other site 444450010430 ATP binding site [chemical binding]; other site 444450010431 Walker B motif; other site 444450010432 arginine finger; other site 444450010433 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 444450010434 aspartate/ornithine carbamoyltransferase family protein; Validated; Region: PRK07200 444450010435 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 444450010436 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 444450010437 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 444450010438 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; cd00640 444450010439 catalytic residue [active] 444450010440 peptidase; Reviewed; Region: PRK13004 444450010441 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like4; cd05649 444450010442 putative metal binding site [ion binding]; other site 444450010443 putative dimer interface [polypeptide binding]; other site 444450010444 D-hydantoinase; Region: D-hydantoinase; TIGR02033 444450010445 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 444450010446 tetramer interface [polypeptide binding]; other site 444450010447 active site 444450010448 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 444450010449 carbamate kinase; Reviewed; Region: PRK12686 444450010450 putative substrate binding site [chemical binding]; other site 444450010451 homodimer interface [polypeptide binding]; other site 444450010452 nucleotide binding site [chemical binding]; other site 444450010453 nucleotide binding site [chemical binding]; other site 444450010454 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 444450010455 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 444450010456 XdhC Rossmann domain; Region: XdhC_C; pfam13478 444450010457 selenium-dependent molybdenum hydroxylase system protein, YqeB family; Region: matur_yqeB; TIGR03309 444450010458 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 444450010459 probable selenium-dependent hydroxylase accessory protein YqeC; Region: TIGR03172 444450010460 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 444450010461 Ligand binding site; other site 444450010462 metal-binding site 444450010463 putative selenate reductase subunit YgfK; Provisional; Region: PRK09853 444450010464 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 444450010465 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 444450010466 putative selenium metabolism protein SsnA; Region: Se_ssnA; TIGR03314 444450010467 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 444450010468 active site 444450010469 putative substrate binding pocket [chemical binding]; other site 444450010470 probable selenate reductase, FAD-binding subunit; Region: Se_sel_red_FAD; TIGR03312 444450010471 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 444450010472 putative hypoxanthine oxidase; Provisional; Region: PRK09800 444450010473 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 444450010474 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 444450010475 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 444450010476 uracil-xanthine permease; Region: ncs2; TIGR00801 444450010477 guanine deaminase; Provisional; Region: PRK09228 444450010478 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 444450010479 active site 444450010480 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 444450010481 putative oxidoreductase Fe-S binding subunit; Reviewed; Region: PRK12809 444450010482 4Fe-4S binding domain; Region: Fer4; pfam00037 444450010483 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 444450010484 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 444450010485 xanthine permease; Region: pbuX; TIGR03173 444450010486 Isopentenyldiphosphate isomerase [Lipid metabolism]; Region: Idi; COG1443 444450010487 Isopentenyl diphosphate (IPP) isomerase, a member of the Nudix hydrolase superfamily, is a key enzyme in the isoprenoid biosynthetic pathway. Isoprenoids comprise a large family of natural products including sterols, carotenoids, dolichols and prenylated...; Region: IPP_Isomerase; cd02885 444450010488 active site 444450010489 metal binding site [ion binding]; metal-binding site 444450010490 nudix motif; other site 444450010491 lysyl-tRNA synthetase; Reviewed; Region: PRK12445 444450010492 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 444450010493 dimer interface [polypeptide binding]; other site 444450010494 putative anticodon binding site; other site 444450010495 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 444450010496 motif 1; other site 444450010497 active site 444450010498 motif 2; other site 444450010499 motif 3; other site 444450010500 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 444450010501 DHH family; Region: DHH; pfam01368 444450010502 DHHA1 domain; Region: DHHA1; pfam02272 444450010503 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 444450010504 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 444450010505 dimerization domain [polypeptide binding]; other site 444450010506 dimer interface [polypeptide binding]; other site 444450010507 catalytic residues [active] 444450010508 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 444450010509 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 444450010510 active site 444450010511 Int/Topo IB signature motif; other site 444450010512 flavodoxin FldB; Provisional; Region: PRK12359 444450010513 Protein of unknown function (DUF1434); Region: DUF1434; pfam07254 444450010514 hypothetical protein; Provisional; Region: PRK10878 444450010515 putative global regulator; Reviewed; Region: PRK09559 444450010516 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 444450010517 hemolysin; Provisional; Region: PRK15087 444450010518 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 444450010519 ASC-1 homology domain, subfamily similar to Escherichia coli Yqfb. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as...; Region: ASCH_yqfb_like; cd06552 444450010520 6-phospho-beta-glucosidase BglA; Provisional; Region: PRK15014 444450010521 beta-galactosidase; Region: BGL; TIGR03356 444450010522 glycine dehydrogenase; Provisional; Region: PRK05367 444450010523 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 444450010524 tetramer interface [polypeptide binding]; other site 444450010525 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444450010526 catalytic residue [active] 444450010527 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 444450010528 tetramer interface [polypeptide binding]; other site 444450010529 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444450010530 catalytic residue [active] 444450010531 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 444450010532 lipoyl attachment site [posttranslational modification]; other site 444450010533 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 444450010534 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 444450010535 oxidoreductase; Provisional; Region: PRK08013 444450010536 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 444450010537 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK05732 444450010538 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 444450010539 proline aminopeptidase P II; Provisional; Region: PRK10879 444450010540 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 444450010541 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 444450010542 active site 444450010543 hypothetical protein; Reviewed; Region: PRK01736 444450010544 Z-ring-associated protein; Provisional; Region: PRK10972 444450010545 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 444450010546 5-formyltetrahydrofolate cyclo-ligase family protein; Provisional; Region: PRK10333 444450010547 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 444450010548 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 444450010549 ligand binding site [chemical binding]; other site 444450010550 NAD binding site [chemical binding]; other site 444450010551 tetramer interface [polypeptide binding]; other site 444450010552 catalytic site [active] 444450010553 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 444450010554 L-serine binding site [chemical binding]; other site 444450010555 ACT domain interface; other site 444450010556 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 444450010557 tetramer (dimer of dimers) interface [polypeptide binding]; other site 444450010558 active site 444450010559 dimer interface [polypeptide binding]; other site 444450010560 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 444450010561 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 444450010562 The C-terminal substrate binding domain of LysR-type transcriptional regulator, ArgP (IciA), for arginine exporter (ArgO); contains the type 2 periplasmic binding fold; Region: PBP2_IciA_ArgP; cd08428 444450010563 putative dimerization interface [polypeptide binding]; other site 444450010564 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 444450010565 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 444450010566 active site 444450010567 substrate binding site [chemical binding]; other site 444450010568 coenzyme B12 binding site [chemical binding]; other site 444450010569 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 444450010570 B12 binding site [chemical binding]; other site 444450010571 cobalt ligand [ion binding]; other site 444450010572 membrane ATPase/protein kinase; Provisional; Region: PRK09435 444450010573 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 444450010574 Walker A; other site 444450010575 methylmalonyl-CoA decarboxylase; Provisional; Region: PRK11423 444450010576 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 444450010577 substrate binding site [chemical binding]; other site 444450010578 oxyanion hole (OAH) forming residues; other site 444450010579 trimer interface [polypeptide binding]; other site 444450010580 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 444450010581 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 444450010582 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 444450010583 Uncharacterized conserved protein [Function unknown]; Region: COG2968 444450010584 oxidative stress defense protein; Provisional; Region: PRK11087 444450010585 arginine exporter protein; Provisional; Region: PRK09304 444450010586 mechanosensitive channel MscS; Provisional; Region: PRK10334 444450010587 Mechanosensitive ion channel; Region: MS_channel; pfam00924 444450010588 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 444450010589 Class II Type A, Fructose-1,6-bisphosphate (FBP) aldolases. The enzyme catalyses the zinc-dependent, reversible aldol condensation of dihydroxyacetone phosphate with glyceraldehyde-3-phosphate to form fructose-1,6-bisphosphate. FBP aldolase is...; Region: FBP_aldolase_IIA; cd00946 444450010590 active site 444450010591 intersubunit interface [polypeptide binding]; other site 444450010592 zinc binding site [ion binding]; other site 444450010593 Na+ binding site [ion binding]; other site 444450010594 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 444450010595 Phosphoglycerate kinase; Region: PGK; pfam00162 444450010596 substrate binding site [chemical binding]; other site 444450010597 hinge regions; other site 444450010598 ADP binding site [chemical binding]; other site 444450010599 catalytic site [active] 444450010600 erythrose 4-phosphate dehydrogenase; Provisional; Region: PRK13535 444450010601 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 444450010602 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 444450010603 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 444450010604 trimer interface [polypeptide binding]; other site 444450010605 putative Zn binding site [ion binding]; other site 444450010606 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 444450010607 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 444450010608 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 444450010609 Walker A/P-loop; other site 444450010610 ATP binding site [chemical binding]; other site 444450010611 Q-loop/lid; other site 444450010612 ABC transporter signature motif; other site 444450010613 Walker B; other site 444450010614 D-loop; other site 444450010615 H-loop/switch region; other site 444450010616 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 444450010617 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 444450010618 Walker A/P-loop; other site 444450010619 ATP binding site [chemical binding]; other site 444450010620 Q-loop/lid; other site 444450010621 ABC transporter signature motif; other site 444450010622 Walker B; other site 444450010623 D-loop; other site 444450010624 H-loop/switch region; other site 444450010625 nucleoside triphosphate hydrolase domain-containing protein; Reviewed; Region: PRK09270 444450010626 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 444450010627 active site 444450010628 Transcriptional regulator [Transcription]; Region: MtlR; COG3722 444450010629 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10022 444450010630 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 444450010631 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 444450010632 putative active site [active] 444450010633 L-sorbose-1-phosphate reductase; Region: sorbose_phosphate_red; cd08238 444450010634 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 444450010635 putative NAD(P) binding site [chemical binding]; other site 444450010636 catalytic Zn binding site [ion binding]; other site 444450010637 Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]; Region: MtlA; COG2213 444450010638 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 444450010639 PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane...; Region: PTS_IIB_mannitol; cd05567 444450010640 active site 444450010641 P-loop; other site 444450010642 phosphorylation site [posttranslational modification] 444450010643 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 444450010644 active site 444450010645 phosphorylation site [posttranslational modification] 444450010646 transketolase; Reviewed; Region: PRK12753 444450010647 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 444450010648 TPP-binding site [chemical binding]; other site 444450010649 dimer interface [polypeptide binding]; other site 444450010650 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 444450010651 PYR/PP interface [polypeptide binding]; other site 444450010652 dimer interface [polypeptide binding]; other site 444450010653 TPP binding site [chemical binding]; other site 444450010654 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 444450010655 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 444450010656 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 444450010657 agmatinase; Region: agmatinase; TIGR01230 444450010658 oligomer interface [polypeptide binding]; other site 444450010659 putative active site [active] 444450010660 Mn binding site [ion binding]; other site 444450010661 Arginine decarboxylase (spermidine biosynthesis) [Amino acid transport and metabolism]; Region: SpeA; COG1166 444450010662 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 444450010663 dimer interface [polypeptide binding]; other site 444450010664 active site 444450010665 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 444450010666 catalytic residues [active] 444450010667 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 444450010668 Virulence promoting factor; Region: YqgB; pfam11036 444450010669 S-adenosylmethionine synthetase; Validated; Region: PRK05250 444450010670 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 444450010671 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 444450010672 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 444450010673 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 444450010674 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 444450010675 putative substrate translocation pore; other site 444450010676 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 444450010677 hypothetical protein; Provisional; Region: PRK04860 444450010678 Zn-dependent metalloprotease, SprT family [General function prediction only]; Region: SprT; COG3091 444450010679 DNA-specific endonuclease I; Provisional; Region: PRK15137 444450010680 Endonuclease I [DNA replication, recombination, and repair]; Region: EndA; COG2356 444450010681 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 444450010682 RNA methyltransferase, RsmE family; Region: TIGR00046 444450010683 glutathione synthetase; Provisional; Region: PRK05246 444450010684 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 444450010685 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 444450010686 hypothetical protein; Validated; Region: PRK00228 444450010687 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 444450010688 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 444450010689 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 444450010690 Walker A motif; other site 444450010691 ATP binding site [chemical binding]; other site 444450010692 Walker B motif; other site 444450010693 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 444450010694 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 444450010695 catalytic residue [active] 444450010696 YGGT family; Region: YGGT; pfam02325 444450010697 YGGT family; Region: YGGT; pfam02325 444450010698 hypothetical protein; Validated; Region: PRK05090 444450010699 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 444450010700 active site 444450010701 dimerization interface [polypeptide binding]; other site 444450010702 HemN family oxidoreductase; Provisional; Region: PRK05660 444450010703 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 444450010704 FeS/SAM binding site; other site 444450010705 HemN C-terminal domain; Region: HemN_C; pfam06969 444450010706 Protein of unknown function (DUF1202); Region: DUF1202; pfam06717 444450010707 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cd00411 444450010708 homodimer interface [polypeptide binding]; other site 444450010709 active site 444450010710 hypothetical protein; Provisional; Region: PRK10626 444450010711 Protein of unknown function (DUF2884); Region: DUF2884; pfam11101 444450010712 Protein of unknown function (DUF3521); Region: DUF3521; pfam12035 444450010713 hypothetical protein; Provisional; Region: PRK11702 444450010714 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 444450010715 adenine DNA glycosylase; Provisional; Region: PRK10880 444450010716 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 444450010717 minor groove reading motif; other site 444450010718 helix-hairpin-helix signature motif; other site 444450010719 substrate binding pocket [chemical binding]; other site 444450010720 active site 444450010721 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 444450010722 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 444450010723 DNA binding and oxoG recognition site [nucleotide binding] 444450010724 oxidative damage protection protein; Provisional; Region: PRK05408 444450010725 murein transglycosylase C; Provisional; Region: mltC; PRK11671 444450010726 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 444450010727 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 444450010728 N-acetyl-D-glucosamine binding site [chemical binding]; other site 444450010729 catalytic residue [active] 444450010730 nucleoside transporter; Region: 2A0110; TIGR00889 444450010731 ornithine decarboxylase; Provisional; Region: PRK13578 444450010732 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 444450010733 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 444450010734 homodimer interface [polypeptide binding]; other site 444450010735 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444450010736 catalytic residue [active] 444450010737 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 444450010738 Uncharacterized membrane protein, possible Na+ channel or pump [General function prediction only]; Region: COG1811 444450010739 integrase; Provisional; Region: PRK09692 444450010740 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 444450010741 active site 444450010742 Int/Topo IB signature motif; other site 444450010743 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 444450010744 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 444450010745 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 444450010746 Homeodomain-like domain; Region: HTH_23; pfam13384 444450010747 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 444450010748 Transposase; Region: HTH_Tnp_1; pfam01527 444450010749 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 444450010750 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 444450010751 Nuclease-related domain; Region: NERD; pfam08378 444450010752 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 444450010753 ShET2 enterotoxin, N-terminal region; Region: Toxin_15; pfam07906 444450010754 C2 domain; Region: C2; cl14603 444450010755 non-LEE encoded effector protein NleB; Provisional; Region: PRK15382 444450010756 type III secretion system protein; Provisional; Region: PRK15384; cl14665 444450010757 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 444450010758 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 444450010759 Dimerization/Docking domain of Cyclic GMP-dependent Protein Kinase I; Region: DD_cGKI; cl17044 444450010760 homodimer interface [polypeptide binding]; other site 444450010761 putative GKAP docking site [polypeptide binding]; other site 444450010762 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 444450010763 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 444450010764 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 444450010765 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 444450010766 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 444450010767 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 444450010768 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 444450010769 Integrase core domain; Region: rve_3; cl15866 444450010770 Acinetobacter rhombotarget A; Region: GlyGly_RbtA; TIGR04212 444450010771 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 444450010772 Phosphate transporter family; Region: PHO4; cl00396 444450010773 bifunctional glutathionylspermidine amidase/glutathionylspermidine synthetase; Provisional; Region: PRK10507 444450010774 CHAP domain; Region: CHAP; pfam05257 444450010775 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 444450010776 putative S-transferase; Provisional; Region: PRK11752 444450010777 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 444450010778 C-terminal domain interface [polypeptide binding]; other site 444450010779 GSH binding site (G-site) [chemical binding]; other site 444450010780 dimer interface [polypeptide binding]; other site 444450010781 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 444450010782 dimer interface [polypeptide binding]; other site 444450010783 N-terminal domain interface [polypeptide binding]; other site 444450010784 active site 444450010785 hydrogenase 2 accessory protein HypG; Provisional; Region: PRK10413 444450010786 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 444450010787 hydrogenase nickel incorporation protein HybF; Provisional; Region: PRK12380 444450010788 hydrogenase 2-specific chaperone; Provisional; Region: PRK10465 444450010789 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 444450010790 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 444450010791 putative substrate-binding site; other site 444450010792 nickel binding site [ion binding]; other site 444450010793 hydrogenase 2 large subunit; Provisional; Region: PRK10467 444450010794 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 444450010795 putative hydrogenase 2 b cytochrome subunit; Provisional; Region: PRK10881 444450010796 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 444450010797 hydrogenase 2 protein HybA; Provisional; Region: PRK10882 444450010798 4Fe-4S binding domain; Region: Fer4_6; pfam12837 444450010799 hydrogenase 2 small subunit; Provisional; Region: PRK10468 444450010800 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 444450010801 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 444450010802 Protein of unknown function (DUF2623); Region: DUF2623; pfam11115 444450010803 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 444450010804 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 444450010805 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 444450010806 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 444450010807 active site 444450010808 catalytic tetrad [active] 444450010809 hypothetical protein; Provisional; Region: PRK05208 444450010810 oxidoreductase; Provisional; Region: PRK07985 444450010811 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 444450010812 NAD binding site [chemical binding]; other site 444450010813 metal binding site [ion binding]; metal-binding site 444450010814 active site 444450010815 biopolymer transport protein ExbD; Provisional; Region: PRK11267 444450010816 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 444450010817 biopolymer transport protein ExbB; Provisional; Region: PRK10414 444450010818 cystathionine beta-lyase; Provisional; Region: PRK08114 444450010819 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 444450010820 homodimer interface [polypeptide binding]; other site 444450010821 substrate-cofactor binding pocket; other site 444450010822 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444450010823 catalytic residue [active] 444450010824 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 444450010825 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 444450010826 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 444450010827 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 444450010828 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 444450010829 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 444450010830 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 444450010831 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 444450010832 dimer interface [polypeptide binding]; other site 444450010833 active site 444450010834 metal binding site [ion binding]; metal-binding site 444450010835 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 444450010836 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 444450010837 active site 444450010838 catalytic tetrad [active] 444450010839 putative outer membrane lipoprotein; Provisional; Region: PRK09973 444450010840 hypothetical protein; Provisional; Region: PRK01254 444450010841 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 444450010842 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 444450010843 FtsI repressor; Provisional; Region: PRK10883 444450010844 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 444450010845 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 444450010846 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 444450010847 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 444450010848 putative acyl-acceptor binding pocket; other site 444450010849 DNA topoisomerase IV, A subunit, proteobacterial; Region: parC_Gneg; TIGR01062 444450010850 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 444450010851 CAP-like domain; other site 444450010852 active site 444450010853 primary dimer interface [polypeptide binding]; other site 444450010854 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 444450010855 putative ABC transporter periplasmic-binding protein; Provisional; Region: PRK09755 444450010856 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 444450010857 peptide binding site [polypeptide binding]; other site 444450010858 DNA gyrase inhibitor [DNA replication, recombination, and repair]; Region: COG3449 444450010859 TIGR00156 family protein; Region: TIGR00156 444450010860 DNA-binding transcriptional regulator QseB; Provisional; Region: PRK10336 444450010861 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 444450010862 active site 444450010863 phosphorylation site [posttranslational modification] 444450010864 intermolecular recognition site; other site 444450010865 dimerization interface [polypeptide binding]; other site 444450010866 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 444450010867 DNA binding site [nucleotide binding] 444450010868 sensor protein QseC; Provisional; Region: PRK10337 444450010869 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 444450010870 dimer interface [polypeptide binding]; other site 444450010871 phosphorylation site [posttranslational modification] 444450010872 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 444450010873 ATP binding site [chemical binding]; other site 444450010874 Mg2+ binding site [ion binding]; other site 444450010875 G-X-G motif; other site 444450010876 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 444450010877 Uncharacterized conserved protein [Function unknown]; Region: COG1359 444450010878 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 444450010879 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 444450010880 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cd04795 444450010881 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 444450010882 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 444450010883 siderophore binding site; other site 444450010884 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 444450010885 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 444450010886 ABC-ATPase subunit interface; other site 444450010887 dimer interface [polypeptide binding]; other site 444450010888 putative PBP binding regions; other site 444450010889 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 444450010890 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 444450010891 dimer interface [polypeptide binding]; other site 444450010892 putative PBP binding regions; other site 444450010893 ABC-ATPase subunit interface; other site 444450010894 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 444450010895 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 444450010896 Walker A/P-loop; other site 444450010897 ATP binding site [chemical binding]; other site 444450010898 Q-loop/lid; other site 444450010899 ABC transporter signature motif; other site 444450010900 Walker B; other site 444450010901 D-loop; other site 444450010902 H-loop/switch region; other site 444450010903 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 444450010904 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 444450010905 N-terminal plug; other site 444450010906 ligand-binding site [chemical binding]; other site 444450010907 DNA topoisomerase IV, B subunit, proteobacterial; Region: parE_Gneg; TIGR01055 444450010908 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 444450010909 ATP binding site [chemical binding]; other site 444450010910 Mg2+ binding site [ion binding]; other site 444450010911 G-X-G motif; other site 444450010912 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 444450010913 anchoring element; other site 444450010914 dimer interface [polypeptide binding]; other site 444450010915 ATP binding site [chemical binding]; other site 444450010916 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 444450010917 active site 444450010918 metal binding site [ion binding]; metal-binding site 444450010919 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 444450010920 esterase YqiA; Provisional; Region: PRK11071 444450010921 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 444450010922 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 444450010923 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 444450010924 active site 444450010925 metal binding site [ion binding]; metal-binding site 444450010926 hexamer interface [polypeptide binding]; other site 444450010927 putative dehydrogenase; Provisional; Region: PRK11039 444450010928 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 444450010929 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 444450010930 dimer interface [polypeptide binding]; other site 444450010931 ADP-ribose binding site [chemical binding]; other site 444450010932 active site 444450010933 nudix motif; other site 444450010934 metal binding site [ion binding]; metal-binding site 444450010935 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 444450010936 hypothetical protein; Provisional; Region: PRK11653 444450010937 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 444450010938 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 444450010939 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 444450010940 putative active site [active] 444450010941 metal binding site [ion binding]; metal-binding site 444450010942 zinc transporter ZupT; Provisional; Region: PRK04201 444450010943 ZIP Zinc transporter; Region: Zip; pfam02535 444450010944 Protein of unknown function (DUF4051); Region: DUF4051; pfam13260 444450010945 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 444450010946 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 444450010947 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2960 444450010948 glycogen synthesis protein GlgS; Provisional; Region: PRK02922 444450010949 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 444450010950 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 444450010951 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 444450010952 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 444450010953 putative ribose interaction site [chemical binding]; other site 444450010954 putative ADP binding site [chemical binding]; other site 444450010955 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 444450010956 active site 444450010957 nucleotide binding site [chemical binding]; other site 444450010958 HIGH motif; other site 444450010959 KMSKS motif; other site 444450010960 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 444450010961 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 444450010962 metal binding triad; other site 444450010963 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 444450010964 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 444450010965 metal binding triad; other site 444450010966 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 444450010967 Uncharacterized conserved protein [Function unknown]; Region: COG3025 444450010968 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 444450010969 putative active site [active] 444450010970 putative metal binding residues [ion binding]; other site 444450010971 signature motif; other site 444450010972 putative triphosphate binding site [ion binding]; other site 444450010973 CHAD domain; Region: CHAD; pfam05235 444450010974 SH3 domain-containing protein; Provisional; Region: PRK10884 444450010975 Bacterial SH3 domain homologues; Region: SH3b; smart00287 444450010976 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 444450010977 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 444450010978 active site 444450010979 NTP binding site [chemical binding]; other site 444450010980 metal binding triad [ion binding]; metal-binding site 444450010981 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 444450010982 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 444450010983 Zn2+ binding site [ion binding]; other site 444450010984 Mg2+ binding site [ion binding]; other site 444450010985 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 444450010986 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 444450010987 homooctamer interface [polypeptide binding]; other site 444450010988 active site 444450010989 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 444450010990 transcriptional activator TtdR; Provisional; Region: PRK09801 444450010991 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 444450010992 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_9; cd08479 444450010993 putative effector binding pocket; other site 444450010994 putative dimerization interface [polypeptide binding]; other site 444450010995 tartrate dehydratase subunit alpha; Validated; Region: PRK08230 444450010996 L(+)-tartrate dehydratase subunit beta; Validated; Region: PRK08228 444450010997 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 444450010998 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cd00625 444450010999 transmembrane helices; other site 444450011000 UGMP family protein; Validated; Region: PRK09604 444450011001 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 444450011002 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 444450011003 DNA primase; Validated; Region: dnaG; PRK05667 444450011004 CHC2 zinc finger; Region: zf-CHC2; pfam01807 444450011005 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 444450011006 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 444450011007 active site 444450011008 metal binding site [ion binding]; metal-binding site 444450011009 interdomain interaction site; other site 444450011010 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 444450011011 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 444450011012 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 444450011013 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 444450011014 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 444450011015 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 444450011016 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 444450011017 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 444450011018 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 444450011019 DNA binding residues [nucleotide binding] 444450011020 G:T/U mismatch specific DNA glcosylase (MUG); Region: UDG_F2_MUG; cd10028 444450011021 active site 444450011022 SUMO-1 interface [polypeptide binding]; other site 444450011023 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 444450011024 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 444450011025 FAD binding pocket [chemical binding]; other site 444450011026 FAD binding motif [chemical binding]; other site 444450011027 phosphate binding motif [ion binding]; other site 444450011028 NAD binding pocket [chemical binding]; other site 444450011029 Predicted transcriptional regulators [Transcription]; Region: COG1695 444450011030 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 444450011031 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 444450011032 PAS fold; Region: PAS_3; pfam08447 444450011033 putative active site [active] 444450011034 heme pocket [chemical binding]; other site 444450011035 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; cl01054 444450011036 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 444450011037 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 444450011038 dimer interface [polypeptide binding]; other site 444450011039 putative CheW interface [polypeptide binding]; other site 444450011040 putrescine--2-oxoglutarate aminotransferase; Provisional; Region: PRK11522 444450011041 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 444450011042 inhibitor-cofactor binding pocket; inhibition site 444450011043 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444450011044 catalytic residue [active] 444450011045 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 444450011046 dimer interface [polypeptide binding]; other site 444450011047 putative tRNA-binding site [nucleotide binding]; other site 444450011048 DNA-binding transcriptional repressor EbgR; Provisional; Region: PRK10339 444450011049 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 444450011050 DNA binding site [nucleotide binding] 444450011051 domain linker motif; other site 444450011052 Ligand-binding domain of DNA transcription repressor GalR which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalR; cd01544 444450011053 putative dimerization interface [polypeptide binding]; other site 444450011054 putative ligand binding site [chemical binding]; other site 444450011055 cryptic beta-D-galactosidase subunit alpha; Reviewed; Region: ebgA; PRK10340 444450011056 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 444450011057 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 444450011058 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 444450011059 Beta galactosidase small chain; Region: Bgal_small_N; pfam02929 444450011060 cryptic beta-D-galactosidase subunit beta; Reviewed; Region: ebgC; PRK10202 444450011061 inner membrane transporter YjeM; Provisional; Region: PRK15238 444450011062 alpha-glucosidase; Provisional; Region: PRK10137 444450011063 Protein of unknown function, DUF608; Region: DUF608; pfam04685 444450011064 Trehalase; Region: Trehalase; cl17346 444450011065 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 444450011066 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 444450011067 active site 444450011068 FMN binding site [chemical binding]; other site 444450011069 2,4-decadienoyl-CoA binding site; other site 444450011070 catalytic residue [active] 444450011071 4Fe-4S cluster binding site [ion binding]; other site 444450011072 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 444450011073 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 444450011074 non-specific DNA binding site [nucleotide binding]; other site 444450011075 salt bridge; other site 444450011076 sequence-specific DNA binding site [nucleotide binding]; other site 444450011077 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4680 444450011078 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional; Region: PRK15001 444450011079 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 444450011080 S-adenosylmethionine binding site [chemical binding]; other site 444450011081 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 444450011082 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 444450011083 putative active site [active] 444450011084 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 444450011085 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 444450011086 yybP-ykoY leader 444450011087 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 444450011088 serine/threonine transporter SstT; Provisional; Region: PRK13628 444450011089 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 444450011090 Bacterial inner membrane protein; Region: Imp-YgjV; pfam10688 444450011091 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 444450011092 galactarate dehydratase; Region: galactar-dH20; TIGR03248 444450011093 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 444450011094 Glucuronate isomerase; Region: UxaC; pfam02614 444450011095 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 444450011096 D-galactonate transporter; Region: 2A0114; TIGR00893 444450011097 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 444450011098 putative substrate translocation pore; other site 444450011099 DNA-binding transcriptional repressor ExuR; Provisional; Region: PRK11523 444450011100 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 444450011101 DNA-binding site [nucleotide binding]; DNA binding site 444450011102 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 444450011103 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 444450011104 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 444450011105 EnvZ/OmpR regulon moderator; Provisional; Region: PRK10629 444450011106 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 444450011107 Uncharacterized conserved protein [Function unknown]; Region: ElaB; COG4575 444450011108 Predicted membrane protein [Function unknown]; Region: COG5393 444450011109 YqjK-like protein; Region: YqjK; pfam13997 444450011110 Predicted membrane protein [Function unknown]; Region: COG2259 444450011111 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 444450011112 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 444450011113 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 444450011114 putative dimer interface [polypeptide binding]; other site 444450011115 N-terminal domain interface [polypeptide binding]; other site 444450011116 putative substrate binding pocket (H-site) [chemical binding]; other site 444450011117 Predicted membrane protein [Function unknown]; Region: COG3152 444450011118 Predicted membrane protein [Function unknown]; Region: COG3152 444450011119 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 444450011120 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 444450011121 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 444450011122 dimerization interface [polypeptide binding]; other site 444450011123 Pirin-related protein [General function prediction only]; Region: COG1741 444450011124 Pirin; Region: Pirin; pfam02678 444450011125 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 444450011126 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 444450011127 serine transporter; Region: stp; TIGR00814 444450011128 L-serine dehydratase TdcG; Provisional; Region: PRK15040 444450011129 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 444450011130 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 444450011131 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 444450011132 homotrimer interaction site [polypeptide binding]; other site 444450011133 putative active site [active] 444450011134 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 444450011135 Pyruvate formate lyase 1; Region: PFL1; cd01678 444450011136 coenzyme A binding site [chemical binding]; other site 444450011137 active site 444450011138 catalytic residues [active] 444450011139 glycine loop; other site 444450011140 propionate/acetate kinase; Provisional; Region: PRK12379 444450011141 Acetokinase family; Region: Acetate_kinase; cl17229 444450011142 threonine/serine transporter TdcC; Provisional; Region: PRK13629 444450011143 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 444450011144 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 444450011145 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 444450011146 tetramer interface [polypeptide binding]; other site 444450011147 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444450011148 catalytic residue [active] 444450011149 DNA-binding transcriptional activator TdcA; Provisional; Region: PRK10341 444450011150 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 444450011151 The C-terminal substrate binding domain of LysR-type transcriptional regulator TdcA, which is involved in the degradation of L-serine and L-threonine, contains the type 2 periplasmic binding fold; Region: PBP2_TdcA; cd08418 444450011152 putative substrate binding pocket [chemical binding]; other site 444450011153 putative dimerization interface [polypeptide binding]; other site 444450011154 DNA-binding transcriptional activator TdcR; Provisional; Region: PRK11424 444450011155 hypothetical protein; Provisional; Region: PRK09716 444450011156 glycerate kinase I; Provisional; Region: PRK10342 444450011157 tartronate semialdehyde reductase; Provisional; Region: garR; PRK11559 444450011158 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 444450011159 alpha-dehydro-beta-deoxy-D-glucarate aldolase; Provisional; Region: PRK10558 444450011160 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 444450011161 D-galactonate transporter; Region: 2A0114; TIGR00893 444450011162 putative substrate translocation pore; other site 444450011163 galactarate dehydratase; Region: galactar-dH20; TIGR03248 444450011164 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 444450011165 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 444450011166 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 444450011167 Toxin with endonuclease activity YhaV; Region: Toxin_YhaV; pfam11663 444450011168 DNA-binding transcriptional regulator AgaR; Provisional; Region: PRK09802 444450011169 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 444450011170 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 444450011171 tagatose 6-phosphate aldolase subunit KbaZ; Provisional; Region: PRK15458 444450011172 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cd00001 444450011173 active site 444450011174 phosphorylation site [posttranslational modification] 444450011175 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]; Region: ManY; COG3715 444450011176 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 444450011177 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 444450011178 active pocket/dimerization site; other site 444450011179 active site 444450011180 phosphorylation site [posttranslational modification] 444450011181 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 444450011182 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 444450011183 active site 444450011184 dimer interface [polypeptide binding]; other site 444450011185 putative sugar isomerase, AgaS family; Region: agaS_fam; TIGR02815 444450011186 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 444450011187 dimer interface [polypeptide binding]; other site 444450011188 active site 444450011189 AgaS-like protein. AgaS contains a SIS (Sugar ISomerase) domain which is found in many phosphosugar isomerases and phosphosugar binding proteins. AgaS is a putative isomerase in Escherichia coli. It is similar to the glucosamine-6-phosphate synthases; Region: SIS_AgaS_like; cd05010 444450011190 putative active site [active] 444450011191 Fructose/tagarose-bisphosphate aldolase class II. This family includes fructose-1,6-bisphosphate (FBP) and tagarose 1,6-bisphosphate (TBP) aldolases. FBP-aldolase is homodimeric and used in gluconeogenesis and glycolysis; the enzyme controls the...; Region: FTBP_aldolase_II; cd00453 444450011192 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 444450011193 active site 444450011194 intersubunit interface [polypeptide binding]; other site 444450011195 zinc binding site [ion binding]; other site 444450011196 Na+ binding site [ion binding]; other site 444450011197 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cd00001 444450011198 active site 444450011199 phosphorylation site [posttranslational modification] 444450011200 PTS system N-acetylgalactosamine-specific transporter subunit IID; Provisional; Region: PRK09855 444450011201 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 444450011202 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 444450011203 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 444450011204 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 444450011205 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 444450011206 PapC N-terminal domain; Region: PapC_N; pfam13954 444450011207 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 444450011208 PapC C-terminal domain; Region: PapC_C; pfam13953 444450011209 SAM-dependent 16S ribosomal RNA C1402 ribose 2'-O-methyltransferase; Provisional; Region: PRK14994 444450011210 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 444450011211 putative SAM binding site [chemical binding]; other site 444450011212 putative homodimer interface [polypeptide binding]; other site 444450011213 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 444450011214 Putative lipoprotein [General function prediction only]; Region: LppC; COG3107 444450011215 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 444450011216 putative ligand binding site [chemical binding]; other site 444450011217 TIGR00252 family protein; Region: TIGR00252 444450011218 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 444450011219 dimer interface [polypeptide binding]; other site 444450011220 active site 444450011221 outer membrane lipoprotein; Provisional; Region: PRK11023 444450011222 BON domain; Region: BON; pfam04972 444450011223 BON domain; Region: BON; pfam04972 444450011224 Predicted permease; Region: DUF318; pfam03773 444450011225 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 444450011226 NADH(P)-binding; Region: NAD_binding_10; pfam13460 444450011227 NAD binding site [chemical binding]; other site 444450011228 active site 444450011229 intracellular protease, PfpI family; Region: PfpI; TIGR01382 444450011230 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 444450011231 proposed catalytic triad [active] 444450011232 conserved cys residue [active] 444450011233 hypothetical protein; Provisional; Region: PRK03467 444450011234 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 444450011235 GIY-YIG motif/motif A; other site 444450011236 putative active site [active] 444450011237 putative metal binding site [ion binding]; other site 444450011238 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 444450011239 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 444450011240 Coenzyme A binding pocket [chemical binding]; other site 444450011241 Putative lipid carrier protein [Lipid metabolism]; Region: COG3154 444450011242 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 444450011243 Peptidase family U32; Region: Peptidase_U32; pfam01136 444450011244 putative protease; Provisional; Region: PRK15447 444450011245 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 444450011246 hypothetical protein; Provisional; Region: PRK10508 444450011247 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 444450011248 tryptophan permease; Provisional; Region: PRK10483 444450011249 aromatic amino acid transport protein; Region: araaP; TIGR00837 444450011250 ATP-dependent RNA helicase DeaD; Provisional; Region: PRK11634 444450011251 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 444450011252 ATP binding site [chemical binding]; other site 444450011253 Mg++ binding site [ion binding]; other site 444450011254 motif III; other site 444450011255 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 444450011256 nucleotide binding region [chemical binding]; other site 444450011257 ATP-binding site [chemical binding]; other site 444450011258 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 444450011259 putative RNA binding site [nucleotide binding]; other site 444450011260 lipoprotein NlpI; Provisional; Region: PRK11189 444450011261 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 444450011262 binding surface 444450011263 TPR motif; other site 444450011264 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 444450011265 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 444450011266 RNase E interface [polypeptide binding]; other site 444450011267 trimer interface [polypeptide binding]; other site 444450011268 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 444450011269 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 444450011270 RNase E interface [polypeptide binding]; other site 444450011271 trimer interface [polypeptide binding]; other site 444450011272 active site 444450011273 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 444450011274 putative nucleic acid binding region [nucleotide binding]; other site 444450011275 G-X-X-G motif; other site 444450011276 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 444450011277 RNA binding site [nucleotide binding]; other site 444450011278 domain interface; other site 444450011279 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 444450011280 16S/18S rRNA binding site [nucleotide binding]; other site 444450011281 S13e-L30e interaction site [polypeptide binding]; other site 444450011282 25S rRNA binding site [nucleotide binding]; other site 444450011283 Ribosomal S15 leader 444450011284 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 444450011285 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 444450011286 RNA binding site [nucleotide binding]; other site 444450011287 active site 444450011288 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 444450011289 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 444450011290 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 444450011291 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 444450011292 translation initiation factor IF-2; Region: IF-2; TIGR00487 444450011293 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 444450011294 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 444450011295 G1 box; other site 444450011296 putative GEF interaction site [polypeptide binding]; other site 444450011297 GTP/Mg2+ binding site [chemical binding]; other site 444450011298 Switch I region; other site 444450011299 G2 box; other site 444450011300 G3 box; other site 444450011301 Switch II region; other site 444450011302 G4 box; other site 444450011303 G5 box; other site 444450011304 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 444450011305 Translation-initiation factor 2; Region: IF-2; pfam11987 444450011306 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 444450011307 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 444450011308 NusA N-terminal domain; Region: NusA_N; pfam08529 444450011309 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 444450011310 RNA binding site [nucleotide binding]; other site 444450011311 homodimer interface [polypeptide binding]; other site 444450011312 NusA-like KH domain; Region: KH_5; pfam13184 444450011313 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 444450011314 G-X-X-G motif; other site 444450011315 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 444450011316 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 444450011317 ribosome maturation protein RimP; Reviewed; Region: PRK00092 444450011318 Sm and related proteins; Region: Sm_like; cl00259 444450011319 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 444450011320 putative oligomer interface [polypeptide binding]; other site 444450011321 putative RNA binding site [nucleotide binding]; other site 444450011322 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 444450011323 ANP binding site [chemical binding]; other site 444450011324 Substrate Binding Site II [chemical binding]; other site 444450011325 Substrate Binding Site I [chemical binding]; other site 444450011326 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 444450011327 Sulfatase; Region: Sulfatase; pfam00884 444450011328 Preprotein translocase SecG subunit; Region: SecG; pfam03840 444450011329 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 444450011330 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 444450011331 active site 444450011332 substrate binding site [chemical binding]; other site 444450011333 metal binding site [ion binding]; metal-binding site 444450011334 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 444450011335 dihydropteroate synthase; Region: DHPS; TIGR01496 444450011336 substrate binding pocket [chemical binding]; other site 444450011337 dimer interface [polypeptide binding]; other site 444450011338 inhibitor binding site; inhibition site 444450011339 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 444450011340 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 444450011341 Walker A motif; other site 444450011342 ATP binding site [chemical binding]; other site 444450011343 Walker B motif; other site 444450011344 arginine finger; other site 444450011345 Peptidase family M41; Region: Peptidase_M41; pfam01434 444450011346 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 444450011347 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 444450011348 S-adenosylmethionine binding site [chemical binding]; other site 444450011349 RNA-binding protein YhbY; Provisional; Region: PRK10343 444450011350 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 444450011351 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 444450011352 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 444450011353 D-alanyl-D-alanine carboxypeptidase/endopeptidase; Provisional; Region: PRK11113 444450011354 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 444450011355 GTPase CgtA; Reviewed; Region: obgE; PRK12298 444450011356 GTP1/OBG; Region: GTP1_OBG; pfam01018 444450011357 Obg GTPase; Region: Obg; cd01898 444450011358 G1 box; other site 444450011359 GTP/Mg2+ binding site [chemical binding]; other site 444450011360 Switch I region; other site 444450011361 G2 box; other site 444450011362 G3 box; other site 444450011363 Switch II region; other site 444450011364 G4 box; other site 444450011365 G5 box; other site 444450011366 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 444450011367 EamA-like transporter family; Region: EamA; pfam00892 444450011368 EamA-like transporter family; Region: EamA; pfam00892 444450011369 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 444450011370 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 444450011371 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 444450011372 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 444450011373 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 444450011374 substrate binding pocket [chemical binding]; other site 444450011375 chain length determination region; other site 444450011376 substrate-Mg2+ binding site; other site 444450011377 catalytic residues [active] 444450011378 aspartate-rich region 1; other site 444450011379 active site lid residues [active] 444450011380 aspartate-rich region 2; other site 444450011381 DNA-binding transcriptional regulator Nlp; Provisional; Region: PRK10344 444450011382 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 444450011383 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 444450011384 hinge; other site 444450011385 active site 444450011386 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 444450011387 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 444450011388 anti sigma factor interaction site; other site 444450011389 regulatory phosphorylation site [posttranslational modification]; other site 444450011390 ABC transporter periplasmic binding protein MlaC; Provisional; Region: PRK15117 444450011391 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 444450011392 mce related protein; Region: MCE; pfam02470 444450011393 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 444450011394 conserved hypothetical integral membrane protein; Region: TIGR00056 444450011395 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 444450011396 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 444450011397 Walker A/P-loop; other site 444450011398 ATP binding site [chemical binding]; other site 444450011399 Q-loop/lid; other site 444450011400 ABC transporter signature motif; other site 444450011401 Walker B; other site 444450011402 D-loop; other site 444450011403 H-loop/switch region; other site 444450011404 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 444450011405 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 444450011406 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 444450011407 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 444450011408 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 444450011409 putative active site [active] 444450011410 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 444450011411 3-deoxy-D-manno-octulosonate 8-phosphate phosphatase; Provisional; Region: PRK09484 444450011412 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 444450011413 lipopolysaccharide exporter periplasmic protein; Provisional; Region: PRK10893 444450011414 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 444450011415 lipopolysaccharide transport periplasmic protein LptA; Provisional; Region: PRK10894 444450011416 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 444450011417 lipopolysaccharide ABC transporter ATP-binding protein; Provisional; Region: PRK10895 444450011418 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 444450011419 Walker A/P-loop; other site 444450011420 ATP binding site [chemical binding]; other site 444450011421 Q-loop/lid; other site 444450011422 ABC transporter signature motif; other site 444450011423 Walker B; other site 444450011424 D-loop; other site 444450011425 H-loop/switch region; other site 444450011426 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 444450011427 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 444450011428 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 444450011429 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 444450011430 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 444450011431 30S subunit binding site; other site 444450011432 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 444450011433 active site 444450011434 phosphorylation site [posttranslational modification] 444450011435 P-loop ATPase protein family; Region: ATP_bind_2; pfam03668 444450011436 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 444450011437 dimerization domain swap beta strand [polypeptide binding]; other site 444450011438 regulatory protein interface [polypeptide binding]; other site 444450011439 active site 444450011440 regulatory phosphorylation site [posttranslational modification]; other site 444450011441 hypothetical protein; Provisional; Region: PRK10345 444450011442 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 444450011443 Transglycosylase; Region: Transgly; cl17702 444450011444 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 444450011445 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 444450011446 conserved cys residue [active] 444450011447 aerobic respiration control sensor protein ArcB; Provisional; Region: PRK11091 444450011448 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 444450011449 putative active site [active] 444450011450 heme pocket [chemical binding]; other site 444450011451 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 444450011452 dimer interface [polypeptide binding]; other site 444450011453 phosphorylation site [posttranslational modification] 444450011454 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 444450011455 ATP binding site [chemical binding]; other site 444450011456 Mg2+ binding site [ion binding]; other site 444450011457 G-X-G motif; other site 444450011458 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 444450011459 active site 444450011460 phosphorylation site [posttranslational modification] 444450011461 intermolecular recognition site; other site 444450011462 dimerization interface [polypeptide binding]; other site 444450011463 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 444450011464 putative binding surface; other site 444450011465 active site 444450011466 radical SAM protein, TIGR01212 family; Region: TIGR01212 444450011467 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 444450011468 FeS/SAM binding site; other site 444450011469 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 444450011470 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 444450011471 active site 444450011472 dimer interface [polypeptide binding]; other site 444450011473 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 444450011474 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 444450011475 active site 444450011476 FMN binding site [chemical binding]; other site 444450011477 substrate binding site [chemical binding]; other site 444450011478 3Fe-4S cluster binding site [ion binding]; other site 444450011479 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 444450011480 domain interface; other site 444450011481 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 444450011482 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 444450011483 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 444450011484 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 444450011485 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 444450011486 Beta-galactosidase, beta subunit [Carbohydrate transport and metabolism]; Region: EbgC; COG2731 444450011487 N-acetylmannosamine kinase; Provisional; Region: PRK05082 444450011488 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 444450011489 nucleotide binding site [chemical binding]; other site 444450011490 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 444450011491 Putative N-acetylmannosamine-6-phosphate epimerase [Carbohydrate transport and metabolism]; Region: NanE; COG3010 444450011492 N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate. This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family of...; Region: NanE; cd04729 444450011493 putative active site cavity [active] 444450011494 putative sialic acid transporter; Provisional; Region: PRK03893 444450011495 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 444450011496 putative substrate translocation pore; other site 444450011497 N-acetylneuraminate lyase; Region: nanA; TIGR00683 444450011498 N-Acetylneuraminic acid aldolase, also called N-acetylneuraminate lyase (NAL); Region: NAL; cd00954 444450011499 inhibitor site; inhibition site 444450011500 active site 444450011501 dimer interface [polypeptide binding]; other site 444450011502 catalytic residue [active] 444450011503 transcriptional regulator NanR; Provisional; Region: PRK03837 444450011504 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 444450011505 DNA-binding site [nucleotide binding]; DNA binding site 444450011506 FCD domain; Region: FCD; pfam07729 444450011507 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 444450011508 stringent starvation protein A; Provisional; Region: sspA; PRK09481 444450011509 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 444450011510 C-terminal domain interface [polypeptide binding]; other site 444450011511 putative GSH binding site (G-site) [chemical binding]; other site 444450011512 dimer interface [polypeptide binding]; other site 444450011513 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 444450011514 dimer interface [polypeptide binding]; other site 444450011515 N-terminal domain interface [polypeptide binding]; other site 444450011516 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 444450011517 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 444450011518 23S rRNA interface [nucleotide binding]; other site 444450011519 L3 interface [polypeptide binding]; other site 444450011520 Predicted ATPase [General function prediction only]; Region: COG1485 444450011521 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3105 444450011522 hypothetical protein; Provisional; Region: PRK11677 444450011523 serine endoprotease; Provisional; Region: PRK10139 444450011524 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 444450011525 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 444450011526 protein binding site [polypeptide binding]; other site 444450011527 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 444450011528 serine endoprotease; Provisional; Region: PRK10898 444450011529 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 444450011530 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 444450011531 malate dehydrogenase; Provisional; Region: PRK05086 444450011532 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 444450011533 NAD binding site [chemical binding]; other site 444450011534 dimerization interface [polypeptide binding]; other site 444450011535 Substrate binding site [chemical binding]; other site 444450011536 arginine repressor; Provisional; Region: PRK05066 444450011537 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 444450011538 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 444450011539 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 444450011540 Barstar is an intracellular inhibitor of barnase, an extracellular ribonuclease of Bacillus amyloliquefaciens. Barstar binds tightly to the barnase active site and sterically blocks it thus inhibiting its potentially lethal RNase activity inside the cell; Region: Barstar; cd05142 444450011541 RNAase interaction site [polypeptide binding]; other site 444450011542 p-hydroxybenzoic acid efflux subunit AaeB; Provisional; Region: PRK10631 444450011543 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 444450011544 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 444450011545 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 444450011546 HlyD family secretion protein; Region: HlyD_3; pfam13437 444450011547 efflux system membrane protein; Provisional; Region: PRK11594 444450011548 transcriptional regulator; Provisional; Region: PRK10632 444450011549 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 444450011550 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 444450011551 putative effector binding pocket; other site 444450011552 dimerization interface [polypeptide binding]; other site 444450011553 protease TldD; Provisional; Region: tldD; PRK10735 444450011554 hypothetical protein; Provisional; Region: PRK10899 444450011555 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 444450011556 ribonuclease G; Provisional; Region: PRK11712 444450011557 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 444450011558 homodimer interface [polypeptide binding]; other site 444450011559 oligonucleotide binding site [chemical binding]; other site 444450011560 Maf-like protein; Region: Maf; pfam02545 444450011561 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 444450011562 active site 444450011563 dimer interface [polypeptide binding]; other site 444450011564 rod shape-determining protein MreD; Provisional; Region: PRK11060 444450011565 rod shape-determining protein MreC; Region: mreC; TIGR00219 444450011566 rod shape-determining protein MreC; Region: MreC; pfam04085 444450011567 rod shape-determining protein MreB; Provisional; Region: PRK13927 444450011568 MreB and similar proteins; Region: MreB_like; cd10225 444450011569 nucleotide binding site [chemical binding]; other site 444450011570 Mg binding site [ion binding]; other site 444450011571 putative protofilament interaction site [polypeptide binding]; other site 444450011572 RodZ interaction site [polypeptide binding]; other site 444450011573 regulatory protein CsrD; Provisional; Region: PRK11059 444450011574 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 444450011575 metal binding site [ion binding]; metal-binding site 444450011576 active site 444450011577 I-site; other site 444450011578 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 444450011579 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 444450011580 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 444450011581 NADP binding site [chemical binding]; other site 444450011582 dimer interface [polypeptide binding]; other site 444450011583 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 444450011584 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 444450011585 carboxyltransferase (CT) interaction site; other site 444450011586 biotinylation site [posttranslational modification]; other site 444450011587 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 444450011588 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 444450011589 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 444450011590 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 444450011591 hypothetical protein; Provisional; Region: PRK10633 444450011592 Na(+)/pantothenate cotransporters: PanF of Escherichia coli and related proteins; solute binding domain; Region: SLC5sbd_PanF; cd10327 444450011593 Na binding site [ion binding]; other site 444450011594 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 444450011595 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 444450011596 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 444450011597 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 444450011598 FMN binding site [chemical binding]; other site 444450011599 active site 444450011600 catalytic residues [active] 444450011601 substrate binding site [chemical binding]; other site 444450011602 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 444450011603 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 444450011604 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 444450011605 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 444450011606 DNA methylase; Region: N6_N4_Mtase; pfam01555 444450011607 Protein of unknown function (DUF2556); Region: DUF2556; pfam10831 444450011608 DNA-binding transcriptional regulator EnvR; Provisional; Region: PRK09975 444450011609 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 444450011610 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 444450011611 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 444450011612 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 444450011613 HlyD family secretion protein; Region: HlyD_3; pfam13437 444450011614 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 444450011615 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 444450011616 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 444450011617 substrate binding pocket [chemical binding]; other site 444450011618 membrane-bound complex binding site; other site 444450011619 hinge residues; other site 444450011620 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 444450011621 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 444450011622 conserved gate region; other site 444450011623 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 444450011624 dimer interface [polypeptide binding]; other site 444450011625 conserved gate region; other site 444450011626 putative PBP binding loops; other site 444450011627 ABC-ATPase subunit interface; other site 444450011628 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 444450011629 dimer interface [polypeptide binding]; other site 444450011630 conserved gate region; other site 444450011631 putative PBP binding loops; other site 444450011632 ABC-ATPase subunit interface; other site 444450011633 Transposase; Region: HTH_Tnp_1; cl17663 444450011634 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 444450011635 putative transposase OrfB; Reviewed; Region: PHA02517 444450011636 HTH-like domain; Region: HTH_21; pfam13276 444450011637 Integrase core domain; Region: rve; pfam00665 444450011638 Integrase core domain; Region: rve_3; pfam13683 444450011639 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 444450011640 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 444450011641 Walker A/P-loop; other site 444450011642 ATP binding site [chemical binding]; other site 444450011643 Q-loop/lid; other site 444450011644 ABC transporter signature motif; other site 444450011645 Walker B; other site 444450011646 D-loop; other site 444450011647 H-loop/switch region; other site 444450011648 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 444450011649 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 444450011650 trimer interface [polypeptide binding]; other site 444450011651 putative metal binding site [ion binding]; other site 444450011652 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 444450011653 shikimate 5-dehydrogenase; Region: aroE; TIGR00507 444450011654 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 444450011655 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 444450011656 shikimate binding site; other site 444450011657 NAD(P) binding site [chemical binding]; other site 444450011658 tRNA(ANN) t(6)A37 threonylcarbamoyladenosine modification protein; Provisional; Region: PRK10634 444450011659 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 444450011660 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 444450011661 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 444450011662 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 444450011663 hypothetical protein; Validated; Region: PRK03430 444450011664 hypothetical protein; Provisional; Region: PRK10736 444450011665 DNA protecting protein DprA; Region: dprA; TIGR00732 444450011666 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 444450011667 active site 444450011668 catalytic residues [active] 444450011669 metal binding site [ion binding]; metal-binding site 444450011670 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 444450011671 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 444450011672 putative active site [active] 444450011673 substrate binding site [chemical binding]; other site 444450011674 putative cosubstrate binding site; other site 444450011675 catalytic site [active] 444450011676 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 444450011677 substrate binding site [chemical binding]; other site 444450011678 N-terminal RNA binding domain of the methyltransferase Sun. The rRNA-specific 5-methylcytidine transferase Sun, also known as RrmB or Fmu shares the RNA-binding non-catalytic domain with the transcription termination factor NusB. The precise biological...; Region: Methyltransferase_Sun; cd00620 444450011679 putative RNA binding site [nucleotide binding]; other site 444450011680 16S rRNA methyltransferase B; Provisional; Region: PRK10901 444450011681 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 444450011682 S-adenosylmethionine binding site [chemical binding]; other site 444450011683 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 444450011684 TrkA-N domain; Region: TrkA_N; pfam02254 444450011685 TrkA-C domain; Region: TrkA_C; pfam02080 444450011686 TrkA-N domain; Region: TrkA_N; pfam02254 444450011687 TrkA-C domain; Region: TrkA_C; pfam02080 444450011688 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 444450011689 Large-conductance mechanosensitive channel, MscL; Region: MscL; pfam01741 444450011690 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 444450011691 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 444450011692 DNA binding residues [nucleotide binding] 444450011693 dimer interface [polypeptide binding]; other site 444450011694 metal binding site [ion binding]; metal-binding site 444450011695 hypothetical protein; Provisional; Region: PRK10203 444450011696 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 444450011697 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 444450011698 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 444450011699 alphaNTD homodimer interface [polypeptide binding]; other site 444450011700 alphaNTD - beta interaction site [polypeptide binding]; other site 444450011701 alphaNTD - beta' interaction site [polypeptide binding]; other site 444450011702 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 444450011703 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 444450011704 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 444450011705 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 444450011706 RNA binding surface [nucleotide binding]; other site 444450011707 30S ribosomal protein S11; Validated; Region: PRK05309 444450011708 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 444450011709 30S ribosomal protein S13; Region: bact_S13; TIGR03631 444450011710 Alpha operon ribosome binding site 444450011711 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 444450011712 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 444450011713 SecY translocase; Region: SecY; pfam00344 444450011714 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 444450011715 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 444450011716 23S rRNA binding site [nucleotide binding]; other site 444450011717 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 444450011718 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 444450011719 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 444450011720 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 444450011721 23S rRNA interface [nucleotide binding]; other site 444450011722 5S rRNA interface [nucleotide binding]; other site 444450011723 L27 interface [polypeptide binding]; other site 444450011724 L5 interface [polypeptide binding]; other site 444450011725 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 444450011726 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 444450011727 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 444450011728 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 444450011729 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 444450011730 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 444450011731 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 444450011732 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 444450011733 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 444450011734 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 444450011735 RNA binding site [nucleotide binding]; other site 444450011736 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 444450011737 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 444450011738 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 444450011739 23S rRNA interface [nucleotide binding]; other site 444450011740 putative translocon interaction site; other site 444450011741 signal recognition particle (SRP54) interaction site; other site 444450011742 L23 interface [polypeptide binding]; other site 444450011743 trigger factor interaction site; other site 444450011744 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 444450011745 23S rRNA interface [nucleotide binding]; other site 444450011746 5S rRNA interface [nucleotide binding]; other site 444450011747 putative antibiotic binding site [chemical binding]; other site 444450011748 L25 interface [polypeptide binding]; other site 444450011749 L27 interface [polypeptide binding]; other site 444450011750 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 444450011751 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 444450011752 G-X-X-G motif; other site 444450011753 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 444450011754 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 444450011755 protein-rRNA interface [nucleotide binding]; other site 444450011756 putative translocon binding site; other site 444450011757 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 444450011758 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 444450011759 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 444450011760 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 444450011761 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 444450011762 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 444450011763 50S ribosomal protein L3, bacterial; Region: L3_bact; TIGR03625 444450011764 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 444450011765 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 444450011766 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 444450011767 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 444450011768 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 444450011769 heme binding site [chemical binding]; other site 444450011770 ferroxidase pore; other site 444450011771 ferroxidase diiron center [ion binding]; other site 444450011772 bacterioferritin-associated ferredoxin; Provisional; Region: PRK10509 444450011773 elongation factor Tu; Reviewed; Region: PRK00049 444450011774 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 444450011775 G1 box; other site 444450011776 GEF interaction site [polypeptide binding]; other site 444450011777 GTP/Mg2+ binding site [chemical binding]; other site 444450011778 Switch I region; other site 444450011779 G2 box; other site 444450011780 G3 box; other site 444450011781 Switch II region; other site 444450011782 G4 box; other site 444450011783 G5 box; other site 444450011784 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 444450011785 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 444450011786 Antibiotic Binding Site [chemical binding]; other site 444450011787 elongation factor G; Reviewed; Region: PRK00007 444450011788 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 444450011789 G1 box; other site 444450011790 putative GEF interaction site [polypeptide binding]; other site 444450011791 GTP/Mg2+ binding site [chemical binding]; other site 444450011792 Switch I region; other site 444450011793 G2 box; other site 444450011794 G3 box; other site 444450011795 Switch II region; other site 444450011796 G4 box; other site 444450011797 G5 box; other site 444450011798 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 444450011799 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 444450011800 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 444450011801 30S ribosomal protein S7; Validated; Region: PRK05302 444450011802 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 444450011803 S17 interaction site [polypeptide binding]; other site 444450011804 S8 interaction site; other site 444450011805 16S rRNA interaction site [nucleotide binding]; other site 444450011806 streptomycin interaction site [chemical binding]; other site 444450011807 23S rRNA interaction site [nucleotide binding]; other site 444450011808 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 444450011809 sulfur transfer complex subunit TusB; Provisional; Region: PRK13510 444450011810 sulfur relay protein TusC; Validated; Region: PRK00211 444450011811 sulfur transfer complex subunit TusD; Validated; Region: PRK00207 444450011812 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 444450011813 YheO-like PAS domain; Region: PAS_6; pfam08348 444450011814 HTH domain; Region: HTH_22; pfam13309 444450011815 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10902 444450011816 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 444450011817 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 444450011818 phi X174 lysis protein; Provisional; Region: PRK02793 444450011819 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 444450011820 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 444450011821 Predicted nucleic-acid-binding protein containing a Zn-ribbon domain [General function prediction only]; Region: COG3529 444450011822 glutathione-regulated potassium-efflux system ancillary protein KefG; Provisional; Region: PRK04930 444450011823 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 444450011824 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 444450011825 Walker A/P-loop; other site 444450011826 ATP binding site [chemical binding]; other site 444450011827 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 444450011828 ABC transporter signature motif; other site 444450011829 Walker B; other site 444450011830 D-loop; other site 444450011831 ABC transporter; Region: ABC_tran_2; pfam12848 444450011832 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 444450011833 putative hydrolase; Provisional; Region: PRK10985 444450011834 hypothetical protein; Provisional; Region: PRK04966 444450011835 Phosphoribulokinase-like (PRK-like) is a family of proteins similar to phosphoribulokinase (PRK), the enzyme involved in the Benson-Calvin cycle in chloroplasts or photosynthetic prokaryotes. PRK catalyzes the phosphorylation of D-ribulose 5-phosphate to...; Region: PRK_like; cd02029 444450011836 active site 444450011837 hypothetical protein; Provisional; Region: PRK10738 444450011838 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 444450011839 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 444450011840 ligand binding site [chemical binding]; other site 444450011841 flexible hinge region; other site 444450011842 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 444450011843 putative switch regulator; other site 444450011844 non-specific DNA interactions [nucleotide binding]; other site 444450011845 DNA binding site [nucleotide binding] 444450011846 sequence specific DNA binding site [nucleotide binding]; other site 444450011847 putative cAMP binding site [chemical binding]; other site 444450011848 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 444450011849 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 444450011850 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 444450011851 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 444450011852 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 444450011853 inhibitor-cofactor binding pocket; inhibition site 444450011854 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444450011855 catalytic residue [active] 444450011856 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 444450011857 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 444450011858 glutamine binding [chemical binding]; other site 444450011859 catalytic triad [active] 444450011860 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 444450011861 cell filamentation protein Fic; Provisional; Region: PRK10347 444450011862 hypothetical protein; Provisional; Region: PRK10204 444450011863 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 444450011864 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 444450011865 substrate binding site [chemical binding]; other site 444450011866 putative transporter; Provisional; Region: PRK03699 444450011867 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 444450011868 putative substrate translocation pore; other site 444450011869 nitrite reductase subunit NirD; Provisional; Region: PRK14989 444450011870 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 444450011871 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 444450011872 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 444450011873 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 444450011874 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while...; Region: Rieske_NirD; cd03529 444450011875 nitrite transporter NirC; Provisional; Region: PRK11562 444450011876 siroheme synthase; Provisional; Region: cysG; PRK10637 444450011877 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 444450011878 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 444450011879 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 444450011880 active site 444450011881 SAM binding site [chemical binding]; other site 444450011882 homodimer interface [polypeptide binding]; other site 444450011883 Protein of unknown function (DUF4223); Region: DUF4223; pfam13978 444450011884 putative fructoselysine transporter; Provisional; Region: frlA; PRK11357 444450011885 hypothetical protein; Provisional; Region: PHA02764 444450011886 fructoselysine-6-P-deglycase; Provisional; Region: frlB; PRK11382 444450011887 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 444450011888 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 444450011889 dimer interface [polypeptide binding]; other site 444450011890 active site 444450011891 fructoselysine 3-epimerase; Provisional; Region: PRK09856 444450011892 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 444450011893 AP (apurinic/apyrimidinic) site pocket; other site 444450011894 DNA interaction; other site 444450011895 Metal-binding active site; metal-binding site 444450011896 DNA-binding transcriptional regulator FrlR; Provisional; Region: PRK11402 444450011897 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 444450011898 DNA-binding site [nucleotide binding]; DNA binding site 444450011899 UTRA domain; Region: UTRA; pfam07702 444450011900 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 444450011901 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 444450011902 active site 444450011903 HIGH motif; other site 444450011904 dimer interface [polypeptide binding]; other site 444450011905 KMSKS motif; other site 444450011906 phosphoglycolate phosphatase; Provisional; Region: PRK13222 444450011907 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 444450011908 motif II; other site 444450011909 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 444450011910 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 444450011911 substrate binding site [chemical binding]; other site 444450011912 hexamer interface [polypeptide binding]; other site 444450011913 metal binding site [ion binding]; metal-binding site 444450011914 DNA adenine methylase; Provisional; Region: PRK10904 444450011915 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DamX; COG3266 444450011916 cell division protein DamX; Validated; Region: PRK10905 444450011917 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 444450011918 active site 444450011919 dimer interface [polypeptide binding]; other site 444450011920 metal binding site [ion binding]; metal-binding site 444450011921 shikimate kinase; Reviewed; Region: aroK; PRK00131 444450011922 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 444450011923 ADP binding site [chemical binding]; other site 444450011924 magnesium binding site [ion binding]; other site 444450011925 putative shikimate binding site; other site 444450011926 outer membrane porin HofQ; Provisional; Region: hofQ; PRK10560 444450011927 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 444450011928 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 444450011929 Protein of unknown function (DUF2531); Region: DUF2531; pfam10748 444450011930 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 444450011931 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 444450011932 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 444450011933 Transglycosylase; Region: Transgly; pfam00912 444450011934 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 444450011935 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 444450011936 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 444450011937 ADP-ribose binding site [chemical binding]; other site 444450011938 dimer interface [polypeptide binding]; other site 444450011939 active site 444450011940 nudix motif; other site 444450011941 metal binding site [ion binding]; metal-binding site 444450011942 Intracellular growth attenuator protein IgaA; Region: IgaA; pfam07095 444450011943 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 444450011944 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 444450011945 motif II; other site 444450011946 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 444450011947 RNA binding surface [nucleotide binding]; other site 444450011948 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 444450011949 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 444450011950 dimerization interface [polypeptide binding]; other site 444450011951 domain crossover interface; other site 444450011952 redox-dependent activation switch; other site 444450011953 Domain of unknown function (DUF4153); Region: DUF4153; pfam13687 444450011954 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 444450011955 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 444450011956 active site 444450011957 substrate-binding site [chemical binding]; other site 444450011958 metal-binding site [ion binding] 444450011959 ATP binding site [chemical binding]; other site 444450011960 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 444450011961 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 444450011962 dimerization interface [polypeptide binding]; other site 444450011963 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 444450011964 dimer interface [polypeptide binding]; other site 444450011965 phosphorylation site [posttranslational modification] 444450011966 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 444450011967 ATP binding site [chemical binding]; other site 444450011968 G-X-G motif; other site 444450011969 osmolarity response regulator; Provisional; Region: ompR; PRK09468 444450011970 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 444450011971 active site 444450011972 phosphorylation site [posttranslational modification] 444450011973 intermolecular recognition site; other site 444450011974 dimerization interface [polypeptide binding]; other site 444450011975 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 444450011976 DNA binding site [nucleotide binding] 444450011977 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 444450011978 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 444450011979 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 444450011980 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 444450011981 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 444450011982 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 444450011983 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 444450011984 RNA binding site [nucleotide binding]; other site 444450011985 ferrous iron transport protein A; Reviewed; Region: feoA; PRK09555 444450011986 ferrous iron transport protein B; Reviewed; Region: feoB; PRK09554 444450011987 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 444450011988 G1 box; other site 444450011989 GTP/Mg2+ binding site [chemical binding]; other site 444450011990 Switch I region; other site 444450011991 G2 box; other site 444450011992 G3 box; other site 444450011993 Switch II region; other site 444450011994 G4 box; other site 444450011995 G5 box; other site 444450011996 Nucleoside recognition; Region: Gate; pfam07670 444450011997 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 444450011998 Nucleoside recognition; Region: Gate; pfam07670 444450011999 ferrous iron transport protein FeoC; Provisional; Region: PRK15431 444450012000 putative transposase; Provisional; Region: PRK09857 444450012001 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 444450012002 carboxylesterase BioH; Provisional; Region: PRK10349 444450012003 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 444450012004 DNA utilization protein GntX; Provisional; Region: PRK11595 444450012005 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 444450012006 active site 444450012007 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 444450012008 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 444450012009 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 444450012010 high-affinity gluconate transporter; Provisional; Region: PRK14984 444450012011 gluconate transporter; Region: gntP; TIGR00791 444450012012 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 444450012013 4-alpha-glucanotransferase; Region: malQ; TIGR00217 444450012014 maltodextrin phosphorylase; Provisional; Region: PRK14985 444450012015 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 444450012016 homodimer interface [polypeptide binding]; other site 444450012017 active site pocket [active] 444450012018 transcriptional regulator MalT; Provisional; Region: PRK04841 444450012019 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 444450012020 DNA binding residues [nucleotide binding] 444450012021 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4453 444450012022 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 444450012023 RNA 3'-terminal-phosphate cyclase; Provisional; Region: PRK04204 444450012024 This domain family includes the Enolpyruvate transferase (EPT) family and the RNA 3' phosphate cyclase family (RTPC). These 2 families differ in that EPT is formed by 3 repeats of an alpha-beta structural domain while RTPC has 3 similar repeats...; Region: EPT_RTPC-like; cl00288 444450012025 putative active site [active] 444450012026 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 444450012027 hypothetical protein; Reviewed; Region: PRK09588 444450012028 Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: RtcR; COG4650 444450012029 Regulator of RNA terminal phosphate cyclase; Region: RtcR; pfam06956 444450012030 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 444450012031 Walker A motif; other site 444450012032 ATP binding site [chemical binding]; other site 444450012033 Walker B motif; other site 444450012034 arginine finger; other site 444450012035 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 444450012036 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 444450012037 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 444450012038 intramembrane serine protease GlpG; Provisional; Region: PRK10907 444450012039 Protein of unknown function (DUF3582); Region: DUF3582; pfam12122 444450012040 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 444450012041 GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily. Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a...; Region: GlpE_ST; cd01444 444450012042 active site residue [active] 444450012043 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 444450012044 Protein of unknown function (DUF3521); Region: DUF3521; pfam12035 444450012045 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 444450012046 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 444450012047 glycogen phosphorylase; Provisional; Region: PRK14986 444450012048 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 444450012049 homodimer interface [polypeptide binding]; other site 444450012050 active site pocket [active] 444450012051 glycogen synthase; Provisional; Region: glgA; PRK00654 444450012052 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 444450012053 ADP-binding pocket [chemical binding]; other site 444450012054 homodimer interface [polypeptide binding]; other site 444450012055 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 444450012056 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 444450012057 ligand binding site; other site 444450012058 oligomer interface; other site 444450012059 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 444450012060 sulfate 1 binding site; other site 444450012061 glycogen debranching enzyme; Provisional; Region: PRK03705 444450012062 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 444450012063 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 444450012064 active site 444450012065 catalytic site [active] 444450012066 glycogen branching enzyme; Provisional; Region: PRK05402 444450012067 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 444450012068 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 444450012069 active site 444450012070 catalytic site [active] 444450012071 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 444450012072 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 444450012073 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 444450012074 putative antibiotic transporter; Provisional; Region: PRK10739 444450012075 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 444450012076 DNA protecting protein DprA; Region: dprA; TIGR00732 444450012077 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 444450012078 non-specific DNA interactions [nucleotide binding]; other site 444450012079 DNA binding site [nucleotide binding] 444450012080 sequence specific DNA binding site [nucleotide binding]; other site 444450012081 putative cAMP binding site [chemical binding]; other site 444450012082 low affinity gluconate transporter; Provisional; Region: PRK10472 444450012083 gluconate transporter; Region: gntP; TIGR00791 444450012084 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 444450012085 ATP-binding site [chemical binding]; other site 444450012086 Gluconate-6-phosphate binding site [chemical binding]; other site 444450012087 Shikimate kinase; Region: SKI; pfam01202 444450012088 gluconate operon transcriptional regulator; Provisional; Region: PRK14987 444450012089 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 444450012090 DNA binding site [nucleotide binding] 444450012091 domain linker motif; other site 444450012092 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 444450012093 putative ligand binding site [chemical binding]; other site 444450012094 putative dimerization interface [polypeptide binding]; other site 444450012095 Pirin-related protein [General function prediction only]; Region: COG1741 444450012096 Pirin; Region: Pirin; pfam02678 444450012097 putative oxidoreductase; Provisional; Region: PRK10206 444450012098 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 444450012099 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 444450012100 putative acetyltransferase YhhY; Provisional; Region: PRK10140 444450012101 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 444450012102 Coenzyme A binding pocket [chemical binding]; other site 444450012103 Protein of unknown function (DUF4225); Region: DUF4225; pfam13988 444450012104 gamma-glutamyltranspeptidase; Reviewed; Region: ggt; PRK09615 444450012105 gamma-glutamyltranspeptidase; Region: g_glut_trans; TIGR00066 444450012106 hypothetical protein; Provisional; Region: PRK10350 444450012107 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 444450012108 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 444450012109 putative active site [active] 444450012110 catalytic site [active] 444450012111 putative metal binding site [ion binding]; other site 444450012112 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 444450012113 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 444450012114 Walker A/P-loop; other site 444450012115 ATP binding site [chemical binding]; other site 444450012116 Q-loop/lid; other site 444450012117 ABC transporter signature motif; other site 444450012118 Walker B; other site 444450012119 D-loop; other site 444450012120 H-loop/switch region; other site 444450012121 TOBE domain; Region: TOBE_2; pfam08402 444450012122 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 444450012123 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 444450012124 dimer interface [polypeptide binding]; other site 444450012125 conserved gate region; other site 444450012126 putative PBP binding loops; other site 444450012127 ABC-ATPase subunit interface; other site 444450012128 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 444450012129 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 444450012130 dimer interface [polypeptide binding]; other site 444450012131 conserved gate region; other site 444450012132 putative PBP binding loops; other site 444450012133 ABC-ATPase subunit interface; other site 444450012134 glycerol-3-phosphate transporter periplasmic binding protein; Provisional; Region: PRK10974 444450012135 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 444450012136 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]; Region: COG4700 444450012137 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 444450012138 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 444450012139 binding surface 444450012140 TPR motif; other site 444450012141 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livF; PRK11614 444450012142 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 444450012143 Walker A/P-loop; other site 444450012144 ATP binding site [chemical binding]; other site 444450012145 Q-loop/lid; other site 444450012146 ABC transporter signature motif; other site 444450012147 Walker B; other site 444450012148 D-loop; other site 444450012149 H-loop/switch region; other site 444450012150 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 444450012151 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 444450012152 Walker A/P-loop; other site 444450012153 ATP binding site [chemical binding]; other site 444450012154 Q-loop/lid; other site 444450012155 ABC transporter signature motif; other site 444450012156 Walker B; other site 444450012157 D-loop; other site 444450012158 H-loop/switch region; other site 444450012159 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 444450012160 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 444450012161 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 444450012162 TM-ABC transporter signature motif; other site 444450012163 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 444450012164 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 444450012165 TM-ABC transporter signature motif; other site 444450012166 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 444450012167 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 444450012168 dimerization interface [polypeptide binding]; other site 444450012169 ligand binding site [chemical binding]; other site 444450012170 Acetyltransferase (GNAT) domain; Region: DUF3749; pfam12568 444450012171 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 444450012172 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4453 444450012173 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 444450012174 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 444450012175 dimerization interface [polypeptide binding]; other site 444450012176 ligand binding site [chemical binding]; other site 444450012177 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 444450012178 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 444450012179 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 444450012180 DNA binding residues [nucleotide binding] 444450012181 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 444450012182 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 444450012183 cell division protein FtsE; Provisional; Region: PRK10908 444450012184 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 444450012185 Walker A/P-loop; other site 444450012186 ATP binding site [chemical binding]; other site 444450012187 Q-loop/lid; other site 444450012188 ABC transporter signature motif; other site 444450012189 Walker B; other site 444450012190 D-loop; other site 444450012191 H-loop/switch region; other site 444450012192 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 444450012193 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 444450012194 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 444450012195 P loop; other site 444450012196 GTP binding site [chemical binding]; other site 444450012197 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 444450012198 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 444450012199 S-adenosylmethionine binding site [chemical binding]; other site 444450012200 hypothetical protein; Provisional; Region: PRK10910 444450012201 Protein of unknown function (DUF2500); Region: DUF2500; pfam10694 444450012202 Predicted membrane protein [Function unknown]; Region: COG3714 444450012203 zinc/cadmium/mercury/lead-transporting ATPase; Provisional; Region: zntA; PRK11033 444450012204 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 444450012205 metal-binding site [ion binding] 444450012206 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 444450012207 SirA (also known as UvrY, and YhhP) belongs to a family of two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A...; Region: SirA; cd03423 444450012208 CPxP motif; other site 444450012209 hypothetical protein; Provisional; Region: PRK11212 444450012210 hypothetical protein; Provisional; Region: PRK11615 444450012211 major facilitator superfamily transporter; Provisional; Region: PRK05122 444450012212 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 444450012213 putative substrate translocation pore; other site 444450012214 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 444450012215 Domain of unknown function DUF20; Region: UPF0118; pfam01594 444450012216 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; cl02361 444450012217 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 444450012218 S-adenosylmethionine binding site [chemical binding]; other site 444450012219 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 444450012220 Phosphopantetheine attachment site; Region: PP-binding; cl09936 444450012221 acyl carrier protein; Provisional; Region: PRK05350 444450012222 Predicted membrane protein [Function unknown]; Region: COG4648 444450012223 3-hydroxymyristoyl/3-hydroxydecanoyl-(acyl carrier protein) dehydratases [Lipid metabolism]; Region: FabA; COG0764 444450012224 active site 2 [active] 444450012225 active site 1 [active] 444450012226 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 444450012227 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 444450012228 Ligand binding site; other site 444450012229 Putative Catalytic site; other site 444450012230 DXD motif; other site 444450012231 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 444450012232 putative acyl-acceptor binding pocket; other site 444450012233 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 444450012234 active site 444450012235 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 444450012236 Predicted exporter [General function prediction only]; Region: COG4258 444450012237 Protein of unknown function (DUF3261); Region: DUF3261; pfam11659 444450012238 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 444450012239 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 444450012240 dimer interface [polypeptide binding]; other site 444450012241 active site 444450012242 Domain of unknown function, appears to be related to a diverse group of beta-hydroxydecanoyl ACP dehydratases (FabA) and beta-hydroxyacyl ACP dehydratases (FabZ). This group appears to lack the conserved active site histidine of FabA and FabZ; Region: FabA_like; cd01289 444450012243 putative active site 1 [active] 444450012244 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 444450012245 3-oxoacyl-(acyl-carrier-protein) reductase, putative; Region: fabG_rel; TIGR01831 444450012246 NAD(P) binding site [chemical binding]; other site 444450012247 active site 444450012248 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 444450012249 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 444450012250 dimer interface [polypeptide binding]; other site 444450012251 active site 444450012252 holo-(acyl carrier protein) synthase 2; Provisional; Region: PRK10351 444450012253 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 444450012254 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 444450012255 The substrate-binding component of an ABC-type nickel import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA; cd08489 444450012256 substrate binding site [chemical binding]; other site 444450012257 nickel transporter permease NikB; Provisional; Region: PRK10352 444450012258 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 444450012259 dimer interface [polypeptide binding]; other site 444450012260 conserved gate region; other site 444450012261 putative PBP binding loops; other site 444450012262 ABC-ATPase subunit interface; other site 444450012263 nickel transporter permease NikC; Provisional; Region: nikC; PRK10417 444450012264 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 444450012265 dimer interface [polypeptide binding]; other site 444450012266 conserved gate region; other site 444450012267 putative PBP binding loops; other site 444450012268 ABC-ATPase subunit interface; other site 444450012269 nickel transporter ATP-binding protein NikD; Provisional; Region: nikD; PRK10418 444450012270 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 444450012271 Walker A/P-loop; other site 444450012272 ATP binding site [chemical binding]; other site 444450012273 Q-loop/lid; other site 444450012274 ABC transporter signature motif; other site 444450012275 Walker B; other site 444450012276 D-loop; other site 444450012277 H-loop/switch region; other site 444450012278 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 444450012279 nickel transporter ATP-binding protein NikE; Provisional; Region: nikE; PRK10419 444450012280 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 444450012281 Walker A/P-loop; other site 444450012282 ATP binding site [chemical binding]; other site 444450012283 Q-loop/lid; other site 444450012284 ABC transporter signature motif; other site 444450012285 Walker B; other site 444450012286 D-loop; other site 444450012287 H-loop/switch region; other site 444450012288 nickel responsive regulator; Provisional; Region: PRK02967 444450012289 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 444450012290 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 444450012291 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 444450012292 DNA-binding site [nucleotide binding]; DNA binding site 444450012293 UTRA domain; Region: UTRA; pfam07702 444450012294 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 444450012295 active site 444450012296 phosphorylation site [posttranslational modification] 444450012297 PTS_IIB_galactitol: subunit IIB of enzyme II (EII) of the galactitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a galactitol-specific permease with two cytoplasmic domains (IIA and IIB) and a...; Region: PTS_IIB_galactitol; cd05566 444450012298 active site 444450012299 P-loop; other site 444450012300 phosphorylation site [posttranslational modification] 444450012301 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 444450012302 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 444450012303 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 444450012304 uncharacterized subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_1; cd07774 444450012305 putative N- and C-terminal domain interface [polypeptide binding]; other site 444450012306 putative active site [active] 444450012307 putative MgATP binding site [chemical binding]; other site 444450012308 catalytic site [active] 444450012309 metal binding site [ion binding]; metal-binding site 444450012310 putative carbohydrate binding site [chemical binding]; other site 444450012311 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 444450012312 dimerization domain swap beta strand [polypeptide binding]; other site 444450012313 regulatory protein interface [polypeptide binding]; other site 444450012314 active site 444450012315 regulatory phosphorylation site [posttranslational modification]; other site 444450012316 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 444450012317 intersubunit interface [polypeptide binding]; other site 444450012318 active site 444450012319 zinc binding site [ion binding]; other site 444450012320 Na+ binding site [ion binding]; other site 444450012321 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 444450012322 HicB family; Region: HicB; pfam05534 444450012323 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 444450012324 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 444450012325 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 444450012326 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 444450012327 Walker A/P-loop; other site 444450012328 ATP binding site [chemical binding]; other site 444450012329 Q-loop/lid; other site 444450012330 ABC transporter signature motif; other site 444450012331 Walker B; other site 444450012332 D-loop; other site 444450012333 H-loop/switch region; other site 444450012334 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 444450012335 Walker A/P-loop; other site 444450012336 ATP binding site [chemical binding]; other site 444450012337 Q-loop/lid; other site 444450012338 ABC transporter signature motif; other site 444450012339 Walker B; other site 444450012340 D-loop; other site 444450012341 H-loop/switch region; other site 444450012342 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 444450012343 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 444450012344 HlyD family secretion protein; Region: HlyD; pfam00529 444450012345 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 444450012346 HlyD family secretion protein; Region: HlyD_3; pfam13437 444450012347 Domain of unknown function (DUF4049); Region: DUF4049; pfam13258 444450012348 Domain of unknown function (DUF4049); Region: DUF4049; pfam13258 444450012349 Protein of unknown function (DUF2776); Region: DUF2776; pfam10951 444450012350 Predicted flavoproteins [General function prediction only]; Region: COG2081 444450012351 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 444450012352 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 444450012353 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 444450012354 universal stress protein UspB; Provisional; Region: PRK04960 444450012355 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 444450012356 Ligand Binding Site [chemical binding]; other site 444450012357 dipeptide/tripeptide permease B; Provisional; Region: PRK10207 444450012358 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 444450012359 POT family; Region: PTR2; pfam00854 444450012360 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 444450012361 S-adenosylmethionine binding site [chemical binding]; other site 444450012362 oligopeptidase A; Provisional; Region: PRK10911 444450012363 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 444450012364 active site 444450012365 Zn binding site [ion binding]; other site 444450012366 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 444450012367 glutathione reductase; Validated; Region: PRK06116 444450012368 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 444450012369 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 444450012370 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 444450012371 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 444450012372 dimerization interface [polypeptide binding]; other site 444450012373 putative DNA binding site [nucleotide binding]; other site 444450012374 putative Zn2+ binding site [ion binding]; other site 444450012375 arsenical pump membrane protein; Provisional; Region: PRK15445 444450012376 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 444450012377 transmembrane helices; other site 444450012378 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 444450012379 ArsC family; Region: ArsC; pfam03960 444450012380 catalytic residues [active] 444450012381 outer membrane lipoprotein, Slp family; Region: slp; TIGR00752 444450012382 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 444450012383 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 444450012384 DNA binding residues [nucleotide binding] 444450012385 dimerization interface [polypeptide binding]; other site 444450012386 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 444450012387 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 444450012388 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 444450012389 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 444450012390 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 444450012391 N-terminal plug; other site 444450012392 ligand-binding site [chemical binding]; other site 444450012393 ABC-type hemin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ChuT; COG4558 444450012394 Hemin binding protein HutB. These proteins have been shown to function as initial receptors in ABC transport of hemin and hemoproteins in many eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a...; Region: HutB; cd01149 444450012395 putative hemin binding site; other site 444450012396 coproporphyrinogen III oxidase; Provisional; Region: PRK09058 444450012397 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 444450012398 FeS/SAM binding site; other site 444450012399 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugX; COG3721 444450012400 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 444450012401 NADH(P)-binding; Region: NAD_binding_10; pfam13460 444450012402 NAD(P) binding site [chemical binding]; other site 444450012403 putative active site [active] 444450012404 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 444450012405 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 444450012406 ABC-ATPase subunit interface; other site 444450012407 dimer interface [polypeptide binding]; other site 444450012408 putative PBP binding regions; other site 444450012409 ABC-type hemin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG4559 444450012410 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 444450012411 Walker A/P-loop; other site 444450012412 ATP binding site [chemical binding]; other site 444450012413 Q-loop/lid; other site 444450012414 ABC transporter signature motif; other site 444450012415 Walker B; other site 444450012416 D-loop; other site 444450012417 H-loop/switch region; other site 444450012418 putative Mg(2+) transport ATPase; Provisional; Region: PRK09977 444450012419 MgtC family; Region: MgtC; pfam02308 444450012420 acid-resistance protein; Provisional; Region: hdeB; PRK11566 444450012421 acid-resistance protein; Provisional; Region: PRK10208 444450012422 acid-resistance membrane protein; Provisional; Region: PRK10209 444450012423 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 444450012424 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 444450012425 pyruvate kinase; Provisional; Region: PRK05826 444450012426 multidrug efflux system protein MdtE; Provisional; Region: PRK09859 444450012427 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 444450012428 HlyD family secretion protein; Region: HlyD_3; pfam13437 444450012429 multidrug efflux system protein AcrB; Provisional; Region: PRK15127 444450012430 Protein export membrane protein; Region: SecD_SecF; cl14618 444450012431 transcriptional regulator YdeO; Provisional; Region: PRK09940 444450012432 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 444450012433 DNA-binding transcriptional regulator GadX; Provisional; Region: PRK09978 444450012434 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 444450012435 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 444450012436 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444450012437 catalytic residue [active] 444450012438 Haem-binding domain; Region: Haem_bd; pfam14376 444450012439 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 444450012440 trehalase; Provisional; Region: treF; PRK13270 444450012441 Trehalase; Region: Trehalase; pfam01204 444450012442 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 444450012443 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 444450012444 DNA binding residues [nucleotide binding] 444450012445 dimerization interface [polypeptide binding]; other site 444450012446 Transcriptional regulator [Transcription]; Region: LysR; COG0583 444450012447 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 444450012448 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 444450012449 putative effector binding pocket; other site 444450012450 putative dimerization interface [polypeptide binding]; other site 444450012451 inner membrane protein YhjD; Region: TIGR00766 444450012452 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 444450012453 metabolite-proton symporter; Region: 2A0106; TIGR00883 444450012454 putative substrate translocation pore; other site 444450012455 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 444450012456 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 444450012457 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 444450012458 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 444450012459 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 444450012460 substrate binding site [chemical binding]; other site 444450012461 ATP binding site [chemical binding]; other site 444450012462 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 444450012463 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 444450012464 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 444450012465 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 444450012466 putative diguanylate cyclase; Provisional; Region: PRK13561 444450012467 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 444450012468 metal binding site [ion binding]; metal-binding site 444450012469 active site 444450012470 I-site; other site 444450012471 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 444450012472 cellulose synthase subunit BcsC; Provisional; Region: PRK11447 444450012473 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 444450012474 binding surface 444450012475 TPR motif; other site 444450012476 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 444450012477 binding surface 444450012478 TPR motif; other site 444450012479 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 444450012480 endo-1,4-D-glucanase; Provisional; Region: PRK11097 444450012481 cellulose synthase regulator protein; Provisional; Region: PRK11114 444450012482 cellulose synthase catalytic subunit; Provisional; Region: bcsA; PRK11498 444450012483 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 444450012484 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 444450012485 DXD motif; other site 444450012486 PilZ domain; Region: PilZ; pfam07238 444450012487 Protein of unknown function (DUF2629); Region: DUF2629; pfam10945 444450012488 cellulose biosynthesis protein BcsE; Provisional; Region: PRK15045 444450012489 Protein of unknown function (DUF2819); Region: DUF2819; pfam10995 444450012490 celllulose biosynthesis operon protein BcsF/YhjT; Region: cellullose_BcsF; TIGR03493 444450012491 Protein of unknown function (DUF3260); Region: DUF3260; pfam11658 444450012492 Toxin Ldr, type I toxin-antitoxin system; Region: Ldr_toxin; pfam13940 444450012493 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 444450012494 serine transporter; Region: stp; TIGR00814 444450012495 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 444450012496 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 444450012497 Walker A/P-loop; other site 444450012498 ATP binding site [chemical binding]; other site 444450012499 Q-loop/lid; other site 444450012500 ABC transporter signature motif; other site 444450012501 Walker B; other site 444450012502 D-loop; other site 444450012503 H-loop/switch region; other site 444450012504 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 444450012505 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 444450012506 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 444450012507 Walker A/P-loop; other site 444450012508 ATP binding site [chemical binding]; other site 444450012509 Q-loop/lid; other site 444450012510 ABC transporter signature motif; other site 444450012511 Walker B; other site 444450012512 D-loop; other site 444450012513 H-loop/switch region; other site 444450012514 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 444450012515 dipeptide transporter; Provisional; Region: PRK10913 444450012516 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 444450012517 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 444450012518 dimer interface [polypeptide binding]; other site 444450012519 conserved gate region; other site 444450012520 putative PBP binding loops; other site 444450012521 ABC-ATPase subunit interface; other site 444450012522 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 444450012523 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 444450012524 dimer interface [polypeptide binding]; other site 444450012525 conserved gate region; other site 444450012526 putative PBP binding loops; other site 444450012527 ABC-ATPase subunit interface; other site 444450012528 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 444450012529 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 444450012530 peptide binding site [polypeptide binding]; other site 444450012531 phosphoethanolamine transferase; Provisional; Region: PRK11560 444450012532 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 444450012533 Sulfatase; Region: Sulfatase; pfam00884 444450012534 long polar fimbrial protein LpfE; Provisional; Region: PRK15205 444450012535 Fimbrial protein; Region: Fimbrial; cl01416 444450012536 long polar fimbrial chaperone LpfB; Provisional; Region: PRK15208 444450012537 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 444450012538 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 444450012539 long polar fimbrial protein LpfA; Provisional; Region: PRK15209 444450012540 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 444450012541 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 444450012542 putative substrate translocation pore; other site 444450012543 Autotransporter protein or domain, integral membrane beta-barrel involved in protein secretion [Cell motility and secretion]; Region: COG5571 444450012544 3-methyl-adenine DNA glycosylase I; Provisional; Region: PRK10353 444450012545 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 444450012546 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 444450012547 Coenzyme A binding pocket [chemical binding]; other site 444450012548 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 444450012549 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 444450012550 molybdopterin cofactor binding site [chemical binding]; other site 444450012551 substrate binding site [chemical binding]; other site 444450012552 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 444450012553 molybdopterin cofactor binding site; other site 444450012554 putative outer membrane lipoprotein; Provisional; Region: PRK10510 444450012555 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 444450012556 ligand binding site [chemical binding]; other site 444450012557 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 444450012558 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 444450012559 dimerization interface [polypeptide binding]; other site 444450012560 ligand binding site [chemical binding]; other site 444450012561 NADP binding site [chemical binding]; other site 444450012562 catalytic site [active] 444450012563 Protein of unknown function (DUF3053); Region: DUF3053; pfam11254 444450012564 Predicted transcriptional regulator [Transcription]; Region: COG2944 444450012565 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 444450012566 non-specific DNA binding site [nucleotide binding]; other site 444450012567 salt bridge; other site 444450012568 sequence-specific DNA binding site [nucleotide binding]; other site 444450012569 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 444450012570 DNA-binding site [nucleotide binding]; DNA binding site 444450012571 RNA-binding motif; other site 444450012572 small toxic polypeptide; Provisional; Region: PRK09759 444450012573 glycyl-tRNA synthetase, tetrameric type, beta subunit; Region: glyS; TIGR00211 444450012574 DALR anticodon binding domain; Region: DALR_1; pfam05746 444450012575 anticodon binding site; other site 444450012576 tRNA binding surface [nucleotide binding]; other site 444450012577 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 444450012578 dimer interface [polypeptide binding]; other site 444450012579 motif 1; other site 444450012580 active site 444450012581 motif 2; other site 444450012582 motif 3; other site 444450012583 YsaB-like lipoprotein; Region: YsaB; pfam13983 444450012584 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 444450012585 Acyltransferase family; Region: Acyl_transf_3; pfam01757 444450012586 hypothetical protein; Provisional; Region: PRK11383 444450012587 yiaA/B two helix domain; Region: YiaAB; pfam05360 444450012588 yiaA/B two helix domain; Region: YiaAB; pfam05360 444450012589 hypothetical protein; Provisional; Region: PRK11403 444450012590 yiaA/B two helix domain; Region: YiaAB; pfam05360 444450012591 xylulokinase; Provisional; Region: PRK15027 444450012592 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 444450012593 N- and C-terminal domain interface [polypeptide binding]; other site 444450012594 active site 444450012595 MgATP binding site [chemical binding]; other site 444450012596 catalytic site [active] 444450012597 metal binding site [ion binding]; metal-binding site 444450012598 xylulose binding site [chemical binding]; other site 444450012599 homodimer interface [polypeptide binding]; other site 444450012600 xylose isomerase; Provisional; Region: PRK05474 444450012601 xylose isomerase; Region: xylose_isom_A; TIGR02630 444450012602 D-xylose transporter subunit XylF; Provisional; Region: xylF; PRK10355 444450012603 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 444450012604 putative ligand binding site [chemical binding]; other site 444450012605 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 444450012606 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 444450012607 Walker A/P-loop; other site 444450012608 ATP binding site [chemical binding]; other site 444450012609 Q-loop/lid; other site 444450012610 ABC transporter signature motif; other site 444450012611 Walker B; other site 444450012612 D-loop; other site 444450012613 H-loop/switch region; other site 444450012614 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 444450012615 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 444450012616 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 444450012617 TM-ABC transporter signature motif; other site 444450012618 Ligand-binding domain of DNA transcription repressor specific for xylose (XylR); Region: PBP1_XylR; cd01543 444450012619 putative dimerization interface [polypeptide binding]; other site 444450012620 Transcriptional regulators [Transcription]; Region: PurR; COG1609 444450012621 putative ligand binding site [chemical binding]; other site 444450012622 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 444450012623 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 444450012624 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 444450012625 hypothetical protein; Provisional; Region: PRK10356 444450012626 Uncharacterized FlgJ-related protein [General function prediction only]; Region: Bax; COG2992 444450012627 alpha-amylase; Reviewed; Region: malS; PRK09505 444450012628 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 444450012629 active site 444450012630 catalytic site [active] 444450012631 valine--pyruvate transaminase; Provisional; Region: avtA; PRK09440 444450012632 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 444450012633 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444450012634 homodimer interface [polypeptide binding]; other site 444450012635 catalytic residue [active] 444450012636 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 444450012637 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 444450012638 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 444450012639 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 444450012640 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 444450012641 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 444450012642 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 444450012643 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 444450012644 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 444450012645 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 444450012646 Transcriptional regulator [Transcription]; Region: LysR; COG0583 444450012647 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 444450012648 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 444450012649 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 444450012650 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 444450012651 HlyD family secretion protein; Region: HlyD_3; pfam13437 444450012652 Protein of unknown function (DUF3302); Region: DUF3302; pfam11742 444450012653 FlxA-like protein; Region: FlxA; pfam14282 444450012654 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 444450012655 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 444450012656 NAD(P) binding site [chemical binding]; other site 444450012657 catalytic residues [active] 444450012658 Fic family protein [Function unknown]; Region: COG3177 444450012659 Fic/DOC family; Region: Fic; pfam02661 444450012660 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 444450012661 putative alcohol dehydrogenase; Provisional; Region: PRK09860 444450012662 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 444450012663 dimer interface [polypeptide binding]; other site 444450012664 active site 444450012665 metal binding site [ion binding]; metal-binding site 444450012666 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 444450012667 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 444450012668 G1 box; other site 444450012669 putative GEF interaction site [polypeptide binding]; other site 444450012670 GTP/Mg2+ binding site [chemical binding]; other site 444450012671 Switch I region; other site 444450012672 G2 box; other site 444450012673 G3 box; other site 444450012674 Switch II region; other site 444450012675 G4 box; other site 444450012676 G5 box; other site 444450012677 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 444450012678 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 444450012679 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 444450012680 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 444450012681 selenocysteine synthase; Provisional; Region: PRK04311 444450012682 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 444450012683 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 444450012684 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 444450012685 catalytic residue [active] 444450012686 putative glutathione S-transferase; Provisional; Region: PRK10357 444450012687 GST_N family, unknown subfamily 3; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_3; cd03049 444450012688 putative C-terminal domain interface [polypeptide binding]; other site 444450012689 putative GSH binding site (G-site) [chemical binding]; other site 444450012690 putative dimer interface [polypeptide binding]; other site 444450012691 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 444450012692 dimer interface [polypeptide binding]; other site 444450012693 N-terminal domain interface [polypeptide binding]; other site 444450012694 putative substrate binding pocket (H-site) [chemical binding]; other site 444450012695 PAAR motif; Region: PAAR_motif; cl15808 444450012696 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 444450012697 RHS Repeat; Region: RHS_repeat; pfam05593 444450012698 RHS Repeat; Region: RHS_repeat; pfam05593 444450012699 RHS Repeat; Region: RHS_repeat; pfam05593 444450012700 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 444450012701 RHS Repeat; Region: RHS_repeat; pfam05593 444450012702 RHS Repeat; Region: RHS_repeat; pfam05593 444450012703 RHS protein; Region: RHS; pfam03527 444450012704 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 444450012705 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 444450012706 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 444450012707 HlyD family secretion protein; Region: HlyD_3; pfam13437 444450012708 Protein of unknown function (DUF3302); Region: DUF3302; pfam11742 444450012709 PTS system mannitol-specific transporter subunit IICBA; Provisional; Region: PRK15083 444450012710 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 444450012711 PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane...; Region: PTS_IIB_mannitol; cd05567 444450012712 active site 444450012713 P-loop; other site 444450012714 phosphorylation site [posttranslational modification] 444450012715 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 444450012716 active site 444450012717 phosphorylation site [posttranslational modification] 444450012718 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 444450012719 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 444450012720 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 444450012721 Transcriptional regulator [Transcription]; Region: MtlR; COG3722 444450012722 mannitol repressor protein; Provisional; Region: mtlR; PRK11001 444450012723 hypothetical protein; Provisional; Region: PRK11020 444450012724 Protein of unknown function (DUF3251); Region: DUF3251; cl08186 444450012725 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 444450012726 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 444450012727 trimer interface [polypeptide binding]; other site 444450012728 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 444450012729 trimer interface [polypeptide binding]; other site 444450012730 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 444450012731 trimer interface [polypeptide binding]; other site 444450012732 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 444450012733 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 444450012734 trimer interface [polypeptide binding]; other site 444450012735 Haemagglutinin; Region: HIM; pfam05662 444450012736 Haemagglutinin; Region: HIM; pfam05662 444450012737 YadA-like C-terminal region; Region: YadA; pfam03895 444450012738 L-lactate permease; Provisional; Region: PRK10420 444450012739 glycolate transporter; Provisional; Region: PRK09695 444450012740 DNA-binding transcriptional repressor LldR; Provisional; Region: PRK10421 444450012741 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 444450012742 DNA-binding site [nucleotide binding]; DNA binding site 444450012743 FCD domain; Region: FCD; pfam07729 444450012744 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 444450012745 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 444450012746 phosphate binding site [ion binding]; other site 444450012747 putative rRNA methylase; Provisional; Region: PRK10358 444450012748 serine acetyltransferase; Provisional; Region: cysE; PRK11132 444450012749 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 444450012750 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 444450012751 trimer interface [polypeptide binding]; other site 444450012752 active site 444450012753 substrate binding site [chemical binding]; other site 444450012754 CoA binding site [chemical binding]; other site 444450012755 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 444450012756 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 444450012757 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 444450012758 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cd00557 444450012759 SecA binding site; other site 444450012760 Preprotein binding site; other site 444450012761 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 444450012762 GSH binding site [chemical binding]; other site 444450012763 catalytic residues [active] 444450012764 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 444450012765 active site residue [active] 444450012766 phosphoglyceromutase; Provisional; Region: PRK05434 444450012767 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: pgm_bpd_ind; TIGR01307 444450012768 AmiB activator; Provisional; Region: PRK11637 444450012769 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 444450012770 Peptidase family M23; Region: Peptidase_M23; pfam01551 444450012771 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 444450012772 NodB motif; other site 444450012773 putative active site [active] 444450012774 putative catalytic site [active] 444450012775 Zn binding site [ion binding]; other site 444450012776 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 444450012777 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 444450012778 NAD(P) binding site [chemical binding]; other site 444450012779 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 444450012780 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 444450012781 substrate-cofactor binding pocket; other site 444450012782 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444450012783 catalytic residue [active] 444450012784 hypothetical protein; Provisional; Region: PRK11346 444450012785 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 444450012786 ADP-L-glycero-D-mannoheptose-6-epimerase; Provisional; Region: rfaD; PRK11150 444450012787 NADP binding site [chemical binding]; other site 444450012788 homopentamer interface [polypeptide binding]; other site 444450012789 substrate binding site [chemical binding]; other site 444450012790 active site 444450012791 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 444450012792 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 444450012793 putative active site [active] 444450012794 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 444450012795 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 444450012796 putative active site [active] 444450012797 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 444450012798 O-antigen ligase RfaL; Provisional; Region: PRK15487 444450012799 lipopolysaccharide 1,2-N-acetylglucosaminetransferase; Provisional; Region: PRK15484 444450012800 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 444450012801 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 444450012802 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 444450012803 Ligand binding site; other site 444450012804 metal-binding site 444450012805 Glycosyl transferase family 8 C-terminal; Region: Glyco_transf_8C; pfam08437 444450012806 Lipopolysaccharide core biosynthesis protein (WaaY); Region: WaaY; cl17526 444450012807 lipopolysaccharide 1,3-galactosyltransferase; Provisional; Region: PRK15171 444450012808 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 444450012809 Ligand binding site; other site 444450012810 metal-binding site 444450012811 Glycosyl transferase family 8 C-terminal; Region: Glyco_transf_8C; pfam08437 444450012812 lipopolysaccharide core heptose(I) kinase RfaP; Provisional; Region: PRK15123 444450012813 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 444450012814 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 444450012815 lipopolysaccharide core biosynthesis protein; Provisional; Region: PRK10422 444450012816 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 444450012817 putative active site [active] 444450012818 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 444450012819 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 444450012820 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 444450012821 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 444450012822 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 444450012823 active site 444450012824 (T/H)XGH motif; other site 444450012825 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 444450012826 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 444450012827 DNA binding site [nucleotide binding] 444450012828 catalytic residue [active] 444450012829 H2TH interface [polypeptide binding]; other site 444450012830 putative catalytic residues [active] 444450012831 turnover-facilitating residue; other site 444450012832 intercalation triad [nucleotide binding]; other site 444450012833 8OG recognition residue [nucleotide binding]; other site 444450012834 putative reading head residues; other site 444450012835 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 444450012836 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 444450012837 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 444450012838 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 444450012839 hypothetical protein; Reviewed; Region: PRK00024 444450012840 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 444450012841 MPN+ (JAMM) motif; other site 444450012842 Zinc-binding site [ion binding]; other site 444450012843 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 444450012844 Flavoprotein; Region: Flavoprotein; pfam02441 444450012845 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 444450012846 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 444450012847 trimer interface [polypeptide binding]; other site 444450012848 active site 444450012849 division inhibitor protein; Provisional; Region: slmA; PRK09480 444450012850 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 444450012851 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 444450012852 active site 444450012853 ribonuclease PH; Reviewed; Region: rph; PRK00173 444450012854 Ribonuclease PH; Region: RNase_PH_bact; cd11362 444450012855 hexamer interface [polypeptide binding]; other site 444450012856 active site 444450012857 hypothetical protein; Provisional; Region: PRK11820 444450012858 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 444450012859 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 444450012860 DNA-damage-inducible protein D; Provisional; Region: dinD; PRK11525 444450012861 BRO family, N-terminal domain; Region: Bro-N; pfam02498 444450012862 Predicted membrane protein [Function unknown]; Region: COG2860 444450012863 UPF0126 domain; Region: UPF0126; pfam03458 444450012864 UPF0126 domain; Region: UPF0126; pfam03458 444450012865 NAD-dependent DNA ligase LigB; Reviewed; Region: ligB; PRK08097 444450012866 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; cl03295 444450012867 nucleotide binding pocket [chemical binding]; other site 444450012868 K-X-D-G motif; other site 444450012869 catalytic site [active] 444450012870 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 444450012871 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 444450012872 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 444450012873 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 444450012874 catalytic site [active] 444450012875 G-X2-G-X-G-K; other site 444450012876 DNA-directed RNA polymerase, omega subunit; Region: rpoZ; TIGR00690 444450012877 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 444450012878 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 444450012879 Zn2+ binding site [ion binding]; other site 444450012880 Mg2+ binding site [ion binding]; other site 444450012881 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 444450012882 synthetase active site [active] 444450012883 NTP binding site [chemical binding]; other site 444450012884 metal binding site [ion binding]; metal-binding site 444450012885 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 444450012886 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 444450012887 tRNA guanosine-2'-O-methyltransferase; Provisional; Region: PRK11081 444450012888 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 444450012889 SpoU, rRNA methylase, C-terminal; Region: SpoU_methylas_C; pfam12105 444450012890 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 444450012891 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 444450012892 generic binding surface II; other site 444450012893 ssDNA binding site; other site 444450012894 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 444450012895 ATP binding site [chemical binding]; other site 444450012896 putative Mg++ binding site [ion binding]; other site 444450012897 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 444450012898 nucleotide binding region [chemical binding]; other site 444450012899 ATP-binding site [chemical binding]; other site 444450012900 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 444450012901 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 444450012902 AsmA family; Region: AsmA; pfam05170 444450012903 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 444450012904 putative alpha-glucosidase; Provisional; Region: PRK10658 444450012905 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 444450012906 YicI alpha-xylosidase is a glycosyl hydrolase family 31 (GH31) enzyme that catalyzes the release of an alpha-xylosyl residue from the non-reducing end of alpha-xyloside substrates such as alpha-xylosyl fluoride and isoprimeverose. YicI forms a...; Region: GH31_xylosidase_YicI; cd06593 444450012907 active site 444450012908 homotrimer interface [polypeptide binding]; other site 444450012909 catalytic site [active] 444450012910 homohexamer (dimer of homotrimers) interface [polypeptide binding]; other site 444450012911 putative transporter; Provisional; Region: PRK11462 444450012912 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 444450012913 integrase; Provisional; Region: PRK09692 444450012914 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 444450012915 active site 444450012916 Int/Topo IB signature motif; other site 444450012917 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 444450012918 Transposase; Region: HTH_Tnp_1; cl17663 444450012919 HTH-like domain; Region: HTH_21; pfam13276 444450012920 Integrase core domain; Region: rve; pfam00665 444450012921 DDE domain; Region: DDE_Tnp_IS240; pfam13610 444450012922 Integrase core domain; Region: rve_3; pfam13683 444450012923 YagB/YeeU/YfjZ family; Region: YagB_YeeU_YfjZ; pfam06154 444450012924 Protein of unknown function (DUF1219); Region: DUF1219; pfam06755 444450012925 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 444450012926 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 444450012927 Dimerization/Docking domain of Cyclic GMP-dependent Protein Kinase I; Region: DD_cGKI; cl17044 444450012928 homodimer interface [polypeptide binding]; other site 444450012929 putative GKAP docking site [polypeptide binding]; other site 444450012930 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 444450012931 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 444450012932 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 444450012933 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 444450012934 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 444450012935 alpha-ketoglutarate decarboxylase; Reviewed; Region: kgd; PRK12270 444450012936 type III secretion apparatus needle protein; Region: III_needle; TIGR02105 444450012937 pathogenicity island 2 effector protein SseE; Provisional; Region: PRK15360 444450012938 Enterobacterial EspB protein; Region: EspB; pfam05802 444450012939 Uncharacterized conserved protein [Function unknown]; Region: COG5613 444450012940 EspA-like secreted protein; Region: EspA; cl04069 444450012941 HrpJ-like domain; Region: HrpJ; pfam07201 444450012942 type III secretion effector delivery regulator, TyeA family; Region: type_III_tyeA; TIGR02511 444450012943 type III secretion system protein SsaD; Provisional; Region: PRK15367 444450012944 type III secretion apparatus protein, YscD/HrpQ family; Region: type_III_yscD; TIGR02500 444450012945 LysM domain; Region: LysM; pfam01476 444450012946 Protein of unknown function (DUF3442); Region: DUF3442; pfam11924 444450012947 Bacterial Ig-like domain (group 1); Region: Big_1; pfam02369 444450012948 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 444450012949 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 444450012950 Intimin C-type lectin domain; Region: Intimin_C; pfam07979 444450012951 Tir chaperone protein (CesT) family; Region: CesT; pfam05932 444450012952 Translocated intimin receptor (Tir) N-terminus; Region: Tir_receptor_N; pfam07490 444450012953 Translocated intimin receptor (Tir) intimin-binding domain; Region: Tir_receptor_M; pfam03549 444450012954 Translocated intimin receptor (Tir) C-terminus; Region: Tir_receptor_C; pfam07489 444450012955 IpaB/EvcA family; Region: IpaB_EvcA; pfam03278 444450012956 Tir chaperone protein (CesT) family; Region: CesT; pfam05932 444450012957 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 444450012958 type III secretion apparatus H+-transporting two-sector ATPase; Region: III_secr_ATP; TIGR02546 444450012959 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 444450012960 Walker A motif/ATP binding site; other site 444450012961 Walker B motif; other site 444450012962 Type III secretory pathway, component EscV [Intracellular trafficking and secretion]; Region: EscV; COG4789 444450012963 FHIPEP family; Region: FHIPEP; pfam00771 444450012964 Type III secretory pathway, lipoprotein EscJ [Intracellular trafficking and secretion]; Region: EscJ; COG4669 444450012965 outer membrane secretin SsaC; Provisional; Region: PRK15346 444450012966 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 444450012967 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 444450012968 negative regulator GrlR; Provisional; Region: PRK14051 444450012969 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 444450012970 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 444450012971 N-acetyl-D-glucosamine binding site [chemical binding]; other site 444450012972 catalytic residue [active] 444450012973 secretion system apparatus protein SsaU; Reviewed; Region: PRK12721 444450012974 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 444450012975 type III secretion protein SpaR/YscT/HrcT; Region: fliR_like_III; TIGR01401 444450012976 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 444450012977 Type III secretory pathway, component EscR [Intracellular trafficking and secretion]; Region: EscR; COG4790 444450012978 Type III secretion system filament chaperone CesA; Region: CesA; pfam11439 444450012979 type III secretion system protein, YseE family; Region: type_III_yscE; TIGR02501 444450012980 DNA-binding protein H-NS [General function prediction only]; Region: Hns; COG2916 444450012981 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 444450012982 EspG protein; Region: EspG; pfam06872 444450012983 SdiA-regulated; Region: SdiA-regulated; cd09971 444450012984 SdiA-regulated; Region: SdiA-regulated; pfam06977 444450012985 putative active site [active] 444450012986 EamA-like transporter family; Region: EamA; pfam00892 444450012987 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 444450012988 EamA-like transporter family; Region: EamA; pfam00892 444450012989 cytoplasmic membrane lipoprotein-28; Provisional; Region: PRK09861 444450012990 lipoprotein, YaeC family; Region: TIGR00363 444450012991 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4737 444450012992 Predicted transcriptional regulator [Transcription]; Region: COG2944 444450012993 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 444450012994 non-specific DNA binding site [nucleotide binding]; other site 444450012995 salt bridge; other site 444450012996 sequence-specific DNA binding site [nucleotide binding]; other site 444450012997 Protein of unknown function (DUF1198); Region: DUF1198; pfam06711 444450012998 cryptic adenine deaminase; Provisional; Region: PRK10027 444450012999 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 444450013000 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 444450013001 active site 444450013002 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 444450013003 sugar phosphate antiporter; Reviewed; Region: uhpT; PRK09556 444450013004 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 444450013005 putative substrate translocation pore; other site 444450013006 regulatory protein UhpC; Provisional; Region: PRK11663 444450013007 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 444450013008 putative substrate translocation pore; other site 444450013009 sensory histidine kinase UhpB; Provisional; Region: PRK11644 444450013010 MASE1; Region: MASE1; pfam05231 444450013011 Histidine kinase; Region: HisKA_3; pfam07730 444450013012 DNA-binding transcriptional activator UhpA; Provisional; Region: PRK10360 444450013013 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 444450013014 active site 444450013015 phosphorylation site [posttranslational modification] 444450013016 intermolecular recognition site; other site 444450013017 dimerization interface [polypeptide binding]; other site 444450013018 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 444450013019 DNA binding residues [nucleotide binding] 444450013020 dimerization interface [polypeptide binding]; other site 444450013021 Acetolactate synthase, small (regulatory) subunit [Amino acid transport and metabolism]; Region: IlvH; COG0440 444450013022 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 444450013023 putative valine binding site [chemical binding]; other site 444450013024 dimer interface [polypeptide binding]; other site 444450013025 acetolactate synthase catalytic subunit; Validated; Region: PRK08155 444450013026 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 444450013027 PYR/PP interface [polypeptide binding]; other site 444450013028 dimer interface [polypeptide binding]; other site 444450013029 TPP binding site [chemical binding]; other site 444450013030 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 444450013031 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 444450013032 TPP-binding site [chemical binding]; other site 444450013033 dimer interface [polypeptide binding]; other site 444450013034 multidrug resistance protein D; Provisional; Region: emrD; PRK11652 444450013035 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 444450013036 putative substrate translocation pore; other site 444450013037 Arylsulfatase regulator (Fe-S oxidoreductase) [General function prediction only]; Region: AslB; COG0641 444450013038 Domain of unknown function (DUF202); Region: DUF202; pfam02656 444450013039 Predicted membrane protein [Function unknown]; Region: COG2149 444450013040 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 444450013041 Sulfatase; Region: Sulfatase; pfam00884 444450013042 putative transporter; Provisional; Region: PRK10484 444450013043 uncharacterized SLC5 subfamily, Escherichia coli YidK-like; solute binding domain; Region: SLC5sbd_YidK; cd10328 444450013044 Na binding site [ion binding]; other site 444450013045 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 444450013046 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 444450013047 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 444450013048 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 444450013049 Glycoside Hydrolases Family 4; GlvA- and pagL-like glycosidases; Region: GH4_GlvA_pagL_like; cd05298 444450013050 NAD binding site [chemical binding]; other site 444450013051 sugar binding site [chemical binding]; other site 444450013052 divalent metal binding site [ion binding]; other site 444450013053 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 444450013054 dimer interface [polypeptide binding]; other site 444450013055 PTS system, alpha-glucoside-specific IIBC component; Region: PTS-IIBC-alpha; TIGR02005 444450013056 PTS system, maltose and glucose-specific subfamily, IIC component; Region: pts-Glc; TIGR00852 444450013057 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 444450013058 active site turn [active] 444450013059 phosphorylation site [posttranslational modification] 444450013060 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 444450013061 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 444450013062 DNA-binding site [nucleotide binding]; DNA binding site 444450013063 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 444450013064 putative transporter; Validated; Region: PRK03818 444450013065 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 444450013066 TrkA-C domain; Region: TrkA_C; pfam02080 444450013067 TrkA-C domain; Region: TrkA_C; pfam02080 444450013068 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 444450013069 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 444450013070 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 444450013071 putative dimer interface [polypeptide binding]; other site 444450013072 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 444450013073 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 444450013074 putative dimer interface [polypeptide binding]; other site 444450013075 hypothetical protein; Provisional; Region: PRK11616 444450013076 Protein of unknown function (DUF3748); Region: DUF3748; pfam12566 444450013077 putative oxidoreductase; Provisional; Region: PRK11445 444450013078 hypothetical protein; Provisional; Region: PRK07236 444450013079 hypothetical protein; Provisional; Region: PRK10215 444450013080 sugar phosphate phosphatase; Provisional; Region: PRK10513 444450013081 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 444450013082 active site 444450013083 motif I; other site 444450013084 motif II; other site 444450013085 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 444450013086 hypothetical protein; Provisional; Region: PRK11426 444450013087 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 444450013088 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 444450013089 Mg2+ binding site [ion binding]; other site 444450013090 G-X-G motif; other site 444450013091 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 444450013092 anchoring element; other site 444450013093 dimer interface [polypeptide binding]; other site 444450013094 ATP binding site [chemical binding]; other site 444450013095 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the...; Region: TOPRIM_TopoIIA_GyrB; cd03366 444450013096 active site 444450013097 putative metal-binding site [ion binding]; other site 444450013098 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 444450013099 recF protein; Region: recf; TIGR00611 444450013100 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 444450013101 Walker A/P-loop; other site 444450013102 ATP binding site [chemical binding]; other site 444450013103 Q-loop/lid; other site 444450013104 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 444450013105 ABC transporter signature motif; other site 444450013106 Walker B; other site 444450013107 D-loop; other site 444450013108 H-loop/switch region; other site 444450013109 DNA polymerase III subunit beta; Validated; Region: PRK05643 444450013110 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 444450013111 putative DNA binding surface [nucleotide binding]; other site 444450013112 dimer interface [polypeptide binding]; other site 444450013113 beta-clamp/clamp loader binding surface; other site 444450013114 beta-clamp/translesion DNA polymerase binding surface; other site 444450013115 DnaA N-terminal domain; Region: DnaA_N; pfam11638 444450013116 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 444450013117 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 444450013118 Walker A motif; other site 444450013119 ATP binding site [chemical binding]; other site 444450013120 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 444450013121 Walker B motif; other site 444450013122 arginine finger; other site 444450013123 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 444450013124 DnaA box-binding interface [nucleotide binding]; other site 444450013125 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 444450013126 ribonuclease P; Reviewed; Region: rnpA; PRK01732 444450013127 membrane protein insertase; Provisional; Region: PRK01318 444450013128 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 444450013129 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 444450013130 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 444450013131 trmE is a tRNA modification GTPase; Region: trmE; cd04164 444450013132 G1 box; other site 444450013133 GTP/Mg2+ binding site [chemical binding]; other site 444450013134 Switch I region; other site 444450013135 G2 box; other site 444450013136 Switch II region; other site 444450013137 G3 box; other site 444450013138 G4 box; other site 444450013139 G5 box; other site 444450013140 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 444450013141 ShET2 enterotoxin, N-terminal region; Region: Toxin_15; pfam07906 444450013142 tryptophanase, leader peptide-associated; Region: tnaA_trp_ase; TIGR02617 444450013143 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 444450013144 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 444450013145 catalytic residue [active] 444450013146 tryptophan permease TnaB; Provisional; Region: PRK09664 444450013147 aromatic amino acid transport protein; Region: araaP; TIGR00837 444450013148 multidrug efflux system protein MdtL; Provisional; Region: PRK10473 444450013149 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 444450013150 putative substrate translocation pore; other site 444450013151 DNA-binding transcriptional regulator YidZ; Provisional; Region: PRK10216 444450013152 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 444450013153 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 444450013154 substrate binding pocket [chemical binding]; other site 444450013155 dimerization interface [polypeptide binding]; other site 444450013156 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 444450013157 Predicted flavoprotein [General function prediction only]; Region: COG0431 444450013158 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 444450013159 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 444450013160 6-phosphogluconate phosphatase; Provisional; Region: PRK10563 444450013161 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 444450013162 active site 444450013163 motif I; other site 444450013164 motif II; other site 444450013165 SopA-like central domain; Region: SopA; pfam13981 444450013166 transcriptional regulator PhoU; Provisional; Region: PRK11115 444450013167 PhoU domain; Region: PhoU; pfam01895 444450013168 PhoU domain; Region: PhoU; pfam01895 444450013169 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 444450013170 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 444450013171 Walker A/P-loop; other site 444450013172 ATP binding site [chemical binding]; other site 444450013173 Q-loop/lid; other site 444450013174 ABC transporter signature motif; other site 444450013175 Walker B; other site 444450013176 D-loop; other site 444450013177 H-loop/switch region; other site 444450013178 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 444450013179 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 444450013180 dimer interface [polypeptide binding]; other site 444450013181 conserved gate region; other site 444450013182 putative PBP binding loops; other site 444450013183 ABC-ATPase subunit interface; other site 444450013184 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 444450013185 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 444450013186 dimer interface [polypeptide binding]; other site 444450013187 conserved gate region; other site 444450013188 putative PBP binding loops; other site 444450013189 ABC-ATPase subunit interface; other site 444450013190 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 444450013191 Fimbrial protein; Region: Fimbrial; cl01416 444450013192 Fimbrial protein; Region: Fimbrial; cl01416 444450013193 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 444450013194 PapC N-terminal domain; Region: PapC_N; pfam13954 444450013195 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 444450013196 PapC C-terminal domain; Region: PapC_C; pfam13953 444450013197 fimbrial protein; Provisional; Region: lpfA; PRK15289 444450013198 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 444450013199 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 444450013200 glutaminase active site [active] 444450013201 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 444450013202 dimer interface [polypeptide binding]; other site 444450013203 active site 444450013204 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 444450013205 dimer interface [polypeptide binding]; other site 444450013206 active site 444450013207 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 444450013208 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 444450013209 Substrate binding site; other site 444450013210 Mg++ binding site; other site 444450013211 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 444450013212 active site 444450013213 substrate binding site [chemical binding]; other site 444450013214 CoA binding site [chemical binding]; other site 444450013215 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 444450013216 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 444450013217 gamma subunit interface [polypeptide binding]; other site 444450013218 epsilon subunit interface [polypeptide binding]; other site 444450013219 LBP interface [polypeptide binding]; other site 444450013220 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 444450013221 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 444450013222 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 444450013223 alpha subunit interaction interface [polypeptide binding]; other site 444450013224 Walker A motif; other site 444450013225 ATP binding site [chemical binding]; other site 444450013226 Walker B motif; other site 444450013227 inhibitor binding site; inhibition site 444450013228 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 444450013229 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 444450013230 core domain interface [polypeptide binding]; other site 444450013231 delta subunit interface [polypeptide binding]; other site 444450013232 epsilon subunit interface [polypeptide binding]; other site 444450013233 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 444450013234 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 444450013235 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 444450013236 beta subunit interaction interface [polypeptide binding]; other site 444450013237 Walker A motif; other site 444450013238 ATP binding site [chemical binding]; other site 444450013239 Walker B motif; other site 444450013240 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 444450013241 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 444450013242 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 444450013243 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 444450013244 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 444450013245 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 444450013246 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 444450013247 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 444450013248 ATP synthase I chain; Region: ATP_synt_I; cl09170 444450013249 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 444450013250 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 444450013251 S-adenosylmethionine binding site [chemical binding]; other site 444450013252 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 444450013253 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 444450013254 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 444450013255 FMN-binding protein MioC; Provisional; Region: PRK09004 444450013256 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 444450013257 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 444450013258 putative DNA binding site [nucleotide binding]; other site 444450013259 putative Zn2+ binding site [ion binding]; other site 444450013260 AsnC family; Region: AsnC_trans_reg; pfam01037 444450013261 Asparagine synthetase (aspartate-ammonia ligase) (AsnA) catalyses the conversion of L-aspartate to L-asparagine in the presence of ATP and ammonia. AsnA is a homodimeric enzyme which is structurally similiar to the catalytic core domain of class II...; Region: AsnA; cd00645 444450013262 dimer interface [polypeptide binding]; other site 444450013263 active site 444450013264 hypothetical protein; Provisional; Region: yieM; PRK10997 444450013265 VWA YIEM 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_YIEM_type; cd01462 444450013266 metal ion-dependent adhesion site (MIDAS); other site 444450013267 regulatory ATPase RavA; Provisional; Region: PRK13531 444450013268 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 444450013269 Walker A motif; other site 444450013270 ATP binding site [chemical binding]; other site 444450013271 Walker B motif; other site 444450013272 arginine finger; other site 444450013273 Protein of unknown function (DUF3763); Region: DUF3763; pfam12592 444450013274 potassium transport protein Kup; Provisional; Region: trkD; PRK10745 444450013275 potassium uptake protein; Region: kup; TIGR00794 444450013276 D-ribose pyranase; Provisional; Region: PRK11797 444450013277 D-ribose transporter ATP binding protein; Provisional; Region: PRK10762 444450013278 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 444450013279 Walker A/P-loop; other site 444450013280 ATP binding site [chemical binding]; other site 444450013281 Q-loop/lid; other site 444450013282 ABC transporter signature motif; other site 444450013283 Walker B; other site 444450013284 D-loop; other site 444450013285 H-loop/switch region; other site 444450013286 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 444450013287 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 444450013288 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 444450013289 TM-ABC transporter signature motif; other site 444450013290 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 444450013291 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 444450013292 ligand binding site [chemical binding]; other site 444450013293 dimerization interface [polypeptide binding]; other site 444450013294 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 444450013295 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 444450013296 substrate binding site [chemical binding]; other site 444450013297 dimer interface [polypeptide binding]; other site 444450013298 ATP binding site [chemical binding]; other site 444450013299 transcriptional repressor RbsR; Provisional; Region: PRK10423 444450013300 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 444450013301 DNA binding site [nucleotide binding] 444450013302 domain linker motif; other site 444450013303 Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli; Region: PBP1_PurR; cd06275 444450013304 dimerization interface [polypeptide binding]; other site 444450013305 ligand binding site [chemical binding]; other site 444450013306 putative transporter; Provisional; Region: PRK10504 444450013307 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 444450013308 putative substrate translocation pore; other site 444450013309 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 444450013310 Transcriptional regulators [Transcription]; Region: FadR; COG2186 444450013311 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 444450013312 DNA-binding site [nucleotide binding]; DNA binding site 444450013313 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 444450013314 transcriptional regulator HdfR; Provisional; Region: PRK03601 444450013315 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 444450013316 LysR substrate binding domain; Region: LysR_substrate; pfam03466 444450013317 dimerization interface [polypeptide binding]; other site 444450013318 hypothetical protein; Provisional; Region: PRK11027 444450013319 putative ATP-dependent protease; Provisional; Region: PRK09862 444450013320 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 444450013321 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 444450013322 Walker A motif; other site 444450013323 ATP binding site [chemical binding]; other site 444450013324 Walker B motif; other site 444450013325 arginine finger; other site 444450013326 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 444450013327 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 444450013328 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 444450013329 PYR/PP interface [polypeptide binding]; other site 444450013330 dimer interface [polypeptide binding]; other site 444450013331 TPP binding site [chemical binding]; other site 444450013332 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 444450013333 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 444450013334 TPP-binding site [chemical binding]; other site 444450013335 dimer interface [polypeptide binding]; other site 444450013336 acetolactate synthase 2 regulatory subunit; Provisional; Region: ilvM; PRK11152 444450013337 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 444450013338 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 444450013339 homodimer interface [polypeptide binding]; other site 444450013340 substrate-cofactor binding pocket; other site 444450013341 catalytic residue [active] 444450013342 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 444450013343 threonine dehydratase; Reviewed; Region: PRK09224 444450013344 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 444450013345 tetramer interface [polypeptide binding]; other site 444450013346 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444450013347 catalytic residue [active] 444450013348 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 444450013349 putative Ile/Val binding site [chemical binding]; other site 444450013350 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 444450013351 putative Ile/Val binding site [chemical binding]; other site 444450013352 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 444450013353 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 444450013354 The C-terminal substrate binding of LysR-type transcriptional regulator IlvY, which activates the expression of ilvC gene that encoding acetohydroxy acid isomeroreductase for the biosynthesis of branched amino acids; contains the type 2 periplasmic bindin; Region: PBP2_IlvY; cd08430 444450013355 putative dimerization interface [polypeptide binding]; other site 444450013356 ketol-acid reductoisomerase; Validated; Region: PRK05225 444450013357 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 444450013358 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 444450013359 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 444450013360 peptidyl-prolyl cis-trans isomerase C; Provisional; Region: PRK15441 444450013361 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 444450013362 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3692 444450013363 ATP-dependent DNA helicase Rep; Provisional; Region: PRK10919 444450013364 Part of AAA domain; Region: AAA_19; pfam13245 444450013365 Family description; Region: UvrD_C_2; pfam13538 444450013366 guanosine pentaphosphate phosphohydrolase; Provisional; Region: PRK11031 444450013367 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 444450013368 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 444450013369 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 444450013370 ATP binding site [chemical binding]; other site 444450013371 Mg++ binding site [ion binding]; other site 444450013372 motif III; other site 444450013373 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 444450013374 nucleotide binding region [chemical binding]; other site 444450013375 ATP-binding site [chemical binding]; other site 444450013376 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 444450013377 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 444450013378 catalytic residues [active] 444450013379 transcription termination factor Rho; Provisional; Region: rho; PRK09376 444450013380 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 444450013381 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 444450013382 RNA binding site [nucleotide binding]; other site 444450013383 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 444450013384 multimer interface [polypeptide binding]; other site 444450013385 Walker A motif; other site 444450013386 ATP binding site [chemical binding]; other site 444450013387 Walker B motif; other site 444450013388 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphate transferase; Provisional; Region: PRK15119 444450013389 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 444450013390 Mg++ binding site [ion binding]; other site 444450013391 putative catalytic motif [active] 444450013392 substrate binding site [chemical binding]; other site 444450013393 lipopolysaccharide biosynthesis protein WzzE; Provisional; Region: PRK11638 444450013394 Chain length determinant protein; Region: Wzz; pfam02706 444450013395 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 444450013396 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 444450013397 active site 444450013398 homodimer interface [polypeptide binding]; other site 444450013399 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 444450013400 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 444450013401 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 444450013402 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 444450013403 dTDP-glucose 4,6-dehydratase; Provisional; Region: PRK10217 444450013404 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 444450013405 NAD binding site [chemical binding]; other site 444450013406 substrate binding site [chemical binding]; other site 444450013407 homodimer interface [polypeptide binding]; other site 444450013408 active site 444450013409 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 444450013410 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 444450013411 substrate binding site; other site 444450013412 tetramer interface; other site 444450013413 TDP-fucosamine acetyltransferase; Provisional; Region: PRK10975 444450013414 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 444450013415 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 444450013416 inhibitor-cofactor binding pocket; inhibition site 444450013417 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444450013418 catalytic residue [active] 444450013419 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 444450013420 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_10; cd13125 444450013421 4-alpha-L-fucosyltransferase glycosyl transferase group 56; Region: Glyco_transf_56; pfam07429 444450013422 putative common antigen polymerase; Provisional; Region: PRK02975 444450013423 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 444450013424 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 444450013425 putative transport protein YifK; Provisional; Region: PRK10746 444450013426 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 444450013427 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 444450013428 FeS/SAM binding site; other site 444450013429 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 444450013430 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 444450013431 Sulfatase; Region: Sulfatase; pfam00884 444450013432 putative protoheme IX biogenesis protein; Provisional; Region: PRK10747 444450013433 HemY protein N-terminus; Region: HemY_N; pfam07219 444450013434 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemX; COG2959 444450013435 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 444450013436 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 444450013437 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 444450013438 active site 444450013439 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 444450013440 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 444450013441 domain interfaces; other site 444450013442 active site 444450013443 Adenylate cyclase [Nucleotide transport and metabolism]; Region: CyaA; COG3072 444450013444 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 444450013445 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 444450013446 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate...; Region: Frataxin; cd00503 444450013447 putative iron binding site [ion binding]; other site 444450013448 hypothetical protein; Provisional; Region: PRK09807 444450013449 Predicted small periplasmic lipoprotein [Cell motility and secretion]; Region: COG5567 444450013450 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 444450013451 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 444450013452 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 444450013453 hypothetical protein; Provisional; Region: PRK10963 444450013454 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 444450013455 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 444450013456 active site 444450013457 DNA binding site [nucleotide binding] 444450013458 Int/Topo IB signature motif; other site 444450013459 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 444450013460 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 444450013461 motif II; other site 444450013462 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 444450013463 Part of AAA domain; Region: AAA_19; pfam13245 444450013464 Family description; Region: UvrD_C_2; pfam13538 444450013465 Uncharacterized conserved protein [Function unknown]; Region: COG1912 444450013466 Predicted periplasmic protein [Function unknown]; Region: COG3698 444450013467 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 444450013468 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 444450013469 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 444450013470 Cl binding site [ion binding]; other site 444450013471 oligomer interface [polypeptide binding]; other site 444450013472 Enterobacterial putative membrane protein (DUF943); Region: DUF943; pfam06092 444450013473 conserved hypothetical protein; Region: TIGR03034 444450013474 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085 444450013475 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 444450013476 putative chloramphenical resistance permease RarD; Provisional; Region: PRK15430 444450013477 EamA-like transporter family; Region: EamA; pfam00892 444450013478 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 444450013479 CoenzymeA binding site [chemical binding]; other site 444450013480 subunit interaction site [polypeptide binding]; other site 444450013481 PHB binding site; other site 444450013482 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cd00541 444450013483 dimerization interface [polypeptide binding]; other site 444450013484 substrate binding site [chemical binding]; other site 444450013485 active site 444450013486 calcium binding site [ion binding]; other site 444450013487 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 444450013488 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 444450013489 ATP binding site [chemical binding]; other site 444450013490 putative Mg++ binding site [ion binding]; other site 444450013491 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 444450013492 nucleotide binding region [chemical binding]; other site 444450013493 ATP-binding site [chemical binding]; other site 444450013494 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 444450013495 Helicase and RNase D C-terminal; Region: HRDC; smart00341 444450013496 threonine efflux system; Provisional; Region: PRK10229 444450013497 homoserine/homoserine lactone efflux protein; Provisional; Region: rhtB; PRK10520 444450013498 lysophospholipase L2; Provisional; Region: PRK10749 444450013499 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 444450013500 putative hydrolase; Provisional; Region: PRK10976 444450013501 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 444450013502 active site 444450013503 motif I; other site 444450013504 motif II; other site 444450013505 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 444450013506 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 444450013507 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 444450013508 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 444450013509 putative dimerization interface [polypeptide binding]; other site 444450013510 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 444450013511 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 444450013512 THF binding site; other site 444450013513 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 444450013514 substrate binding site [chemical binding]; other site 444450013515 THF binding site; other site 444450013516 zinc-binding site [ion binding]; other site 444450013517 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 444450013518 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 444450013519 uridine phosphorylase; Provisional; Region: PRK11178 444450013520 uridine phosphorylase; Region: Uridine-psphlse; TIGR01718 444450013521 DNA recombination protein RmuC; Provisional; Region: PRK10361 444450013522 RmuC family; Region: RmuC; pfam02646 444450013523 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 444450013524 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 444450013525 S-adenosylmethionine binding site [chemical binding]; other site 444450013526 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 444450013527 SCP-2 sterol transfer family; Region: SCP2; pfam02036 444450013528 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 444450013529 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 444450013530 twin arginine translocase protein A; Provisional; Region: tatA; PRK03554 444450013531 twin arginine translocase protein A; Provisional; Region: tatA; PRK00575 444450013532 sec-independent translocase; Provisional; Region: PRK01770 444450013533 sec-independent translocase; Provisional; Region: tatB; PRK00404 444450013534 twin-arginine protein translocation system subunit TatC; Provisional; Region: PRK10921 444450013535 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 444450013536 active site 444450013537 transcriptional activator RfaH; Provisional; Region: rfaH; PRK09014 444450013538 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; Region: NGN_SP_RfaH; cd09892 444450013539 KOW: an acronym for the authors' surnames (Kyrpides, Ouzounis and Woese); Region: KOW; cl00354 444450013540 3-octaprenyl-4-hydroxybenzoate decarboxylase; Provisional; Region: PRK10922 444450013541 FMN reductase; Validated; Region: fre; PRK08051 444450013542 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 444450013543 FAD binding pocket [chemical binding]; other site 444450013544 FAD binding motif [chemical binding]; other site 444450013545 phosphate binding motif [ion binding]; other site 444450013546 beta-alpha-beta structure motif; other site 444450013547 NAD binding pocket [chemical binding]; other site 444450013548 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 444450013549 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 444450013550 dimer interface [polypeptide binding]; other site 444450013551 active site 444450013552 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 444450013553 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 444450013554 substrate binding site [chemical binding]; other site 444450013555 oxyanion hole (OAH) forming residues; other site 444450013556 trimer interface [polypeptide binding]; other site 444450013557 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 444450013558 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 444450013559 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 444450013560 proline dipeptidase; Provisional; Region: PRK13607 444450013561 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 444450013562 active site 444450013563 hypothetical protein; Provisional; Region: PRK11568 444450013564 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 444450013565 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 444450013566 potassium transporter; Provisional; Region: PRK10750 444450013567 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 444450013568 protoporphyrinogen oxidase; Provisional; Region: hemG; PRK11104 444450013569 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 444450013570 Walker A motif; other site 444450013571 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 444450013572 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 444450013573 GTP binding site; other site 444450013574 Protein of unknown function (DUF1040); Region: DUF1040; pfam06288 444450013575 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 444450013576 serine/threonine protein kinase; Provisional; Region: PRK11768 444450013577 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 444450013578 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 444450013579 catalytic residues [active] 444450013580 hinge region; other site 444450013581 alpha helical domain; other site 444450013582 hypothetical protein; Provisional; Region: PRK11367 444450013583 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 444450013584 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 444450013585 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 444450013586 putative acyl-acceptor binding pocket; other site 444450013587 DNA polymerase I; Provisional; Region: PRK05755 444450013588 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 444450013589 active site 444450013590 metal binding site 1 [ion binding]; metal-binding site 444450013591 putative 5' ssDNA interaction site; other site 444450013592 metal binding site 3; metal-binding site 444450013593 metal binding site 2 [ion binding]; metal-binding site 444450013594 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 444450013595 putative DNA binding site [nucleotide binding]; other site 444450013596 putative metal binding site [ion binding]; other site 444450013597 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 444450013598 active site 444450013599 catalytic site [active] 444450013600 substrate binding site [chemical binding]; other site 444450013601 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 444450013602 active site 444450013603 DNA binding site [nucleotide binding] 444450013604 catalytic site [active] 444450013605 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 444450013606 G1 box; other site 444450013607 GTP/Mg2+ binding site [chemical binding]; other site 444450013608 Switch I region; other site 444450013609 G2 box; other site 444450013610 G3 box; other site 444450013611 Switch II region; other site 444450013612 G4 box; other site 444450013613 G5 box; other site 444450013614 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3078 444450013615 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 444450013616 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 444450013617 FeS/SAM binding site; other site 444450013618 HemN C-terminal domain; Region: HemN_C; pfam06969 444450013619 nitrogen regulation protein NR(I); Provisional; Region: glnG; PRK10923 444450013620 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 444450013621 active site 444450013622 phosphorylation site [posttranslational modification] 444450013623 intermolecular recognition site; other site 444450013624 dimerization interface [polypeptide binding]; other site 444450013625 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 444450013626 Walker A motif; other site 444450013627 ATP binding site [chemical binding]; other site 444450013628 Walker B motif; other site 444450013629 arginine finger; other site 444450013630 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 444450013631 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 444450013632 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 444450013633 putative active site [active] 444450013634 heme pocket [chemical binding]; other site 444450013635 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 444450013636 dimer interface [polypeptide binding]; other site 444450013637 phosphorylation site [posttranslational modification] 444450013638 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 444450013639 ATP binding site [chemical binding]; other site 444450013640 Mg2+ binding site [ion binding]; other site 444450013641 G-X-G motif; other site 444450013642 glutamine synthetase; Provisional; Region: glnA; PRK09469 444450013643 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 444450013644 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 444450013645 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 444450013646 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 444450013647 G1 box; other site 444450013648 putative GEF interaction site [polypeptide binding]; other site 444450013649 GTP/Mg2+ binding site [chemical binding]; other site 444450013650 Switch I region; other site 444450013651 G2 box; other site 444450013652 G3 box; other site 444450013653 Switch II region; other site 444450013654 G4 box; other site 444450013655 G5 box; other site 444450013656 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 444450013657 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 444450013658 transcriptional regulator protein; Region: phnR; TIGR03337 444450013659 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 444450013660 DNA-binding site [nucleotide binding]; DNA binding site 444450013661 UTRA domain; Region: UTRA; pfam07702 444450013662 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 444450013663 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 444450013664 putative substrate translocation pore; other site 444450013665 Major Facilitator Superfamily; Region: MFS_1; pfam07690 444450013666 outer membrane porin L; Provisional; Region: ompL; PRK09980 444450013667 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 444450013668 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 444450013669 putative substrate translocation pore; other site 444450013670 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 444450013671 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 444450013672 alpha-glucosidase; Provisional; Region: PRK10426 444450013673 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 444450013674 YihQ is a bacterial alpha-glucosidase with a conserved glycosyl hydrolase family 31 (GH31) domain that catalyzes the release of an alpha-glucosyl residue from the non-reducing end of alpha-glucoside substrates such as alpha-glucosyl fluoride. Orthologs...; Region: GH31_glucosidase_YihQ; cd06594 444450013675 putative active site [active] 444450013676 putative catalytic site [active] 444450013677 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 444450013678 Aldose 1-epimerase, similar to Escherichia coli YihR; Region: Aldose_epim_Ec_YihR; cd09022 444450013679 active site 444450013680 catalytic residues [active] 444450013681 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; cd00249 444450013682 dimerization interface [polypeptide binding]; other site 444450013683 putative active cleft [active] 444450013684 Tagatose-1,6-bisphosphate aldolase [Carbohydrate transport and metabolism]; Region: LacD; COG3684 444450013685 catalytic residue [active] 444450013686 NADH-dependent gamma-hydroxybutyrate dehydrogenase; Provisional; Region: PRK15461 444450013687 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 444450013688 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 444450013689 Ribokinase-like subgroup B. Found in bacteria and plants, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_B; cd01945 444450013690 substrate binding site [chemical binding]; other site 444450013691 ATP binding site [chemical binding]; other site 444450013692 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 444450013693 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 444450013694 putative DNA binding site [nucleotide binding]; other site 444450013695 putative Zn2+ binding site [ion binding]; other site 444450013696 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 444450013697 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 444450013698 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 444450013699 motif II; other site 444450013700 hypothetical protein; Reviewed; Region: PRK01637 444450013701 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 444450013702 putative active site [active] 444450013703 dimerization interface [polypeptide binding]; other site 444450013704 putative tRNAtyr binding site [nucleotide binding]; other site 444450013705 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 444450013706 Coenzyme A binding pocket [chemical binding]; other site 444450013707 Putative thioesterase (yiiD_Cterm); Region: YiiD_Cterm; pfam09500 444450013708 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 444450013709 formate dehydrogenase accessory protein FdhE; Provisional; Region: PRK03564 444450013710 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 444450013711 formate dehydrogenase-O subunit gamma; Provisional; Region: PRK10639 444450013712 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 444450013713 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 444450013714 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 444450013715 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 444450013716 Protein of unknown function (DUF3829); Region: DUF3829; pfam12889 444450013717 putative frv operon regulatory protein; Provisional; Region: PRK09863 444450013718 HTH domain; Region: HTH_11; pfam08279 444450013719 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 444450013720 active site 444450013721 phosphorylation site [posttranslational modification] 444450013722 putative peptidase; Provisional; Region: PRK09864 444450013723 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 444450013724 oligomer interface [polypeptide binding]; other site 444450013725 active site 444450013726 metal binding site [ion binding]; metal-binding site 444450013727 putative PTS system transporter subunits IIBC; Provisional; Region: PRK11404 444450013728 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 444450013729 active site 444450013730 P-loop; other site 444450013731 phosphorylation site [posttranslational modification] 444450013732 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 444450013733 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 444450013734 active site 444450013735 phosphorylation site [posttranslational modification] 444450013736 L-rhamnose 1-epimerase; Region: YiiL_rotase; TIGR02625 444450013737 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cd00398 444450013738 intersubunit interface [polypeptide binding]; other site 444450013739 active site 444450013740 Zn2+ binding site [ion binding]; other site 444450013741 L-rhamnose isomerase; Provisional; Region: PRK01076 444450013742 Predicted sugar isomerase [Cell envelope biogenesis, outer membrane]; Region: COG4952; cl17900 444450013743 L-rhamnulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_RhuK; cd07771 444450013744 N- and C-terminal domain interface [polypeptide binding]; other site 444450013745 active site 444450013746 putative catalytic site [active] 444450013747 metal binding site [ion binding]; metal-binding site 444450013748 ATP binding site [chemical binding]; other site 444450013749 rhamnulokinase; Provisional; Region: rhaB; PRK10640 444450013750 carbohydrate binding site [chemical binding]; other site 444450013751 transcriptional activator RhaS; Provisional; Region: PRK13503 444450013752 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 444450013753 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 444450013754 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 444450013755 transcriptional activator RhaR; Provisional; Region: PRK13500 444450013756 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 444450013757 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 444450013758 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 444450013759 superoxide dismutase; Provisional; Region: PRK10925 444450013760 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 444450013761 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 444450013762 2-keto-3-deoxygluconate transporter; Region: kdgT; TIGR00793 444450013763 6-N-hydroxylaminopurine resistance protein; Provisional; Region: PRK11536 444450013764 MOSC domain; Region: MOSC; pfam03473 444450013765 3-alpha domain; Region: 3-alpha; pfam03475 444450013766 two-component sensor protein; Provisional; Region: cpxA; PRK09470 444450013767 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 444450013768 dimerization interface [polypeptide binding]; other site 444450013769 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 444450013770 dimer interface [polypeptide binding]; other site 444450013771 phosphorylation site [posttranslational modification] 444450013772 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 444450013773 ATP binding site [chemical binding]; other site 444450013774 Mg2+ binding site [ion binding]; other site 444450013775 G-X-G motif; other site 444450013776 DNA-binding transcriptional regulator CpxR; Provisional; Region: PRK10955 444450013777 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 444450013778 active site 444450013779 intermolecular recognition site; other site 444450013780 dimerization interface [polypeptide binding]; other site 444450013781 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 444450013782 DNA binding site [nucleotide binding] 444450013783 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 444450013784 dimer interface [polypeptide binding]; other site 444450013785 ferrous iron efflux protein F; Reviewed; Region: fieF; PRK09509 444450013786 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 444450013787 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to a subfamily of the PFKA family (cd00363) and include bacterial ATP-dependent...; Region: Bacterial_PFK; cd00763 444450013788 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 444450013789 active site 444450013790 ADP/pyrophosphate binding site [chemical binding]; other site 444450013791 dimerization interface [polypeptide binding]; other site 444450013792 allosteric effector site; other site 444450013793 fructose-1,6-bisphosphate binding site; other site 444450013794 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 444450013795 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 444450013796 substrate binding pocket [chemical binding]; other site 444450013797 membrane-bound complex binding site; other site 444450013798 hinge residues; other site 444450013799 CDP-diacylglycerol pyrophosphatase, bacterial type; Region: cdh; TIGR00672 444450013800 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 444450013801 triosephosphate isomerase; Provisional; Region: PRK14567 444450013802 substrate binding site [chemical binding]; other site 444450013803 dimer interface [polypeptide binding]; other site 444450013804 catalytic triad [active] 444450013805 Protein of unknown function (DUF1454); Region: DUF1454; pfam07305 444450013806 Predicted membrane protein [Function unknown]; Region: COG3152 444450013807 hypothetical protein; Provisional; Region: PRK09981 444450013808 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 444450013809 Ligand Binding Site [chemical binding]; other site 444450013810 ferredoxin-NADP reductase; Provisional; Region: PRK10926 444450013811 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 444450013812 FAD binding pocket [chemical binding]; other site 444450013813 FAD binding motif [chemical binding]; other site 444450013814 phosphate binding motif [ion binding]; other site 444450013815 beta-alpha-beta structure motif; other site 444450013816 NAD binding pocket [chemical binding]; other site 444450013817 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 444450013818 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 444450013819 putative active site [active] 444450013820 glycerol kinase; Provisional; Region: glpK; PRK00047 444450013821 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 444450013822 N- and C-terminal domain interface [polypeptide binding]; other site 444450013823 active site 444450013824 MgATP binding site [chemical binding]; other site 444450013825 catalytic site [active] 444450013826 metal binding site [ion binding]; metal-binding site 444450013827 glycerol binding site [chemical binding]; other site 444450013828 homotetramer interface [polypeptide binding]; other site 444450013829 homodimer interface [polypeptide binding]; other site 444450013830 FBP binding site [chemical binding]; other site 444450013831 protein IIAGlc interface [polypeptide binding]; other site 444450013832 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 444450013833 amphipathic channel; other site 444450013834 Asn-Pro-Ala signature motifs; other site 444450013835 septal ring assembly protein ZapB; Provisional; Region: PRK15422 444450013836 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 444450013837 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Region: menA; TIGR00751 444450013838 UbiA prenyltransferase family; Region: UbiA; pfam01040 444450013839 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 444450013840 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 444450013841 Walker A motif; other site 444450013842 ATP binding site [chemical binding]; other site 444450013843 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 444450013844 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 444450013845 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 444450013846 active site 444450013847 HslU subunit interaction site [polypeptide binding]; other site 444450013848 essential cell division protein FtsN; Provisional; Region: PRK10927 444450013849 cell division protein FtsN; Provisional; Region: PRK12757 444450013850 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 444450013851 DNA binding site [nucleotide binding] 444450013852 DNA-binding transcriptional regulator CytR; Provisional; Region: PRK11041 444450013853 domain linker motif; other site 444450013854 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 444450013855 dimerization interface [polypeptide binding]; other site 444450013856 ligand binding site [chemical binding]; other site 444450013857 primosome assembly protein PriA; Validated; Region: PRK05580 444450013858 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 444450013859 ATP binding site [chemical binding]; other site 444450013860 putative Mg++ binding site [ion binding]; other site 444450013861 helicase superfamily c-terminal domain; Region: HELICc; smart00490 444450013862 ATP-binding site [chemical binding]; other site 444450013863 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 444450013864 PAAR motif; Region: PAAR_motif; cl15808 444450013865 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 444450013866 RHS Repeat; Region: RHS_repeat; pfam05593 444450013867 RHS Repeat; Region: RHS_repeat; pfam05593 444450013868 RHS Repeat; Region: RHS_repeat; pfam05593 444450013869 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 444450013870 RHS Repeat; Region: RHS_repeat; pfam05593 444450013871 RHS Repeat; Region: RHS_repeat; pfam05593 444450013872 RHS protein; Region: RHS; pfam03527 444450013873 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 444450013874 Domain of unknown function (DUF4329); Region: DUF4329; pfam14220 444450013875 hypothetical protein; Provisional; Region: PRK10030 444450013876 Met Repressor, MetJ. MetJ is a bacterial regulatory protein that uses S-adenosylmethionine (SAM) as a corepressor to regulate the production of Methionine. MetJ binds arrays of two to five adjacent copies of an eight base-pair 'metbox'...; Region: Met_repressor_MetJ; cd00490 444450013877 dimerization interface [polypeptide binding]; other site 444450013878 DNA binding site [nucleotide binding] 444450013879 corepressor binding sites; other site 444450013880 cystathionine gamma-synthase; Provisional; Region: PRK08045 444450013881 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 444450013882 homodimer interface [polypeptide binding]; other site 444450013883 substrate-cofactor binding pocket; other site 444450013884 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444450013885 catalytic residue [active] 444450013886 bifunctional aspartate kinase II/homoserine dehydrogenase II; Provisional; Region: metL; PRK09466 444450013887 AAK_AK-HSDH: Amino Acid Kinase Superfamily (AAK), AK-HSDH; this CD includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK - homoserine dehydrogenase (HSDH). These aspartokinases are found in bacteria (E. coli...; Region: AAK_AK-HSDH; cd04257 444450013888 putative catalytic residues [active] 444450013889 putative nucleotide binding site [chemical binding]; other site 444450013890 putative aspartate binding site [chemical binding]; other site 444450013891 ACT domains C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase); Region: ACT_AK-like_2; cd04892 444450013892 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 444450013893 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 444450013894 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 444450013895 FAD binding site [chemical binding]; other site 444450013896 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 444450013897 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 444450013898 heme binding site [chemical binding]; other site 444450013899 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 444450013900 EamA-like transporter family; Region: EamA; pfam00892 444450013901 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 444450013902 EamA-like transporter family; Region: EamA; pfam00892 444450013903 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3738 444450013904 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 444450013905 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 444450013906 dimer interface [polypeptide binding]; other site 444450013907 active site 444450013908 metal binding site [ion binding]; metal-binding site 444450013909 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 444450013910 active site 444450013911 intersubunit interactions; other site 444450013912 catalytic residue [active] 444450013913 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 444450013914 dimerization domain swap beta strand [polypeptide binding]; other site 444450013915 regulatory protein interface [polypeptide binding]; other site 444450013916 active site 444450013917 regulatory phosphorylation site [posttranslational modification]; other site 444450013918 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 444450013919 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 444450013920 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 444450013921 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 444450013922 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 444450013923 active site 444450013924 phosphorylation site [posttranslational modification] 444450013925 putative PTS system fructose-like transporter subunit EIIC; Provisional; Region: PRK10478 444450013926 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 444450013927 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 444450013928 active site 444450013929 P-loop; other site 444450013930 phosphorylation site [posttranslational modification] 444450013931 putative formate acetyltransferase 2; Provisional; Region: pflD; PRK09983 444450013932 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 444450013933 dimer interface [polypeptide binding]; other site 444450013934 active site 444450013935 glycine loop; other site 444450013936 pyruvate formate lyase II activase; Provisional; Region: PRK10076 444450013937 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 444450013938 active site 444450013939 P-loop; other site 444450013940 phosphorylation site [posttranslational modification] 444450013941 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 444450013942 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 444450013943 hypothetical protein; Provisional; Region: PRK10649 444450013944 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 444450013945 Sulfatase; Region: Sulfatase; pfam00884 444450013946 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 444450013947 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 444450013948 acetylornithine deacetylase; Provisional; Region: PRK05111 444450013949 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 444450013950 metal binding site [ion binding]; metal-binding site 444450013951 putative dimer interface [polypeptide binding]; other site 444450013952 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 444450013953 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 444450013954 AAK_NAGK-NC: N-Acetyl-L-glutamate kinase - noncyclic (NAGK-NC) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of microbial arginine biosynthesis using the acetylated, noncyclic route of...; Region: AAK_NAGK-NC; cd04249 444450013955 nucleotide binding site [chemical binding]; other site 444450013956 N-acetyl-L-glutamate binding site [chemical binding]; other site 444450013957 argininosuccinate lyase; Provisional; Region: PRK04833 444450013958 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 444450013959 active sites [active] 444450013960 tetramer interface [polypeptide binding]; other site 444450013961 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 444450013962 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 444450013963 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 444450013964 dimerization interface [polypeptide binding]; other site 444450013965 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 444450013966 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 444450013967 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 444450013968 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 444450013969 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 444450013970 metal binding site [ion binding]; metal-binding site 444450013971 putative dimer interface [polypeptide binding]; other site 444450013972 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 444450013973 metabolite-proton symporter; Region: 2A0106; TIGR00883 444450013974 putative substrate translocation pore; other site 444450013975 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 444450013976 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 444450013977 hypothetical protein; Provisional; Region: PRK11056 444450013978 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 444450013979 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 444450013980 S-adenosylmethionine binding site [chemical binding]; other site 444450013981 vitamin B12/cobalamin outer membrane transporter; Provisional; Region: btuB; PRK10641 444450013982 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 444450013983 N-terminal plug; other site 444450013984 ligand-binding site [chemical binding]; other site 444450013985 glutamate racemase; Provisional; Region: PRK00865 444450013986 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 444450013987 FAD binding domain; Region: FAD_binding_4; pfam01565 444450013988 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 444450013989 Biotin operon repressor [Transcription]; Region: BirA; COG1654 444450013990 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 444450013991 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 444450013992 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 444450013993 pantothenate kinase; Provisional; Region: PRK05439 444450013994 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point...; Region: PanK; cd02025 444450013995 ATP-binding site [chemical binding]; other site 444450013996 CoA-binding site [chemical binding]; other site 444450013997 Mg2+-binding site [ion binding]; other site 444450013998 elongation factor Tu; Reviewed; Region: PRK00049 444450013999 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 444450014000 G1 box; other site 444450014001 GEF interaction site [polypeptide binding]; other site 444450014002 GTP/Mg2+ binding site [chemical binding]; other site 444450014003 Switch I region; other site 444450014004 G2 box; other site 444450014005 G3 box; other site 444450014006 Switch II region; other site 444450014007 G4 box; other site 444450014008 G5 box; other site 444450014009 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 444450014010 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 444450014011 Antibiotic Binding Site [chemical binding]; other site 444450014012 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 444450014013 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 444450014014 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 444450014015 putative homodimer interface [polypeptide binding]; other site 444450014016 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 444450014017 heterodimer interface [polypeptide binding]; other site 444450014018 homodimer interface [polypeptide binding]; other site 444450014019 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 444450014020 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 444450014021 23S rRNA interface [nucleotide binding]; other site 444450014022 L7/L12 interface [polypeptide binding]; other site 444450014023 putative thiostrepton binding site; other site 444450014024 L25 interface [polypeptide binding]; other site 444450014025 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 444450014026 mRNA/rRNA interface [nucleotide binding]; other site 444450014027 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 444450014028 23S rRNA interface [nucleotide binding]; other site 444450014029 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 444450014030 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 444450014031 core dimer interface [polypeptide binding]; other site 444450014032 peripheral dimer interface [polypeptide binding]; other site 444450014033 L10 interface [polypeptide binding]; other site 444450014034 L11 interface [polypeptide binding]; other site 444450014035 putative EF-Tu interaction site [polypeptide binding]; other site 444450014036 putative EF-G interaction site [polypeptide binding]; other site 444450014037 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 444450014038 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 444450014039 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 444450014040 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 444450014041 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 444450014042 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 444450014043 RPB3 interaction site [polypeptide binding]; other site 444450014044 RPB1 interaction site [polypeptide binding]; other site 444450014045 RPB11 interaction site [polypeptide binding]; other site 444450014046 RPB10 interaction site [polypeptide binding]; other site 444450014047 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 444450014048 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 444450014049 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 444450014050 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 444450014051 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 444450014052 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 444450014053 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 444450014054 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 444450014055 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 444450014056 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 444450014057 DNA binding site [nucleotide binding] 444450014058 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 444450014059 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 444450014060 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 444450014061 FeS/SAM binding site; other site 444450014062 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 444450014063 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 444450014064 ThiS interaction site; other site 444450014065 putative active site [active] 444450014066 tetramer interface [polypeptide binding]; other site 444450014067 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 444450014068 thiS-thiF/thiG interaction site; other site 444450014069 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 444450014070 thiazole biosynthesis adenylyltransferase ThiF, E. coli subfamily; Region: adenyl_thiF; TIGR02356 444450014071 ATP binding site [chemical binding]; other site 444450014072 substrate interface [chemical binding]; other site 444450014073 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 444450014074 thiamine phosphate binding site [chemical binding]; other site 444450014075 active site 444450014076 pyrophosphate binding site [ion binding]; other site 444450014077 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 444450014078 ThiC-associated domain; Region: ThiC-associated; pfam13667 444450014079 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 444450014080 Regulator of sigma D [Transcription]; Region: Rsd; COG3160 444450014081 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 444450014082 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 444450014083 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 444450014084 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 444450014085 putative NADH binding site [chemical binding]; other site 444450014086 putative active site [active] 444450014087 nudix motif; other site 444450014088 putative metal binding site [ion binding]; other site 444450014089 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 444450014090 substrate binding site [chemical binding]; other site 444450014091 active site 444450014092 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 444450014093 Active_site [active] 444450014094 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3068 444450014095 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 444450014096 IHF dimer interface [polypeptide binding]; other site 444450014097 IHF - DNA interface [nucleotide binding]; other site 444450014098 Protein of unknown function (DUF1481); Region: DUF1481; pfam07356 444450014099 zinc resistance protein; Provisional; Region: zraP; PRK11546 444450014100 dimer interface [polypeptide binding]; other site 444450014101 sensor protein ZraS; Provisional; Region: PRK10364 444450014102 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 444450014103 dimer interface [polypeptide binding]; other site 444450014104 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 444450014105 ATP binding site [chemical binding]; other site 444450014106 Mg2+ binding site [ion binding]; other site 444450014107 G-X-G motif; other site 444450014108 transcriptional regulatory protein ZraR; Provisional; Region: PRK10365 444450014109 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 444450014110 active site 444450014111 phosphorylation site [posttranslational modification] 444450014112 intermolecular recognition site; other site 444450014113 dimerization interface [polypeptide binding]; other site 444450014114 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 444450014115 Walker A motif; other site 444450014116 ATP binding site [chemical binding]; other site 444450014117 Walker B motif; other site 444450014118 arginine finger; other site 444450014119 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 444450014120 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 444450014121 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 444450014122 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 444450014123 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 444450014124 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 444450014125 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 444450014126 purine monophosphate binding site [chemical binding]; other site 444450014127 dimer interface [polypeptide binding]; other site 444450014128 putative catalytic residues [active] 444450014129 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 444450014130 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 444450014131 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 444450014132 Coenzyme A binding pocket [chemical binding]; other site 444450014133 homoserine O-succinyltransferase; Provisional; Region: PRK05368 444450014134 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 444450014135 proposed active site lysine [active] 444450014136 conserved cys residue [active] 444450014137 Malate synthase A (MSA), present in some bacteria, plants and fungi. Prokaryotic MSAs tend to be monomeric, whereas eukaryotic enzymes are homomultimers. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to...; Region: malate_synt_A; cd00727 444450014138 malate synthase A; Region: malate_syn_A; TIGR01344 444450014139 active site 444450014140 isocitrate lyase; Provisional; Region: PRK15063 444450014141 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 444450014142 tetramer interface [polypeptide binding]; other site 444450014143 active site 444450014144 Mg2+/Mn2+ binding site [ion binding]; other site 444450014145 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 444450014146 bifunctional isocitrate dehydrogenase kinase/phosphatase protein; Validated; Region: aceK; PRK02946 444450014147 ShET2 enterotoxin, N-terminal region; Region: Toxin_15; pfam07906 444450014148 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 444450014149 transcriptional repressor IclR; Provisional; Region: PRK11569 444450014150 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 444450014151 Bacterial transcriptional regulator; Region: IclR; pfam01614 444450014152 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 444450014153 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 444450014154 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 444450014155 substrate binding pocket [chemical binding]; other site 444450014156 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 444450014157 B12 binding site [chemical binding]; other site 444450014158 cobalt ligand [ion binding]; other site 444450014159 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 444450014160 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 444450014161 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 444450014162 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 444450014163 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 444450014164 active site pocket [active] 444450014165 oxyanion hole [active] 444450014166 catalytic triad [active] 444450014167 active site nucleophile [active] 444450014168 L-sorbose-1-phosphate reductase; Region: sorbose_phosphate_red; cd08238 444450014169 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 444450014170 putative NAD(P) binding site [chemical binding]; other site 444450014171 catalytic Zn binding site [ion binding]; other site 444450014172 PTS system, mannose/fructose/sorbose family, IID component; Region: EIID-AGA; TIGR00828 444450014173 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 444450014174 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 444450014175 active pocket/dimerization site; other site 444450014176 active site 444450014177 phosphorylation site [posttranslational modification] 444450014178 sorbitol-6-phosphate 2-dehydrogenase; Provisional; Region: PRK06171 444450014179 classical (c) SDRs; Region: SDR_c; cd05233 444450014180 NAD(P) binding site [chemical binding]; other site 444450014181 active site 444450014182 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 444450014183 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 444450014184 putative DNA binding site [nucleotide binding]; other site 444450014185 putative Zn2+ binding site [ion binding]; other site 444450014186 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 444450014187 23S rRNA pseudouridine synthase F; Provisional; Region: PRK10475 444450014188 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 444450014189 RNA binding surface [nucleotide binding]; other site 444450014190 Pseudouridine synthase, Escherichia coli RluF like; Region: PseudoU_synth_RluF; cd02554 444450014191 probable active site [active] 444450014192 hypothetical protein; Provisional; Region: PRK10515 444450014193 aspartate kinase III; Validated; Region: PRK09084 444450014194 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 444450014195 nucleotide binding site [chemical binding]; other site 444450014196 substrate binding site [chemical binding]; other site 444450014197 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_1; cd04932 444450014198 lysine allosteric regulatory site; other site 444450014199 dimer interface [polypeptide binding]; other site 444450014200 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 444450014201 dimer interface [polypeptide binding]; other site 444450014202 Lysine riboswitch 444450014203 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 444450014204 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 444450014205 active site 444450014206 dimer interface [polypeptide binding]; other site 444450014207 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 444450014208 dimer interface [polypeptide binding]; other site 444450014209 active site 444450014210 Protein of unknown function (DUF2886); Region: DUF2886; pfam11102 444450014211 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 444450014212 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 444450014213 phosphate-starvation-inducible protein PsiE; Provisional; Region: PRK02833 444450014214 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 444450014215 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 444450014216 putative substrate translocation pore; other site 444450014217 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 444450014218 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 444450014219 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 444450014220 dimer interface [polypeptide binding]; other site 444450014221 conserved gate region; other site 444450014222 putative PBP binding loops; other site 444450014223 ABC-ATPase subunit interface; other site 444450014224 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 444450014225 dimer interface [polypeptide binding]; other site 444450014226 conserved gate region; other site 444450014227 putative PBP binding loops; other site 444450014228 ABC-ATPase subunit interface; other site 444450014229 maltose ABC transporter periplasmic protein; Reviewed; Region: malE; PRK09474 444450014230 Domain of unknown function (DUF4179); Region: DUF4179; pfam13786 444450014231 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 444450014232 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 444450014233 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 444450014234 Walker A/P-loop; other site 444450014235 ATP binding site [chemical binding]; other site 444450014236 Q-loop/lid; other site 444450014237 ABC transporter signature motif; other site 444450014238 Walker B; other site 444450014239 D-loop; other site 444450014240 H-loop/switch region; other site 444450014241 TOBE domain; Region: TOBE_2; pfam08402 444450014242 The Maltoporin-like channels (LamB porin) form a trimeric structure which facilitate the diffusion of maltodextrins and other sugars across the outer membrane of Gram-negative bacteria. The membrane channel is formed by an 18-strand antiparallel...; Region: Maltoporin-like; cd01346 444450014243 trimer interface; other site 444450014244 sugar binding site [chemical binding]; other site 444450014245 maltose regulon periplasmic protein; Provisional; Region: PRK10564 444450014246 hypothetical protein; Validated; Region: PRK09718 444450014247 SopA-like central domain; Region: SopA; pfam13981 444450014248 chorismate pyruvate lyase; Provisional; Region: ubiC; PRK11655 444450014249 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 444450014250 UbiA prenyltransferase family; Region: UbiA; pfam01040 444450014251 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 444450014252 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 444450014253 putative acyl-acceptor binding pocket; other site 444450014254 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 444450014255 LexA repressor; Validated; Region: PRK00215 444450014256 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 444450014257 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 444450014258 Catalytic site [active] 444450014259 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 444450014260 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 444450014261 hypothetical protein; Provisional; Region: PRK10428 444450014262 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 444450014263 metal binding site 2 [ion binding]; metal-binding site 444450014264 putative DNA binding helix; other site 444450014265 metal binding site 1 [ion binding]; metal-binding site 444450014266 dimer interface [polypeptide binding]; other site 444450014267 structural Zn2+ binding site [ion binding]; other site 444450014268 Protein of unknown function (DUF2713); Region: DUF2713; pfam10897 444450014269 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 444450014270 Pyocin activator protein PrtN; Region: PyocinActivator; pfam11112 444450014271 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 444450014272 Predicted hydrolases of HD superfamily [General function prediction only]; Region: COG1896 444450014273 Uncharacterized conserved protein (DUF2303); Region: DUF2303; cl02338 444450014274 Fibronectin type III protein; Region: DUF3672; pfam12421 444450014275 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 444450014276 Putative prophage tail fibre C-terminus; Region: Phage_fiber_C; pfam06820 444450014277 Putative prophage tail fibre C-terminus; Region: Phage_fiber_C; pfam06820 444450014278 Protein of unknown function (DUF1076); Region: DUF1076; pfam06416 444450014279 Protein of unknown function (DUF1076); Region: DUF1076; pfam06416 444450014280 Protein of unknown function (DUF1076); Region: DUF1076; pfam06416 444450014281 DinI-like family; Region: DinI; pfam06183 444450014282 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 444450014283 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 444450014284 active site 444450014285 DNA binding site [nucleotide binding] 444450014286 Int/Topo IB signature motif; other site 444450014287 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 444450014288 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 444450014289 FMN binding site [chemical binding]; other site 444450014290 active site 444450014291 catalytic residues [active] 444450014292 substrate binding site [chemical binding]; other site 444450014293 phage shock protein G; Reviewed; Region: pspG; PRK09459 444450014294 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 444450014295 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 444450014296 NADP binding site [chemical binding]; other site 444450014297 dimer interface [polypeptide binding]; other site 444450014298 replicative DNA helicase; Provisional; Region: PRK08006 444450014299 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 444450014300 DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a...; Region: DnaB_C; cd00984 444450014301 Walker A motif; other site 444450014302 ATP binding site [chemical binding]; other site 444450014303 Walker B motif; other site 444450014304 DNA binding loops [nucleotide binding] 444450014305 alanine racemase; Reviewed; Region: alr; PRK00053 444450014306 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 444450014307 active site 444450014308 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 444450014309 substrate binding site [chemical binding]; other site 444450014310 catalytic residues [active] 444450014311 dimer interface [polypeptide binding]; other site 444450014312 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 444450014313 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 444450014314 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444450014315 homodimer interface [polypeptide binding]; other site 444450014316 catalytic residue [active] 444450014317 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 444450014318 active site 444450014319 motif I; other site 444450014320 motif II; other site 444450014321 secondary thiamine-phosphate synthase enzyme; Region: TIGR00149_YjbQ 444450014322 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 444450014323 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 444450014324 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 444450014325 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 444450014326 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 444450014327 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 444450014328 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 444450014329 dimer interface [polypeptide binding]; other site 444450014330 ssDNA binding site [nucleotide binding]; other site 444450014331 tetramer (dimer of dimers) interface [polypeptide binding]; other site 444450014332 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 444450014333 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 444450014334 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 444450014335 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 444450014336 DNA-binding transcriptional regulator SoxS; Provisional; Region: PRK10219 444450014337 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 444450014338 redox-sensitivie transcriptional activator SoxR; Provisional; Region: PRK15002 444450014339 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 444450014340 DNA binding residues [nucleotide binding] 444450014341 dimer interface [polypeptide binding]; other site 444450014342 [2Fe-2S] cluster binding site [ion binding]; other site 444450014343 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 444450014344 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 444450014345 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 444450014346 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 444450014347 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 444450014348 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 444450014349 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 444450014350 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 444450014351 Na binding site [ion binding]; other site 444450014352 Predicted membrane protein [Function unknown]; Region: COG3162 444450014353 acetyl-CoA synthetase; Provisional; Region: PRK00174 444450014354 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 444450014355 active site 444450014356 CoA binding site [chemical binding]; other site 444450014357 acyl-activating enzyme (AAE) consensus motif; other site 444450014358 AMP binding site [chemical binding]; other site 444450014359 acetate binding site [chemical binding]; other site 444450014360 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 444450014361 cytochrome c nitrite reductase pentaheme subunit; Provisional; Region: PRK11659 444450014362 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 444450014363 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 444450014364 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 444450014365 heme lyase subunit NrfE; Provisional; Region: PRK10369 444450014366 formate-dependent nitrite reductase complex subunit NrfF; Provisional; Region: PRK10144 444450014367 formate-dependent nitrite reductase complex subunit NrfG; Provisional; Region: PRK10370 444450014368 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 444450014369 binding surface 444450014370 TPR motif; other site 444450014371 glutamate/aspartate:proton symporter; Provisional; Region: gltP; PRK11283 444450014372 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 444450014373 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 444450014374 Sel1-like repeats; Region: SEL1; smart00671 444450014375 putative outer membrane efflux protein MdtP; Provisional; Region: PRK09915 444450014376 multidrug efflux system protein MdtO; Provisional; Region: PRK11427 444450014377 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 444450014378 multidrug resistance protein MdtN; Provisional; Region: PRK10476 444450014379 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 444450014380 HlyD family secretion protein; Region: HlyD_3; pfam13437 444450014381 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 444450014382 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 444450014383 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 444450014384 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 444450014385 active site 444450014386 phosphorylation site [posttranslational modification] 444450014387 intermolecular recognition site; other site 444450014388 dimerization interface [polypeptide binding]; other site 444450014389 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 444450014390 DNA binding site [nucleotide binding] 444450014391 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 444450014392 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 444450014393 substrate binding site [chemical binding]; other site 444450014394 ATP binding site [chemical binding]; other site 444450014395 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 444450014396 intersubunit interface [polypeptide binding]; other site 444450014397 active site 444450014398 zinc binding site [ion binding]; other site 444450014399 Na+ binding site [ion binding]; other site 444450014400 Protein of unknown function (DUF1498); Region: DUF1498; pfam07385 444450014401 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_11; cd06321 444450014402 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 444450014403 putative ligand binding site [chemical binding]; other site 444450014404 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 444450014405 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 444450014406 TM-ABC transporter signature motif; other site 444450014407 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 444450014408 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 444450014409 Walker A/P-loop; other site 444450014410 ATP binding site [chemical binding]; other site 444450014411 Q-loop/lid; other site 444450014412 ABC transporter signature motif; other site 444450014413 Walker B; other site 444450014414 D-loop; other site 444450014415 H-loop/switch region; other site 444450014416 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 444450014417 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 444450014418 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 444450014419 dimerization interface [polypeptide binding]; other site 444450014420 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 444450014421 dimer interface [polypeptide binding]; other site 444450014422 phosphorylation site [posttranslational modification] 444450014423 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 444450014424 ATP binding site [chemical binding]; other site 444450014425 Mg2+ binding site [ion binding]; other site 444450014426 G-X-G motif; other site 444450014427 Response regulator receiver domain; Region: Response_reg; pfam00072 444450014428 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 444450014429 active site 444450014430 phosphorylation site [posttranslational modification] 444450014431 intermolecular recognition site; other site 444450014432 dimerization interface [polypeptide binding]; other site 444450014433 carbon-phosphorus lyase complex accessory protein; Provisional; Region: phnP; PRK11244 444450014434 putative hydrolase; Provisional; Region: PRK02113 444450014435 ribose 1,5-bisphosphokinase; Provisional; Region: PRK10078 444450014436 AAA domain; Region: AAA_18; pfam13238 444450014437 active site 444450014438 Metal-dependent hydrolase involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: COG3454 444450014439 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 444450014440 PhnM is believed to be a subunit of the membrane associated C-P lyase complex. C-P lyase is thought to catalyze the direct cleavage of inactivated C-P bonds to yield inorganic phosphate and the corresponding hydrocarbons. It is responsible for cleavage...; Region: PhnM; cd01306 444450014441 active site 444450014442 ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PhnL; COG4778 444450014443 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 444450014444 Walker A/P-loop; other site 444450014445 ATP binding site [chemical binding]; other site 444450014446 Q-loop/lid; other site 444450014447 ABC transporter signature motif; other site 444450014448 Walker B; other site 444450014449 D-loop; other site 444450014450 H-loop/switch region; other site 444450014451 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 444450014452 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 444450014453 Walker A/P-loop; other site 444450014454 ATP binding site [chemical binding]; other site 444450014455 Q-loop/lid; other site 444450014456 ABC transporter signature motif; other site 444450014457 Walker B; other site 444450014458 D-loop; other site 444450014459 H-loop/switch region; other site 444450014460 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 444450014461 Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnJ; COG3627 444450014462 Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnI; COG3626 444450014463 Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnH; COG3625 444450014464 Phosphonate metabolism protein PhnG; Region: PhnG; pfam06754 444450014465 phosphonate metabolism transcriptional regulator PhnF; Provisional; Region: PRK10079 444450014466 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 444450014467 DNA-binding site [nucleotide binding]; DNA binding site 444450014468 UTRA domain; Region: UTRA; pfam07702 444450014469 ABC-type phosphate/phosphonate transport system, permease component [Inorganic ion transport and metabolism]; Region: COG3639 444450014470 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 444450014471 dimer interface [polypeptide binding]; other site 444450014472 conserved gate region; other site 444450014473 putative PBP binding loops; other site 444450014474 ABC-ATPase subunit interface; other site 444450014475 phosphonate ABC transporter, periplasmic phosphonate binding protein; Region: PhnD; TIGR03431 444450014476 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 444450014477 substrate binding pocket [chemical binding]; other site 444450014478 membrane-bound complex binding site; other site 444450014479 hinge residues; other site 444450014480 phosphonate/organophosphate ester transporter subunit; Provisional; Region: PRK09984 444450014481 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 444450014482 Walker A/P-loop; other site 444450014483 ATP binding site [chemical binding]; other site 444450014484 Q-loop/lid; other site 444450014485 ABC transporter signature motif; other site 444450014486 Walker B; other site 444450014487 D-loop; other site 444450014488 H-loop/switch region; other site 444450014489 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 444450014490 dimer interface [polypeptide binding]; other site 444450014491 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 444450014492 hypothetical protein; Provisional; Region: PRK10220 444450014493 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 444450014494 PhnA protein; Region: PhnA; pfam03831 444450014495 hypothetical protein; Provisional; Region: PRK09866 444450014496 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 444450014497 G1 box; other site 444450014498 GTP/Mg2+ binding site [chemical binding]; other site 444450014499 G2 box; other site 444450014500 Switch I region; other site 444450014501 G3 box; other site 444450014502 Switch II region; other site 444450014503 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 444450014504 G2 box; other site 444450014505 Switch I region; other site 444450014506 G3 box; other site 444450014507 Switch II region; other site 444450014508 G4 box; other site 444450014509 G5 box; other site 444450014510 YjcZ-like protein; Region: YjcZ; pfam13990 444450014511 proline/glycine betaine transporter; Provisional; Region: PRK10642 444450014512 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 444450014513 putative substrate translocation pore; other site 444450014514 Osmosensory transporter coiled coil; Region: Osmo_CC; pfam08946 444450014515 sensor protein BasS/PmrB; Provisional; Region: PRK10755 444450014516 HAMP domain; Region: HAMP; pfam00672 444450014517 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 444450014518 dimer interface [polypeptide binding]; other site 444450014519 phosphorylation site [posttranslational modification] 444450014520 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 444450014521 ATP binding site [chemical binding]; other site 444450014522 Mg2+ binding site [ion binding]; other site 444450014523 G-X-G motif; other site 444450014524 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 444450014525 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 444450014526 active site 444450014527 phosphorylation site [posttranslational modification] 444450014528 intermolecular recognition site; other site 444450014529 dimerization interface [polypeptide binding]; other site 444450014530 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 444450014531 DNA binding site [nucleotide binding] 444450014532 putative metal dependent hydrolase; Provisional; Region: PRK11598 444450014533 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 444450014534 Sulfatase; Region: Sulfatase; pfam00884 444450014535 arginine:agmatin antiporter; Provisional; Region: PRK10644 444450014536 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 444450014537 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 444450014538 arginine decarboxylase; Provisional; Region: PRK15029 444450014539 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 444450014540 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 444450014541 homodimer interface [polypeptide binding]; other site 444450014542 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444450014543 catalytic residue [active] 444450014544 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 444450014545 DNA-binding transcriptional regulator MelR; Provisional; Region: PRK10371 444450014546 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 444450014547 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 444450014548 alpha-galactosidase; Provisional; Region: PRK15076 444450014549 Glycoside Hydrolases Family 4; Alpha-glucosidases and alpha-galactosidases; Region: GH4_alpha_glucosidase_galactosidase; cd05297 444450014550 NAD binding site [chemical binding]; other site 444450014551 sugar binding site [chemical binding]; other site 444450014552 divalent metal binding site [ion binding]; other site 444450014553 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 444450014554 dimer interface [polypeptide binding]; other site 444450014555 melibiose:sodium symporter; Provisional; Region: PRK10429 444450014556 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 444450014557 hypothetical protein; Provisional; Region: PRK09867 444450014558 fumarate hydratase; Provisional; Region: PRK15389 444450014559 Tartrate dehydratase alpha subunit/Fumarate hydratase class I, N-terminal domain [Energy production and conversion]; Region: TtdA; COG1951 444450014560 Fumarase C-terminus; Region: Fumerase_C; pfam05683 444450014561 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 444450014562 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK12489 444450014563 DNA-binding transcriptional activator DcuR; Provisional; Region: PRK10430 444450014564 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 444450014565 active site 444450014566 phosphorylation site [posttranslational modification] 444450014567 intermolecular recognition site; other site 444450014568 dimerization interface [polypeptide binding]; other site 444450014569 Transcriptional regulator; Region: CitT; pfam12431 444450014570 sensory histidine kinase DcuS; Provisional; Region: PRK11086 444450014571 PAS domain; Region: PAS; smart00091 444450014572 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 444450014573 ATP binding site [chemical binding]; other site 444450014574 Mg2+ binding site [ion binding]; other site 444450014575 G-X-G motif; other site 444450014576 Uncharacterized conserved protein [Function unknown]; Region: COG3592 444450014577 Predicted acetyltransferase [General function prediction only]; Region: COG2388 444450014578 Protein of unknown function (DUF2622); Region: DUF2622; pfam11080 444450014579 Protein of unknown function (DUF2566); Region: DUF2566; pfam10753 444450014580 lysyl-tRNA synthetase; Reviewed; Region: PRK12445 444450014581 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 444450014582 dimer interface [polypeptide binding]; other site 444450014583 putative anticodon binding site; other site 444450014584 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 444450014585 motif 1; other site 444450014586 active site 444450014587 motif 2; other site 444450014588 motif 3; other site 444450014589 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 444450014590 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 444450014591 putative substrate translocation pore; other site 444450014592 POT family; Region: PTR2; pfam00854 444450014593 lysine decarboxylase CadA; Provisional; Region: PRK15400 444450014594 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 444450014595 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 444450014596 homodimer interface [polypeptide binding]; other site 444450014597 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444450014598 catalytic residue [active] 444450014599 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 444450014600 lysine/cadaverine antiporter; Provisional; Region: cadB; PRK10435 444450014601 DNA-binding transcriptional activator CadC; Provisional; Region: PRK10153 444450014602 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 444450014603 DNA binding site [nucleotide binding] 444450014604 putative transcriptional regulator; Provisional; Region: PRK11640 444450014605 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 444450014606 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 444450014607 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 444450014608 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 444450014609 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 444450014610 DsbD alpha interface [polypeptide binding]; other site 444450014611 catalytic residues [active] 444450014612 divalent-cation tolerance protein CutA; Provisional; Region: PRK10645 444450014613 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 444450014614 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 444450014615 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 444450014616 Aspartase; Region: Aspartase; cd01357 444450014617 active sites [active] 444450014618 tetramer interface [polypeptide binding]; other site 444450014619 putative transporter; Provisional; Region: PRK11021 444450014620 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 444450014621 oligomerisation interface [polypeptide binding]; other site 444450014622 mobile loop; other site 444450014623 roof hairpin; other site 444450014624 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 444450014625 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 444450014626 ring oligomerisation interface [polypeptide binding]; other site 444450014627 ATP/Mg binding site [chemical binding]; other site 444450014628 stacking interactions; other site 444450014629 hinge regions; other site 444450014630 Domain of unknown function (DUF4156); Region: DUF4156; pfam13698 444450014631 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 444450014632 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 444450014633 FeS/SAM binding site; other site 444450014634 elongation factor P; Validated; Region: PRK00529 444450014635 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 444450014636 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 444450014637 RNA binding site [nucleotide binding]; other site 444450014638 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 444450014639 RNA binding site [nucleotide binding]; other site 444450014640 entericidin A; Provisional; Region: PRK09810 444450014641 entericidin B membrane lipoprotein; Provisional; Region: PRK10081 444450014642 multidrug efflux system protein; Provisional; Region: PRK11431 444450014643 Bacterial lipocalin [Cell envelope biogenesis, outer membrane]; Region: Blc; COG3040 444450014644 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 444450014645 beta-lactamase/D-alanine carboxypeptidase; Provisional; Region: ampC; PRK11289 444450014646 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 444450014647 Quinol:fumarate reductase (QFR) Type D subfamily, 13kD hydrophobic subunit D; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinine...; Region: QFR_TypeD_subunitD; cd00547 444450014648 Iron-sulfur protein interface; other site 444450014649 proximal quinone binding site [chemical binding]; other site 444450014650 C-subunit interface; other site 444450014651 distal quinone binding site; other site 444450014652 Quinol:fumarate reductase (QFR) Type D subfamily, 15kD hydrophobic subunit C; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinine...; Region: QFR_TypeD_subunitC; cd00546 444450014653 D-subunit interface [polypeptide binding]; other site 444450014654 Iron-sulfur protein interface; other site 444450014655 proximal quinone binding site [chemical binding]; other site 444450014656 distal quinone binding site [chemical binding]; other site 444450014657 fumarate reductase iron-sulfur subunit; Provisional; Region: PRK12385 444450014658 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 444450014659 fumarate reductase flavoprotein subunit; Validated; Region: PRK09231 444450014660 L-aspartate oxidase; Provisional; Region: PRK06175 444450014661 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 444450014662 poxB regulator PoxA; Provisional; Region: PRK09350 444450014663 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 444450014664 motif 1; other site 444450014665 dimer interface [polypeptide binding]; other site 444450014666 active site 444450014667 motif 2; other site 444450014668 motif 3; other site 444450014669 inner membrane transporter YjeM; Provisional; Region: PRK15238 444450014670 putative mechanosensitive channel protein; Provisional; Region: PRK10929 444450014671 linker histone 1 and histone 5 domains; the basic subunit of chromatin is the nucleosome, consisting of an octamer of core histones, two full turns of DNA, a linker histone (H1 or H5) and a variable length of linker DNA; H1/H5 are chromatin-associated...; Region: H15; cl00073 444450014672 DNA-binding site [nucleotide binding]; DNA binding site 444450014673 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 444450014674 Mechanosensitive ion channel; Region: MS_channel; pfam00924 444450014675 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 444450014676 GTPase RsgA; Reviewed; Region: PRK12288 444450014677 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 444450014678 RNA binding site [nucleotide binding]; other site 444450014679 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 444450014680 GTPase/Zn-binding domain interface [polypeptide binding]; other site 444450014681 GTP/Mg2+ binding site [chemical binding]; other site 444450014682 G4 box; other site 444450014683 G5 box; other site 444450014684 G1 box; other site 444450014685 Switch I region; other site 444450014686 G2 box; other site 444450014687 G3 box; other site 444450014688 Switch II region; other site 444450014689 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 444450014690 catalytic site [active] 444450014691 putative active site [active] 444450014692 putative substrate binding site [chemical binding]; other site 444450014693 dimer interface [polypeptide binding]; other site 444450014694 epoxyqueuosine reductase; Region: TIGR00276 444450014695 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 444450014696 putative carbohydrate kinase; Provisional; Region: PRK10565 444450014697 yjeF N-terminal region; Region: yjeF_nterm; TIGR00197 444450014698 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 444450014699 putative substrate binding site [chemical binding]; other site 444450014700 putative ATP binding site [chemical binding]; other site 444450014701 ADP-binding protein; Provisional; Region: PRK10646 444450014702 N-acetylmuramoyl-l-alanine amidase II; Provisional; Region: PRK10431 444450014703 AMIN domain; Region: AMIN; pfam11741 444450014704 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 444450014705 active site 444450014706 metal binding site [ion binding]; metal-binding site 444450014707 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 444450014708 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 444450014709 ATP binding site [chemical binding]; other site 444450014710 Mg2+ binding site [ion binding]; other site 444450014711 G-X-G motif; other site 444450014712 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 444450014713 ATP binding site [chemical binding]; other site 444450014714 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 444450014715 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 444450014716 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 444450014717 bacterial Hfq-like; Region: Hfq; cd01716 444450014718 hexamer interface [polypeptide binding]; other site 444450014719 Sm1 motif; other site 444450014720 RNA binding site [nucleotide binding]; other site 444450014721 Sm2 motif; other site 444450014722 GTPase HflX; Provisional; Region: PRK11058 444450014723 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 444450014724 HflX GTPase family; Region: HflX; cd01878 444450014725 G1 box; other site 444450014726 GTP/Mg2+ binding site [chemical binding]; other site 444450014727 Switch I region; other site 444450014728 G2 box; other site 444450014729 G3 box; other site 444450014730 Switch II region; other site 444450014731 G4 box; other site 444450014732 G5 box; other site 444450014733 FtsH protease regulator HflK; Provisional; Region: PRK10930 444450014734 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 444450014735 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 444450014736 FtsH protease regulator HflC; Provisional; Region: PRK11029 444450014737 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 444450014738 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3242 444450014739 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 444450014740 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 444450014741 GDP-binding site [chemical binding]; other site 444450014742 ACT binding site; other site 444450014743 IMP binding site; other site 444450014744 Predicted transcriptional regulator [Transcription]; Region: COG1959 444450014745 transcriptional repressor NsrR; Provisional; Region: PRK11014 444450014746 exoribonuclease R; Provisional; Region: PRK11642 444450014747 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 444450014748 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 444450014749 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 444450014750 RNB domain; Region: RNB; pfam00773 444450014751 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 444450014752 RNA binding site [nucleotide binding]; other site 444450014753 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 444450014754 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 444450014755 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 444450014756 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3789 444450014757 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 444450014758 Protein of unknown function (DUF2491); Region: DUF2491; pfam10679 444450014759 Predicted membrane protein [Function unknown]; Region: COG3766 444450014760 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 444450014761 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 444450014762 Predicted integral membrane protein [Function unknown]; Region: COG5463 444450014763 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 444450014764 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 444450014765 Proteins involved in DNA damage response, similar to the AidB gene product; Region: AidB; cd01154 444450014766 FAD binding site [chemical binding]; other site 444450014767 substrate binding site [chemical binding]; other site 444450014768 catalytic residues [active] 444450014769 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 444450014770 putative biofilm stress and motility protein A; Provisional; Region: PRK14864 444450014771 esterase; Provisional; Region: PRK10566 444450014772 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 444450014773 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 444450014774 transcriptional repressor UlaR; Provisional; Region: PRK13509 444450014775 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 444450014776 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 444450014777 putative L-ascorbate 6-phosphate lactonase; Provisional; Region: PRK11709 444450014778 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 444450014779 Uncharacterized protein conserved in bacteria [Function unknown]; Region: SgaT; COG3037 444450014780 PTS system ascorbate-specific transporter subunits IICB; Provisional; Region: PRK09548 444450014781 PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a...; Region: PTS_IIB_ascorbate; cd05563 444450014782 active site 444450014783 P-loop; other site 444450014784 phosphorylation site [posttranslational modification] 444450014785 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 444450014786 active site 444450014787 phosphorylation site [posttranslational modification] 444450014788 3-Keto-L-gulonate 6-phosphate decarboxylase (KGPDC) and D-arabino-3-hexulose-6-phosphate synthase (HPS). KGPDC catalyzes the formation of L-xylulose 5-phosphate and carbon dioxide from 3-keto-L-gulonate 6-phosphate as part of the anaerobic pathway for...; Region: KGPDC_HPS; cd04726 444450014789 active site 444450014790 dimer interface [polypeptide binding]; other site 444450014791 magnesium binding site [ion binding]; other site 444450014792 L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13209 444450014793 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 444450014794 AP (apurinic/apyrimidinic) site pocket; other site 444450014795 DNA interaction; other site 444450014796 Metal-binding active site; metal-binding site 444450014797 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 444450014798 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cd00398 444450014799 intersubunit interface [polypeptide binding]; other site 444450014800 active site 444450014801 Zn2+ binding site [ion binding]; other site 444450014802 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 444450014803 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 444450014804 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 444450014805 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 444450014806 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 444450014807 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 444450014808 Protein of unknown function (DUF2686); Region: DUF2686; pfam10887 444450014809 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 444450014810 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 444450014811 Probable transposase; Region: OrfB_IS605; pfam01385 444450014812 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 444450014813 Cell envelope opacity-associated protein A [Cell envelope biogenesis, outer membrane]; Region: OapA; COG3061 444450014814 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 444450014815 peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK11570 444450014816 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 444450014817 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 444450014818 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 444450014819 iron-sulfur cluster repair di-iron protein; Provisional; Region: PRK10992 444450014820 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 444450014821 Hemerythrin-like domain; Region: Hr-like; cd12108 444450014822 Fe binding site [ion binding]; other site 444450014823 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 444450014824 EamA-like transporter family; Region: EamA; pfam00892 444450014825 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 444450014826 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 444450014827 NADP binding site [chemical binding]; other site 444450014828 Predicted transcriptional regulators [Transcription]; Region: COG1733 444450014829 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 444450014830 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 444450014831 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 444450014832 active site 444450014833 metal binding site [ion binding]; metal-binding site 444450014834 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 444450014835 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 444450014836 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 444450014837 active site 444450014838 Predicted transcriptional regulator [General function prediction only]; Region: COG3054 444450014839 Protein of unknown function (DUF1107); Region: DUF1107; pfam06526 444450014840 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 444450014841 Domain of unknown function DUF21; Region: DUF21; pfam01595 444450014842 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 444450014843 Transporter associated domain; Region: CorC_HlyC; smart01091 444450014844 methionine sulfoxide reductase A; Provisional; Region: PRK00058 444450014845 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 444450014846 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 444450014847 Surface antigen; Region: Bac_surface_Ag; pfam01103 444450014848 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 444450014849 Family of unknown function (DUF490); Region: DUF490; pfam04357 444450014850 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 444450014851 putative active site pocket [active] 444450014852 dimerization interface [polypeptide binding]; other site 444450014853 putative catalytic residue [active] 444450014854 antitoxin ChpS; Provisional; Region: PRK11347 444450014855 toxin ChpB; Provisional; Region: PRK09812 444450014856 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 444450014857 dimer interface [polypeptide binding]; other site 444450014858 substrate binding site [chemical binding]; other site 444450014859 metal binding sites [ion binding]; metal-binding site 444450014860 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 444450014861 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 444450014862 putative ligand binding site [chemical binding]; other site 444450014863 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 444450014864 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 444450014865 TM-ABC transporter signature motif; other site 444450014866 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 444450014867 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 444450014868 TM-ABC transporter signature motif; other site 444450014869 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 444450014870 AMP binding site [chemical binding]; other site 444450014871 metal binding site [ion binding]; metal-binding site 444450014872 active site 444450014873 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 444450014874 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 444450014875 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 444450014876 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 444450014877 hypothetical protein; Provisional; Region: PRK05255 444450014878 peptidase PmbA; Provisional; Region: PRK11040 444450014879 cytochrome b562; Provisional; Region: PRK15058 444450014880 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 444450014881 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 444450014882 FeS/SAM binding site; other site 444450014883 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 444450014884 ATP cone domain; Region: ATP-cone; pfam03477 444450014885 Class III ribonucleotide reductase; Region: RNR_III; cd01675 444450014886 effector binding site; other site 444450014887 active site 444450014888 Zn binding site [ion binding]; other site 444450014889 glycine loop; other site 444450014890 trehalose-6-phosphate hydrolase; Provisional; Region: PRK10933 444450014891 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 444450014892 Ca binding site [ion binding]; other site 444450014893 active site 444450014894 catalytic site [active] 444450014895 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 444450014896 PTS system trehalose(maltose)-specific transporter subunits IIBC; Provisional; Region: PRK11007 444450014897 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 444450014898 active site turn [active] 444450014899 phosphorylation site [posttranslational modification] 444450014900 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 444450014901 trehalose repressor; Provisional; Region: treR; PRK09492 444450014902 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 444450014903 DNA binding site [nucleotide binding] 444450014904 domain linker motif; other site 444450014905 Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_TreR_like; cd01542 444450014906 dimerization interface [polypeptide binding]; other site 444450014907 ligand binding site [chemical binding]; other site 444450014908 magnesium-transporting ATPase MgtA; Provisional; Region: PRK10517 444450014909 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 444450014910 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 444450014911 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 444450014912 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 444450014913 motif II; other site 444450014914 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 444450014915 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 444450014916 homotrimer interaction site [polypeptide binding]; other site 444450014917 putative active site [active] 444450014918 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 444450014919 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 444450014920 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 444450014921 aspartate carbamoyltransferase; Region: asp_carb_tr; TIGR00670 444450014922 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 444450014923 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 444450014924 YjgH belongs to a large family of YjgF/YER057c/UK114-like 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: YjgH_like; cd02198 444450014925 homotrimer interaction site [polypeptide binding]; other site 444450014926 putative active site [active] 444450014927 oxidoreductase; Provisional; Region: PRK12742 444450014928 classical (c) SDRs; Region: SDR_c; cd05233 444450014929 NAD(P) binding site [chemical binding]; other site 444450014930 active site 444450014931 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 444450014932 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 444450014933 Beta-galactosidase, beta subunit [Carbohydrate transport and metabolism]; Region: EbgC; COG2731 444450014934 ornithine carbamoyltransferase subunit I; Provisional; Region: PRK03515 444450014935 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 444450014936 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 444450014937 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3076 444450014938 RNase E inhibitor protein; Provisional; Region: PRK11191 444450014939 Predicted membrane protein [Function unknown]; Region: COG4269 444450014940 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 444450014941 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 444450014942 HIGH motif; other site 444450014943 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 444450014944 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 444450014945 active site 444450014946 KMSKS motif; other site 444450014947 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 444450014948 tRNA binding surface [nucleotide binding]; other site 444450014949 anticodon binding site; other site 444450014950 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 444450014951 DNA polymerase III subunit chi; Validated; Region: PRK05728 444450014952 multifunctional aminopeptidase A; Provisional; Region: PRK00913 444450014953 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 444450014954 interface (dimer of trimers) [polypeptide binding]; other site 444450014955 Substrate-binding/catalytic site; other site 444450014956 Zn-binding sites [ion binding]; other site 444450014957 lipopolysaccharide ABC transporter permease LptF; Provisional; Region: PRK15120 444450014958 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 444450014959 lipopolysaccharide ABC transporter permease; Provisional; Region: PRK15071 444450014960 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 444450014961 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 444450014962 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 444450014963 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 444450014964 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 444450014965 putative NAD(P) binding site [chemical binding]; other site 444450014966 putative substrate binding site [chemical binding]; other site 444450014967 catalytic Zn binding site [ion binding]; other site 444450014968 structural Zn binding site [ion binding]; other site 444450014969 dimer interface [polypeptide binding]; other site 444450014970 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 444450014971 INT_SG2, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 2, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinases and phage-related integrases. Some have N-terminal domains, which show little sequence...; Region: INT_SG2_C; cd01184 444450014972 Int/Topo IB signature motif; other site 444450014973 NIPSNAP; Region: NIPSNAP; pfam07978 444450014974 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4333 444450014975 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 444450014976 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 444450014977 catalytic residues [active] 444450014978 catalytic nucleophile [active] 444450014979 Presynaptic Site I dimer interface [polypeptide binding]; other site 444450014980 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 444450014981 Synaptic Flat tetramer interface [polypeptide binding]; other site 444450014982 Synaptic Site I dimer interface [polypeptide binding]; other site 444450014983 DNA binding site [nucleotide binding] 444450014984 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 444450014985 DNA-binding interface [nucleotide binding]; DNA binding site 444450014986 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 444450014987 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 444450014988 non-specific DNA binding site [nucleotide binding]; other site 444450014989 salt bridge; other site 444450014990 sequence-specific DNA binding site [nucleotide binding]; other site 444450014991 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 444450014992 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3440 444450014993 HNH endonuclease; Region: HNH_2; pfam13391 444450014994 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 444450014995 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 444450014996 active site 444450014997 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 444450014998 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 444450014999 ligand binding site [chemical binding]; other site 444450015000 Protein of unknown function (DUF3375); Region: DUF3375; pfam11855 444450015001 Capsid triplex subunit 2; Provisional; Region: PHA03259 444450015002 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]; Region: COG1205 444450015003 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 444450015004 ATP binding site [chemical binding]; other site 444450015005 putative Mg++ binding site [ion binding]; other site 444450015006 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 444450015007 nucleotide binding region [chemical binding]; other site 444450015008 ATP-binding site [chemical binding]; other site 444450015009 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 444450015010 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 444450015011 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 444450015012 ATP binding site [chemical binding]; other site 444450015013 putative Mg++ binding site [ion binding]; other site 444450015014 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 444450015015 nucleotide binding region [chemical binding]; other site 444450015016 ATP-binding site [chemical binding]; other site 444450015017 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 444450015018 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]; Region: COG1205 444450015019 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 444450015020 ATP binding site [chemical binding]; other site 444450015021 putative Mg++ binding site [ion binding]; other site 444450015022 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 444450015023 ATP-binding site [chemical binding]; other site 444450015024 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 444450015025 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 444450015026 Part of AAA domain; Region: AAA_19; pfam13245 444450015027 Family description; Region: UvrD_C_2; pfam13538 444450015028 Domain of unknown function (DUF303); Region: DUF303; pfam03629 444450015029 N-acetylneuraminic acid mutarotase; Provisional; Region: PRK14131 444450015030 Kelch motif; Region: Kelch_1; pfam01344 444450015031 Oligogalacturonate-specific porin protein (KdgM); Region: KdgM; cl11629 444450015032 FimB and FimE and related proteins, DNA breaking-rejoining enzymes, integrase/recombinases, catalytic domain. This CD includes those proteins similar to E.coli FimE and FimB regulatory proteins and Proteus mirabilis MrpI; Region: INT_FimBE_C; cd01197 444450015033 Int/Topo IB signature motif; other site 444450015034 FimB and FimE and related proteins, DNA breaking-rejoining enzymes, integrase/recombinases, catalytic domain. This CD includes those proteins similar to E.coli FimE and FimB regulatory proteins and Proteus mirabilis MrpI; Region: INT_FimBE_C; cd01197 444450015035 Int/Topo IB signature motif; other site 444450015036 Fimbrial protein; Region: Fimbrial; cl01416 444450015037 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 444450015038 fimbrial chaperone protein FimC; Provisional; Region: PRK15195 444450015039 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 444450015040 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 444450015041 outer membrane usher protein; Provisional; Region: PRK15193 444450015042 PapC N-terminal domain; Region: PapC_N; pfam13954 444450015043 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 444450015044 PapC C-terminal domain; Region: PapC_C; pfam13953 444450015045 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 444450015046 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 444450015047 Mannose binding domain of FimH and related proteins; Region: FimH_man-bind; cd10466 444450015048 mannosyl binding site [chemical binding]; other site 444450015049 Fimbrial protein; Region: Fimbrial; pfam00419 444450015050 fructuronate transporter; Provisional; Region: PRK10034 444450015051 gluconate transporter; Region: gntP; TIGR00791 444450015052 mannonate dehydratase; Region: uxuA; TIGR00695 444450015053 mannonate dehydratase; Provisional; Region: PRK03906 444450015054 D-mannonate oxidoreductase; Provisional; Region: PRK15037 444450015055 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 444450015056 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 444450015057 DNA-binding transcriptional repressor UxuR; Provisional; Region: PRK10225 444450015058 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 444450015059 DNA-binding site [nucleotide binding]; DNA binding site 444450015060 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 444450015061 Protein of unknown function (DUF2686); Region: DUF2686; pfam10887 444450015062 DNA replication/recombination/repair protein; Provisional; Region: iraD; PRK14128 444450015063 Isoaspartyl dipeptidase hydrolyzes the beta-L-isoaspartyl linkages in dipeptides, as part of the degradative pathway to eliminate proteins with beta-L-isoaspartyl peptide bonds, bonds whereby the beta-group of an aspartate forms the peptide link with the...; Region: Isoaspartyl-dipeptidase; cd01308 444450015064 isoaspartyl dipeptidase IadA; Region: isoAsp_dipep; TIGR01975 444450015065 dimer interface [polypeptide binding]; other site 444450015066 active site 444450015067 hypothetical protein; Provisional; Region: PRK10519 444450015068 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 444450015069 Nucleoside recognition; Region: Gate; pfam07670 444450015070 Major Facilitator Superfamily; Region: MFS_1; pfam07690 444450015071 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 444450015072 putative substrate translocation pore; other site 444450015073 SdiA-regulated; Region: SdiA-regulated; pfam06977 444450015074 SdiA-regulated; Region: SdiA-regulated; cd09971 444450015075 putative active site [active] 444450015076 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 444450015077 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 444450015078 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 444450015079 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 444450015080 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 444450015081 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 444450015082 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 444450015083 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 444450015084 CoA-substrate-specific enzyme activase, putative; Region: CoA_E_activ; TIGR00241 444450015085 Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase subunit, BcrC/BadD/HgdB [Amino acid transport and metabolism]; Region: HgdB; COG1775 444450015086 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 444450015087 Predicted membrane protein [Function unknown]; Region: COG2733 444450015088 multidrug efflux system protein MdtM; Provisional; Region: PRK15403 444450015089 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 444450015090 putative substrate translocation pore; other site 444450015091 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 444450015092 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 444450015093 DNA-binding site [nucleotide binding]; DNA binding site 444450015094 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 444450015095 pyridoxal 5'-phosphate binding site [chemical binding]; other site 444450015096 homodimer interface [polypeptide binding]; other site 444450015097 catalytic residue [active] 444450015098 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 444450015099 endoribonuclease SymE; Provisional; Region: PRK13605 444450015100 EcoKI restriction-modification system protein HsdS; Provisional; Region: PRK09737 444450015101 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 444450015102 HsdM N-terminal domain; Region: HsdM_N; pfam12161 444450015103 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 444450015104 Methyltransferase domain; Region: Methyltransf_26; pfam13659 444450015105 S-adenosylmethionine binding site [chemical binding]; other site 444450015106 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 444450015107 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 444450015108 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 444450015109 ATP binding site [chemical binding]; other site 444450015110 putative Mg++ binding site [ion binding]; other site 444450015111 putative GTP-binding protein YjiA; Provisional; Region: PRK11537 444450015112 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 444450015113 P-loop, Walker A motif; other site 444450015114 Base recognition motif; other site 444450015115 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 444450015116 Uncharacterized small protein [Function unknown]; Region: COG2879 444450015117 carbon starvation protein A; Provisional; Region: PRK15015 444450015118 Carbon starvation protein CstA; Region: CstA; pfam02554 444450015119 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 444450015120 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 444450015121 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 444450015122 dimer interface [polypeptide binding]; other site 444450015123 ligand binding site [chemical binding]; other site 444450015124 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 444450015125 dimerization interface [polypeptide binding]; other site 444450015126 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 444450015127 dimer interface [polypeptide binding]; other site 444450015128 putative CheW interface [polypeptide binding]; other site 444450015129 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 444450015130 D-galactonate transporter; Region: 2A0114; TIGR00893 444450015131 putative substrate translocation pore; other site 444450015132 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 444450015133 DNA-binding site [nucleotide binding]; DNA binding site 444450015134 Transcriptional regulators [Transcription]; Region: GntR; COG1802 444450015135 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 444450015136 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 444450015137 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 444450015138 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 444450015139 putative NAD(P) binding site [chemical binding]; other site 444450015140 catalytic Zn binding site [ion binding]; other site 444450015141 structural Zn binding site [ion binding]; other site 444450015142 phosphoglycerol transferase I; Provisional; Region: PRK03776 444450015143 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 444450015144 hypothetical protein; Provisional; Region: PRK11667 444450015145 DNA replication protein DnaC; Validated; Region: PRK07952 444450015146 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 444450015147 Walker A motif; other site 444450015148 ATP binding site [chemical binding]; other site 444450015149 Walker B motif; other site 444450015150 primosomal protein DnaI; Provisional; Region: PRK02854 444450015151 hypothetical protein; Provisional; Region: PRK09917 444450015152 Uncharacterized conserved protein [Function unknown]; Region: COG2966 444450015153 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 444450015154 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 444450015155 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 444450015156 DNA binding residues [nucleotide binding] 444450015157 dimerization interface [polypeptide binding]; other site 444450015158 DNA-binding transcriptional activator BglJ; Provisional; Region: PRK11475 444450015159 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 444450015160 DNA binding residues [nucleotide binding] 444450015161 dimerization interface [polypeptide binding]; other site 444450015162 ferric iron reductase involved in ferric hydroximate transport; Provisional; Region: PRK10647 444450015163 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 444450015164 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 444450015165 Protein of unknown function (DUF1435); Region: DUF1435; pfam07256 444450015166 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 444450015167 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 444450015168 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 444450015169 S-adenosylmethionine binding site [chemical binding]; other site 444450015170 DNA polymerase III subunit psi; Validated; Region: PRK06856 444450015171 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 444450015172 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 444450015173 Coenzyme A binding pocket [chemical binding]; other site 444450015174 dUMP phosphatase; Provisional; Region: PRK09449 444450015175 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 444450015176 motif II; other site 444450015177 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 444450015178 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 444450015179 G1 box; other site 444450015180 putative GEF interaction site [polypeptide binding]; other site 444450015181 GTP/Mg2+ binding site [chemical binding]; other site 444450015182 Switch I region; other site 444450015183 G2 box; other site 444450015184 G3 box; other site 444450015185 Switch II region; other site 444450015186 G4 box; other site 444450015187 G5 box; other site 444450015188 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 444450015189 periplasmic protein; Provisional; Region: PRK10568 444450015190 BON domain; Region: BON; pfam04972 444450015191 BON domain; Region: BON; pfam04972 444450015192 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 444450015193 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 444450015194 active site 444450015195 nucleophile elbow; other site 444450015196 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 444450015197 active site 444450015198 glycine radical enzyme activase, YjjW family; Region: activase_YjjW; TIGR04041 444450015199 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 444450015200 FeS/SAM binding site; other site 444450015201 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 444450015202 intersubunit interface [polypeptide binding]; other site 444450015203 active site 444450015204 catalytic residue [active] 444450015205 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 444450015206 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 444450015207 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 444450015208 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 444450015209 phosphopentomutase; Provisional; Region: PRK05362 444450015210 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 444450015211 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 444450015212 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 444450015213 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 444450015214 non-specific DNA binding site [nucleotide binding]; other site 444450015215 salt bridge; other site 444450015216 sequence-specific DNA binding site [nucleotide binding]; other site 444450015217 unknown domain/lipoate-protein ligase A fusion protein; Provisional; Region: PRK14061 444450015218 hypothetical protein; Provisional; Region: PRK11246 444450015219 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 444450015220 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 444450015221 phosphoserine phosphatase; Provisional; Region: serB; PRK11133 444450015222 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 444450015223 motif II; other site 444450015224 DNA repair protein RadA; Region: sms; TIGR00416 444450015225 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 444450015226 Walker A motif/ATP binding site; other site 444450015227 ATP binding site [chemical binding]; other site 444450015228 Walker B motif; other site 444450015229 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 444450015230 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 444450015231 non-specific DNA binding site [nucleotide binding]; other site 444450015232 salt bridge; other site 444450015233 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional; Region: PRK08099 444450015234 sequence-specific DNA binding site [nucleotide binding]; other site 444450015235 Nicotinamide/nicotinate mononucleotide adenylyltransferase of bifunctional NadR-like proteins; Region: NMNAT_NadR; cd02167 444450015236 active site 444450015237 (T/H)XGH motif; other site 444450015238 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 444450015239 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 444450015240 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 444450015241 Walker A/P-loop; other site 444450015242 ATP binding site [chemical binding]; other site 444450015243 Q-loop/lid; other site 444450015244 ABC transporter signature motif; other site 444450015245 Walker B; other site 444450015246 D-loop; other site 444450015247 H-loop/switch region; other site 444450015248 ABC transporter; Region: ABC_tran_2; pfam12848 444450015249 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 444450015250 lytic murein transglycosylase; Provisional; Region: PRK11619 444450015251 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 444450015252 N-acetyl-D-glucosamine binding site [chemical binding]; other site 444450015253 catalytic residue [active] 444450015254 Trp operon repressor; Provisional; Region: PRK01381 444450015255 inosine/xanthosine triphosphatase; Reviewed; Region: PRK05074 444450015256 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 444450015257 catalytic core [active] 444450015258 right oriC-binding transcriptional activator; Provisional; Region: PRK15121 444450015259 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 444450015260 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 444450015261 hypothetical protein; Provisional; Region: PRK10756 444450015262 CreA protein; Region: CreA; pfam05981 444450015263 DNA-binding response regulator CreB; Provisional; Region: PRK11083 444450015264 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 444450015265 active site 444450015266 phosphorylation site [posttranslational modification] 444450015267 intermolecular recognition site; other site 444450015268 dimerization interface [polypeptide binding]; other site 444450015269 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 444450015270 DNA binding site [nucleotide binding] 444450015271 sensory histidine kinase CreC; Provisional; Region: PRK11100 444450015272 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 444450015273 dimerization interface [polypeptide binding]; other site 444450015274 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 444450015275 dimer interface [polypeptide binding]; other site 444450015276 phosphorylation site [posttranslational modification] 444450015277 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 444450015278 ATP binding site [chemical binding]; other site 444450015279 Mg2+ binding site [ion binding]; other site 444450015280 G-X-G motif; other site 444450015281 Inner membrane protein involved in colicin E2 resistance [Defense mechanisms]; Region: CreD; COG4452 444450015282 two-component response regulator; Provisional; Region: PRK11173 444450015283 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 444450015284 active site 444450015285 phosphorylation site [posttranslational modification] 444450015286 intermolecular recognition site; other site 444450015287 dimerization interface [polypeptide binding]; other site 444450015288 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 444450015289 DNA binding site [nucleotide binding] 444450015290 putative RNA methyltransferase; Provisional; Region: PRK10433 444450015291 RNA methyltransferase, TrmH family, group 1; Region: rRNA_methyl_1; TIGR00050