-- dump date 20140619_231710 -- class Genbank::misc_feature -- table misc_feature_note -- id note 584721000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 584721000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 584721000003 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 584721000004 Walker A motif; other site 584721000005 ATP binding site [chemical binding]; other site 584721000006 Walker B motif; other site 584721000007 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 584721000008 arginine finger; other site 584721000009 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 584721000010 DnaA box-binding interface [nucleotide binding]; other site 584721000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 584721000012 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 584721000013 putative DNA binding surface [nucleotide binding]; other site 584721000014 dimer interface [polypeptide binding]; other site 584721000015 beta-clamp/clamp loader binding surface; other site 584721000016 beta-clamp/translesion DNA polymerase binding surface; other site 584721000017 Recombinational DNA repair ATPase (RecF pathway) [DNA replication, recombination, and repair]; Region: RecF; COG1195 584721000018 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 584721000019 Walker A/P-loop; other site 584721000020 ATP binding site [chemical binding]; other site 584721000021 Q-loop/lid; other site 584721000022 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 584721000023 ABC transporter signature motif; other site 584721000024 Walker B; other site 584721000025 D-loop; other site 584721000026 H-loop/switch region; other site 584721000027 Methyltransferase domain; Region: Methyltransf_31; pfam13847 584721000028 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 584721000029 S-adenosylmethionine binding site [chemical binding]; other site 584721000030 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 584721000031 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 584721000032 ligand binding site [chemical binding]; other site 584721000033 flexible hinge region; other site 584721000034 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 584721000035 putative switch regulator; other site 584721000036 non-specific DNA interactions [nucleotide binding]; other site 584721000037 DNA binding site [nucleotide binding] 584721000038 sequence specific DNA binding site [nucleotide binding]; other site 584721000039 putative cAMP binding site [chemical binding]; other site 584721000040 hypothetical protein; Provisional; Region: PRK04966 584721000041 division inhibitor protein; Provisional; Region: slmA; PRK09480 584721000042 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 584721000043 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 584721000044 trimer interface [polypeptide binding]; other site 584721000045 active site 584721000046 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 584721000047 Flavoprotein; Region: Flavoprotein; pfam02441 584721000048 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 584721000049 hypothetical protein; Reviewed; Region: PRK00024 584721000050 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 584721000051 MPN+ (JAMM) motif; other site 584721000052 Zinc-binding site [ion binding]; other site 584721000053 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 584721000054 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 584721000055 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 584721000056 Periplasmic binding protein TroA_e. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_e; cd01142 584721000057 putative ligand binding residues [chemical binding]; other site 584721000058 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 584721000059 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 584721000060 ABC-ATPase subunit interface; other site 584721000061 dimer interface [polypeptide binding]; other site 584721000062 putative PBP binding regions; other site 584721000063 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 584721000064 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 584721000065 Walker A/P-loop; other site 584721000066 ATP binding site [chemical binding]; other site 584721000067 Q-loop/lid; other site 584721000068 ABC transporter signature motif; other site 584721000069 Walker B; other site 584721000070 D-loop; other site 584721000071 H-loop/switch region; other site 584721000072 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 584721000073 molybdate ABC transporter periplasmic molybdate-binding protein; Provisional; Region: PRK03537 584721000074 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 584721000075 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 584721000076 DNA binding site [nucleotide binding] 584721000077 catalytic residue [active] 584721000078 H2TH interface [polypeptide binding]; other site 584721000079 putative catalytic residues [active] 584721000080 turnover-facilitating residue; other site 584721000081 intercalation triad [nucleotide binding]; other site 584721000082 8OG recognition residue [nucleotide binding]; other site 584721000083 putative reading head residues; other site 584721000084 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 584721000085 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 584721000086 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 584721000087 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 584721000088 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 584721000089 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 584721000090 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 584721000091 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 584721000092 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 584721000093 active site 584721000094 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 584721000095 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 584721000096 active site 584721000097 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 584721000098 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 584721000099 Ligand binding site; other site 584721000100 metal-binding site 584721000101 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 584721000102 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 584721000103 putative ADP-binding pocket [chemical binding]; other site 584721000104 primosome assembly protein PriA; Validated; Region: PRK05580 584721000105 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 584721000106 ATP binding site [chemical binding]; other site 584721000107 putative Mg++ binding site [ion binding]; other site 584721000108 helicase superfamily c-terminal domain; Region: HELICc; smart00490 584721000109 ATP-binding site [chemical binding]; other site 584721000110 Cell division protein [Cell division and chromosome partitioning]; Region: FtsN; COG3087 584721000111 Sporulation related domain; Region: SPOR; pfam05036 584721000112 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 584721000113 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 584721000114 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 584721000115 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 584721000116 HlyD family secretion protein; Region: HlyD_3; pfam13437 584721000117 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 584721000118 GAF domain; Region: GAF_2; pfam13185 584721000119 potential frameshift: common BLAST hit: gi|378773722|ref|YP_005175965.1| acriflavin resistance protein 584721000120 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 584721000121 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 584721000122 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 584721000123 Domain of unknown function DUF20; Region: UPF0118; pfam01594 584721000124 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 584721000125 ArsC family; Region: ArsC; pfam03960 584721000126 catalytic residues [active] 584721000127 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3036 584721000128 argininosuccinate lyase; Provisional; Region: PRK04833 584721000129 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 584721000130 active sites [active] 584721000131 tetramer interface [polypeptide binding]; other site 584721000132 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 584721000133 nucleotide binding site [chemical binding]; other site 584721000134 N-acetyl-L-glutamate binding site [chemical binding]; other site 584721000135 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 584721000136 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 584721000137 acetylornithine deacetylase; Provisional; Region: PRK05111 584721000138 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 584721000139 metal binding site [ion binding]; metal-binding site 584721000140 putative dimer interface [polypeptide binding]; other site 584721000141 Mannosyltransferase OCH1 and related enzymes [Cell envelope biogenesis, outer membrane]; Region: OCH1; COG3774 584721000142 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 584721000143 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 584721000144 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 584721000145 HIGH motif; other site 584721000146 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 584721000147 active site 584721000148 KMSKS motif; other site 584721000149 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 584721000150 active site 584721000151 DNA binding site [nucleotide binding] 584721000152 Int/Topo IB signature motif; other site 584721000153 Protein of unknown function (DUF551); Region: DUF551; pfam04448 584721000154 Putative exonuclease, RdgC; Region: RdgC; pfam04381 584721000155 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in a group of uncharacterized proteins from bacteria and archaea; Region: NTP-PPase_u3; cd11540 584721000156 putative metal binding site [ion binding]; other site 584721000157 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 584721000158 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 584721000159 dimer interface [polypeptide binding]; other site 584721000160 ssDNA binding site [nucleotide binding]; other site 584721000161 tetramer (dimer of dimers) interface [polypeptide binding]; other site 584721000162 ERF superfamily; Region: ERF; pfam04404 584721000163 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 584721000164 active site 584721000165 catalytic site [active] 584721000166 substrate binding site [chemical binding]; other site 584721000167 Prophage antirepressor [Transcription]; Region: COG3617 584721000168 BRO family, N-terminal domain; Region: Bro-N; smart01040 584721000169 KilA-N domain; Region: KilA-N; pfam04383 584721000170 Protein of unknown function (DUF3037); Region: DUF3037; pfam11236 584721000171 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 584721000172 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 584721000173 non-specific DNA binding site [nucleotide binding]; other site 584721000174 salt bridge; other site 584721000175 sequence-specific DNA binding site [nucleotide binding]; other site 584721000176 Predicted transcriptional regulator [Transcription]; Region: COG2932 584721000177 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 584721000178 Catalytic site [active] 584721000179 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 584721000180 non-specific DNA binding site [nucleotide binding]; other site 584721000181 salt bridge; other site 584721000182 sequence-specific DNA binding site [nucleotide binding]; other site 584721000183 KilA-N domain; Region: KilA-N; pfam04383 584721000184 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 584721000185 Helix-turn-helix domain; Region: HTH_36; pfam13730 584721000186 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 584721000187 Replication protein P; Region: Phage_lambda_P; pfam06992 584721000188 MT-A70; Region: MT-A70; cl01947 584721000189 Protein of unknown function (DUF1367); Region: DUF1367; pfam07105 584721000190 Bacteriophage Lambda NinG protein; Region: NinG; pfam05766 584721000191 Phage antitermination protein Q; Region: Phage_antitermQ; pfam06530 584721000192 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 584721000193 catalytic residues [active] 584721000194 Protein of unknown function (DUF2570); Region: DUF2570; pfam10828 584721000195 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 584721000196 Homeodomain-like domain; Region: HTH_23; pfam13384 584721000197 Phage terminase large subunit; Region: Terminase_3; cl12054 584721000198 Terminase-like family; Region: Terminase_6; pfam03237 584721000199 phage-related protein, HI1409 family; Region: phge_rel_HI1409; TIGR01555 584721000200 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 584721000201 Encapsulating protein for peroxidase; Region: Linocin_M18; cl17804 584721000202 Phage major tail protein 2; Region: Phage_tail_2; cl11463 584721000203 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 584721000204 P22_AR N-terminal domain; Region: P22_AR_N; pfam10547 584721000205 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 584721000206 Phage-related protein [Function unknown]; Region: gp18; COG4672 584721000207 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 584721000208 MPN+ (JAMM) motif; other site 584721000209 Zinc-binding site [ion binding]; other site 584721000210 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 584721000211 NlpC/P60 family; Region: NLPC_P60; cl17555 584721000212 Phage-related protein, tail component [Function unknown]; Region: COG4723 584721000213 Phage-related protein, tail component [Function unknown]; Region: COG4733 584721000214 Putative phage tail protein; Region: Phage-tail_3; pfam13550 584721000215 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 584721000216 Fibronectin type III protein; Region: DUF3672; pfam12421 584721000217 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 584721000218 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 584721000219 RNase E interface [polypeptide binding]; other site 584721000220 trimer interface [polypeptide binding]; other site 584721000221 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 584721000222 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 584721000223 RNase E interface [polypeptide binding]; other site 584721000224 trimer interface [polypeptide binding]; other site 584721000225 active site 584721000226 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 584721000227 putative nucleic acid binding region [nucleotide binding]; other site 584721000228 G-X-X-G motif; other site 584721000229 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 584721000230 RNA binding site [nucleotide binding]; other site 584721000231 domain interface; other site 584721000232 Lipoprotein NlpI, contains TPR repeats [General function prediction only]; Region: NlpI; COG4785 584721000233 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 584721000234 binding surface 584721000235 TPR motif; other site 584721000236 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 584721000237 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 584721000238 ATP binding site [chemical binding]; other site 584721000239 Mg++ binding site [ion binding]; other site 584721000240 motif III; other site 584721000241 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 584721000242 nucleotide binding region [chemical binding]; other site 584721000243 ATP-binding site [chemical binding]; other site 584721000244 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 584721000245 putative RNA binding site [nucleotide binding]; other site 584721000246 molybdenum transport protein ModD; Provisional; Region: PRK06096 584721000247 ModD; Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase) present in some modABC operons in bacteria, which are involved in molybdate transport. In general, QPRTases are part of the de novo synthesis pathway of NAD in both prokaryotes and...; Region: modD_like; cd01573 584721000248 dimerization interface [polypeptide binding]; other site 584721000249 active site 584721000250 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 584721000251 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 584721000252 Walker A/P-loop; other site 584721000253 ATP binding site [chemical binding]; other site 584721000254 Q-loop/lid; other site 584721000255 ABC transporter signature motif; other site 584721000256 Walker B; other site 584721000257 D-loop; other site 584721000258 H-loop/switch region; other site 584721000259 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 584721000260 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 584721000261 putative PBP binding loops; other site 584721000262 ABC-ATPase subunit interface; other site 584721000263 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 584721000264 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 584721000265 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 584721000266 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 584721000267 ring oligomerisation interface [polypeptide binding]; other site 584721000268 ATP/Mg binding site [chemical binding]; other site 584721000269 stacking interactions; other site 584721000270 hinge regions; other site 584721000271 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 584721000272 oligomerisation interface [polypeptide binding]; other site 584721000273 mobile loop; other site 584721000274 roof hairpin; other site 584721000275 Protein affecting phage T7 exclusion by the F plasmid [General function prediction only]; Region: FxsA; COG3030 584721000276 Putative p-aminobenzoyl-glutamate transporter [Coenzyme metabolism]; Region: AbgT; COG2978 584721000277 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 584721000278 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 584721000279 Aspartase; Region: Aspartase; cd01357 584721000280 active sites [active] 584721000281 tetramer interface [polypeptide binding]; other site 584721000282 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 584721000283 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 584721000284 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 584721000285 putative C-terminal domain interface [polypeptide binding]; other site 584721000286 putative GSH binding site (G-site) [chemical binding]; other site 584721000287 putative dimer interface [polypeptide binding]; other site 584721000288 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 584721000289 dimer interface [polypeptide binding]; other site 584721000290 N-terminal domain interface [polypeptide binding]; other site 584721000291 putative substrate binding pocket (H-site) [chemical binding]; other site 584721000292 Glutaredoxin-related protein [Posttranslational modification, protein turnover, chaperones]; Region: COG4545 584721000293 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 584721000294 dimer interface [polypeptide binding]; other site 584721000295 motif 1; other site 584721000296 active site 584721000297 motif 2; other site 584721000298 motif 3; other site 584721000299 Predicted membrane protein [Function unknown]; Region: COG4325 584721000300 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 584721000301 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 584721000302 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 584721000303 substrate binding site [chemical binding]; other site 584721000304 oxyanion hole (OAH) forming residues; other site 584721000305 trimer interface [polypeptide binding]; other site 584721000306 O-succinylbenzoate synthase [Coenzyme metabolism]; Region: MenC; COG1441 584721000307 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 584721000308 active site 584721000309 Dehydroquinase class II; Region: DHquinase_II; pfam01220 584721000310 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 584721000311 active site 584721000312 trimer interface [polypeptide binding]; other site 584721000313 dimer interface [polypeptide binding]; other site 584721000314 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 584721000315 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 584721000316 carboxyltransferase (CT) interaction site; other site 584721000317 biotinylation site [posttranslational modification]; other site 584721000318 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 584721000319 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 584721000320 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 584721000321 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 584721000322 Predicted membrane protein [Function unknown]; Region: COG3924 584721000323 Na(+)/pantothenate cotransporters: PanF of Escherichia coli and related proteins; solute binding domain; Region: SLC5sbd_PanF; cd10327 584721000324 Na binding site [ion binding]; other site 584721000325 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 584721000326 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 584721000327 S-adenosylmethionine binding site [chemical binding]; other site 584721000328 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 584721000329 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 584721000330 FMN binding site [chemical binding]; other site 584721000331 active site 584721000332 catalytic residues [active] 584721000333 substrate binding site [chemical binding]; other site 584721000334 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 584721000335 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 584721000336 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 584721000337 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 584721000338 dimerization interface [polypeptide binding]; other site 584721000339 ATP binding site [chemical binding]; other site 584721000340 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), second repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat2; cd02204 584721000341 dimerization interface [polypeptide binding]; other site 584721000342 ATP binding site [chemical binding]; other site 584721000343 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 584721000344 putative active site [active] 584721000345 catalytic triad [active] 584721000346 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 584721000347 active site 584721000348 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 584721000349 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 584721000350 ABC transporter signature motif; other site 584721000351 Walker B; other site 584721000352 D-loop; other site 584721000353 H-loop/switch region; other site 584721000354 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 584721000355 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 584721000356 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 584721000357 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 584721000358 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 584721000359 Walker A/P-loop; other site 584721000360 ATP binding site [chemical binding]; other site 584721000361 Q-loop/lid; other site 584721000362 ABC transporter signature motif; other site 584721000363 Walker B; other site 584721000364 D-loop; other site 584721000365 H-loop/switch region; other site 584721000366 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 584721000367 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 584721000368 dimer interface [polypeptide binding]; other site 584721000369 ABC-ATPase subunit interface; other site 584721000370 putative PBP binding regions; other site 584721000371 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 584721000372 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 584721000373 intersubunit interface [polypeptide binding]; other site 584721000374 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3021 584721000375 putative catalytic site [active] 584721000376 putative metal binding site [ion binding]; other site 584721000377 putative phosphate binding site [ion binding]; other site 584721000378 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 584721000379 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 584721000380 active site 584721000381 substrate binding site [chemical binding]; other site 584721000382 metal binding site [ion binding]; metal-binding site 584721000383 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 584721000384 ABC transporter transmembrane region 2; Region: ABC_membrane_2; pfam06472 584721000385 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 584721000386 potential frameshift: common BLAST hit: gi|383309776|ref|YP_005362586.1| Putative transport protein 584721000387 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 584721000388 TrkA-C domain; Region: TrkA_C; pfam02080 584721000389 TrkA-C domain; Region: TrkA_C; pfam02080 584721000390 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 584721000391 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3691 584721000392 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 584721000393 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 584721000394 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 584721000395 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 584721000396 DNA binding site [nucleotide binding] 584721000397 active site 584721000398 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 584721000399 putative DNA-binding cleft [nucleotide binding]; other site 584721000400 putative DNA clevage site; other site 584721000401 molecular lever; other site 584721000402 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 584721000403 DNA polymerase I; Provisional; Region: PRK05755 584721000404 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 584721000405 active site 584721000406 metal binding site 1 [ion binding]; metal-binding site 584721000407 putative 5' ssDNA interaction site; other site 584721000408 metal binding site 3; metal-binding site 584721000409 metal binding site 2 [ion binding]; metal-binding site 584721000410 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 584721000411 putative DNA binding site [nucleotide binding]; other site 584721000412 putative metal binding site [ion binding]; other site 584721000413 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 584721000414 active site 584721000415 catalytic site [active] 584721000416 substrate binding site [chemical binding]; other site 584721000417 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 584721000418 active site 584721000419 DNA binding site [nucleotide binding] 584721000420 catalytic site [active] 584721000421 Predicted secreted acid phosphatase [General function prediction only]; Region: COG2503 584721000422 Transcriptional regulator [Transcription]; Region: MtlR; COG3722 584721000423 Mannitol repressor; Region: MtlR; pfam05068 584721000424 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 584721000425 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 584721000426 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 584721000427 PTS system mannitol-specific transporter subunit IICBA; Provisional; Region: PRK15083 584721000428 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 584721000429 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 584721000430 active site 584721000431 P-loop; other site 584721000432 phosphorylation site [posttranslational modification] 584721000433 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 584721000434 active site 584721000435 phosphorylation site [posttranslational modification] 584721000436 Predicted periplasmic lipoprotein [General function prediction only]; Region: COG5645 584721000437 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 584721000438 Part of AAA domain; Region: AAA_19; pfam13245 584721000439 Family description; Region: UvrD_C_2; pfam13538 584721000440 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 584721000441 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 584721000442 motif II; other site 584721000443 galactoside O-acetyltransferase; Reviewed; Region: lacA; PRK09527 584721000444 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 584721000445 active site 584721000446 substrate binding site [chemical binding]; other site 584721000447 trimer interface [polypeptide binding]; other site 584721000448 CoA binding site [chemical binding]; other site 584721000449 Predicted membrane protein [Function unknown]; Region: COG1238 584721000450 S-ribosylhomocysteinase; Provisional; Region: PRK02260 584721000451 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 584721000452 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 584721000453 ATP-grasp domain; Region: ATP-grasp; pfam02222 584721000454 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 584721000455 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 584721000456 catalytic triad [active] 584721000457 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 584721000458 dihydrodipicolinate synthase; Region: dapA; TIGR00674 584721000459 dimer interface [polypeptide binding]; other site 584721000460 active site 584721000461 catalytic residue [active] 584721000462 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 584721000463 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 584721000464 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 584721000465 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 584721000466 bifunctional glutamate--cysteine ligase/glutathione synthetase; Provisional; Region: PRK02471 584721000467 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 584721000468 ATP-grasp domain; Region: ATP-grasp_4; cl17255 584721000469 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 584721000470 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 584721000471 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 584721000472 PhoH-like protein; Region: PhoH; pfam02562 584721000473 metal-binding heat shock protein; Provisional; Region: PRK00016 584721000474 phosphodiesterase; Provisional; Region: PRK12704 584721000475 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 584721000476 Domain of unknown function (DUF1726); Region: DUF1726; pfam08351 584721000477 Helicase; Region: Helicase_RecD; pfam05127 584721000478 GNAT acetyltransferase 2; Region: GNAT_acetyltr_2; pfam13718 584721000479 Possible tRNA binding domain; Region: tRNA_bind_2; pfam13725 584721000480 putative metal dependent hydrolase; Provisional; Region: PRK11598 584721000481 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 584721000482 Sulfatase; Region: Sulfatase; pfam00884 584721000483 transcription-repair coupling factor; Provisional; Region: PRK10689 584721000484 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 584721000485 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 584721000486 ATP binding site [chemical binding]; other site 584721000487 putative Mg++ binding site [ion binding]; other site 584721000488 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 584721000489 nucleotide binding region [chemical binding]; other site 584721000490 ATP-binding site [chemical binding]; other site 584721000491 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 584721000492 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 584721000493 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 584721000494 TM-ABC transporter signature motif; other site 584721000495 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 584721000496 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional; Region: PRK10982 584721000497 Walker A/P-loop; other site 584721000498 ATP binding site [chemical binding]; other site 584721000499 Q-loop/lid; other site 584721000500 ABC transporter signature motif; other site 584721000501 Walker B; other site 584721000502 D-loop; other site 584721000503 H-loop/switch region; other site 584721000504 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 584721000505 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional; Region: PRK15395 584721000506 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 584721000507 ligand binding site [chemical binding]; other site 584721000508 calcium binding site [ion binding]; other site 584721000509 DNA-binding transcriptional regulator GalS; Provisional; Region: PRK10401 584721000510 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 584721000511 DNA binding site [nucleotide binding] 584721000512 domain linker motif; other site 584721000513 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 584721000514 ligand binding site [chemical binding]; other site 584721000515 dimerization interface (closed form) [polypeptide binding]; other site 584721000516 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 584721000517 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 584721000518 dimer interface [polypeptide binding]; other site 584721000519 active site 584721000520 galactokinase; Provisional; Region: PRK05101 584721000521 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 584721000522 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 584721000523 active site 584721000524 catalytic residues [active] 584721000525 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 584721000526 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 584721000527 Transporter associated domain; Region: CorC_HlyC; smart01091 584721000528 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 584721000529 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 584721000530 putative active site [active] 584721000531 catalytic triad [active] 584721000532 putative dimer interface [polypeptide binding]; other site 584721000533 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 584721000534 rRNA binding site [nucleotide binding]; other site 584721000535 predicted 30S ribosome binding site; other site 584721000536 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 584721000537 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 584721000538 NAD binding site [chemical binding]; other site 584721000539 substrate binding site [chemical binding]; other site 584721000540 homodimer interface [polypeptide binding]; other site 584721000541 active site 584721000542 aminopeptidase B; Provisional; Region: PRK05015 584721000543 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 584721000544 interface (dimer of trimers) [polypeptide binding]; other site 584721000545 Substrate-binding/catalytic site; other site 584721000546 Zn-binding sites [ion binding]; other site 584721000547 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 584721000548 active site 584721000549 multimer interface [polypeptide binding]; other site 584721000550 S-adenosylmethionine synthetase; Validated; Region: PRK05250 584721000551 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 584721000552 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 584721000553 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 584721000554 hypothetical protein; Provisional; Region: PRK04860 584721000555 Zn-dependent metalloprotease, SprT family [General function prediction only]; Region: SprT; COG3091 584721000556 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 584721000557 heat shock protein 90; Provisional; Region: PRK05218 584721000558 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 584721000559 ATP binding site [chemical binding]; other site 584721000560 Mg2+ binding site [ion binding]; other site 584721000561 G-X-G motif; other site 584721000562 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 584721000563 ArsC family; Region: ArsC; pfam03960 584721000564 putative catalytic residues [active] 584721000565 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 584721000566 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 584721000567 metal binding site [ion binding]; metal-binding site 584721000568 dimer interface [polypeptide binding]; other site 584721000569 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 584721000570 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 584721000571 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 584721000572 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 584721000573 dimer interface [polypeptide binding]; other site 584721000574 ADP-ribose binding site [chemical binding]; other site 584721000575 active site 584721000576 nudix motif; other site 584721000577 metal binding site [ion binding]; metal-binding site 584721000578 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 584721000579 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 584721000580 active site 584721000581 metal binding site [ion binding]; metal-binding site 584721000582 hexamer interface [polypeptide binding]; other site 584721000583 tyrosine kinase; Provisional; Region: PRK11519 584721000584 Chain length determinant protein; Region: Wzz; pfam02706 584721000585 Chain length determinant protein; Region: Wzz; cl15801 584721000586 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 584721000587 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 584721000588 P loop; other site 584721000589 Nucleotide binding site [chemical binding]; other site 584721000590 DTAP/Switch II; other site 584721000591 Switch I; other site 584721000592 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 584721000593 Low molecular weight phosphatase family; Region: LMWPc; cd00115 584721000594 active site 584721000595 polysaccharide export protein Wza; Provisional; Region: PRK15078 584721000596 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 584721000597 SLBB domain; Region: SLBB; pfam10531 584721000598 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 584721000599 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 584721000600 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 584721000601 NAD(P) binding site [chemical binding]; other site 584721000602 homodimer interface [polypeptide binding]; other site 584721000603 substrate binding site [chemical binding]; other site 584721000604 active site 584721000605 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 584721000606 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 584721000607 inhibitor-cofactor binding pocket; inhibition site 584721000608 pyridoxal 5'-phosphate binding site [chemical binding]; other site 584721000609 catalytic residue [active] 584721000610 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 584721000611 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 584721000612 Bacterial sugar transferase; Region: Bac_transf; pfam02397 584721000613 putative glycosyl transferase; Provisional; Region: PRK10307 584721000614 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 584721000615 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 584721000616 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 584721000617 active site 584721000618 homodimer interface [polypeptide binding]; other site 584721000619 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 584721000620 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 584721000621 NAD(P) binding site [chemical binding]; other site 584721000622 active site 584721000623 dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfbC; COG1898 584721000624 UDP-N-acetylglucosamine 4,6-dehydratase/5-epimerase; Region: FnlA; TIGR04130 584721000625 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 584721000626 NAD(P) binding site [chemical binding]; other site 584721000627 homodimer interface [polypeptide binding]; other site 584721000628 substrate binding site [chemical binding]; other site 584721000629 active site 584721000630 Polysaccharide biosynthesis protein C-terminal; Region: Polysacc_syn_2C; pfam08485 584721000631 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 584721000632 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 584721000633 Preprotein translocase subunit SecD [Intracellular trafficking and secretion]; Region: SecD; COG0342 584721000634 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 584721000635 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 584721000636 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 584721000637 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 584721000638 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Reviewed; Region: ubiF; PRK08020 584721000639 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 584721000640 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 584721000641 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 584721000642 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 584721000643 FeS/SAM binding site; other site 584721000644 TRAM domain; Region: TRAM; pfam01938 584721000645 Neuraminidase (sialidase) [Carbohydrate transport and metabolism]; Region: NanH; COG4409 584721000646 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 584721000647 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 584721000648 Asp-box motif; other site 584721000649 catalytic site [active] 584721000650 Autotransporter beta-domain; Region: Autotransporter; smart00869 584721000651 putative nicotinate phosphoribosyltransferase; Provisional; Region: PRK09198 584721000652 pre-B-cell colony-enhancing factor (PBEF)-like. The mammalian members of this group of nicotinate phosphoribosyltransferases (NAPRTases) were originally identified as genes whose expression is upregulated upon activation in lymphoid cells. In general; Region: PBEF_like; cd01569 584721000653 active site 584721000654 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 584721000655 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 584721000656 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 584721000657 HlyD family secretion protein; Region: HlyD_3; pfam13437 584721000658 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 584721000659 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 584721000660 Walker A/P-loop; other site 584721000661 ATP binding site [chemical binding]; other site 584721000662 Q-loop/lid; other site 584721000663 ABC transporter signature motif; other site 584721000664 Walker B; other site 584721000665 D-loop; other site 584721000666 H-loop/switch region; other site 584721000667 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 584721000668 FtsX-like permease family; Region: FtsX; pfam02687 584721000669 cystathionine gamma-synthase; Reviewed; Region: PRK08247 584721000670 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 584721000671 homodimer interface [polypeptide binding]; other site 584721000672 substrate-cofactor binding pocket; other site 584721000673 pyridoxal 5'-phosphate binding site [chemical binding]; other site 584721000674 catalytic residue [active] 584721000675 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 584721000676 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 584721000677 catalytic residues [active] 584721000678 NAD-dependent deacetylase; Provisional; Region: PRK00481 584721000679 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 584721000680 NAD+ binding site [chemical binding]; other site 584721000681 substrate binding site [chemical binding]; other site 584721000682 Zn binding site [ion binding]; other site 584721000683 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 584721000684 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 584721000685 RNA binding surface [nucleotide binding]; other site 584721000686 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 584721000687 active site 584721000688 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 584721000689 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 584721000690 homodimer interface [polypeptide binding]; other site 584721000691 oligonucleotide binding site [chemical binding]; other site 584721000692 Polyribonucleotide phosphorylase C terminal; Region: PNPase_C; pfam12111 584721000693 Primosomal replication protein N'' [DNA replication, recombination, and repair]; Region: PriC; COG3923 584721000694 Predicted permease [General function prediction only]; Region: COG2056 584721000695 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 584721000696 ribonuclease T; Provisional; Region: PRK05168 584721000697 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 584721000698 active site 584721000699 catalytic site [active] 584721000700 substrate binding site [chemical binding]; other site 584721000701 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 584721000702 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 584721000703 dimer interface [polypeptide binding]; other site 584721000704 active site 584721000705 metal binding site [ion binding]; metal-binding site 584721000706 glutathione binding site [chemical binding]; other site 584721000707 Predicted membrane protein [Function unknown]; Region: COG4984 584721000708 Predicted membrane protein (DUF2157); Region: DUF2157; pfam09925 584721000709 Uncharacterized membrane-anchored protein [Function unknown]; Region: COG4929 584721000710 Methyltransferase domain; Region: Methyltransf_31; pfam13847 584721000711 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 584721000712 S-adenosylmethionine binding site [chemical binding]; other site 584721000713 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1755 584721000714 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 584721000715 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 584721000716 dimer interface [polypeptide binding]; other site 584721000717 anticodon binding site; other site 584721000718 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 584721000719 homodimer interface [polypeptide binding]; other site 584721000720 motif 1; other site 584721000721 active site 584721000722 motif 2; other site 584721000723 GAD domain; Region: GAD; pfam02938 584721000724 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 584721000725 active site 584721000726 motif 3; other site 584721000727 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 584721000728 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 584721000729 nudix motif; other site 584721000730 hypothetical protein; Validated; Region: PRK00110 584721000731 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 584721000732 active site 584721000733 putative DNA-binding cleft [nucleotide binding]; other site 584721000734 dimer interface [polypeptide binding]; other site 584721000735 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 584721000736 RuvA N terminal domain; Region: RuvA_N; pfam01330 584721000737 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 584721000738 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 584721000739 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 584721000740 Walker A motif; other site 584721000741 ATP binding site [chemical binding]; other site 584721000742 Walker B motif; other site 584721000743 arginine finger; other site 584721000744 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 584721000745 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 584721000746 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 584721000747 cytochrome d oxidase, subunit II (cydB); Region: cydB; TIGR00203 584721000748 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 584721000749 Predicted membrane protein [Function unknown]; Region: COG3790 584721000750 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 584721000751 active site 584721000752 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 584721000753 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 584721000754 colicin uptake protein TolR; Provisional; Region: PRK11024 584721000755 cell envelope integrity inner membrane protein TolA; Provisional; Region: tolA; PRK09510 584721000756 cell envelope integrity inner membrane protein TolA; Provisional; Region: tolA; PRK09510 584721000757 TolA C-terminal; Region: TolA; pfam06519 584721000758 translocation protein TolB; Provisional; Region: tolB; PRK01742 584721000759 TolB amino-terminal domain; Region: TolB_N; pfam04052 584721000760 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 584721000761 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 584721000762 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 584721000763 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 584721000764 ligand binding site [chemical binding]; other site 584721000765 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 584721000766 Protein of unknown function (DUF2572); Region: DUF2572; pfam10833 584721000767 Arginase-like and histone-like hydrolases; Region: Arginase_HDAC; cl17011 584721000768 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 584721000769 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 584721000770 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 584721000771 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 584721000772 Coenzyme A binding pocket [chemical binding]; other site 584721000773 DNA polymerase III, psi subunit [DNA replication, recombination, and repair]; Region: HolD; COG3050 584721000774 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 584721000775 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 584721000776 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 584721000777 S-adenosylmethionine binding site [chemical binding]; other site 584721000778 ferric transporter ATP-binding subunit; Provisional; Region: fbpC; PRK11432 584721000779 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 584721000780 Walker A/P-loop; other site 584721000781 ATP binding site [chemical binding]; other site 584721000782 Q-loop/lid; other site 584721000783 ABC transporter signature motif; other site 584721000784 Walker B; other site 584721000785 D-loop; other site 584721000786 H-loop/switch region; other site 584721000787 TOBE domain; Region: TOBE_2; pfam08402 584721000788 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 584721000789 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 584721000790 dimer interface [polypeptide binding]; other site 584721000791 conserved gate region; other site 584721000792 putative PBP binding loops; other site 584721000793 ABC-ATPase subunit interface; other site 584721000794 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 584721000795 dimer interface [polypeptide binding]; other site 584721000796 conserved gate region; other site 584721000797 putative PBP binding loops; other site 584721000798 ABC-ATPase subunit interface; other site 584721000799 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 584721000800 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 584721000801 2-aminoethylphosphonate ABC transporter, periplasmic 2-aminoethylphosphonate binding protein; Region: PhnS; TIGR03227 584721000802 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 584721000803 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 584721000804 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 584721000805 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 584721000806 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 584721000807 Sugar specificity; other site 584721000808 Pyrimidine base specificity; other site 584721000809 ATP-binding site [chemical binding]; other site 584721000810 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 584721000811 trimer interface [polypeptide binding]; other site 584721000812 active site 584721000813 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 584721000814 putative arabinose transporter; Provisional; Region: PRK03545 584721000815 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 584721000816 putative substrate translocation pore; other site 584721000817 Superfamily II helicase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG5519 584721000818 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK14704 584721000819 Helix-turn-helix domain; Region: HTH_17; pfam12728 584721000820 primosomal protein DnaI; Provisional; Region: PRK02854 584721000821 Phage major capsid protein, P2 family; Region: Phage_cap_P2; cl04947 584721000822 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; pfam05930 584721000823 integrase; Provisional; Region: PRK09692 584721000824 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 584721000825 active site 584721000826 Int/Topo IB signature motif; other site 584721000827 putative transporter; Provisional; Region: PRK11660 584721000828 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 584721000829 Sulfate transporter family; Region: Sulfate_transp; pfam00916 584721000830 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 584721000831 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 584721000832 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 584721000833 active site 584721000834 intersubunit interface [polypeptide binding]; other site 584721000835 catalytic residue [active] 584721000836 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2979 584721000837 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 584721000838 putative metal binding site [ion binding]; other site 584721000839 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 584721000840 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 584721000841 active site 584721000842 HIGH motif; other site 584721000843 nucleotide binding site [chemical binding]; other site 584721000844 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 584721000845 KMSKS motif; other site 584721000846 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 584721000847 tRNA binding surface [nucleotide binding]; other site 584721000848 anticodon binding site; other site 584721000849 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 584721000850 substrate binding site [chemical binding]; other site 584721000851 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 584721000852 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 584721000853 substrate binding site [chemical binding]; other site 584721000854 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 584721000855 active site 584721000856 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 584721000857 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 584721000858 FeS/SAM binding site; other site 584721000859 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 584721000860 ATP cone domain; Region: ATP-cone; pfam03477 584721000861 Class III ribonucleotide reductase; Region: RNR_III; cd01675 584721000862 effector binding site; other site 584721000863 active site 584721000864 Zn binding site [ion binding]; other site 584721000865 glycine loop; other site 584721000866 potential frameshift: common BLAST hit: gi|378773906|ref|YP_005176149.1| cytochrome c peroxidase 584721000867 Haem-binding domain; Region: Haem_bd; pfam14376 584721000868 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 584721000869 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 584721000870 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 584721000871 GDP-binding site [chemical binding]; other site 584721000872 ACT binding site; other site 584721000873 IMP binding site; other site 584721000874 aspartate kinase III; Validated; Region: PRK09084 584721000875 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 584721000876 nucleotide binding site [chemical binding]; other site 584721000877 substrate binding site [chemical binding]; other site 584721000878 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_1; cd04932 584721000879 lysine allosteric regulatory site; other site 584721000880 dimer interface [polypeptide binding]; other site 584721000881 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 584721000882 dimer interface [polypeptide binding]; other site 584721000883 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 584721000884 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 584721000885 putative catalytic cysteine [active] 584721000886 Predicted membrane protein [Function unknown]; Region: COG2860 584721000887 UPF0126 domain; Region: UPF0126; pfam03458 584721000888 UPF0126 domain; Region: UPF0126; pfam03458 584721000889 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 584721000890 C4-dicarboxylate transporter [Energy production and conversion]; Region: DcuC; COG3069 584721000891 hypothetical protein; Provisional; Region: PRK07338 584721000892 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 584721000893 metal binding site [ion binding]; metal-binding site 584721000894 dimer interface [polypeptide binding]; other site 584721000895 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 584721000896 AMP binding site [chemical binding]; other site 584721000897 metal binding site [ion binding]; metal-binding site 584721000898 active site 584721000899 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 584721000900 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 584721000901 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 584721000902 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 584721000903 murein transglycosylase A; Provisional; Region: mltA; PRK11162 584721000904 MltA specific insert domain; Region: MltA; smart00925 584721000905 3D domain; Region: 3D; pfam06725 584721000906 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 584721000907 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 584721000908 putative ATP binding site [chemical binding]; other site 584721000909 putative substrate interface [chemical binding]; other site 584721000910 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 584721000911 intersubunit interface [polypeptide binding]; other site 584721000912 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 584721000913 high-affinity zinc transporter periplasmic component; Reviewed; Region: znuA; PRK09545 584721000914 metal binding site [ion binding]; metal-binding site 584721000915 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 584721000916 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 584721000917 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 584721000918 acyl-activating enzyme (AAE) consensus motif; other site 584721000919 putative AMP binding site [chemical binding]; other site 584721000920 putative active site [active] 584721000921 putative CoA binding site [chemical binding]; other site 584721000922 Entericidin EcnA/B family; Region: Entericidin; cl02322 584721000923 glyceraldehyde-3-phosphate dehydrogenase A; Provisional; Region: gapA; PRK15425 584721000924 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 584721000925 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 584721000926 methionine sulfoxide reductase B; Provisional; Region: PRK00222 584721000927 SelR domain; Region: SelR; pfam01641 584721000928 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 584721000929 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 584721000930 catalytic site [active] 584721000931 G-X2-G-X-G-K; other site 584721000932 DNA-directed RNA polymerase, omega subunit; Region: rpoZ; TIGR00690 584721000933 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 584721000934 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 584721000935 Zn2+ binding site [ion binding]; other site 584721000936 Mg2+ binding site [ion binding]; other site 584721000937 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 584721000938 synthetase active site [active] 584721000939 NTP binding site [chemical binding]; other site 584721000940 metal binding site [ion binding]; metal-binding site 584721000941 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 584721000942 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 584721000943 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 584721000944 Pathogenicity locus; Region: Cdd1; pfam11731 584721000945 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 584721000946 generic binding surface II; other site 584721000947 ssDNA binding site; other site 584721000948 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 584721000949 ATP binding site [chemical binding]; other site 584721000950 putative Mg++ binding site [ion binding]; other site 584721000951 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 584721000952 nucleotide binding region [chemical binding]; other site 584721000953 ATP-binding site [chemical binding]; other site 584721000954 Chorismate lyase; Region: Chor_lyase; cl01230 584721000955 glutamate racemase; Provisional; Region: PRK00865 584721000956 potential protein location (hypothetical protein NT08PM_0338 [Pasteurella multocida subsp. multocida str. 3480]) that overlaps RNA (5S ribosomal RNA) 584721000957 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 584721000958 classical (c) SDRs; Region: SDR_c; cd05233 584721000959 NAD(P) binding site [chemical binding]; other site 584721000960 active site 584721000961 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapF; COG4167 584721000962 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 584721000963 Walker A/P-loop; other site 584721000964 ATP binding site [chemical binding]; other site 584721000965 Q-loop/lid; other site 584721000966 ABC transporter signature motif; other site 584721000967 Walker B; other site 584721000968 D-loop; other site 584721000969 H-loop/switch region; other site 584721000970 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapD; COG4170 584721000971 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 584721000972 Walker A/P-loop; other site 584721000973 ATP binding site [chemical binding]; other site 584721000974 Q-loop/lid; other site 584721000975 ABC transporter signature motif; other site 584721000976 Walker B; other site 584721000977 D-loop; other site 584721000978 H-loop/switch region; other site 584721000979 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 584721000980 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SapC; COG4171 584721000981 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 584721000982 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 584721000983 dimer interface [polypeptide binding]; other site 584721000984 conserved gate region; other site 584721000985 putative PBP binding loops; other site 584721000986 ABC-ATPase subunit interface; other site 584721000987 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SapB; COG4168 584721000988 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 584721000989 dimer interface [polypeptide binding]; other site 584721000990 conserved gate region; other site 584721000991 putative PBP binding loops; other site 584721000992 ABC-ATPase subunit interface; other site 584721000993 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 584721000994 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 584721000995 peptide binding site [polypeptide binding]; other site 584721000996 Predicted ATPase [General function prediction only]; Region: COG3106 584721000997 Predicted membrane protein [Function unknown]; Region: COG3768 584721000998 Domain of unknown function (DUF697); Region: DUF697; cl12064 584721000999 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 584721001000 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 584721001001 Walker A motif; other site 584721001002 ATP binding site [chemical binding]; other site 584721001003 Walker B motif; other site 584721001004 arginine finger; other site 584721001005 GTPase HflX; Provisional; Region: PRK11058 584721001006 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 584721001007 HflX GTPase family; Region: HflX; cd01878 584721001008 G1 box; other site 584721001009 GTP/Mg2+ binding site [chemical binding]; other site 584721001010 Switch I region; other site 584721001011 G2 box; other site 584721001012 G3 box; other site 584721001013 Switch II region; other site 584721001014 G4 box; other site 584721001015 G5 box; other site 584721001016 bacterial Hfq-like; Region: Hfq; cd01716 584721001017 hexamer interface [polypeptide binding]; other site 584721001018 Sm1 motif; other site 584721001019 RNA binding site [nucleotide binding]; other site 584721001020 Sm2 motif; other site 584721001021 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 584721001022 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 584721001023 DNA mismatch repair enzyme (predicted ATPase) [DNA replication, recombination, and repair]; Region: MutL; COG0323 584721001024 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 584721001025 ATP binding site [chemical binding]; other site 584721001026 Mg2+ binding site [ion binding]; other site 584721001027 G-X-G motif; other site 584721001028 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 584721001029 ATP binding site [chemical binding]; other site 584721001030 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 584721001031 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 584721001032 active site 584721001033 metal binding site [ion binding]; metal-binding site 584721001034 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 584721001035 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 584721001036 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 584721001037 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 584721001038 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 584721001039 catalytic site [active] 584721001040 putative active site [active] 584721001041 putative substrate binding site [chemical binding]; other site 584721001042 dimer interface [polypeptide binding]; other site 584721001043 GTPase RsgA; Reviewed; Region: PRK12288 584721001044 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 584721001045 RNA binding site [nucleotide binding]; other site 584721001046 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 584721001047 GTPase/Zn-binding domain interface [polypeptide binding]; other site 584721001048 GTP/Mg2+ binding site [chemical binding]; other site 584721001049 G4 box; other site 584721001050 G5 box; other site 584721001051 G1 box; other site 584721001052 Switch I region; other site 584721001053 G2 box; other site 584721001054 G3 box; other site 584721001055 Switch II region; other site 584721001056 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 584721001057 dimerization domain swap beta strand [polypeptide binding]; other site 584721001058 regulatory protein interface [polypeptide binding]; other site 584721001059 active site 584721001060 regulatory phosphorylation site [posttranslational modification]; other site 584721001061 phosphoenolpyruvate-protein phosphotransferase; Provisional; Region: PRK11177 584721001062 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 584721001063 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 584721001064 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 584721001065 PTS system glucose-specific transporter subunit; Provisional; Region: PRK09439 584721001066 HPr interaction site; other site 584721001067 glycerol kinase (GK) interaction site [polypeptide binding]; other site 584721001068 active site 584721001069 phosphorylation site [posttranslational modification] 584721001070 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 584721001071 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 584721001072 dimer interface [polypeptide binding]; other site 584721001073 TPP-binding site [chemical binding]; other site 584721001074 Transketolase, pyrimidine binding domain; Region: Transket_pyr; smart00861 584721001075 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 584721001076 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 584721001077 E3 interaction surface; other site 584721001078 lipoyl attachment site [posttranslational modification]; other site 584721001079 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 584721001080 E3 interaction surface; other site 584721001081 lipoyl attachment site [posttranslational modification]; other site 584721001082 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 584721001083 E3 interaction surface; other site 584721001084 lipoyl attachment site [posttranslational modification]; other site 584721001085 e3 binding domain; Region: E3_binding; pfam02817 584721001086 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 584721001087 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 584721001088 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 584721001089 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 584721001090 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 584721001091 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 584721001092 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cl10465 584721001093 serine/threonine transporter SstT; Provisional; Region: PRK13628 584721001094 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 584721001095 putative molybdenum transport ATP-binding protein ModF; Provisional; Region: PRK10938 584721001096 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 584721001097 Walker A/P-loop; other site 584721001098 ATP binding site [chemical binding]; other site 584721001099 Q-loop/lid; other site 584721001100 ABC transporter signature motif; other site 584721001101 Walker B; other site 584721001102 D-loop; other site 584721001103 H-loop/switch region; other site 584721001104 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 584721001105 Walker A/P-loop; other site 584721001106 ATP binding site [chemical binding]; other site 584721001107 Q-loop/lid; other site 584721001108 ABC transporter signature motif; other site 584721001109 Walker B; other site 584721001110 D-loop; other site 584721001111 H-loop/switch region; other site 584721001112 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 584721001113 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 584721001114 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 584721001115 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 584721001116 Uncharacterized component of anaerobic dehydrogenases [General function prediction only]; Region: TorD; COG3381 584721001117 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 584721001118 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 584721001119 putative acyl-acceptor binding pocket; other site 584721001120 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 584721001121 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 584721001122 putative ribose interaction site [chemical binding]; other site 584721001123 putative ADP binding site [chemical binding]; other site 584721001124 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 584721001125 active site 584721001126 nucleotide binding site [chemical binding]; other site 584721001127 HIGH motif; other site 584721001128 KMSKS motif; other site 584721001129 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 584721001130 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 584721001131 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 584721001132 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 584721001133 catalytic residue [active] 584721001134 Staphylococcal nuclease homologues; Region: SNc; smart00318 584721001135 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 584721001136 Catalytic site; other site 584721001137 hypothetical protein; Provisional; Region: PRK01821 584721001138 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 584721001139 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK05318 584721001140 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 584721001141 Zn2+ binding site [ion binding]; other site 584721001142 Mg2+ binding site [ion binding]; other site 584721001143 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 584721001144 ABC transporter ATPase component; Reviewed; Region: PRK11147 584721001145 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 584721001146 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 584721001147 ABC transporter; Region: ABC_tran_2; pfam12848 584721001148 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 584721001149 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 584721001150 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 584721001151 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 584721001152 active site turn [active] 584721001153 phosphorylation site [posttranslational modification] 584721001154 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 584721001155 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 584721001156 active site 584721001157 trimer interface [polypeptide binding]; other site 584721001158 allosteric site; other site 584721001159 active site lid [active] 584721001160 hexamer (dimer of trimers) interface [polypeptide binding]; other site 584721001161 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 584721001162 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 584721001163 active site 584721001164 dimer interface [polypeptide binding]; other site 584721001165 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 584721001166 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 584721001167 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 584721001168 putative active site [active] 584721001169 putative substrate binding site [chemical binding]; other site 584721001170 putative cosubstrate binding site; other site 584721001171 catalytic site [active] 584721001172 DNA-binding protein H-NS [General function prediction only]; Region: Hns; COG2916 584721001173 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 584721001174 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 584721001175 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06882 584721001176 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 584721001177 PYR/PP interface [polypeptide binding]; other site 584721001178 dimer interface [polypeptide binding]; other site 584721001179 TPP binding site [chemical binding]; other site 584721001180 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 584721001181 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 584721001182 TPP-binding site [chemical binding]; other site 584721001183 dimer interface [polypeptide binding]; other site 584721001184 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 584721001185 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 584721001186 putative valine binding site [chemical binding]; other site 584721001187 dimer interface [polypeptide binding]; other site 584721001188 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 584721001189 DNA-binding transcriptional regulator FruR; Provisional; Region: PRK11303 584721001190 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 584721001191 DNA binding site [nucleotide binding] 584721001192 domain linker motif; other site 584721001193 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 584721001194 dimerization interface [polypeptide binding]; other site 584721001195 ligand binding site [chemical binding]; other site 584721001196 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 584721001197 putative active site [active] 584721001198 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 584721001199 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 584721001200 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 584721001201 catalytic center binding site [active] 584721001202 ATP binding site [chemical binding]; other site 584721001203 poly(A) polymerase; Region: pcnB; TIGR01942 584721001204 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 584721001205 active site 584721001206 NTP binding site [chemical binding]; other site 584721001207 metal binding triad [ion binding]; metal-binding site 584721001208 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 584721001209 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 584721001210 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 584721001211 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 584721001212 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 584721001213 Competence protein; Region: Competence; pfam03772 584721001214 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 584721001215 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 584721001216 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 584721001217 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 584721001218 Walker A/P-loop; other site 584721001219 ATP binding site [chemical binding]; other site 584721001220 Q-loop/lid; other site 584721001221 ABC transporter signature motif; other site 584721001222 Walker B; other site 584721001223 D-loop; other site 584721001224 H-loop/switch region; other site 584721001225 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 584721001226 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 584721001227 Uncharacterized conserved protein [Function unknown]; Region: COG2835 584721001228 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 584721001229 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 584721001230 Ligand binding site; other site 584721001231 oligomer interface; other site 584721001232 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 584721001233 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 584721001234 GIY-YIG motif/motif A; other site 584721001235 active site 584721001236 catalytic site [active] 584721001237 putative DNA binding site [nucleotide binding]; other site 584721001238 metal binding site [ion binding]; metal-binding site 584721001239 UvrB/uvrC motif; Region: UVR; pfam02151 584721001240 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 584721001241 Helix-hairpin-helix motif; Region: HHH; pfam00633 584721001242 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 584721001243 Flp/Fap pilin component; Region: Flp_Fap; cl01585 584721001244 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 584721001245 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 584721001246 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 584721001247 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 584721001248 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 584721001249 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 584721001250 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 584721001251 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 584721001252 ATP binding site [chemical binding]; other site 584721001253 Walker A motif; other site 584721001254 hexamer interface [polypeptide binding]; other site 584721001255 Walker B motif; other site 584721001256 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 584721001257 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 584721001258 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 584721001259 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 584721001260 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 584721001261 binding surface 584721001262 TPR motif; other site 584721001263 TadE-like protein; Region: TadE; pfam07811 584721001264 TadE-like protein; Region: TadE; pfam07811 584721001265 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 584721001266 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 584721001267 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3094 584721001268 DNA gyrase subunit A; Validated; Region: PRK05560 584721001269 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 584721001270 CAP-like domain; other site 584721001271 active site 584721001272 primary dimer interface [polypeptide binding]; other site 584721001273 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 584721001274 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 584721001275 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 584721001276 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 584721001277 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 584721001278 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 584721001279 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 584721001280 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 584721001281 S-adenosylmethionine binding site [chemical binding]; other site 584721001282 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 584721001283 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 584721001284 hinge; other site 584721001285 active site 584721001286 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 584721001287 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 584721001288 pyridoxal 5'-phosphate binding site [chemical binding]; other site 584721001289 homodimer interface [polypeptide binding]; other site 584721001290 catalytic residue [active] 584721001291 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 584721001292 homodimer interface [polypeptide binding]; other site 584721001293 substrate-cofactor binding pocket; other site 584721001294 pyridoxal 5'-phosphate binding site [chemical binding]; other site 584721001295 catalytic residue [active] 584721001296 hypothetical protein; Provisional; Region: PRK05423 584721001297 benzoate transport; Region: 2A0115; TIGR00895 584721001298 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 584721001299 putative substrate translocation pore; other site 584721001300 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 584721001301 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 584721001302 active pocket/dimerization site; other site 584721001303 active site 584721001304 phosphorylation site [posttranslational modification] 584721001305 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 584721001306 active site 584721001307 phosphorylation site [posttranslational modification] 584721001308 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 584721001309 PTS system mannose-specific transporter subunit IID; Provisional; Region: PRK11103 584721001310 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 584721001311 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 584721001312 trimer interface [polypeptide binding]; other site 584721001313 eyelet of channel; other site 584721001314 Protein of unknown function (DUF986); Region: DUF986; cl01983 584721001315 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 584721001316 mannose-6-phosphate isomerase; Provisional; Region: PRK15131 584721001317 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 584721001318 N-acetylglutamate synthase; Validated; Region: PRK05279 584721001319 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 584721001320 putative feedback inhibition sensing region; other site 584721001321 putative nucleotide binding site [chemical binding]; other site 584721001322 putative substrate binding site [chemical binding]; other site 584721001323 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 584721001324 Coenzyme A binding pocket [chemical binding]; other site 584721001325 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 584721001326 GSH binding site [chemical binding]; other site 584721001327 catalytic residues [active] 584721001328 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 584721001329 ATP-grasp domain; Region: ATP-grasp_4; cl17255 584721001330 hypothetical protein; Provisional; Region: PRK04940 584721001331 fumarate hydratase; Reviewed; Region: fumC; PRK00485 584721001332 Class II fumarases; Region: Fumarase_classII; cd01362 584721001333 active site 584721001334 tetramer interface [polypeptide binding]; other site 584721001335 DNA polymerase III subunit chi; Validated; Region: PRK05728 584721001336 putative septicolysin, cholesterol-dependent cytolysin family and related proteins; Region: septicolysin_like; cd12208 584721001337 oligomer interface [polypeptide binding]; other site 584721001338 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 584721001339 dimer interface [polypeptide binding]; other site 584721001340 catalytic triad [active] 584721001341 peroxidatic and resolving cysteines [active] 584721001342 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 584721001343 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 584721001344 HIGH motif; other site 584721001345 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 584721001346 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 584721001347 active site 584721001348 KMSKS motif; other site 584721001349 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 584721001350 tRNA binding surface [nucleotide binding]; other site 584721001351 anticodon binding site; other site 584721001352 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 584721001353 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 584721001354 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 584721001355 dimerization interface [polypeptide binding]; other site 584721001356 DPS ferroxidase diiron center [ion binding]; other site 584721001357 ion pore; other site 584721001358 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 584721001359 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 584721001360 G1 box; other site 584721001361 putative GEF interaction site [polypeptide binding]; other site 584721001362 GTP/Mg2+ binding site [chemical binding]; other site 584721001363 Switch I region; other site 584721001364 G2 box; other site 584721001365 G3 box; other site 584721001366 Switch II region; other site 584721001367 G4 box; other site 584721001368 G5 box; other site 584721001369 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 584721001370 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 584721001371 Sulfatase; Region: Sulfatase; pfam00884 584721001372 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 584721001373 ATP binding site [chemical binding]; other site 584721001374 active site 584721001375 substrate binding site [chemical binding]; other site 584721001376 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 584721001377 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 584721001378 putative NAD(P) binding site [chemical binding]; other site 584721001379 argininosuccinate synthase; Validated; Region: PRK05370 584721001380 argininosuccinate synthase; Provisional; Region: PRK13820 584721001381 tyrosine phenol-lyase; Provisional; Region: PRK13237 584721001382 Tryptophanase family (Tnase). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to tryptophanase (Tnase) and tyrosine phenol-lyase (TPL). Tnase and TPL are...; Region: Tnase_like; cd00617 584721001383 substrate binding site [chemical binding]; other site 584721001384 tetramer interface [polypeptide binding]; other site 584721001385 catalytic residue [active] 584721001386 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 584721001387 aromatic amino acid transport protein; Region: araaP; TIGR00837 584721001388 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VirK; COG2990 584721001389 ornithine carbamoyltransferase; Validated; Region: PRK02102 584721001390 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 584721001391 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 584721001392 putrescine transporter; Provisional; Region: potE; PRK10655 584721001393 ornithine decarboxylase; Provisional; Region: PRK13578 584721001394 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 584721001395 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 584721001396 homodimer interface [polypeptide binding]; other site 584721001397 pyridoxal 5'-phosphate binding site [chemical binding]; other site 584721001398 catalytic residue [active] 584721001399 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 584721001400 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 584721001401 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 584721001402 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 584721001403 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 584721001404 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 584721001405 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 584721001406 cytidylate kinase; Provisional; Region: cmk; PRK00023 584721001407 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 584721001408 CMP-binding site; other site 584721001409 The sites determining sugar specificity; other site 584721001410 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 584721001411 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 584721001412 RNA binding site [nucleotide binding]; other site 584721001413 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 584721001414 RNA binding site [nucleotide binding]; other site 584721001415 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 584721001416 RNA binding site [nucleotide binding]; other site 584721001417 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 584721001418 RNA binding site [nucleotide binding]; other site 584721001419 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 584721001420 RNA binding site [nucleotide binding]; other site 584721001421 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 584721001422 RNA binding site [nucleotide binding]; other site 584721001423 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 584721001424 IHF dimer interface [polypeptide binding]; other site 584721001425 IHF - DNA interface [nucleotide binding]; other site 584721001426 Predicted membrane protein [Function unknown]; Region: COG3771 584721001427 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]; Region: COG2956 584721001428 Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either...; Region: rubredoxin_like; cl00202 584721001429 iron binding site [ion binding]; other site 584721001430 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 584721001431 active site 584721001432 dimer interface [polypeptide binding]; other site 584721001433 translation initiation factor Sui1; Validated; Region: PRK06824 584721001434 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 584721001435 putative rRNA binding site [nucleotide binding]; other site 584721001436 peroxidase; Provisional; Region: PRK15000 584721001437 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 584721001438 dimer interface [polypeptide binding]; other site 584721001439 decamer (pentamer of dimers) interface [polypeptide binding]; other site 584721001440 catalytic triad [active] 584721001441 peroxidatic and resolving cysteines [active] 584721001442 cystathionine beta-lyase; Provisional; Region: PRK08114 584721001443 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 584721001444 homodimer interface [polypeptide binding]; other site 584721001445 substrate-cofactor binding pocket; other site 584721001446 pyridoxal 5'-phosphate binding site [chemical binding]; other site 584721001447 catalytic residue [active] 584721001448 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 584721001449 fructuronate transporter; Provisional; Region: PRK10034; cl15264 584721001450 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 584721001451 Shikimate kinase; Region: SKI; pfam01202 584721001452 ATP-binding site [chemical binding]; other site 584721001453 Gluconate-6-phosphate binding site [chemical binding]; other site 584721001454 gluconate operon transcriptional regulator; Provisional; Region: PRK14987 584721001455 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 584721001456 DNA binding site [nucleotide binding] 584721001457 domain linker motif; other site 584721001458 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 584721001459 putative ligand binding site [chemical binding]; other site 584721001460 putative dimerization interface [polypeptide binding]; other site 584721001461 selenophosphate synthetase; Provisional; Region: PRK00943 584721001462 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 584721001463 dimerization interface [polypeptide binding]; other site 584721001464 putative ATP binding site [chemical binding]; other site 584721001465 ferrochelatase; Reviewed; Region: hemH; PRK00035 584721001466 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 584721001467 C-terminal domain interface [polypeptide binding]; other site 584721001468 active site 584721001469 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 584721001470 active site 584721001471 N-terminal domain interface [polypeptide binding]; other site 584721001472 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 584721001473 CoenzymeA binding site [chemical binding]; other site 584721001474 subunit interaction site [polypeptide binding]; other site 584721001475 PHB binding site; other site 584721001476 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 584721001477 FAD binding domain; Region: FAD_binding_4; pfam01565 584721001478 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 584721001479 outer membrane protein A; Reviewed; Region: PRK10808 584721001480 OmpA-like transmembrane domain; Region: OmpA_membrane; pfam01389 584721001481 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 584721001482 ligand binding site [chemical binding]; other site 584721001483 LemA family; Region: LemA; pfam04011 584721001484 Predicted membrane protein [Function unknown]; Region: COG3762 584721001485 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 584721001486 Repair protein; Region: Repair_PSII; pfam04536 584721001487 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 584721001488 putative GSH binding site [chemical binding]; other site 584721001489 catalytic residues [active] 584721001490 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 584721001491 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 584721001492 Walker A/P-loop; other site 584721001493 ATP binding site [chemical binding]; other site 584721001494 Q-loop/lid; other site 584721001495 ABC transporter signature motif; other site 584721001496 Walker B; other site 584721001497 D-loop; other site 584721001498 H-loop/switch region; other site 584721001499 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 584721001500 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 584721001501 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsE; COG3524 584721001502 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 584721001503 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 584721001504 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 584721001505 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 584721001506 active site 584721001507 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 584721001508 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 584721001509 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 584721001510 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 584721001511 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 584721001512 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 584721001513 active site 584721001514 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 584721001515 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 584721001516 active site 584721001517 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 584721001518 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsC; COG3563 584721001519 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 584721001520 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 584721001521 Predicted membrane protein [Function unknown]; Region: COG2707 584721001522 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 584721001523 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 584721001524 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 584721001525 ATP binding site [chemical binding]; other site 584721001526 putative Mg++ binding site [ion binding]; other site 584721001527 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 584721001528 nucleotide binding region [chemical binding]; other site 584721001529 ATP-binding site [chemical binding]; other site 584721001530 Helicase associated domain (HA2); Region: HA2; pfam04408 584721001531 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 584721001532 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 584721001533 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 584721001534 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 584721001535 Walker A motif; other site 584721001536 ATP binding site [chemical binding]; other site 584721001537 Walker B motif; other site 584721001538 arginine finger; other site 584721001539 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 584721001540 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like_2; cd04847 584721001541 active site 584721001542 catalytic triad [active] 584721001543 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 584721001544 probable addiction module antidote protein; Region: dnstrm_HI1420; TIGR02684 584721001545 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 584721001546 active site 584721001547 dimer interface [polypeptide binding]; other site 584721001548 magnesium binding site [ion binding]; other site 584721001549 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 584721001550 active site 584721001551 phosphorylation site [posttranslational modification] 584721001552 PTS system ascorbate-specific transporter subunits IICB; Provisional; Region: PRK09548 584721001553 Uncharacterized protein conserved in bacteria [Function unknown]; Region: SgaT; COG3037 584721001554 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 584721001555 active site 584721001556 P-loop; other site 584721001557 phosphorylation site [posttranslational modification] 584721001558 putative L-ascorbate 6-phosphate lactonase; Provisional; Region: PRK11709 584721001559 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 584721001560 transcriptional repressor UlaR; Provisional; Region: PRK13509 584721001561 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 584721001562 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 584721001563 Sm and related proteins; Region: Sm_like; cl00259 584721001564 Uncharacterized BCR, YhbC family COG0779; Region: DUF150; pfam02576 584721001565 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 584721001566 putative oligomer interface [polypeptide binding]; other site 584721001567 putative RNA binding site [nucleotide binding]; other site 584721001568 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 584721001569 NusA N-terminal domain; Region: NusA_N; pfam08529 584721001570 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 584721001571 RNA binding site [nucleotide binding]; other site 584721001572 homodimer interface [polypeptide binding]; other site 584721001573 NusA-like KH domain; Region: KH_5; pfam13184 584721001574 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 584721001575 G-X-X-G motif; other site 584721001576 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 584721001577 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 584721001578 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 584721001579 translation initiation factor IF-2; Region: IF-2; TIGR00487 584721001580 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 584721001581 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 584721001582 G1 box; other site 584721001583 putative GEF interaction site [polypeptide binding]; other site 584721001584 GTP/Mg2+ binding site [chemical binding]; other site 584721001585 Switch I region; other site 584721001586 G2 box; other site 584721001587 G3 box; other site 584721001588 Switch II region; other site 584721001589 G4 box; other site 584721001590 G5 box; other site 584721001591 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 584721001592 Translation-initiation factor 2; Region: IF-2; pfam11987 584721001593 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 584721001594 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 584721001595 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 584721001596 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 584721001597 RNA binding site [nucleotide binding]; other site 584721001598 active site 584721001599 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 584721001600 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 584721001601 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 584721001602 active site 584721001603 HIGH motif; other site 584721001604 dimer interface [polypeptide binding]; other site 584721001605 KMSKS motif; other site 584721001606 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 584721001607 RNA binding surface [nucleotide binding]; other site 584721001608 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 584721001609 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 584721001610 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 584721001611 ligand binding site [chemical binding]; other site 584721001612 homodimer interface [polypeptide binding]; other site 584721001613 NAD(P) binding site [chemical binding]; other site 584721001614 trimer interface B [polypeptide binding]; other site 584721001615 trimer interface A [polypeptide binding]; other site 584721001616 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 584721001617 pyridine nucleotide transhydrogenase; Provisional; Region: pntB; PRK09444 584721001618 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 584721001619 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 584721001620 putative active site [active] 584721001621 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 584721001622 ATP cone domain; Region: ATP-cone; pfam03477 584721001623 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 584721001624 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 584721001625 catalytic motif [active] 584721001626 Zn binding site [ion binding]; other site 584721001627 RibD C-terminal domain; Region: RibD_C; cl17279 584721001628 periplasmic serine pepetdase DegS; Region: protease_degS; TIGR02038 584721001629 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 584721001630 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 584721001631 5'-nucleotidase; Provisional; Region: PRK03826 584721001632 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 584721001633 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 584721001634 molybdenum-pterin binding domain; Region: Mop; TIGR00638 584721001635 TOBE domain; Region: TOBE; pfam03459 584721001636 potential frameshift: common BLAST hit: gi|383310419|ref|YP_005363229.1| iron-regulated outer membrane protein 584721001637 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 584721001638 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 584721001639 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 584721001640 potential frameshift: common BLAST hit: gi|383310417|ref|YP_005363227.1| molybdate ABC superfamily ATP binding cassette transporter, binding 584721001641 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 584721001642 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 584721001643 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 584721001644 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 584721001645 dimer interface [polypeptide binding]; other site 584721001646 conserved gate region; other site 584721001647 putative PBP binding loops; other site 584721001648 ABC-ATPase subunit interface; other site 584721001649 molybdate transporter ATP-binding protein; Provisional; Region: modC; PRK11144 584721001650 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 584721001651 Walker A/P-loop; other site 584721001652 ATP binding site [chemical binding]; other site 584721001653 Q-loop/lid; other site 584721001654 ABC transporter signature motif; other site 584721001655 Walker B; other site 584721001656 D-loop; other site 584721001657 H-loop/switch region; other site 584721001658 TOBE domain; Region: TOBE; pfam03459 584721001659 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 584721001660 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 584721001661 N-terminal plug; other site 584721001662 ligand-binding site [chemical binding]; other site 584721001663 chaperone protein DnaJ; Provisional; Region: PRK10767 584721001664 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 584721001665 HSP70 interaction site [polypeptide binding]; other site 584721001666 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 584721001667 substrate binding site [polypeptide binding]; other site 584721001668 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 584721001669 Zn binding sites [ion binding]; other site 584721001670 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 584721001671 dimer interface [polypeptide binding]; other site 584721001672 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 584721001673 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 584721001674 homodimer interface [polypeptide binding]; other site 584721001675 substrate-cofactor binding pocket; other site 584721001676 pyridoxal 5'-phosphate binding site [chemical binding]; other site 584721001677 catalytic residue [active] 584721001678 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3708 584721001679 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 584721001680 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 584721001681 nucleotide binding site [chemical binding]; other site 584721001682 photosystem II protein PsbQ; Region: PS_II_psbQ_bact; TIGR03042 584721001683 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 584721001684 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 584721001685 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 584721001686 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 584721001687 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 584721001688 protein binding site [polypeptide binding]; other site 584721001689 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 584721001690 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 584721001691 dimer interface [polypeptide binding]; other site 584721001692 FMN binding site [chemical binding]; other site 584721001693 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 584721001694 aromatic amino acid transport protein; Region: araaP; TIGR00837 584721001695 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 584721001696 homopentamer interface [polypeptide binding]; other site 584721001697 active site 584721001698 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 584721001699 putative RNA binding site [nucleotide binding]; other site 584721001700 Thiamine monophosphate kinase [Coenzyme metabolism]; Region: ThiL; COG0611 584721001701 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 584721001702 ATP binding site [chemical binding]; other site 584721001703 dimerization interface [polypeptide binding]; other site 584721001704 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 584721001705 tetramer interfaces [polypeptide binding]; other site 584721001706 binuclear metal-binding site [ion binding]; other site 584721001707 LysE type translocator; Region: LysE; cl00565 584721001708 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 584721001709 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 584721001710 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 584721001711 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 584721001712 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 584721001713 active site 584721001714 phosphorylation site [posttranslational modification] 584721001715 intermolecular recognition site; other site 584721001716 dimerization interface [polypeptide binding]; other site 584721001717 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 584721001718 DNA binding residues [nucleotide binding] 584721001719 dimerization interface [polypeptide binding]; other site 584721001720 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 584721001721 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 584721001722 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 584721001723 dimer interface [polypeptide binding]; other site 584721001724 phosphorylation site [posttranslational modification] 584721001725 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 584721001726 ATP binding site [chemical binding]; other site 584721001727 Mg2+ binding site [ion binding]; other site 584721001728 G-X-G motif; other site 584721001729 tetrathionate reductase subunit B; Provisional; Region: PRK14993 584721001730 4Fe-4S binding domain; Region: Fer4; pfam00037 584721001731 tetrathionate reductase subunit C; Provisional; Region: PRK14992 584721001732 tetrathionate reductase subunit A; Provisional; Region: PRK14991 584721001733 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 584721001734 molybdopterin cofactor binding site; other site 584721001735 The MopB_Tetrathionate-Ra CD contains tetrathionate reductase, subunit A, (TtrA) and other related proteins. The Salmonella enterica tetrathionate reductase catalyses the reduction of trithionate but not sulfur or thiosulfate. Members of this CD belong...; Region: MopB_Tetrathionate-Ra; cd02758 584721001736 putative molybdopterin cofactor binding site [chemical binding]; other site 584721001737 This CD contains the molybdopterin_binding C-terminal (MopB_CT) region of tetrathionate reductase, subunit A, (TtrA); respiratory arsenate As(V) reductase, catalytic subunit (ArrA); and other related proteins; Region: MopB_CT_Tetrathionate_Arsenate-R; cd02780 584721001738 putative molybdopterin cofactor binding site; other site 584721001739 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 584721001740 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 584721001741 catalytic loop [active] 584721001742 iron binding site [ion binding]; other site 584721001743 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 584721001744 dimer interface [polypeptide binding]; other site 584721001745 putative radical transfer pathway; other site 584721001746 diiron center [ion binding]; other site 584721001747 tyrosyl radical; other site 584721001748 uncharacterized bacterial and archaeal solute carrier 6 subfamily; solute-binding domain; Region: SLC6sbd_u1; cd10334 584721001749 Na2 binding site [ion binding]; other site 584721001750 putative substrate binding site 1 [chemical binding]; other site 584721001751 Na binding site 1 [ion binding]; other site 584721001752 putative substrate binding site 2 [chemical binding]; other site 584721001753 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 584721001754 ATP cone domain; Region: ATP-cone; pfam03477 584721001755 Class I ribonucleotide reductase; Region: RNR_I; cd01679 584721001756 active site 584721001757 dimer interface [polypeptide binding]; other site 584721001758 catalytic residues [active] 584721001759 effector binding site; other site 584721001760 R2 peptide binding site; other site 584721001761 D-alanyl-D-alanine carboxypeptidase/endopeptidase; Provisional; Region: PRK11113 584721001762 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 584721001763 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 584721001764 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 584721001765 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 584721001766 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 584721001767 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 584721001768 trimer interface [polypeptide binding]; other site 584721001769 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 584721001770 trimer interface [polypeptide binding]; other site 584721001771 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 584721001772 trimer interface [polypeptide binding]; other site 584721001773 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 584721001774 trimer interface [polypeptide binding]; other site 584721001775 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 584721001776 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 584721001777 YadA-like C-terminal region; Region: YadA; pfam03895 584721001778 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 584721001779 Predicted permeases [General function prediction only]; Region: COG0679 584721001780 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 584721001781 active site 584721001782 phosphate binding residues; other site 584721001783 catalytic residues [active] 584721001784 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 584721001785 DEAD_2; Region: DEAD_2; pfam06733 584721001786 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 584721001787 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 584721001788 Glycoprotease family; Region: Peptidase_M22; pfam00814 584721001789 Starvation-inducible outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: Slp; COG3065 584721001790 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 584721001791 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 584721001792 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 584721001793 acyl-activating enzyme (AAE) consensus motif; other site 584721001794 putative AMP binding site [chemical binding]; other site 584721001795 putative active site [active] 584721001796 putative CoA binding site [chemical binding]; other site 584721001797 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 584721001798 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 584721001799 catalytic site [active] 584721001800 putative active site [active] 584721001801 putative substrate binding site [chemical binding]; other site 584721001802 HRDC domain; Region: HRDC; pfam00570 584721001803 phosphate acetyltransferase; Reviewed; Region: PRK05632 584721001804 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 584721001805 DRTGG domain; Region: DRTGG; pfam07085 584721001806 phosphate acetyltransferase; Region: pta; TIGR00651 584721001807 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 584721001808 propionate/acetate kinase; Provisional; Region: PRK12379 584721001809 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3092 584721001810 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 584721001811 Colicin V production protein; Region: Colicin_V; cl00567 584721001812 amidophosphoribosyltransferase; Provisional; Region: PRK09246 584721001813 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 584721001814 active site 584721001815 tetramer interface [polypeptide binding]; other site 584721001816 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 584721001817 active site 584721001818 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 584721001819 Flavoprotein; Region: Flavoprotein; pfam02441 584721001820 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 584721001821 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 584721001822 ATP binding site [chemical binding]; other site 584721001823 substrate interface [chemical binding]; other site 584721001824 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 584721001825 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 584721001826 dimer interface [polypeptide binding]; other site 584721001827 putative functional site; other site 584721001828 putative MPT binding site; other site 584721001829 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 584721001830 homodecamer interface [polypeptide binding]; other site 584721001831 GTP cyclohydrolase I; Provisional; Region: PLN03044 584721001832 active site 584721001833 putative catalytic site residues [active] 584721001834 zinc binding site [ion binding]; other site 584721001835 GTP-CH-I/GFRP interaction surface; other site 584721001836 acetyl-CoA synthetase; Provisional; Region: PRK00174 584721001837 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 584721001838 active site 584721001839 CoA binding site [chemical binding]; other site 584721001840 acyl-activating enzyme (AAE) consensus motif; other site 584721001841 AMP binding site [chemical binding]; other site 584721001842 acetate binding site [chemical binding]; other site 584721001843 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 584721001844 putative catalytic site [active] 584721001845 putative phosphate binding site [ion binding]; other site 584721001846 active site 584721001847 metal binding site A [ion binding]; metal-binding site 584721001848 DNA binding site [nucleotide binding] 584721001849 putative AP binding site [nucleotide binding]; other site 584721001850 putative metal binding site B [ion binding]; other site 584721001851 TIGR01619 family protein; Region: hyp_HI0040 584721001852 Family of unknown function (DUF695); Region: DUF695; pfam05117 584721001853 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3105 584721001854 Protein of unknown function (DUF1043); Region: DUF1043; pfam06295 584721001855 uncharacterized domain; Region: TIGR00702 584721001856 YcaO-like family; Region: YcaO; pfam02624 584721001857 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 584721001858 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 584721001859 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 584721001860 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 584721001861 tRNA; other site 584721001862 putative tRNA binding site [nucleotide binding]; other site 584721001863 putative NADP binding site [chemical binding]; other site 584721001864 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 584721001865 MarR family; Region: MarR_2; cl17246 584721001866 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 584721001867 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 584721001868 nucleotide binding site [chemical binding]; other site 584721001869 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 584721001870 oligopeptidase A; Provisional; Region: PRK10911 584721001871 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 584721001872 active site 584721001873 Zn binding site [ion binding]; other site 584721001874 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 584721001875 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 584721001876 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 584721001877 peptide binding site [polypeptide binding]; other site 584721001878 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 584721001879 dimerization interface [polypeptide binding]; other site 584721001880 active site 584721001881 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 584721001882 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 584721001883 active site 584721001884 fructokinase; Reviewed; Region: PRK09557 584721001885 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 584721001886 nucleotide binding site [chemical binding]; other site 584721001887 RIO kinase family, catalytic domain. The RIO kinase catalytic domain 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), aminoglycoside...; Region: RIO; cl17248 584721001888 ATP binding site [chemical binding]; other site 584721001889 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 584721001890 putative FMN binding site [chemical binding]; other site 584721001891 signal peptide peptidase SppA, 67K type; Region: SppA_67K; TIGR00705 584721001892 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 584721001893 tandem repeat interface [polypeptide binding]; other site 584721001894 oligomer interface [polypeptide binding]; other site 584721001895 active site residues [active] 584721001896 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 584721001897 tandem repeat interface [polypeptide binding]; other site 584721001898 oligomer interface [polypeptide binding]; other site 584721001899 active site residues [active] 584721001900 Soluble cytochrome b562 [Energy production and conversion]; Region: CybC; COG3783 584721001901 universal stress protein UspE; Provisional; Region: PRK11175 584721001902 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 584721001903 Ligand Binding Site [chemical binding]; other site 584721001904 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 584721001905 Ligand Binding Site [chemical binding]; other site 584721001906 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 584721001907 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 584721001908 ligand binding site [chemical binding]; other site 584721001909 flexible hinge region; other site 584721001910 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 584721001911 putative switch regulator; other site 584721001912 non-specific DNA interactions [nucleotide binding]; other site 584721001913 DNA binding site [nucleotide binding] 584721001914 sequence specific DNA binding site [nucleotide binding]; other site 584721001915 putative cAMP binding site [chemical binding]; other site 584721001916 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 584721001917 Ferritin-like domain; Region: Ferritin; pfam00210 584721001918 ferroxidase diiron center [ion binding]; other site 584721001919 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 584721001920 Ferritin-like domain; Region: Ferritin; pfam00210 584721001921 ferroxidase diiron center [ion binding]; other site 584721001922 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 584721001923 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 584721001924 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 584721001925 Chorismate mutase type II; Region: CM_2; cl00693 584721001926 prephenate dehydrogenase; Validated; Region: PRK08507 584721001927 Neuraminidase (sialidase) [Carbohydrate transport and metabolism]; Region: NanH; COG4409 584721001928 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 584721001929 catalytic site [active] 584721001930 Asp-box motif; other site 584721001931 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 584721001932 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 584721001933 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 584721001934 RNA binding surface [nucleotide binding]; other site 584721001935 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 584721001936 probable active site [active] 584721001937 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 584721001938 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 584721001939 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 584721001940 substrate binding site [chemical binding]; other site 584721001941 dimerization interface [polypeptide binding]; other site 584721001942 IgD-like repeat domain of mycobacterial L,D-transpeptidases; Region: LDT_IgD_like; cl17506 584721001943 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 584721001944 MG2 domain; Region: A2M_N; pfam01835 584721001945 Alpha-2-macroglobulin family; Region: A2M; pfam00207 584721001946 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 584721001947 surface patch; other site 584721001948 thioester region; other site 584721001949 specificity defining residues; other site 584721001950 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 584721001951 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 584721001952 trimer interface [polypeptide binding]; other site 584721001953 active site 584721001954 substrate binding site [chemical binding]; other site 584721001955 CoA binding site [chemical binding]; other site 584721001956 tellurite resistance protein TehB; Provisional; Region: PRK12335 584721001957 Uncharacterized protein/domain, possibly involved in tellurite resistance [Inorganic ion transport and metabolism]; Region: TehB; COG3615 584721001958 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 584721001959 S-adenosylmethionine binding site [chemical binding]; other site 584721001960 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 584721001961 DNA-binding site [nucleotide binding]; DNA binding site 584721001962 RNA-binding motif; other site 584721001963 Prophage antirepressor [Transcription]; Region: COG3617 584721001964 BRO family, N-terminal domain; Region: Bro-N; smart01040 584721001965 Methyltransferase domain; Region: Methyltransf_26; pfam13659 584721001966 Protein of unknown function DUF262; Region: DUF262; pfam03235 584721001967 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 584721001968 non-specific DNA binding site [nucleotide binding]; other site 584721001969 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 584721001970 salt bridge; other site 584721001971 sequence-specific DNA binding site [nucleotide binding]; other site 584721001972 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 584721001973 Catalytic site [active] 584721001974 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 584721001975 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 584721001976 non-specific DNA binding site [nucleotide binding]; other site 584721001977 salt bridge; other site 584721001978 sequence-specific DNA binding site [nucleotide binding]; other site 584721001979 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 584721001980 P22_AR N-terminal domain; Region: P22_AR_N; pfam10547 584721001981 RecX family; Region: RecX; cl00936 584721001982 potential frameshift: common BLAST hit: gi|378696439|ref|YP_005178397.1| putative antirepressor protein 584721001983 P22_AR N-terminal domain; Region: P22_AR_N; pfam10547 584721001984 P22_AR N-terminal domain; Region: P22_AR_N; pfam10547 584721001985 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 584721001986 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 584721001987 pyruvate kinase; Provisional; Region: PRK05826 584721001988 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 584721001989 domain interfaces; other site 584721001990 active site 584721001991 putative oxidoreductase; Provisional; Region: PRK11579 584721001992 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 584721001993 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 584721001994 multidrug efflux protein; Reviewed; Region: PRK01766 584721001995 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 584721001996 cation binding site [ion binding]; other site 584721001997 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 584721001998 Lumazine binding domain; Region: Lum_binding; pfam00677 584721001999 Lumazine binding domain; Region: Lum_binding; pfam00677 584721002000 outer membrane lipoprotein; Provisional; Region: PRK11023 584721002001 BON domain; Region: BON; pfam04972 584721002002 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 584721002003 dimer interface [polypeptide binding]; other site 584721002004 active site 584721002005 Uncharacterized protein family UPF0102; Region: UPF0102; cl00516 584721002006 LppC putative lipoprotein; Region: LppC; pfam04348 584721002007 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 584721002008 putative ligand binding site [chemical binding]; other site 584721002009 SAM-dependent 16S ribosomal RNA C1402 ribose 2'-O-methyltransferase; Provisional; Region: PRK14994 584721002010 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 584721002011 putative SAM binding site [chemical binding]; other site 584721002012 putative homodimer interface [polypeptide binding]; other site 584721002013 Membrane carboxypeptidase/penicillin-binding protein PbpC [Cell envelope biogenesis, outer membrane]; Region: PbpC; COG4953 584721002014 Transglycosylase; Region: Transgly; pfam00912 584721002015 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 584721002016 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 584721002017 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 584721002018 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 584721002019 putative dimer interface [polypeptide binding]; other site 584721002020 putative anticodon binding site; other site 584721002021 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 584721002022 homodimer interface [polypeptide binding]; other site 584721002023 motif 1; other site 584721002024 motif 2; other site 584721002025 active site 584721002026 motif 3; other site 584721002027 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 584721002028 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 584721002029 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 584721002030 AAA domain; Region: AAA_26; pfam13500 584721002031 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 584721002032 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 584721002033 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 584721002034 5S rRNA interface [nucleotide binding]; other site 584721002035 CTC domain interface [polypeptide binding]; other site 584721002036 L16 interface [polypeptide binding]; other site 584721002037 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 584721002038 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 584721002039 active site 584721002040 nucleophile elbow; other site 584721002041 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 584721002042 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 584721002043 dimerization interface 3.5A [polypeptide binding]; other site 584721002044 active site 584721002045 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 584721002046 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 584721002047 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 584721002048 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 584721002049 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 584721002050 catalytic core [active] 584721002051 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 584721002052 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 584721002053 active site 584721002054 Uncharacterized conserved protein [Function unknown]; Region: COG4283 584721002055 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 584721002056 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 584721002057 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 584721002058 dimer interface [polypeptide binding]; other site 584721002059 motif 1; other site 584721002060 active site 584721002061 motif 2; other site 584721002062 motif 3; other site 584721002063 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 584721002064 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 584721002065 putative tRNA-binding site [nucleotide binding]; other site 584721002066 B3/4 domain; Region: B3_4; pfam03483 584721002067 tRNA synthetase B5 domain; Region: B5; smart00874 584721002068 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 584721002069 dimer interface [polypeptide binding]; other site 584721002070 motif 1; other site 584721002071 motif 3; other site 584721002072 motif 2; other site 584721002073 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 584721002074 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 584721002075 IHF dimer interface [polypeptide binding]; other site 584721002076 IHF - DNA interface [nucleotide binding]; other site 584721002077 NlpC/P60 family; Region: NLPC_P60; pfam00877 584721002078 Uncharacterized protein family UPF0052; Region: UPF0052; pfam01933 584721002079 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 584721002080 phosphate binding site [ion binding]; other site 584721002081 putative substrate binding pocket [chemical binding]; other site 584721002082 dimer interface [polypeptide binding]; other site 584721002083 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 584721002084 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 584721002085 FeS/SAM binding site; other site 584721002086 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 584721002087 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 584721002088 trimer interface [polypeptide binding]; other site 584721002089 dimer interface [polypeptide binding]; other site 584721002090 putative active site [active] 584721002091 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 584721002092 MoaE interaction surface [polypeptide binding]; other site 584721002093 MoeB interaction surface [polypeptide binding]; other site 584721002094 thiocarboxylated glycine; other site 584721002095 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 584721002096 MoaE homodimer interface [polypeptide binding]; other site 584721002097 MoaD interaction [polypeptide binding]; other site 584721002098 active site residues [active] 584721002099 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 584721002100 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 584721002101 pyridoxal 5'-phosphate binding site [chemical binding]; other site 584721002102 homodimer interface [polypeptide binding]; other site 584721002103 catalytic residue [active] 584721002104 Phosphoribosylaminoimidazole carboxylase (NCAIR synthetase) [Nucleotide transport and metabolism]; Region: PurK; COG0026 584721002105 CUT domain; Region: CUT; pfam02376 584721002106 ATP-grasp domain; Region: ATP-grasp; pfam02222 584721002107 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 584721002108 aminopeptidase N; Provisional; Region: pepN; PRK14015 584721002109 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 584721002110 active site 584721002111 Zn binding site [ion binding]; other site 584721002112 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 584721002113 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 584721002114 quinone interaction residues [chemical binding]; other site 584721002115 active site 584721002116 catalytic residues [active] 584721002117 FMN binding site [chemical binding]; other site 584721002118 substrate binding site [chemical binding]; other site 584721002119 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 584721002120 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 584721002121 active site 584721002122 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 584721002123 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 584721002124 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 584721002125 active site 584721002126 interdomain interaction site; other site 584721002127 putative metal-binding site [ion binding]; other site 584721002128 nucleotide binding site [chemical binding]; other site 584721002129 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 584721002130 domain I; other site 584721002131 DNA binding groove [nucleotide binding] 584721002132 phosphate binding site [ion binding]; other site 584721002133 domain II; other site 584721002134 domain III; other site 584721002135 nucleotide binding site [chemical binding]; other site 584721002136 catalytic site [active] 584721002137 domain IV; other site 584721002138 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 584721002139 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 584721002140 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 584721002141 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 584721002142 Uncharacterized conserved protein [Function unknown]; Region: ElaB; COG4575 584721002143 exonuclease I; Provisional; Region: sbcB; PRK11779 584721002144 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 584721002145 active site 584721002146 catalytic site [active] 584721002147 substrate binding site [chemical binding]; other site 584721002148 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 584721002149 Uncharacterized protein involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: MukB; COG3096 584721002150 P-loop containing region of AAA domain; Region: AAA_29; cl17516 584721002151 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 584721002152 condesin subunit E; Provisional; Region: PRK05256 584721002153 Uncharacterized protein involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: MukF; COG3006 584721002154 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 584721002155 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 584721002156 Ligand Binding Site [chemical binding]; other site 584721002157 methionine sulfoxide reductase A; Provisional; Region: PRK14054 584721002158 YadA-like C-terminal region; Region: YadA; pfam03895 584721002159 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 584721002160 23S rRNA binding site [nucleotide binding]; other site 584721002161 L21 binding site [polypeptide binding]; other site 584721002162 L13 binding site [polypeptide binding]; other site 584721002163 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 584721002164 translation initiation factor IF-3; Region: infC; TIGR00168 584721002165 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 584721002166 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 584721002167 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 584721002168 active site 584721002169 phosphate binding residues; other site 584721002170 catalytic residues [active] 584721002171 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 584721002172 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 584721002173 FeS/SAM binding site; other site 584721002174 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 584721002175 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 584721002176 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 584721002177 ligand binding site [chemical binding]; other site 584721002178 flexible hinge region; other site 584721002179 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 584721002180 Sulfatase; Region: Sulfatase; cl17466 584721002181 putative transporter; Provisional; Region: PRK10484 584721002182 uncharacterized SLC5 subfamily, Escherichia coli YidK-like; solute binding domain; Region: SLC5sbd_YidK; cd10328 584721002183 Na binding site [ion binding]; other site 584721002184 Predicted permeases [General function prediction only]; Region: COG0730 584721002185 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 584721002186 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 584721002187 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 584721002188 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 584721002189 active site 584721002190 dimer interface [polypeptide binding]; other site 584721002191 motif 1; other site 584721002192 motif 2; other site 584721002193 motif 3; other site 584721002194 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 584721002195 anticodon binding site; other site 584721002196 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 584721002197 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 584721002198 peptide binding site [polypeptide binding]; other site 584721002199 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 584721002200 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 584721002201 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 584721002202 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 584721002203 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 584721002204 Glutamate binding site [chemical binding]; other site 584721002205 NAD binding site [chemical binding]; other site 584721002206 catalytic residues [active] 584721002207 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 584721002208 Na binding site [ion binding]; other site 584721002209 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3001 584721002210 Phosphotransferase enzyme family; Region: APH; pfam01636 584721002211 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 584721002212 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 584721002213 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 584721002214 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 584721002215 ligand binding site [chemical binding]; other site 584721002216 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 584721002217 putative inner membrane peptidase; Provisional; Region: PRK11778 584721002218 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 584721002219 tandem repeat interface [polypeptide binding]; other site 584721002220 oligomer interface [polypeptide binding]; other site 584721002221 active site residues [active] 584721002222 potential frameshift: common BLAST hit: gi|15602449|ref|NP_245521.1| anthranilate synthase component I 584721002223 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 584721002224 chorismate binding enzyme; Region: Chorismate_bind; cl10555 584721002225 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 584721002226 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 584721002227 Glutamine amidotransferase class-I; Region: GATase; pfam00117 584721002228 glutamine binding [chemical binding]; other site 584721002229 catalytic triad [active] 584721002230 Membrane transport protein; Region: Mem_trans; cl09117 584721002231 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 584721002232 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 584721002233 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 584721002234 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 584721002235 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 584721002236 active site 584721002237 ribulose/triose binding site [chemical binding]; other site 584721002238 phosphate binding site [ion binding]; other site 584721002239 substrate (anthranilate) binding pocket [chemical binding]; other site 584721002240 product (indole) binding pocket [chemical binding]; other site 584721002241 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 584721002242 active site 584721002243 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 584721002244 malonic semialdehyde reductase; Provisional; Region: PRK10538 584721002245 putative NAD(P) binding site [chemical binding]; other site 584721002246 homotetramer interface [polypeptide binding]; other site 584721002247 homodimer interface [polypeptide binding]; other site 584721002248 active site 584721002249 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 584721002250 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 584721002251 pyridoxal 5'-phosphate binding site [chemical binding]; other site 584721002252 catalytic residue [active] 584721002253 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 584721002254 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 584721002255 substrate binding site [chemical binding]; other site 584721002256 active site 584721002257 catalytic residues [active] 584721002258 heterodimer interface [polypeptide binding]; other site 584721002259 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 584721002260 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 584721002261 N-terminal plug; other site 584721002262 ligand-binding site [chemical binding]; other site 584721002263 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 584721002264 active site clefts [active] 584721002265 zinc binding site [ion binding]; other site 584721002266 dimer interface [polypeptide binding]; other site 584721002267 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 584721002268 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 584721002269 thioredoxin reductase; Provisional; Region: PRK10262 584721002270 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 584721002271 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 584721002272 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 584721002273 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 584721002274 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 584721002275 Walker A/P-loop; other site 584721002276 ATP binding site [chemical binding]; other site 584721002277 Q-loop/lid; other site 584721002278 ABC transporter signature motif; other site 584721002279 Walker B; other site 584721002280 D-loop; other site 584721002281 H-loop/switch region; other site 584721002282 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 584721002283 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 584721002284 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 584721002285 Walker A/P-loop; other site 584721002286 ATP binding site [chemical binding]; other site 584721002287 Q-loop/lid; other site 584721002288 ABC transporter signature motif; other site 584721002289 Walker B; other site 584721002290 D-loop; other site 584721002291 H-loop/switch region; other site 584721002292 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 584721002293 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 584721002294 active site 584721002295 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 584721002296 catalytic triad [active] 584721002297 dimer interface [polypeptide binding]; other site 584721002298 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 584721002299 dinuclear metal binding motif [ion binding]; other site 584721002300 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 584721002301 N-Utilization Substance G (NusG) N-terminal (NGN) domain Superfamily; Region: NGN; cl02766 584721002302 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 584721002303 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 584721002304 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 584721002305 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 584721002306 dimerization interface [polypeptide binding]; other site 584721002307 substrate binding pocket [chemical binding]; other site 584721002308 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 584721002309 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 584721002310 homodimer interface [polypeptide binding]; other site 584721002311 substrate-cofactor binding pocket; other site 584721002312 catalytic residue [active] 584721002313 cytosine deaminase; Provisional; Region: PRK09230 584721002314 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 584721002315 active site 584721002316 nucleobase-cation-symport-1 (NCS1) transporter CobB-like; solute-binding domain; Region: SLC-NCS1sbd_CobB-like; cd11484 584721002317 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 584721002318 Na binding site [ion binding]; other site 584721002319 putative substrate binding site [chemical binding]; other site 584721002320 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 584721002321 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 584721002322 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 584721002323 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 584721002324 FtsX-like permease family; Region: FtsX; pfam02687 584721002325 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 584721002326 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 584721002327 Walker A/P-loop; other site 584721002328 ATP binding site [chemical binding]; other site 584721002329 Q-loop/lid; other site 584721002330 ABC transporter signature motif; other site 584721002331 Walker B; other site 584721002332 D-loop; other site 584721002333 H-loop/switch region; other site 584721002334 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 584721002335 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 584721002336 FtsX-like permease family; Region: FtsX; pfam02687 584721002337 glycerate dehydrogenase; Provisional; Region: PRK06932 584721002338 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 584721002339 putative ligand binding site [chemical binding]; other site 584721002340 putative NAD binding site [chemical binding]; other site 584721002341 catalytic site [active] 584721002342 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 584721002343 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 584721002344 Uncharacterized conserved protein [Function unknown]; Region: COG2912 584721002345 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 584721002346 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 584721002347 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 584721002348 peptide chain release factor 1; Validated; Region: prfA; PRK00591 584721002349 This domain is found in peptide chain release factors; Region: PCRF; smart00937 584721002350 RF-1 domain; Region: RF-1; pfam00472 584721002351 Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: SlyB; COG3133 584721002352 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 584721002353 putative metal binding site [ion binding]; other site 584721002354 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 584721002355 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 584721002356 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 584721002357 active site 584721002358 HIGH motif; other site 584721002359 KMSK motif region; other site 584721002360 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 584721002361 tRNA binding surface [nucleotide binding]; other site 584721002362 anticodon binding site; other site 584721002363 malate dehydrogenase; Provisional; Region: PRK05086 584721002364 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 584721002365 NAD binding site [chemical binding]; other site 584721002366 dimerization interface [polypeptide binding]; other site 584721002367 Substrate binding site [chemical binding]; other site 584721002368 arginine repressor; Provisional; Region: PRK05066 584721002369 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 584721002370 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 584721002371 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 584721002372 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 584721002373 NAD(P) binding site [chemical binding]; other site 584721002374 active site 584721002375 DNA-binding transcriptional repressor PurR; Provisional; Region: PRK10703 584721002376 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 584721002377 DNA binding site [nucleotide binding] 584721002378 domain linker motif; other site 584721002379 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 584721002380 dimerization interface [polypeptide binding]; other site 584721002381 ligand binding site [chemical binding]; other site 584721002382 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 584721002383 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 584721002384 glycogen phosphorylase; Provisional; Region: PRK14986 584721002385 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 584721002386 homodimer interface [polypeptide binding]; other site 584721002387 active site pocket [active] 584721002388 glycogen synthase; Provisional; Region: glgA; PRK00654 584721002389 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 584721002390 ADP-binding pocket [chemical binding]; other site 584721002391 homodimer interface [polypeptide binding]; other site 584721002392 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 584721002393 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 584721002394 ligand binding site; other site 584721002395 oligomer interface; other site 584721002396 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 584721002397 N-terminal domain interface [polypeptide binding]; other site 584721002398 sulfate 1 binding site; other site 584721002399 Type II secretory pathway, pullulanase PulA and related glycosidases [Carbohydrate transport and metabolism]; Region: PulA; COG1523 584721002400 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 584721002401 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 584721002402 active site 584721002403 catalytic site [active] 584721002404 glycogen branching enzyme; Provisional; Region: PRK05402 584721002405 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 584721002406 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 584721002407 active site 584721002408 catalytic site [active] 584721002409 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 584721002410 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 584721002411 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 584721002412 hypothetical protein; Provisional; Region: PRK05170 584721002413 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 584721002414 TMAO/DMSO reductase; Reviewed; Region: PRK05363 584721002415 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 584721002416 Moco binding site; other site 584721002417 metal coordination site [ion binding]; other site 584721002418 dsDNA-mimic protein; Reviewed; Region: PRK05094 584721002419 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 584721002420 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 584721002421 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 584721002422 Ligand Binding Site [chemical binding]; other site 584721002423 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 584721002424 active site residue [active] 584721002425 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 584721002426 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 584721002427 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 584721002428 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 584721002429 molybdopterin cofactor binding site [chemical binding]; other site 584721002430 substrate binding site [chemical binding]; other site 584721002431 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 584721002432 molybdopterin cofactor binding site; other site 584721002433 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 584721002434 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 584721002435 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 584721002436 substrate binding pocket [chemical binding]; other site 584721002437 chain length determination region; other site 584721002438 substrate-Mg2+ binding site; other site 584721002439 catalytic residues [active] 584721002440 aspartate-rich region 1; other site 584721002441 active site lid residues [active] 584721002442 aspartate-rich region 2; other site 584721002443 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 584721002444 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 584721002445 TPP-binding site; other site 584721002446 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 584721002447 PYR/PP interface [polypeptide binding]; other site 584721002448 dimer interface [polypeptide binding]; other site 584721002449 TPP binding site [chemical binding]; other site 584721002450 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 584721002451 hypothetical protein; Provisional; Region: PRK06762 584721002452 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 584721002453 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 584721002454 Coenzyme A binding pocket [chemical binding]; other site 584721002455 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 584721002456 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 584721002457 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 584721002458 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 584721002459 active site 584721002460 HIGH motif; other site 584721002461 nucleotide binding site [chemical binding]; other site 584721002462 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 584721002463 KMSKS motif; other site 584721002464 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 584721002465 potential frameshift: common BLAST hit: gi|383310166|ref|YP_005362976.1| NodT family efflux transporter 584721002466 Outer membrane efflux protein; Region: OEP; pfam02321 584721002467 Outer membrane efflux protein; Region: OEP; pfam02321 584721002468 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: CutC; COG3142 584721002469 KpsF/GutQ family protein; Region: kpsF; TIGR00393 584721002470 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 584721002471 putative active site [active] 584721002472 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 584721002473 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 584721002474 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 584721002475 active site 584721002476 motif I; other site 584721002477 motif II; other site 584721002478 Stringent starvation protein B [General function prediction only]; Region: SspB; COG2969 584721002479 stringent starvation protein A; Provisional; Region: sspA; PRK09481 584721002480 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 584721002481 C-terminal domain interface [polypeptide binding]; other site 584721002482 putative GSH binding site (G-site) [chemical binding]; other site 584721002483 dimer interface [polypeptide binding]; other site 584721002484 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 584721002485 dimer interface [polypeptide binding]; other site 584721002486 N-terminal domain interface [polypeptide binding]; other site 584721002487 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 584721002488 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 584721002489 23S rRNA interface [nucleotide binding]; other site 584721002490 L3 interface [polypeptide binding]; other site 584721002491 Uncharacterized conserved protein [Function unknown]; Region: COG3422 584721002492 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 584721002493 Glutaredoxin 2 [Posttranslational modification, protein turnover, chaperones]; Region: GrxB; COG2999 584721002494 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 584721002495 C-terminal domain interface [polypeptide binding]; other site 584721002496 GSH binding site (G-site) [chemical binding]; other site 584721002497 catalytic residues [active] 584721002498 putative dimer interface [polypeptide binding]; other site 584721002499 C-terminal, alpha helical domain of Glutaredoxin 2; Region: GST_C_GRX2; cd03199 584721002500 N-terminal domain interface [polypeptide binding]; other site 584721002501 potential frameshift: common BLAST hit: gi|383310156|ref|YP_005362966.1| exodeoxyribonuclease V subunit alpha 584721002502 Family description; Region: UvrD_C_2; pfam13538 584721002503 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 584721002504 AAA domain; Region: AAA_30; pfam13604 584721002505 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 584721002506 Part of AAA domain; Region: AAA_19; pfam13245 584721002507 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 584721002508 Uncharacterized conserved protein involved in intracellular sulfur reduction [Inorganic ion transport and metabolism]; Region: DsrE; COG1553 584721002509 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 584721002510 lytic murein transglycosylase; Region: MltB_2; TIGR02283 584721002511 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 584721002512 N-acetyl-D-glucosamine binding site [chemical binding]; other site 584721002513 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 584721002514 GT2_AmsE_like is involved in exopolysaccharide amylovora biosynthesis; Region: GT2_AmsE_like; cd04195 584721002515 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 584721002516 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 584721002517 active site 584721002518 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 584721002519 Glycosyltransferase family 52; Region: Glyco_transf_52; pfam07922 584721002520 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 584721002521 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 584721002522 Uncharacterized conserved protein [Function unknown]; Region: COG1434 584721002523 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 584721002524 putative active site [active] 584721002525 Bacterial EndoU nuclease; Region: EndoU_bacteria; pfam14436 584721002526 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 584721002527 Protein of unknown function (DUF1436); Region: DUF1436; pfam07262 584721002528 Bacterial EndoU nuclease; Region: EndoU_bacteria; pfam14436 584721002529 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 584721002530 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 584721002531 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 584721002532 haemagglutination activity domain; Region: Haemagg_act; pfam05860 584721002533 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 584721002534 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 584721002535 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 584721002536 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 584721002537 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 584721002538 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 584721002539 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 584721002540 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 584721002541 protein-splicing catalytic site; other site 584721002542 thioester formation/cholesterol transfer; other site 584721002543 Pretoxin HINT domain; Region: PT-HINT; pfam07591 584721002544 HNH/ENDO VII superfamily nuclease with conserved GHE residues; Region: GH-E; pfam14410 584721002545 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 584721002546 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 584721002547 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 584721002548 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 584721002549 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK06901 584721002550 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 584721002551 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 584721002552 putative deacylase active site [active] 584721002553 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 584721002554 active site 1 [active] 584721002555 dimer interface [polypeptide binding]; other site 584721002556 active site 2 [active] 584721002557 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 584721002558 Ter macrodomain organizer matS-binding protein; Provisional; Region: PRK05097 584721002559 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 584721002560 DNA-binding site [nucleotide binding]; DNA binding site 584721002561 RNA-binding motif; other site 584721002562 Uncharacterized protein family (UPF0181); Region: UPF0181; pfam03701 584721002563 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 584721002564 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 584721002565 probable active site [active] 584721002566 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3098 584721002567 Zn-ribbon-containing, possibly nucleic-acid-binding protein [General function prediction only]; Region: COG5595 584721002568 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 584721002569 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 584721002570 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 584721002571 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 584721002572 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 584721002573 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 584721002574 Ligand Binding Site [chemical binding]; other site 584721002575 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 584721002576 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 584721002577 Domain of unknown function (DUF3394); Region: DUF3394; pfam11874 584721002578 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 584721002579 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 584721002580 inner membrane transport permease; Provisional; Region: PRK15066 584721002581 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 584721002582 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 584721002583 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 584721002584 Walker A/P-loop; other site 584721002585 ATP binding site [chemical binding]; other site 584721002586 Q-loop/lid; other site 584721002587 ABC transporter signature motif; other site 584721002588 Walker B; other site 584721002589 D-loop; other site 584721002590 H-loop/switch region; other site 584721002591 Protein of unknown function, DUF462; Region: DUF462; cl01190 584721002592 heat shock protein HtpX; Provisional; Region: PRK05457 584721002593 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 584721002594 active site 584721002595 DNA polymerase IV; Validated; Region: PRK02406 584721002596 DNA binding site [nucleotide binding] 584721002597 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 584721002598 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 584721002599 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 584721002600 putative active site [active] 584721002601 putative metal-binding site [ion binding]; other site 584721002602 Predicted membrane protein [Function unknown]; Region: COG2431 584721002603 potential protein location (hypothetical protein NT08PM_0844 [Pasteurella multocida subsp. multocida str. 3480]) that overlaps RNA (5S ribosomal RNA) 584721002604 Chain length determinant protein [Cell envelope biogenesis, outer membrane]; Region: WzzB; COG3765 584721002605 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphatetransferase; Region: ECA_wecA; TIGR02380 584721002606 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 584721002607 Mg++ binding site [ion binding]; other site 584721002608 putative catalytic motif [active] 584721002609 substrate binding site [chemical binding]; other site 584721002610 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 584721002611 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 584721002612 inhibitor-cofactor binding pocket; inhibition site 584721002613 pyridoxal 5'-phosphate binding site [chemical binding]; other site 584721002614 catalytic residue [active] 584721002615 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 584721002616 EamA-like transporter family; Region: EamA; pfam00892 584721002617 PII uridylyl-transferase; Provisional; Region: glnD; PRK01759 584721002618 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 584721002619 metal binding triad; other site 584721002620 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 584721002621 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 584721002622 Zn2+ binding site [ion binding]; other site 584721002623 Mg2+ binding site [ion binding]; other site 584721002624 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 584721002625 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 584721002626 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 584721002627 active site 584721002628 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 584721002629 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3112 584721002630 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 584721002631 Transglycosylase; Region: Transgly; pfam00912 584721002632 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 584721002633 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 584721002634 Dyp-type peroxidase family; Region: Dyp_perox; pfam04261 584721002635 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 584721002636 active site pocket [active] 584721002637 oxyanion hole [active] 584721002638 catalytic triad [active] 584721002639 active site nucleophile [active] 584721002640 High-affinity Fe2+/Pb2+ permease [Inorganic ion transport and metabolism]; Region: FTR1; COG0672 584721002641 Uncharacterized protein probably involved in high-affinity Fe2+ transport [Inorganic ion transport and metabolism]; Region: Tpd; COG3470 584721002642 Predicted membrane protein [Function unknown]; Region: COG4393 584721002643 Predicted membrane protein (DUF2318); Region: DUF2318; pfam10080 584721002644 Uncharacterized conserved protein [Function unknown]; Region: COG3350 584721002645 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 584721002646 FtsX-like permease family; Region: FtsX; pfam02687 584721002647 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 584721002648 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 584721002649 FtsX-like permease family; Region: FtsX; pfam02687 584721002650 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 584721002651 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 584721002652 Walker A/P-loop; other site 584721002653 ATP binding site [chemical binding]; other site 584721002654 Q-loop/lid; other site 584721002655 ABC transporter signature motif; other site 584721002656 Walker B; other site 584721002657 D-loop; other site 584721002658 H-loop/switch region; other site 584721002659 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 584721002660 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 584721002661 catalytic residues [active] 584721002662 Cytochrome c553 [Energy production and conversion]; Region: COG2863 584721002663 Pyrimidine dimer DNA glycosylase; Region: Pyr_excise; pfam03013 584721002664 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3100 584721002665 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 584721002666 Septum formation inhibitor [Cell division and chromosome partitioning]; Region: MinC; COG0850 584721002667 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 584721002668 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 584721002669 catalytic core [active] 584721002670 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 584721002671 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 584721002672 active site 584721002673 substrate binding site [chemical binding]; other site 584721002674 metal binding site [ion binding]; metal-binding site 584721002675 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 584721002676 dihydropteroate synthase; Region: DHPS; TIGR01496 584721002677 substrate binding pocket [chemical binding]; other site 584721002678 dimer interface [polypeptide binding]; other site 584721002679 inhibitor binding site; inhibition site 584721002680 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 584721002681 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 584721002682 Walker A motif; other site 584721002683 ATP binding site [chemical binding]; other site 584721002684 Walker B motif; other site 584721002685 arginine finger; other site 584721002686 Peptidase family M41; Region: Peptidase_M41; pfam01434 584721002687 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 584721002688 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 584721002689 S-adenosylmethionine binding site [chemical binding]; other site 584721002690 PBP superfamily domain; Region: PBP_like_2; cl17296 584721002691 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 584721002692 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 584721002693 dimer interface [polypeptide binding]; other site 584721002694 conserved gate region; other site 584721002695 putative PBP binding loops; other site 584721002696 ABC-ATPase subunit interface; other site 584721002697 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 584721002698 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 584721002699 dimer interface [polypeptide binding]; other site 584721002700 conserved gate region; other site 584721002701 putative PBP binding loops; other site 584721002702 ABC-ATPase subunit interface; other site 584721002703 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 584721002704 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 584721002705 Walker A/P-loop; other site 584721002706 ATP binding site [chemical binding]; other site 584721002707 Q-loop/lid; other site 584721002708 ABC transporter signature motif; other site 584721002709 Walker B; other site 584721002710 D-loop; other site 584721002711 H-loop/switch region; other site 584721002712 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 584721002713 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 584721002714 active site 584721002715 phosphorylation site [posttranslational modification] 584721002716 intermolecular recognition site; other site 584721002717 dimerization interface [polypeptide binding]; other site 584721002718 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 584721002719 DNA binding site [nucleotide binding] 584721002720 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 584721002721 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 584721002722 putative active site [active] 584721002723 heme pocket [chemical binding]; other site 584721002724 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 584721002725 dimer interface [polypeptide binding]; other site 584721002726 phosphorylation site [posttranslational modification] 584721002727 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 584721002728 ATP binding site [chemical binding]; other site 584721002729 Mg2+ binding site [ion binding]; other site 584721002730 G-X-G motif; other site 584721002731 Bacterial transcriptional activator domain; Region: BTAD; pfam03704 584721002732 excinuclease ABC subunit B; Provisional; Region: PRK05298 584721002733 Myosin and Kinesin motor domain. These ATPases belong to the P-loop NTPase family and provide the driving force in myosin and kinesin mediated processes; Region: Motor_domain; cl00286 584721002734 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 584721002735 ATP-binding site [chemical binding]; other site 584721002736 ATP binding site [chemical binding]; other site 584721002737 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 584721002738 nucleotide binding region [chemical binding]; other site 584721002739 ATP-binding site [chemical binding]; other site 584721002740 Ultra-violet resistance protein B; Region: UvrB; pfam12344 584721002741 UvrB/uvrC motif; Region: UVR; pfam02151 584721002742 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 584721002743 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 584721002744 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 584721002745 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG2215 584721002746 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG3683 584721002747 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 584721002748 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 584721002749 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 584721002750 ABC transporter; Region: ABC_tran_2; pfam12848 584721002751 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 584721002752 Transcriptional regulator [Transcription]; Region: LysR; COG0583 584721002753 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 584721002754 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 584721002755 putative dimerization interface [polypeptide binding]; other site 584721002756 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 584721002757 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 584721002758 THF binding site; other site 584721002759 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 584721002760 substrate binding site [chemical binding]; other site 584721002761 THF binding site; other site 584721002762 zinc-binding site [ion binding]; other site 584721002763 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 584721002764 Winged helix-turn-helix DNA-binding; Region: HTH_35; cl17423 584721002765 Predicted transcriptional regulator [Transcription]; Region: COG2932 584721002766 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 584721002767 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 584721002768 Catalytic site [active] 584721002769 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 584721002770 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 584721002771 active site 584721002772 dimer interface [polypeptide binding]; other site 584721002773 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 584721002774 dimer interface [polypeptide binding]; other site 584721002775 active site 584721002776 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 584721002777 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 584721002778 active site 584721002779 alanine racemase; Reviewed; Region: alr; PRK00053 584721002780 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 584721002781 active site 584721002782 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 584721002783 substrate binding site [chemical binding]; other site 584721002784 catalytic residues [active] 584721002785 dimer interface [polypeptide binding]; other site 584721002786 replicative DNA helicase; Validated; Region: PRK06904 584721002787 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 584721002788 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 584721002789 Walker A motif; other site 584721002790 ATP binding site [chemical binding]; other site 584721002791 Walker B motif; other site 584721002792 DNA binding loops [nucleotide binding] 584721002793 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 584721002794 Part of AAA domain; Region: AAA_19; pfam13245 584721002795 Family description; Region: UvrD_C_2; pfam13538 584721002796 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 584721002797 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 584721002798 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 584721002799 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 584721002800 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 584721002801 molybdopterin cofactor binding site; other site 584721002802 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 584721002803 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 584721002804 Cytochrome b subunit of formate dehydrogenase [Energy production and conversion]; Region: FdnI; COG2864 584721002805 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 584721002806 formate dehydrogenase accessory protein FdhE; Provisional; Region: PRK03564 584721002807 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 584721002808 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 584721002809 YccA-like proteins; Region: YccA_like; cd10433 584721002810 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 584721002811 DsrC like protein; Region: DsrC; pfam04358 584721002812 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 584721002813 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 584721002814 metal binding site [ion binding]; metal-binding site 584721002815 manganese/iron transporter ATP-binding protein; Provisional; Region: PRK15056 584721002816 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 584721002817 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 584721002818 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 584721002819 ABC-ATPase subunit interface; other site 584721002820 dimer interface [polypeptide binding]; other site 584721002821 putative PBP binding regions; other site 584721002822 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 584721002823 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 584721002824 ABC-ATPase subunit interface; other site 584721002825 dimer interface [polypeptide binding]; other site 584721002826 putative PBP binding regions; other site 584721002827 acylphosphatase; Provisional; Region: PRK14448 584721002828 hypothetical protein; Provisional; Region: PRK01904 584721002829 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 584721002830 active site 584721002831 dimer interfaces [polypeptide binding]; other site 584721002832 catalytic residues [active] 584721002833 Predicted membrane protein [Function unknown]; Region: COG3304 584721002834 Domain of unknown function (DUF307); Region: DUF307; pfam03733 584721002835 Domain of unknown function (DUF307); Region: DUF307; pfam03733 584721002836 TIGR01666 family membrane protein; Region: YCCS 584721002837 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 584721002838 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 584721002839 hypothetical protein; Provisional; Region: PRK04946 584721002840 Smr domain; Region: Smr; pfam01713 584721002841 HemK family putative methylases; Region: hemK_fam; TIGR00536 584721002842 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 584721002843 S-adenosylmethionine binding site [chemical binding]; other site 584721002844 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 584721002845 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 584721002846 trimer interface [polypeptide binding]; other site 584721002847 eyelet of channel; other site 584721002848 potential frameshift: common BLAST hit: gi|15602253|ref|NP_245325.1| OmpH porin-like protein 584721002849 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 584721002850 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 584721002851 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 584721002852 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 584721002853 trimer interface [polypeptide binding]; other site 584721002854 potential frameshift: common BLAST hit: gi|378774104|ref|YP_005176347.1| electron transport complex protein RnfA 584721002855 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 584721002856 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 584721002857 electron transport complex protein RnfB; Provisional; Region: PRK05113 584721002858 Putative Fe-S cluster; Region: FeS; pfam04060 584721002859 4Fe-4S binding domain; Region: Fer4; pfam00037 584721002860 4Fe-4S binding domain; Region: Fer4; cl02805 584721002861 Predicted NADH:ubiquinone oxidoreductase, subunit RnfC [Energy production and conversion]; Region: RnfC; COG4656 584721002862 SLBB domain; Region: SLBB; pfam10531 584721002863 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 584721002864 electron transport complex protein RnfD; Reviewed; Region: rnfD; PRK00816 584721002865 potential frameshift: common BLAST hit: gi|15602248|ref|NP_245320.1| electron transport complex protein RnfG 584721002866 FMN-binding domain; Region: FMN_bind; cl01081 584721002867 FMN-binding domain; Region: FMN_bind; cl01081 584721002868 electron transport complex RsxE subunit; Provisional; Region: PRK12405 584721002869 endonuclease III; Provisional; Region: PRK10702 584721002870 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 584721002871 minor groove reading motif; other site 584721002872 helix-hairpin-helix signature motif; other site 584721002873 substrate binding pocket [chemical binding]; other site 584721002874 active site 584721002875 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 584721002876 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 584721002877 Na2 binding site [ion binding]; other site 584721002878 putative substrate binding site 1 [chemical binding]; other site 584721002879 Na binding site 1 [ion binding]; other site 584721002880 putative substrate binding site 2 [chemical binding]; other site 584721002881 biotin synthase; Region: bioB; TIGR00433 584721002882 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 584721002883 FeS/SAM binding site; other site 584721002884 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 584721002885 ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]; Region: ThiQ; COG3840 584721002886 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 584721002887 Walker A/P-loop; other site 584721002888 ATP binding site [chemical binding]; other site 584721002889 Q-loop/lid; other site 584721002890 ABC transporter signature motif; other site 584721002891 Walker B; other site 584721002892 D-loop; other site 584721002893 H-loop/switch region; other site 584721002894 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 584721002895 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 584721002896 dimer interface [polypeptide binding]; other site 584721002897 conserved gate region; other site 584721002898 putative PBP binding loops; other site 584721002899 ABC-ATPase subunit interface; other site 584721002900 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 584721002901 dimer interface [polypeptide binding]; other site 584721002902 conserved gate region; other site 584721002903 putative PBP binding loops; other site 584721002904 ABC-ATPase subunit interface; other site 584721002905 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 584721002906 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 584721002907 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 584721002908 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 584721002909 metal binding triad; other site 584721002910 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 584721002911 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 584721002912 metal binding triad; other site 584721002913 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 584721002914 Methyltransferase domain; Region: Methyltransf_31; pfam13847 584721002915 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 584721002916 S-adenosylmethionine binding site [chemical binding]; other site 584721002917 Predicted regulatory domain of a methyltransferase [General function prediction only]; Region: COG4797 584721002918 BtpA family; Region: BtpA; cl00440 584721002919 Phosphoribosyltransferase (PRTase) type II; This family contains two enzymes that play an important role in NAD production by either allowing quinolinic acid (QA) , quinolinate phosphoribosyl transferase (QAPRTase), or nicotinic acid (NA), nicotinate...; Region: PRTase_typeII; cl17275 584721002920 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 584721002921 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 584721002922 NAD(P) binding pocket [chemical binding]; other site 584721002923 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 584721002924 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 584721002925 dimer interface [polypeptide binding]; other site 584721002926 active site 584721002927 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 584721002928 catalytic residues [active] 584721002929 substrate binding site [chemical binding]; other site 584721002930 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 584721002931 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 584721002932 ATP binding site [chemical binding]; other site 584721002933 Mg2+ binding site [ion binding]; other site 584721002934 G-X-G motif; other site 584721002935 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 584721002936 anchoring element; other site 584721002937 dimer interface [polypeptide binding]; other site 584721002938 ATP binding site [chemical binding]; other site 584721002939 TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both strands...; Region: TOPRIM_TopoIIA_like; cd01030 584721002940 active site 584721002941 putative metal-binding site [ion binding]; other site 584721002942 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 584721002943 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 584721002944 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 584721002945 CAP-like domain; other site 584721002946 active site 584721002947 primary dimer interface [polypeptide binding]; other site 584721002948 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 584721002949 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 584721002950 Sel1-like repeats; Region: SEL1; smart00671 584721002951 Sel1 repeat; Region: Sel1; cl02723 584721002952 Sel1-like repeats; Region: SEL1; smart00671 584721002953 YwiC-like protein; Region: YwiC; pfam14256 584721002954 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 584721002955 homotrimer interaction site [polypeptide binding]; other site 584721002956 putative active site [active] 584721002957 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 584721002958 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07994 584721002959 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 584721002960 Walker A motif; other site 584721002961 ATP binding site [chemical binding]; other site 584721002962 Walker B motif; other site 584721002963 arginine finger; other site 584721002964 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 584721002965 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 584721002966 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 584721002967 active site 584721002968 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 584721002969 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 584721002970 putative acyl-acceptor binding pocket; other site 584721002971 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 584721002972 hypothetical protein; Provisional; Region: PRK10621 584721002973 Murein endopeptidase [Cell envelope biogenesis, outer membrane]; Region: MepA; COG3770 584721002974 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 584721002975 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 584721002976 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 584721002977 Tetramer interface [polypeptide binding]; other site 584721002978 active site 584721002979 FMN-binding site [chemical binding]; other site 584721002980 hypothetical protein; Provisional; Region: PRK11281 584721002981 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 584721002982 Mechanosensitive ion channel; Region: MS_channel; pfam00924 584721002983 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK09029 584721002984 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 584721002985 acyl-activating enzyme (AAE) consensus motif; other site 584721002986 putative AMP binding site [chemical binding]; other site 584721002987 putative active site [active] 584721002988 putative CoA binding site [chemical binding]; other site 584721002989 replication initiation regulator SeqA; Provisional; Region: PRK11187 584721002990 acyl-CoA esterase; Provisional; Region: PRK10673 584721002991 PGAP1-like protein; Region: PGAP1; pfam07819 584721002992 LexA regulated protein; Provisional; Region: PRK11675 584721002993 flavodoxin FldA; Validated; Region: PRK09267 584721002994 ferric uptake regulator; Provisional; Region: fur; PRK09462 584721002995 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 584721002996 metal binding site 2 [ion binding]; metal-binding site 584721002997 putative DNA binding helix; other site 584721002998 metal binding site 1 [ion binding]; metal-binding site 584721002999 dimer interface [polypeptide binding]; other site 584721003000 structural Zn2+ binding site [ion binding]; other site 584721003001 GTPase CgtA; Reviewed; Region: obgE; PRK12298 584721003002 GTP1/OBG; Region: GTP1_OBG; pfam01018 584721003003 Obg GTPase; Region: Obg; cd01898 584721003004 G1 box; other site 584721003005 GTP/Mg2+ binding site [chemical binding]; other site 584721003006 Switch I region; other site 584721003007 G2 box; other site 584721003008 G3 box; other site 584721003009 Switch II region; other site 584721003010 G4 box; other site 584721003011 G5 box; other site 584721003012 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 584721003013 EamA-like transporter family; Region: EamA; pfam00892 584721003014 EamA-like transporter family; Region: EamA; pfam00892 584721003015 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 584721003016 EamA-like transporter family; Region: EamA; pfam00892 584721003017 EamA-like transporter family; Region: EamA; pfam00892 584721003018 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 584721003019 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 584721003020 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 584721003021 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 584721003022 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 584721003023 substrate binding pocket [chemical binding]; other site 584721003024 chain length determination region; other site 584721003025 substrate-Mg2+ binding site; other site 584721003026 catalytic residues [active] 584721003027 aspartate-rich region 1; other site 584721003028 active site lid residues [active] 584721003029 aspartate-rich region 2; other site 584721003030 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 584721003031 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 584721003032 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 584721003033 inhibitor-cofactor binding pocket; inhibition site 584721003034 pyridoxal 5'-phosphate binding site [chemical binding]; other site 584721003035 catalytic residue [active] 584721003036 protease TldD; Provisional; Region: tldD; PRK10735 584721003037 ribonuclease G; Provisional; Region: PRK11712 584721003038 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 584721003039 homodimer interface [polypeptide binding]; other site 584721003040 oligonucleotide binding site [chemical binding]; other site 584721003041 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 584721003042 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 584721003043 Na binding site [ion binding]; other site 584721003044 Methyltransferase domain; Region: Methyltransf_23; pfam13489 584721003045 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 584721003046 S-adenosylmethionine binding site [chemical binding]; other site 584721003047 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 584721003048 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 584721003049 dimer interface [polypeptide binding]; other site 584721003050 active site 584721003051 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 584721003052 Uncharacterized conserved protein [Function unknown]; Region: COG4121 584721003053 potential frameshift: common BLAST hit: gi|383309972|ref|YP_005362782.1| hemoglobin-binding protein 584721003054 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 584721003055 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 584721003056 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 584721003057 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 584721003058 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 584721003059 Predicted Na+/dicarboxylate symporter [General function prediction only]; Region: COG1823 584721003060 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 584721003061 GrpE; Region: GrpE; pfam01025 584721003062 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 584721003063 dimer interface [polypeptide binding]; other site 584721003064 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 584721003065 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 584721003066 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 584721003067 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 584721003068 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 584721003069 Walker A/P-loop; other site 584721003070 ATP binding site [chemical binding]; other site 584721003071 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 584721003072 Q-loop/lid; other site 584721003073 ABC transporter signature motif; other site 584721003074 Walker B; other site 584721003075 D-loop; other site 584721003076 H-loop/switch region; other site 584721003077 potential frameshift: common BLAST hit: gi|15602196|ref|NP_245268.1| OmpW protein 584721003078 OmpW family; Region: OmpW; cl17427 584721003079 OmpW family; Region: OmpW; cl17427 584721003080 intracellular septation protein A; Reviewed; Region: PRK00259 584721003081 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 584721003082 YciI-like protein; Reviewed; Region: PRK11370 584721003083 lytic murein transglycosylase; Provisional; Region: PRK11619 584721003084 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 584721003085 N-acetyl-D-glucosamine binding site [chemical binding]; other site 584721003086 catalytic residue [active] 584721003087 Trp operon repressor; Provisional; Region: PRK01381 584721003088 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 584721003089 Transglycosylase; Region: Transgly; cl17702 584721003090 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 584721003091 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 584721003092 catalytic loop [active] 584721003093 iron binding site [ion binding]; other site 584721003094 chaperone protein HscA; Provisional; Region: hscA; PRK05183 584721003095 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 584721003096 nucleotide binding site [chemical binding]; other site 584721003097 putative NEF/HSP70 interaction site [polypeptide binding]; other site 584721003098 SBD interface [polypeptide binding]; other site 584721003099 co-chaperone HscB; Provisional; Region: hscB; PRK05014 584721003100 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 584721003101 HSP70 interaction site [polypeptide binding]; other site 584721003102 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 584721003103 iron-sulfur cluster assembly protein IscA; Region: IscA; TIGR02011 584721003104 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 584721003105 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 584721003106 trimerization site [polypeptide binding]; other site 584721003107 active site 584721003108 cysteine desulfurase; Provisional; Region: PRK14012 584721003109 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 584721003110 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 584721003111 catalytic residue [active] 584721003112 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 584721003113 Rrf2 family protein; Region: rrf2_super; TIGR00738 584721003114 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 584721003115 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 584721003116 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 584721003117 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 584721003118 active site 584721003119 dimerization interface [polypeptide binding]; other site 584721003120 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 584721003121 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 584721003122 dimer interface [polypeptide binding]; other site 584721003123 phosphorylation site [posttranslational modification] 584721003124 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 584721003125 ATP binding site [chemical binding]; other site 584721003126 Mg2+ binding site [ion binding]; other site 584721003127 G-X-G motif; other site 584721003128 Response regulator receiver domain; Region: Response_reg; pfam00072 584721003129 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 584721003130 active site 584721003131 phosphorylation site [posttranslational modification] 584721003132 intermolecular recognition site; other site 584721003133 dimerization interface [polypeptide binding]; other site 584721003134 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 584721003135 putative binding surface; other site 584721003136 active site 584721003137 CRISPR/Cas system-associated protein Cas3/Cas2; Region: Cas3_Cas2_I-F; cd09673 584721003138 CRISPR-associated helicase Cas3, subtype I-F/YPEST; Region: cas3_yersinia; TIGR02562 584721003139 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-F; cd09718 584721003140 CRISPR/Cas system-associated RAMP superfamily protein Cas6f; Region: Cas6_I-F; cd09674 584721003141 CRISPR/Cas system-associated RAMP superfamily protein Csy3; Region: Csy3_I-F; cd09677 584721003142 CRISPR/Cas system-associated RAMP superfamily protein Csy2; Region: Csy2_I-F; cd09676 584721003143 CRISPR/Cas system-associated protein Csy1; Region: Csy1_I-F; cl09829 584721003144 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 584721003145 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 584721003146 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 584721003147 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 584721003148 putative RNA binding site [nucleotide binding]; other site 584721003149 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 584721003150 S-adenosylmethionine binding site [chemical binding]; other site 584721003151 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 584721003152 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 584721003153 active site 584721003154 HIGH motif; other site 584721003155 KMSKS motif; other site 584721003156 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 584721003157 tRNA binding surface [nucleotide binding]; other site 584721003158 anticodon binding site; other site 584721003159 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 584721003160 dimer interface [polypeptide binding]; other site 584721003161 putative tRNA-binding site [nucleotide binding]; other site 584721003162 antiporter inner membrane protein; Provisional; Region: PRK11670 584721003163 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 584721003164 Walker A motif; other site 584721003165 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 584721003166 16S/18S rRNA binding site [nucleotide binding]; other site 584721003167 S13e-L30e interaction site [polypeptide binding]; other site 584721003168 25S rRNA binding site [nucleotide binding]; other site 584721003169 TonB-dependent lactoferrin and transferrin receptors; Region: TonB-tbp-lbp; TIGR01776 584721003170 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 584721003171 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 584721003172 ligand-binding site [chemical binding]; other site 584721003173 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 584721003174 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 584721003175 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugX; COG3721 584721003176 potential protein location (hypothetical protein NT08PM_1024 [Pasteurella multocida subsp. multocida str. 3480]) that overlaps RNA (5S ribosomal RNA) 584721003177 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 584721003178 HTH domain; Region: HTH_11; cl17392 584721003179 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 584721003180 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 584721003181 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 584721003182 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 584721003183 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 584721003184 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 584721003185 active site 584721003186 GMP synthase; Reviewed; Region: guaA; PRK00074 584721003187 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 584721003188 AMP/PPi binding site [chemical binding]; other site 584721003189 candidate oxyanion hole; other site 584721003190 catalytic triad [active] 584721003191 potential glutamine specificity residues [chemical binding]; other site 584721003192 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 584721003193 ATP Binding subdomain [chemical binding]; other site 584721003194 Ligand Binding sites [chemical binding]; other site 584721003195 Dimerization subdomain; other site 584721003196 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; cl01604 584721003197 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 584721003198 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 584721003199 pyridoxamine kinase; Validated; Region: PRK05756 584721003200 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 584721003201 pyridoxal binding site [chemical binding]; other site 584721003202 dimer interface [polypeptide binding]; other site 584721003203 ATP binding site [chemical binding]; other site 584721003204 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 584721003205 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 584721003206 Ligand Binding Site [chemical binding]; other site 584721003207 TilS substrate binding domain; Region: TilS; pfam09179 584721003208 TilS substrate C-terminal domain; Region: TilS_C; smart00977 584721003209 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 584721003210 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 584721003211 phosphate binding site [ion binding]; other site 584721003212 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 584721003213 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 584721003214 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 584721003215 NAD binding site [chemical binding]; other site 584721003216 homodimer interface [polypeptide binding]; other site 584721003217 active site 584721003218 substrate binding site [chemical binding]; other site 584721003219 muropeptide transporter; Reviewed; Region: ampG; PRK11902 584721003220 AmpG-like permease; Region: 2A0125; TIGR00901 584721003221 adenylate kinase; Reviewed; Region: adk; PRK00279 584721003222 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 584721003223 AMP-binding site [chemical binding]; other site 584721003224 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 584721003225 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 584721003226 CoA binding domain; Region: CoA_binding; smart00881 584721003227 CoA-ligase; Region: Ligase_CoA; pfam00549 584721003228 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 584721003229 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 584721003230 CoA-ligase; Region: Ligase_CoA; pfam00549 584721003231 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 584721003232 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 584721003233 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 584721003234 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 584721003235 E3 interaction surface; other site 584721003236 lipoyl attachment site [posttranslational modification]; other site 584721003237 e3 binding domain; Region: E3_binding; pfam02817 584721003238 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 584721003239 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 584721003240 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 584721003241 TPP-binding site [chemical binding]; other site 584721003242 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 584721003243 dimer interface [polypeptide binding]; other site 584721003244 PYR/PP interface [polypeptide binding]; other site 584721003245 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 584721003246 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 584721003247 dimer interface [polypeptide binding]; other site 584721003248 active site 584721003249 citrylCoA binding site [chemical binding]; other site 584721003250 NADH binding [chemical binding]; other site 584721003251 cationic pore residues; other site 584721003252 oxalacetate/citrate binding site [chemical binding]; other site 584721003253 coenzyme A binding site [chemical binding]; other site 584721003254 catalytic triad [active] 584721003255 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 584721003256 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 584721003257 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 584721003258 DctM-like transporters; Region: DctM; pfam06808 584721003259 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 584721003260 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 584721003261 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 584721003262 Peptidase M15; Region: Peptidase_M15_3; cl01194 584721003263 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 584721003264 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 584721003265 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 584721003266 carboxy-terminal protease; Provisional; Region: PRK11186 584721003267 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 584721003268 protein binding site [polypeptide binding]; other site 584721003269 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 584721003270 Catalytic dyad [active] 584721003271 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 584721003272 ProP expression regulator; Provisional; Region: PRK04950 584721003273 ProQ/FINO family; Region: ProQ; pfam04352 584721003274 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 584721003275 Transmembrane protein 55A; Region: Tmemb_55A; pfam09788 584721003276 Paraquat-inducible protein A; Region: PqiA; pfam04403 584721003277 Paraquat-inducible protein A; Region: PqiA; pfam04403 584721003278 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 584721003279 mce related protein; Region: MCE; pfam02470 584721003280 mce related protein; Region: MCE; pfam02470 584721003281 mce related protein; Region: MCE; pfam02470 584721003282 mce related protein; Region: MCE; pfam02470 584721003283 Di- and tripeptidases [Amino acid transport and metabolism]; Region: PepD; COG2195 584721003284 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 584721003285 metal binding site [ion binding]; metal-binding site 584721003286 dimer interface [polypeptide binding]; other site 584721003287 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 584721003288 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 584721003289 Walker A/P-loop; other site 584721003290 ATP binding site [chemical binding]; other site 584721003291 Q-loop/lid; other site 584721003292 ABC transporter signature motif; other site 584721003293 Walker B; other site 584721003294 D-loop; other site 584721003295 H-loop/switch region; other site 584721003296 TOBE domain; Region: TOBE_2; pfam08402 584721003297 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 584721003298 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 584721003299 dimer interface [polypeptide binding]; other site 584721003300 conserved gate region; other site 584721003301 putative PBP binding loops; other site 584721003302 ABC-ATPase subunit interface; other site 584721003303 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 584721003304 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 584721003305 dimer interface [polypeptide binding]; other site 584721003306 conserved gate region; other site 584721003307 ABC-ATPase subunit interface; other site 584721003308 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 584721003309 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 584721003310 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 584721003311 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 584721003312 cytidine deaminase; Provisional; Region: PRK09027 584721003313 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 584721003314 active site 584721003315 catalytic motif [active] 584721003316 Zn binding site [ion binding]; other site 584721003317 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 584721003318 active site 584721003319 catalytic motif [active] 584721003320 Zn binding site [ion binding]; other site 584721003321 seryl-tRNA synthetase; Provisional; Region: PRK05431 584721003322 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 584721003323 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 584721003324 dimer interface [polypeptide binding]; other site 584721003325 active site 584721003326 motif 1; other site 584721003327 motif 2; other site 584721003328 motif 3; other site 584721003329 recombination factor protein RarA; Reviewed; Region: PRK13342 584721003330 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 584721003331 Walker A motif; other site 584721003332 ATP binding site [chemical binding]; other site 584721003333 Walker B motif; other site 584721003334 arginine finger; other site 584721003335 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 584721003336 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 584721003337 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 584721003338 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 584721003339 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 584721003340 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 584721003341 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 584721003342 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 584721003343 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 584721003344 putative DNA binding site [nucleotide binding]; other site 584721003345 dimerization interface [polypeptide binding]; other site 584721003346 putative Zn2+ binding site [ion binding]; other site 584721003347 AsnC family; Region: AsnC_trans_reg; pfam01037 584721003348 DNA repair protein RadA; Provisional; Region: PRK11823 584721003349 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 584721003350 Walker A motif; other site 584721003351 ATP binding site [chemical binding]; other site 584721003352 Walker B motif; other site 584721003353 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 584721003354 Uncharacterized conserved protein [Function unknown]; Region: COG3025 584721003355 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 584721003356 putative active site [active] 584721003357 putative metal binding residues [ion binding]; other site 584721003358 signature motif; other site 584721003359 putative triphosphate binding site [ion binding]; other site 584721003360 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 584721003361 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 584721003362 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 584721003363 SH3 domain protein [Signal transduction mechanisms]; Region: COG3103 584721003364 Bacterial SH3 domain homologues; Region: SH3b; smart00287 584721003365 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 584721003366 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 584721003367 active site 584721003368 NTP binding site [chemical binding]; other site 584721003369 metal binding triad [ion binding]; metal-binding site 584721003370 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 584721003371 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 584721003372 Zn2+ binding site [ion binding]; other site 584721003373 Mg2+ binding site [ion binding]; other site 584721003374 Outer membrane lipoprotein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: LolB; COG3017 584721003375 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 584721003376 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 584721003377 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 584721003378 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 584721003379 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 584721003380 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 584721003381 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 584721003382 active site 584721003383 putative peptidase; Provisional; Region: PRK11649 584721003384 Peptidase family M23; Region: Peptidase_M23; pfam01551 584721003385 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 584721003386 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 584721003387 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 584721003388 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 584721003389 ABC-ATPase subunit interface; other site 584721003390 dimer interface [polypeptide binding]; other site 584721003391 putative PBP binding regions; other site 584721003392 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 584721003393 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 584721003394 Walker A/P-loop; other site 584721003395 ATP binding site [chemical binding]; other site 584721003396 Q-loop/lid; other site 584721003397 ABC transporter signature motif; other site 584721003398 Walker B; other site 584721003399 D-loop; other site 584721003400 H-loop/switch region; other site 584721003401 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 584721003402 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 584721003403 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 584721003404 Walker A/P-loop; other site 584721003405 ATP binding site [chemical binding]; other site 584721003406 Q-loop/lid; other site 584721003407 ABC transporter signature motif; other site 584721003408 Walker B; other site 584721003409 D-loop; other site 584721003410 H-loop/switch region; other site 584721003411 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 584721003412 dipeptide transporter; Provisional; Region: PRK10913 584721003413 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 584721003414 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 584721003415 dimer interface [polypeptide binding]; other site 584721003416 conserved gate region; other site 584721003417 putative PBP binding loops; other site 584721003418 ABC-ATPase subunit interface; other site 584721003419 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 584721003420 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 584721003421 dimer interface [polypeptide binding]; other site 584721003422 conserved gate region; other site 584721003423 putative PBP binding loops; other site 584721003424 ABC-ATPase subunit interface; other site 584721003425 potential frameshift: common BLAST hit: gi|378774689|ref|YP_005176932.1| dipeptide transport protein 584721003426 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 584721003427 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 584721003428 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 584721003429 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 584721003430 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 584721003431 FAD binding site [chemical binding]; other site 584721003432 putative protease; Provisional; Region: PRK15452 584721003433 Peptidase family U32; Region: Peptidase_U32; pfam01136 584721003434 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 584721003435 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 584721003436 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 584721003437 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 584721003438 active site 584721003439 motif I; other site 584721003440 motif II; other site 584721003441 C4-dicarboxylate transporter DcuC; Provisional; Region: dcuC; PRK10654 584721003442 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 584721003443 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 584721003444 tRNA-guanine family transglycosylase; Region: tgt_general; TIGR00449 584721003445 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 584721003446 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 584721003447 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 584721003448 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 584721003449 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 584721003450 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 584721003451 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 584721003452 Protein export membrane protein; Region: SecD_SecF; pfam02355 584721003453 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 584721003454 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 584721003455 dimer interface [polypeptide binding]; other site 584721003456 active site 584721003457 glycine-pyridoxal phosphate binding site [chemical binding]; other site 584721003458 folate binding site [chemical binding]; other site 584721003459 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 584721003460 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 584721003461 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 584721003462 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 584721003463 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 584721003464 Sulfatase; Region: Sulfatase; pfam00884 584721003465 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 584721003466 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 584721003467 purine monophosphate binding site [chemical binding]; other site 584721003468 dimer interface [polypeptide binding]; other site 584721003469 putative catalytic residues [active] 584721003470 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 584721003471 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 584721003472 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 584721003473 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 584721003474 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 584721003475 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 584721003476 DsbD alpha interface [polypeptide binding]; other site 584721003477 catalytic residues [active] 584721003478 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 584721003479 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 584721003480 two-component response regulator; Provisional; Region: PRK11173 584721003481 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 584721003482 active site 584721003483 phosphorylation site [posttranslational modification] 584721003484 intermolecular recognition site; other site 584721003485 dimerization interface [polypeptide binding]; other site 584721003486 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 584721003487 DNA binding site [nucleotide binding] 584721003488 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 584721003489 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 584721003490 SmpB-tmRNA interface; other site 584721003491 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 584721003492 sensor protein QseC; Provisional; Region: PRK10337 584721003493 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 584721003494 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 584721003495 dimer interface [polypeptide binding]; other site 584721003496 phosphorylation site [posttranslational modification] 584721003497 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 584721003498 ATP binding site [chemical binding]; other site 584721003499 Mg2+ binding site [ion binding]; other site 584721003500 G-X-G motif; other site 584721003501 DNA-binding transcriptional regulator QseB; Provisional; Region: PRK10336 584721003502 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 584721003503 active site 584721003504 phosphorylation site [posttranslational modification] 584721003505 intermolecular recognition site; other site 584721003506 dimerization interface [polypeptide binding]; other site 584721003507 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 584721003508 DNA binding site [nucleotide binding] 584721003509 Predicted membrane protein [Function unknown]; Region: COG2259 584721003510 Uncharacterized low-complexity protein [Function unknown]; Region: COG3767 584721003511 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3220 584721003512 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3219 584721003513 RNA polymerase sigma factor; Provisional; Region: PRK12530 584721003514 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 584721003515 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 584721003516 DNA binding residues [nucleotide binding] 584721003517 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 584721003518 DNA topoisomerase III; Provisional; Region: PRK07726 584721003519 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 584721003520 active site 584721003521 putative interdomain interaction site [polypeptide binding]; other site 584721003522 putative metal-binding site [ion binding]; other site 584721003523 putative nucleotide binding site [chemical binding]; other site 584721003524 Bacterial DNA topoisomeraes I ATP-binding domain; Region: TOP1Bc; smart00436 584721003525 domain I; other site 584721003526 phosphate binding site [ion binding]; other site 584721003527 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 584721003528 domain II; other site 584721003529 domain III; other site 584721003530 nucleotide binding site [chemical binding]; other site 584721003531 DNA binding groove [nucleotide binding] 584721003532 catalytic site [active] 584721003533 domain IV; other site 584721003534 recombination protein RecR; Reviewed; Region: recR; PRK00076 584721003535 RecR protein; Region: RecR; pfam02132 584721003536 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 584721003537 putative active site [active] 584721003538 putative metal-binding site [ion binding]; other site 584721003539 tetramer interface [polypeptide binding]; other site 584721003540 hypothetical protein; Validated; Region: PRK00153 584721003541 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 584721003542 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 584721003543 substrate binding site [chemical binding]; other site 584721003544 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 584721003545 substrate binding site [chemical binding]; other site 584721003546 ligand binding site [chemical binding]; other site 584721003547 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 584721003548 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 584721003549 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 584721003550 poxB regulator PoxA; Provisional; Region: PRK09350 584721003551 motif 1; other site 584721003552 dimer interface [polypeptide binding]; other site 584721003553 active site 584721003554 motif 2; other site 584721003555 motif 3; other site 584721003556 fumarate reductase flavoprotein subunit; Validated; Region: PRK09231 584721003557 L-aspartate oxidase; Provisional; Region: PRK06175 584721003558 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 584721003559 fumarate reductase iron-sulfur subunit; Provisional; Region: PRK12385 584721003560 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 584721003561 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 584721003562 D-subunit interface [polypeptide binding]; other site 584721003563 Iron-sulfur protein interface; other site 584721003564 proximal quinone binding site [chemical binding]; other site 584721003565 distal quinone binding site [chemical binding]; other site 584721003566 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 584721003567 Iron-sulfur protein interface; other site 584721003568 proximal quinone binding site [chemical binding]; other site 584721003569 C-subunit interface; other site 584721003570 distal quinone binding site; other site 584721003571 lipopolysaccharide ABC transporter permease; Provisional; Region: PRK15071 584721003572 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 584721003573 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 584721003574 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 584721003575 multifunctional aminopeptidase A; Provisional; Region: PRK00913 584721003576 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 584721003577 interface (dimer of trimers) [polypeptide binding]; other site 584721003578 Substrate-binding/catalytic site; other site 584721003579 Zn-binding sites [ion binding]; other site 584721003580 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 584721003581 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 584721003582 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 584721003583 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 584721003584 catalytic residues [active] 584721003585 alpha helical domain; other site 584721003586 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 584721003587 DHH family; Region: DHH; pfam01368 584721003588 DHHA1 domain; Region: DHHA1; pfam02272 584721003589 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 584721003590 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 584721003591 dimerization domain [polypeptide binding]; other site 584721003592 dimer interface [polypeptide binding]; other site 584721003593 catalytic residues [active] 584721003594 This domain is found in peptide chain release factors; Region: PCRF; smart00937 584721003595 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 584721003596 RF-1 domain; Region: RF-1; pfam00472 584721003597 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 584721003598 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 584721003599 dimer interface [polypeptide binding]; other site 584721003600 putative anticodon binding site; other site 584721003601 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 584721003602 motif 1; other site 584721003603 active site 584721003604 motif 2; other site 584721003605 motif 3; other site 584721003606 Sialyltransferase PMO188; Region: PM0188; pfam11477 584721003607 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 584721003608 ligand binding site; other site 584721003609 tetramer interface; other site 584721003610 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 584721003611 Ligand Binding Site [chemical binding]; other site 584721003612 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 584721003613 active site 584721003614 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 584721003615 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 584721003616 FeS/SAM binding site; other site 584721003617 Uncharacterized conserved protein [Function unknown]; Region: COG0327 584721003618 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 584721003619 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07984 584721003620 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 584721003621 NAD binding site [chemical binding]; other site 584721003622 homotetramer interface [polypeptide binding]; other site 584721003623 homodimer interface [polypeptide binding]; other site 584721003624 substrate binding site [chemical binding]; other site 584721003625 active site 584721003626 exoribonuclease II; Provisional; Region: PRK05054 584721003627 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 584721003628 RNB domain; Region: RNB; pfam00773 584721003629 S1 RNA binding domain; Region: S1; pfam00575 584721003630 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 584721003631 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 584721003632 hinge; other site 584721003633 active site 584721003634 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 584721003635 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 584721003636 anti sigma factor interaction site; other site 584721003637 regulatory phosphorylation site [posttranslational modification]; other site 584721003638 ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2D; COG2854 584721003639 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 584721003640 mce related protein; Region: MCE; pfam02470 584721003641 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 584721003642 conserved hypothetical integral membrane protein; Region: TIGR00056 584721003643 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 584721003644 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 584721003645 Walker A/P-loop; other site 584721003646 ATP binding site [chemical binding]; other site 584721003647 Q-loop/lid; other site 584721003648 ABC transporter signature motif; other site 584721003649 Walker B; other site 584721003650 D-loop; other site 584721003651 H-loop/switch region; other site 584721003652 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 584721003653 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 584721003654 OstA-like protein; Region: OstA; cl00844 584721003655 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 584721003656 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 584721003657 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 584721003658 Walker A/P-loop; other site 584721003659 ATP binding site [chemical binding]; other site 584721003660 Q-loop/lid; other site 584721003661 ABC transporter signature motif; other site 584721003662 Walker B; other site 584721003663 D-loop; other site 584721003664 H-loop/switch region; other site 584721003665 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 584721003666 active site 584721003667 phosphorylation site [posttranslational modification] 584721003668 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 584721003669 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 584721003670 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 584721003671 generic binding surface II; other site 584721003672 generic binding surface I; other site 584721003673 Uncharacterized conserved protein [Function unknown]; Region: COG2850 584721003674 hypothetical protein; Validated; Region: PRK01777 584721003675 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 584721003676 putative coenzyme Q binding site [chemical binding]; other site 584721003677 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 584721003678 putative active site [active] 584721003679 catalytic residue [active] 584721003680 GTP-binding protein YchF; Reviewed; Region: PRK09601 584721003681 YchF GTPase; Region: YchF; cd01900 584721003682 G1 box; other site 584721003683 GTP/Mg2+ binding site [chemical binding]; other site 584721003684 Switch I region; other site 584721003685 G2 box; other site 584721003686 Switch II region; other site 584721003687 G3 box; other site 584721003688 G4 box; other site 584721003689 G5 box; other site 584721003690 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 584721003691 transporter, basic amino acid/polyamine antiporter (APA) family; Region: 2A0302; TIGR00905 584721003692 Nitroreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_1; cd02137 584721003693 dimer interface [polypeptide binding]; other site 584721003694 FMN binding site [chemical binding]; other site 584721003695 allantoate amidohydrolase; Reviewed; Region: PRK09290 584721003696 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 584721003697 active site 584721003698 metal binding site [ion binding]; metal-binding site 584721003699 dimer interface [polypeptide binding]; other site 584721003700 Predicted transcriptional regulator [General function prediction only]; Region: COG3054 584721003701 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 584721003702 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 584721003703 PhnA protein; Region: PhnA; pfam03831 584721003704 Excalibur calcium-binding domain; Region: Excalibur; pfam05901 584721003705 D-ribose pyranase; Provisional; Region: PRK11797 584721003706 D-ribose transporter ATP binding protein; Provisional; Region: PRK10762 584721003707 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 584721003708 Walker A/P-loop; other site 584721003709 ATP binding site [chemical binding]; other site 584721003710 Q-loop/lid; other site 584721003711 ABC transporter signature motif; other site 584721003712 Walker B; other site 584721003713 D-loop; other site 584721003714 H-loop/switch region; other site 584721003715 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 584721003716 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 584721003717 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 584721003718 TM-ABC transporter signature motif; other site 584721003719 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 584721003720 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 584721003721 ligand binding site [chemical binding]; other site 584721003722 dimerization interface [polypeptide binding]; other site 584721003723 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 584721003724 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 584721003725 substrate binding site [chemical binding]; other site 584721003726 dimer interface [polypeptide binding]; other site 584721003727 ATP binding site [chemical binding]; other site 584721003728 transcriptional repressor RbsR; Provisional; Region: PRK10423 584721003729 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 584721003730 DNA binding site [nucleotide binding] 584721003731 domain linker motif; other site 584721003732 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 584721003733 dimerization interface [polypeptide binding]; other site 584721003734 ligand binding site [chemical binding]; other site 584721003735 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 584721003736 chorismate mutase domain of proteobacterial P-protein, clade 1; Region: CM_P_1; TIGR01797 584721003737 Prephenate dehydratase; Region: PDT; pfam00800 584721003738 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 584721003739 putative L-Phe binding site [chemical binding]; other site 584721003740 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 584721003741 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 584721003742 dimer interface [polypeptide binding]; other site 584721003743 active site 584721003744 metal binding site [ion binding]; metal-binding site 584721003745 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 584721003746 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 584721003747 potential frameshift: common BLAST hit: gi|383310758|ref|YP_005363568.1| cell division protein FtsZ 584721003748 Tubulin/FtsZ: Family includes tubulin alpha-, beta-, gamma-, delta-, and epsilon-tubulins as well as FtsZ, all of which are involved in polymer formation. Tubulin is the major component of microtubules, but also exists as a heterodimer and as a curved...; Region: Tubulin_FtsZ; cl10017 584721003749 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 584721003750 Tubulin/FtsZ family, GTPase domain; Region: Tubulin; pfam00091 584721003751 nucleotide binding site [chemical binding]; other site 584721003752 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 584721003753 Cell division protein FtsA; Region: FtsA; smart00842 584721003754 Cell division protein FtsA; Region: FtsA; pfam14450 584721003755 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 584721003756 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 584721003757 Cell division protein FtsQ; Region: FtsQ; pfam03799 584721003758 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 584721003759 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 584721003760 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 584721003761 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 584721003762 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 584721003763 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 584721003764 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 584721003765 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 584721003766 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 584721003767 active site 584721003768 homodimer interface [polypeptide binding]; other site 584721003769 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 584721003770 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03806 584721003771 Putative NAD(P)-binding; Region: NAD_binding_7; cl17660 584721003772 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 584721003773 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 584721003774 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 584721003775 Mg++ binding site [ion binding]; other site 584721003776 putative catalytic motif [active] 584721003777 putative substrate binding site [chemical binding]; other site 584721003778 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 584721003779 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 584721003780 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 584721003781 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 584721003782 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 584721003783 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 584721003784 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 584721003785 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 584721003786 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 584721003787 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 584721003788 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 584721003789 Cell division protein [Cell division and chromosome partitioning]; Region: FtsL; COG3116 584721003790 MraW methylase family; Region: Methyltransf_5; pfam01795 584721003791 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 584721003792 cell division protein MraZ; Reviewed; Region: PRK00326 584721003793 MraZ protein; Region: MraZ; pfam02381 584721003794 MraZ protein; Region: MraZ; pfam02381 584721003795 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 584721003796 Carbon starvation protein CstA; Region: CstA; pfam02554 584721003797 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 584721003798 iron-dicitrate transporter substrate-binding subunit; Provisional; Region: fecB; PRK11411 584721003799 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 584721003800 siderophore binding site; other site 584721003801 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 584721003802 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 584721003803 ABC-ATPase subunit interface; other site 584721003804 dimer interface [polypeptide binding]; other site 584721003805 putative PBP binding regions; other site 584721003806 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 584721003807 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 584721003808 ABC-ATPase subunit interface; other site 584721003809 dimer interface [polypeptide binding]; other site 584721003810 putative PBP binding regions; other site 584721003811 iron-dicitrate transporter ATP-binding subunit; Provisional; Region: fecE; PRK11231 584721003812 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 584721003813 Walker A/P-loop; other site 584721003814 ATP binding site [chemical binding]; other site 584721003815 Q-loop/lid; other site 584721003816 ABC transporter signature motif; other site 584721003817 Walker B; other site 584721003818 D-loop; other site 584721003819 H-loop/switch region; other site 584721003820 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 584721003821 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 584721003822 dimer interface [polypeptide binding]; other site 584721003823 conserved gate region; other site 584721003824 putative PBP binding loops; other site 584721003825 ABC-ATPase subunit interface; other site 584721003826 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 584721003827 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 584721003828 dimer interface [polypeptide binding]; other site 584721003829 conserved gate region; other site 584721003830 putative PBP binding loops; other site 584721003831 ABC-ATPase subunit interface; other site 584721003832 putative ABC transporter arginine-biding protein; Provisional; Region: PRK15007 584721003833 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 584721003834 substrate binding pocket [chemical binding]; other site 584721003835 membrane-bound complex binding site; other site 584721003836 hinge residues; other site 584721003837 arginine transporter ATP-binding subunit; Provisional; Region: artP; PRK11124 584721003838 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 584721003839 Walker A/P-loop; other site 584721003840 ATP binding site [chemical binding]; other site 584721003841 Q-loop/lid; other site 584721003842 ABC transporter signature motif; other site 584721003843 Walker B; other site 584721003844 D-loop; other site 584721003845 H-loop/switch region; other site 584721003846 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 584721003847 dimer interface [polypeptide binding]; other site 584721003848 active site 584721003849 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 584721003850 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 584721003851 active site 584721003852 peptidase PmbA; Provisional; Region: PRK11040 584721003853 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3028 584721003854 FtsH protease regulator HflC; Provisional; Region: PRK11029 584721003855 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 584721003856 FtsH protease regulator HflK; Provisional; Region: PRK10930 584721003857 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 584721003858 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 584721003859 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 584721003860 threonine synthase; Validated; Region: PRK09225 584721003861 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 584721003862 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 584721003863 catalytic residue [active] 584721003864 homoserine kinase; Provisional; Region: PRK01212 584721003865 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 584721003866 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 584721003867 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 584721003868 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 584721003869 nucleotide binding site [chemical binding]; other site 584721003870 substrate binding site [chemical binding]; other site 584721003871 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 584721003872 dimer interface [polypeptide binding]; other site 584721003873 putative threonine allosteric regulatory site; other site 584721003874 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 584721003875 putative threonine allosteric regulatory site; other site 584721003876 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 584721003877 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 584721003878 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 584721003879 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 584721003880 catalytic residue [active] 584721003881 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 584721003882 Uncharacterized conserved protein [Function unknown]; Region: COG1801 584721003883 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 584721003884 RNA/DNA hybrid binding site [nucleotide binding]; other site 584721003885 active site 584721003886 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 584721003887 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 584721003888 active site 584721003889 catalytic site [active] 584721003890 substrate binding site [chemical binding]; other site 584721003891 GTP-binding protein Der; Reviewed; Region: PRK00093 584721003892 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 584721003893 G1 box; other site 584721003894 GTP/Mg2+ binding site [chemical binding]; other site 584721003895 Switch I region; other site 584721003896 G2 box; other site 584721003897 Switch II region; other site 584721003898 G3 box; other site 584721003899 G4 box; other site 584721003900 G5 box; other site 584721003901 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 584721003902 G1 box; other site 584721003903 GTP/Mg2+ binding site [chemical binding]; other site 584721003904 Switch I region; other site 584721003905 G2 box; other site 584721003906 G3 box; other site 584721003907 Switch II region; other site 584721003908 G4 box; other site 584721003909 G5 box; other site 584721003910 FtsI repressor; Provisional; Region: PRK10883 584721003911 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 584721003912 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 584721003913 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 584721003914 putative acyl-acceptor binding pocket; other site 584721003915 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 584721003916 putative active site [active] 584721003917 putative metal binding site [ion binding]; other site 584721003918 Uncharacterized integral membrane protein [Function unknown]; Region: COG5413 584721003919 elongation factor P; Validated; Region: PRK00529 584721003920 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 584721003921 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 584721003922 RNA binding site [nucleotide binding]; other site 584721003923 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 584721003924 RNA binding site [nucleotide binding]; other site 584721003925 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 584721003926 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 584721003927 FeS/SAM binding site; other site 584721003928 Cell envelope opacity-associated protein A [Cell envelope biogenesis, outer membrane]; Region: OapA; COG3061 584721003929 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 584721003930 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 584721003931 DNA recombination-dependent growth factor C [DNA replication, recombination, and repair]; Region: RdgC; COG2974 584721003932 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 584721003933 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 584721003934 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 584721003935 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 584721003936 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 584721003937 active site 584721003938 Int/Topo IB signature motif; other site 584721003939 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 584721003940 30S subunit binding site; other site 584721003941 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 584721003942 amino acid carrier protein; Region: agcS; TIGR00835 584721003943 Predicted acetyltransferase [General function prediction only]; Region: COG2388 584721003944 DNA gyrase inhibitor; Reviewed; Region: PRK00418 584721003945 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 584721003946 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 584721003947 CoA-binding site [chemical binding]; other site 584721003948 ATP-binding [chemical binding]; other site 584721003949 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 584721003950 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 584721003951 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 584721003952 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 584721003953 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 584721003954 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 584721003955 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 584721003956 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 584721003957 Walker A motif; other site 584721003958 ATP binding site [chemical binding]; other site 584721003959 Walker B motif; other site 584721003960 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 584721003961 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 584721003962 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 584721003963 amidase catalytic site [active] 584721003964 Zn binding residues [ion binding]; other site 584721003965 substrate binding site [chemical binding]; other site 584721003966 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 584721003967 putative active site [active] 584721003968 Ap4A binding site [chemical binding]; other site 584721003969 nudix motif; other site 584721003970 putative metal binding site [ion binding]; other site 584721003971 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 584721003972 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 584721003973 thymidylate synthase; Reviewed; Region: thyA; PRK01827 584721003974 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 584721003975 dimerization interface [polypeptide binding]; other site 584721003976 active site 584721003977 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 584721003978 nucleoside/Zn binding site; other site 584721003979 dimer interface [polypeptide binding]; other site 584721003980 catalytic motif [active] 584721003981 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 584721003982 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 584721003983 FeS/SAM binding site; other site 584721003984 Phospholipase/lecithinase/hemolysin [Lipid metabolism / General function prediction only]; Region: COG3240 584721003985 Triacylglycerol lipase-like subfamily of the SGNH hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: Triacylglycerol_lipase_like; cd01847 584721003986 active site 584721003987 oxyanion hole [active] 584721003988 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 584721003989 catalytic triad [active] 584721003990 Autotransporter beta-domain; Region: Autotransporter; cl17461 584721003991 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 584721003992 Pyruvate formate lyase 1; Region: PFL1; cd01678 584721003993 coenzyme A binding site [chemical binding]; other site 584721003994 active site 584721003995 catalytic residues [active] 584721003996 glycine loop; other site 584721003997 formate transporter FocA; Region: formate_focA; TIGR04060 584721003998 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 584721003999 nucleotide binding site/active site [active] 584721004000 HIT family signature motif; other site 584721004001 catalytic residue [active] 584721004002 Predicted periplasmic lipoprotein [General function prediction only]; Region: COG5633 584721004003 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 584721004004 putative dimer interface [polypeptide binding]; other site 584721004005 beta-hexosaminidase; Provisional; Region: PRK05337 584721004006 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 584721004007 23S rRNA methyluridine methyltransferase; Reviewed; Region: rumB; PRK03522 584721004008 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 584721004009 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 584721004010 active site 584721004011 ADP/pyrophosphate binding site [chemical binding]; other site 584721004012 dimerization interface [polypeptide binding]; other site 584721004013 allosteric effector site; other site 584721004014 fructose-1,6-bisphosphate binding site; other site 584721004015 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 584721004016 Cation efflux family; Region: Cation_efflux; cl00316 584721004017 hypothetical protein; Validated; Region: PRK02101 584721004018 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 584721004019 ligand binding site [chemical binding]; other site 584721004020 active site 584721004021 UGI interface [polypeptide binding]; other site 584721004022 catalytic site [active] 584721004023 autonomous glycyl radical cofactor GrcA; Provisional; Region: PRK11127 584721004024 GTP-binding protein LepA; Provisional; Region: PRK05433 584721004025 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 584721004026 Switch I region; other site 584721004027 G2 box; other site 584721004028 putative GEF interaction site [polypeptide binding]; other site 584721004029 G3 box; other site 584721004030 Switch II region; other site 584721004031 GTP/Mg2+ binding site [chemical binding]; other site 584721004032 G4 box; other site 584721004033 G5 box; other site 584721004034 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 584721004035 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 584721004036 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 584721004037 signal peptidase I; Provisional; Region: PRK10861 584721004038 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 584721004039 Catalytic site [active] 584721004040 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 584721004041 ribonuclease III; Reviewed; Region: rnc; PRK00102 584721004042 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 584721004043 dimerization interface [polypeptide binding]; other site 584721004044 active site 584721004045 metal binding site [ion binding]; metal-binding site 584721004046 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 584721004047 dsRNA binding site [nucleotide binding]; other site 584721004048 GTPase Era; Reviewed; Region: era; PRK00089 584721004049 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 584721004050 G1 box; other site 584721004051 GTP/Mg2+ binding site [chemical binding]; other site 584721004052 Switch I region; other site 584721004053 G2 box; other site 584721004054 Switch II region; other site 584721004055 G3 box; other site 584721004056 G4 box; other site 584721004057 G5 box; other site 584721004058 KH domain; Region: KH_2; pfam07650 584721004059 haemagglutination activity domain; Region: Haemagg_act; pfam05860 584721004060 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 584721004061 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 584721004062 Yersinia/Haemophilus virulence surface antigen; Region: Peptidase_C58; pfam03543 584721004063 Phage protein (N4 Gp49/phage Sf6 gene 66) family; Region: Phage_gp49_66; pfam13876 584721004064 Putative phage tail protein; Region: Phage-tail_3; pfam13550 584721004065 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 584721004066 phage conserved hypothetical protein BR0599; Region: phg_TIGR02218 584721004067 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 584721004068 tape measure domain; Region: tape_meas_nterm; TIGR02675 584721004069 Protein of unknown function (DUF1320); Region: DUF1320; pfam07030 584721004070 Phage virion morphogenesis family; Region: Phage_tail_S; pfam05069 584721004071 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 584721004072 Protein of unknown function (DUF935); Region: DUF935; pfam06074 584721004073 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 584721004074 Protein of unknown function (DUF3486); Region: DUF3486; pfam11985 584721004075 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 584721004076 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 584721004077 N-acetyl-D-glucosamine binding site [chemical binding]; other site 584721004078 catalytic residue [active] 584721004079 Protein of unknown function (DUF4063); Region: DUF4063; pfam13272 584721004080 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 584721004081 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 584721004082 non-specific DNA binding site [nucleotide binding]; other site 584721004083 salt bridge; other site 584721004084 sequence-specific DNA binding site [nucleotide binding]; other site 584721004085 phage-associated protein, BcepMu gp16 family; Region: BcepMu_gp16; TIGR04111 584721004086 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 584721004087 putative DNA binding site [nucleotide binding]; other site 584721004088 putative Zn2+ binding site [ion binding]; other site 584721004089 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 584721004090 Integrase core domain; Region: rve; pfam00665 584721004091 Helix-turn-helix XRE-family like proteins; Region: HTH_XRE; smart00530 584721004092 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 584721004093 AAA ATPase domain; Region: AAA_16; pfam13191 584721004094 Protein of unknown function (DUF3164); Region: DUF3164; pfam11363 584721004095 Uncharacterized conserved protein [Function unknown]; Region: COG3347 584721004096 Protein of unknown function (DUF1018); Region: DUF1018; pfam06252 584721004097 Mor transcription activator family; Region: Mor; pfam08765 584721004098 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 584721004099 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 584721004100 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 584721004101 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Provisional; Region: PRK11126 584721004102 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 584721004103 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 584721004104 dimer interface [polypeptide binding]; other site 584721004105 tetramer interface [polypeptide binding]; other site 584721004106 PYR/PP interface [polypeptide binding]; other site 584721004107 TPP binding site [chemical binding]; other site 584721004108 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 584721004109 TPP-binding site; other site 584721004110 potential frameshift: common BLAST hit: gi|378774883|ref|YP_005177126.1| menaquinone-specific isochorismate synthase 584721004111 chorismate binding enzyme; Region: Chorismate_bind; cl10555 584721004112 chorismate binding enzyme; Region: Chorismate_bind; cl10555 584721004113 aminotransferase AlaT; Validated; Region: PRK09265 584721004114 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 584721004115 pyridoxal 5'-phosphate binding site [chemical binding]; other site 584721004116 homodimer interface [polypeptide binding]; other site 584721004117 catalytic residue [active] 584721004118 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 584721004119 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 584721004120 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 584721004121 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 584721004122 dimer interface [polypeptide binding]; other site 584721004123 conserved gate region; other site 584721004124 putative PBP binding loops; other site 584721004125 ABC-ATPase subunit interface; other site 584721004126 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 584721004127 dimer interface [polypeptide binding]; other site 584721004128 conserved gate region; other site 584721004129 putative PBP binding loops; other site 584721004130 ABC-ATPase subunit interface; other site 584721004131 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 584721004132 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 584721004133 Walker A/P-loop; other site 584721004134 ATP binding site [chemical binding]; other site 584721004135 Q-loop/lid; other site 584721004136 ABC transporter signature motif; other site 584721004137 Walker B; other site 584721004138 D-loop; other site 584721004139 H-loop/switch region; other site 584721004140 fatty acid metabolism regulator; Provisional; Region: PRK04984 584721004141 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 584721004142 DNA-binding site [nucleotide binding]; DNA binding site 584721004143 FadR C-terminal domain; Region: FadR_C; pfam07840 584721004144 sodium/proton antiporter; Reviewed; Region: nhaB; PRK09547 584721004145 disulfide bond formation protein B; Provisional; Region: PRK01749 584721004146 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 584721004147 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 584721004148 substrate binding pocket [chemical binding]; other site 584721004149 membrane-bound complex binding site; other site 584721004150 hinge residues; other site 584721004151 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 584721004152 N-acetyl-D-glucosamine binding site [chemical binding]; other site 584721004153 catalytic residue [active] 584721004154 hypothetical protein; Provisional; Region: PRK11111 584721004155 glutamate dehydrogenase; Provisional; Region: PRK09414 584721004156 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 584721004157 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 584721004158 NAD(P) binding site [chemical binding]; other site 584721004159 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 584721004160 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 584721004161 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 584721004162 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 584721004163 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 584721004164 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 584721004165 N-terminal plug; other site 584721004166 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 584721004167 ligand-binding site [chemical binding]; other site 584721004168 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 584721004169 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 584721004170 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 584721004171 putative active site [active] 584721004172 putative dimer interface [polypeptide binding]; other site 584721004173 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 584721004174 serine transporter; Region: stp; TIGR00814 584721004175 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 584721004176 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 584721004177 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 584721004178 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3738 584721004179 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 584721004180 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 584721004181 putative active site [active] 584721004182 putative PHP Thumb interface [polypeptide binding]; other site 584721004183 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 584721004184 generic binding surface II; other site 584721004185 generic binding surface I; other site 584721004186 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 584721004187 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 584721004188 tetramer interface [polypeptide binding]; other site 584721004189 heme binding pocket [chemical binding]; other site 584721004190 NADPH binding site [chemical binding]; other site 584721004191 Predicted flavoproteins [General function prediction only]; Region: COG2081 584721004192 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 584721004193 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 584721004194 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 584721004195 binding surface 584721004196 TPR motif; other site 584721004197 cytochrome c nitrite reductase, accessory protein NrfF; Region: cyt_nit_nrfF; TIGR03147 584721004198 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 584721004199 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 584721004200 catalytic residues [active] 584721004201 central insert; other site 584721004202 cytochrome c nitrate reductase biogenesis protein NrfE; Region: cyt_nit_nrfE; TIGR03145 584721004203 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 584721004204 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 584721004205 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 584721004206 cytochrome c nitrite reductase pentaheme subunit; Provisional; Region: PRK11659 584721004207 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 584721004208 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 584721004209 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 584721004210 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 584721004211 dimerization interface [polypeptide binding]; other site 584721004212 putative ATP binding site [chemical binding]; other site 584721004213 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 584721004214 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 584721004215 active site 584721004216 substrate binding site [chemical binding]; other site 584721004217 cosubstrate binding site; other site 584721004218 catalytic site [active] 584721004219 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 584721004220 active site 584721004221 uracil-xanthine permease; Region: ncs2; TIGR00801 584721004222 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 584721004223 DNA replication initiation factor; Validated; Region: PRK06893 584721004224 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 584721004225 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 584721004226 putative metal binding site [ion binding]; other site 584721004227 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 584721004228 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 584721004229 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 584721004230 TPR motif; other site 584721004231 binding surface 584721004232 Uncharacterized protein involved in biosynthesis of c-type cytochromes [Posttranslational modification, protein turnover, chaperones]; Region: CcmH; COG3088 584721004233 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 584721004234 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 584721004235 catalytic residues [active] 584721004236 central insert; other site 584721004237 c-type cytochrome biogenesis protein CcmF; Region: nrfE; TIGR00353 584721004238 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13165 584721004239 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 584721004240 heme exporter protein CcmC; Region: ccmC; TIGR01191 584721004241 heme exporter protein CcmB; Region: ccmB; TIGR01190 584721004242 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 584721004243 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 584721004244 Walker A/P-loop; other site 584721004245 ATP binding site [chemical binding]; other site 584721004246 Q-loop/lid; other site 584721004247 ABC transporter signature motif; other site 584721004248 Walker B; other site 584721004249 D-loop; other site 584721004250 H-loop/switch region; other site 584721004251 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 584721004252 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 584721004253 putative substrate translocation pore; other site 584721004254 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 584721004255 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 584721004256 RNA binding surface [nucleotide binding]; other site 584721004257 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 584721004258 active site 584721004259 uracil binding [chemical binding]; other site 584721004260 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 584721004261 Malic enzyme, N-terminal domain; Region: malic; pfam00390 584721004262 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 584721004263 putative NAD(P) binding site [chemical binding]; other site 584721004264 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 584721004265 superoxide dismutase; Provisional; Region: PRK10925 584721004266 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 584721004267 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 584721004268 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 584721004269 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 584721004270 active site 584721004271 metal binding site [ion binding]; metal-binding site 584721004272 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 584721004273 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 584721004274 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 584721004275 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 584721004276 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 584721004277 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 584721004278 dimer interface [polypeptide binding]; other site 584721004279 motif 1; other site 584721004280 active site 584721004281 motif 2; other site 584721004282 motif 3; other site 584721004283 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 584721004284 anticodon binding site; other site 584721004285 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 584721004286 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 584721004287 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 584721004288 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 584721004289 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 584721004290 non-specific DNA binding site [nucleotide binding]; other site 584721004291 salt bridge; other site 584721004292 sequence-specific DNA binding site [nucleotide binding]; other site 584721004293 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 584721004294 TPR repeat; Region: TPR_11; pfam13414 584721004295 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 584721004296 binding surface 584721004297 TPR motif; other site 584721004298 TPR repeat; Region: TPR_11; pfam13414 584721004299 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 584721004300 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 584721004301 FeS/SAM binding site; other site 584721004302 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 584721004303 Domain of unknown function DUF20; Region: UPF0118; pfam01594 584721004304 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 584721004305 Nitrogen regulatory protein P-II; Region: P-II; smart00938 584721004306 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 584721004307 MPT binding site; other site 584721004308 trimer interface [polypeptide binding]; other site 584721004309 Predicted CDP-diglyceride synthetase/phosphatidate cytidylyltransferase [General function prediction only]; Region: COG4589 584721004310 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 584721004311 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 584721004312 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 584721004313 putative acyl-acceptor binding pocket; other site 584721004314 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 584721004315 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 584721004316 transmembrane helices; other site 584721004317 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 584721004318 TrkA-C domain; Region: TrkA_C; pfam02080 584721004319 TrkA-C domain; Region: TrkA_C; pfam02080 584721004320 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 584721004321 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 584721004322 RNA/DNA hybrid binding site [nucleotide binding]; other site 584721004323 active site 584721004324 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 584721004325 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 584721004326 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 584721004327 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 584721004328 active site 584721004329 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 584721004330 potential frameshift: common BLAST hit: gi|383310926|ref|YP_005363736.1| UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase 584721004331 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 584721004332 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 584721004333 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 584721004334 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 584721004335 trimer interface [polypeptide binding]; other site 584721004336 active site 584721004337 UDP-GlcNAc binding site [chemical binding]; other site 584721004338 lipid binding site [chemical binding]; lipid-binding site 584721004339 periplasmic chaperone; Provisional; Region: PRK10780 584721004340 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 584721004341 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 584721004342 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 584721004343 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 584721004344 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 584721004345 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 584721004346 Surface antigen; Region: Bac_surface_Ag; pfam01103 584721004347 zinc metallopeptidase RseP; Provisional; Region: PRK10779 584721004348 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 584721004349 active site 584721004350 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 584721004351 protein binding site [polypeptide binding]; other site 584721004352 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 584721004353 protein binding site [polypeptide binding]; other site 584721004354 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 584721004355 putative substrate binding region [chemical binding]; other site 584721004356 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 584721004357 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 584721004358 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; cl00230 584721004359 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 584721004360 catalytic residue [active] 584721004361 putative FPP diphosphate binding site; other site 584721004362 putative FPP binding hydrophobic cleft; other site 584721004363 dimer interface [polypeptide binding]; other site 584721004364 putative IPP diphosphate binding site; other site 584721004365 potential frameshift: common BLAST hit: gi|383310932|ref|YP_005363742.1| 1-deoxy-D-xylulose 5-phosphate reductoisomerase 584721004366 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 584721004367 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 584721004368 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 584721004369 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 584721004370 ribosome recycling factor; Reviewed; Region: frr; PRK00083 584721004371 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 584721004372 hinge region; other site 584721004373 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 584721004374 putative nucleotide binding site [chemical binding]; other site 584721004375 uridine monophosphate binding site [chemical binding]; other site 584721004376 homohexameric interface [polypeptide binding]; other site 584721004377 elongation factor Ts; Provisional; Region: tsf; PRK09377 584721004378 UBA/TS-N domain; Region: UBA; pfam00627 584721004379 Elongation factor TS; Region: EF_TS; pfam00889 584721004380 Elongation factor TS; Region: EF_TS; pfam00889 584721004381 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 584721004382 rRNA interaction site [nucleotide binding]; other site 584721004383 S8 interaction site; other site 584721004384 putative laminin-1 binding site; other site 584721004385 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 584721004386 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 584721004387 HlyD family secretion protein; Region: HlyD_3; pfam13437 584721004388 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 584721004389 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 584721004390 Walker A/P-loop; other site 584721004391 ATP binding site [chemical binding]; other site 584721004392 Q-loop/lid; other site 584721004393 ABC transporter signature motif; other site 584721004394 Walker B; other site 584721004395 D-loop; other site 584721004396 H-loop/switch region; other site 584721004397 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 584721004398 Walker A/P-loop; other site 584721004399 ATP binding site [chemical binding]; other site 584721004400 Q-loop/lid; other site 584721004401 ABC transporter signature motif; other site 584721004402 Walker B; other site 584721004403 D-loop; other site 584721004404 H-loop/switch region; other site 584721004405 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 584721004406 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 584721004407 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 584721004408 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 584721004409 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 584721004410 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 584721004411 periplasmic folding chaperone; Provisional; Region: PRK10788 584721004412 SurA N-terminal domain; Region: SurA_N_3; cl07813 584721004413 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 584721004414 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 584721004415 Found in ATP-dependent protease La (LON); Region: LON; smart00464 584721004416 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 584721004417 Walker A motif; other site 584721004418 ATP binding site [chemical binding]; other site 584721004419 Walker B motif; other site 584721004420 arginine finger; other site 584721004421 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 584721004422 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 584721004423 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 584721004424 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 584721004425 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 584721004426 Walker A motif; other site 584721004427 ATP binding site [chemical binding]; other site 584721004428 Walker B motif; other site 584721004429 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 584721004430 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 584721004431 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 584721004432 oligomer interface [polypeptide binding]; other site 584721004433 active site residues [active] 584721004434 trigger factor; Provisional; Region: tig; PRK01490 584721004435 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 584721004436 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 584721004437 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 584721004438 BON domain; Region: BON; pfam04972 584721004439 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 584721004440 Predicted metalloprotease [General function prediction only]; Region: COG2321 584721004441 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 584721004442 PTS system enzyme II sorbitol-specific factor; Region: EII-GUT; cl01515 584721004443 Phosphotransferase system sorbitol-specific component IIBC [Carbohydrate transport and metabolism]; Region: SrlE; COG3732 584721004444 Sorbitol phosphotransferase enzyme II N-terminus; Region: EIIBC-GUT_N; pfam03612 584721004445 Sorbitol phosphotransferase enzyme II C-terminus; Region: EIIBC-GUT_C; pfam07663 584721004446 PTS system glucitol/sorbitol-specific transporter subunit IIA; Provisional; Region: PRK10377 584721004447 sorbitol-6-phosphate dehydrogenase; Provisional; Region: PRK12384 584721004448 Sorbitol 6-phosphate dehydrogenase (SDH), classical (c) SDRs; Region: SDH_SDR_c_like; cd05322 584721004449 putative NAD(P) binding site [chemical binding]; other site 584721004450 active site 584721004451 DNA-binding transcriptional activator GutM; Provisional; Region: PRK10234 584721004452 2-deoxyglucose-6-phosphatase; Provisional; Region: PRK10826 584721004453 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 584721004454 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 584721004455 motif II; other site 584721004456 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 584721004457 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 584721004458 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 584721004459 2-isopropylmalate synthase; Validated; Region: PRK00915 584721004460 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 584721004461 active site 584721004462 catalytic residues [active] 584721004463 metal binding site [ion binding]; metal-binding site 584721004464 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 584721004465 tartrate dehydrogenase; Region: TTC; TIGR02089 584721004466 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 584721004467 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 584721004468 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 584721004469 substrate binding site [chemical binding]; other site 584721004470 ligand binding site [chemical binding]; other site 584721004471 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 584721004472 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 584721004473 substrate binding site [chemical binding]; other site 584721004474 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3787 584721004475 rod shape-determining protein MreD; Region: MreD; cl01087 584721004476 rod shape-determining protein MreC; Region: mreC; TIGR00219 584721004477 rod shape-determining protein MreC; Region: MreC; pfam04085 584721004478 rod shape-determining protein MreB; Provisional; Region: PRK13927 584721004479 MreB and similar proteins; Region: MreB_like; cd10225 584721004480 nucleotide binding site [chemical binding]; other site 584721004481 Mg binding site [ion binding]; other site 584721004482 putative protofilament interaction site [polypeptide binding]; other site 584721004483 RodZ interaction site [polypeptide binding]; other site 584721004484 exoribonuclease R; Provisional; Region: PRK11642 584721004485 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 584721004486 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 584721004487 RNB domain; Region: RNB; pfam00773 584721004488 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 584721004489 RNA binding site [nucleotide binding]; other site 584721004490 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 584721004491 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 584721004492 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 584721004493 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 584721004494 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 584721004495 E-class dimer interface [polypeptide binding]; other site 584721004496 P-class dimer interface [polypeptide binding]; other site 584721004497 active site 584721004498 Cu2+ binding site [ion binding]; other site 584721004499 Zn2+ binding site [ion binding]; other site 584721004500 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 584721004501 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 584721004502 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 584721004503 ABC transporter signature motif; other site 584721004504 Walker B; other site 584721004505 D-loop; other site 584721004506 H-loop/switch region; other site 584721004507 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 584721004508 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 584721004509 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 584721004510 dimer interface [polypeptide binding]; other site 584721004511 ssDNA binding site [nucleotide binding]; other site 584721004512 tetramer (dimer of dimers) interface [polypeptide binding]; other site 584721004513 AAA domain; Region: AAA_22; pfam13401 584721004514 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 584721004515 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 584721004516 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 584721004517 homodimer interface [polypeptide binding]; other site 584721004518 NADP binding site [chemical binding]; other site 584721004519 substrate binding site [chemical binding]; other site 584721004520 Protein of unknown function, DUF417; Region: DUF417; pfam04224 584721004521 Lipoate synthase [Coenzyme metabolism]; Region: LipA; COG0320 584721004522 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 584721004523 FeS/SAM binding site; other site 584721004524 lipoate-protein ligase B; Provisional; Region: PRK14342 584721004525 hypothetical protein; Provisional; Region: PRK04998 584721004526 D-alanyl-D-alanine carboxypeptidase fraction A; Provisional; Region: PRK10793 584721004527 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 584721004528 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 584721004529 rare lipoprotein A; Region: rlpA; TIGR00413 584721004530 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 584721004531 Sporulation related domain; Region: SPOR; pfam05036 584721004532 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 584721004533 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 584721004534 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 584721004535 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 584721004536 rRNA large subunit m3Psi methyltransferase RlmH; Region: tRNA_RlmH_YbeA; TIGR00246 584721004537 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 584721004538 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 584721004539 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 584721004540 ATP binding site [chemical binding]; other site 584721004541 Mg++ binding site [ion binding]; other site 584721004542 motif III; other site 584721004543 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 584721004544 nucleotide binding region [chemical binding]; other site 584721004545 ATP-binding site [chemical binding]; other site 584721004546 transcription termination factor Rho; Provisional; Region: rho; PRK09376 584721004547 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 584721004548 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 584721004549 RNA binding site [nucleotide binding]; other site 584721004550 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 584721004551 multimer interface [polypeptide binding]; other site 584721004552 Walker A motif; other site 584721004553 ATP binding site [chemical binding]; other site 584721004554 Walker B motif; other site 584721004555 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4714 584721004556 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK12489 584721004557 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 584721004558 acyl carrier protein; Provisional; Region: acpP; PRK00982 584721004559 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 584721004560 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 584721004561 NAD(P) binding site [chemical binding]; other site 584721004562 homotetramer interface [polypeptide binding]; other site 584721004563 homodimer interface [polypeptide binding]; other site 584721004564 active site 584721004565 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 584721004566 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 584721004567 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 584721004568 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 584721004569 dimer interface [polypeptide binding]; other site 584721004570 active site 584721004571 CoA binding pocket [chemical binding]; other site 584721004572 Fatty acid/phospholipid biosynthesis enzyme [Lipid metabolism]; Region: PlsX; COG0416 584721004573 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 584721004574 hypothetical protein; Provisional; Region: PRK11193 584721004575 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 584721004576 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 584721004577 peptide binding site [polypeptide binding]; other site 584721004578 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 584721004579 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 584721004580 dimer interface [polypeptide binding]; other site 584721004581 conserved gate region; other site 584721004582 putative PBP binding loops; other site 584721004583 ABC-ATPase subunit interface; other site 584721004584 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 584721004585 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 584721004586 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 584721004587 dimer interface [polypeptide binding]; other site 584721004588 conserved gate region; other site 584721004589 ABC-ATPase subunit interface; other site 584721004590 oligopeptide transporter ATP-binding component; Provisional; Region: oppD; PRK09473 584721004591 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 584721004592 Walker A/P-loop; other site 584721004593 ATP binding site [chemical binding]; other site 584721004594 Q-loop/lid; other site 584721004595 ABC transporter signature motif; other site 584721004596 Walker B; other site 584721004597 D-loop; other site 584721004598 H-loop/switch region; other site 584721004599 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 584721004600 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 584721004601 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 584721004602 Walker A/P-loop; other site 584721004603 ATP binding site [chemical binding]; other site 584721004604 Q-loop/lid; other site 584721004605 ABC transporter signature motif; other site 584721004606 Walker B; other site 584721004607 D-loop; other site 584721004608 H-loop/switch region; other site 584721004609 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 584721004610 Carbonic anhydrase [Inorganic ion transport and metabolism]; Region: Cah; COG3338 584721004611 Carbonic anhydrase alpha, prokaryotic-like subfamily. Carbonic anhydrases (CAs) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism: a nucleophilic attack of a zinc-bound hydroxide ion on carbon...; Region: alpha_CA_prokaryotic_like; cd03124 584721004612 active site 584721004613 zinc binding site [ion binding]; other site 584721004614 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 584721004615 AAA domain; Region: AAA_26; pfam13500 584721004616 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 584721004617 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 584721004618 S-adenosylmethionine binding site [chemical binding]; other site 584721004619 Protein of unknown function (DUF452); Region: DUF452; pfam04301 584721004620 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 584721004621 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 584721004622 substrate-cofactor binding pocket; other site 584721004623 pyridoxal 5'-phosphate binding site [chemical binding]; other site 584721004624 catalytic residue [active] 584721004625 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06173 584721004626 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 584721004627 inhibitor-cofactor binding pocket; inhibition site 584721004628 pyridoxal 5'-phosphate binding site [chemical binding]; other site 584721004629 catalytic residue [active] 584721004630 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 584721004631 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 584721004632 peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK11570 584721004633 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 584721004634 gamma-glutamyl kinase; Provisional; Region: PRK05429 584721004635 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 584721004636 nucleotide binding site [chemical binding]; other site 584721004637 homotetrameric interface [polypeptide binding]; other site 584721004638 putative phosphate binding site [ion binding]; other site 584721004639 putative allosteric binding site; other site 584721004640 PUA domain; Region: PUA; pfam01472 584721004641 Uncharacterized conserved protein [Function unknown]; Region: COG2966 584721004642 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 584721004643 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 584721004644 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 584721004645 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 584721004646 folate binding site [chemical binding]; other site 584721004647 NADP+ binding site [chemical binding]; other site 584721004648 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 584721004649 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 584721004650 metal-binding site [ion binding] 584721004651 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 584721004652 Soluble P-type ATPase [General function prediction only]; Region: COG4087 584721004653 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 584721004654 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 584721004655 metal-binding site [ion binding] 584721004656 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3238 584721004657 hypothetical protein; Provisional; Region: PRK11212 584721004658 two-component sensor protein; Provisional; Region: cpxA; PRK09470 584721004659 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 584721004660 dimerization interface [polypeptide binding]; other site 584721004661 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 584721004662 ATP binding site [chemical binding]; other site 584721004663 Mg2+ binding site [ion binding]; other site 584721004664 G-X-G motif; other site 584721004665 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 584721004666 active site 584721004667 phosphorylation site [posttranslational modification] 584721004668 intermolecular recognition site; other site 584721004669 dimerization interface [polypeptide binding]; other site 584721004670 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 584721004671 DNA binding site [nucleotide binding] 584721004672 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 584721004673 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 584721004674 Nucleoid-associated protein [General function prediction only]; Region: COG3081 584721004675 nucleoid-associated protein NdpA; Validated; Region: PRK00378 584721004676 hypothetical protein; Provisional; Region: PRK13689 584721004677 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 584721004678 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 584721004679 Sulfatase; Region: Sulfatase; cl17466 584721004680 hypothetical protein; Validated; Region: PRK06886 584721004681 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 584721004682 active site 584721004683 dUMP phosphatase; Provisional; Region: PRK09449 584721004684 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 584721004685 motif II; other site 584721004686 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 584721004687 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 584721004688 FMN binding site [chemical binding]; other site 584721004689 active site 584721004690 catalytic residues [active] 584721004691 substrate binding site [chemical binding]; other site 584721004692 Predicted membrane protein [Function unknown]; Region: COG3647 584721004693 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 584721004694 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 584721004695 putative metal binding site [ion binding]; other site 584721004696 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 584721004697 HSP70 interaction site [polypeptide binding]; other site 584721004698 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 584721004699 active site 584721004700 ribonuclease PH; Reviewed; Region: rph; PRK00173 584721004701 Ribonuclease PH; Region: RNase_PH_bact; cd11362 584721004702 hexamer interface [polypeptide binding]; other site 584721004703 active site 584721004704 hypothetical protein; Provisional; Region: PRK11820 584721004705 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 584721004706 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 584721004707 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 584721004708 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 584721004709 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 584721004710 CTP synthetase; Validated; Region: pyrG; PRK05380 584721004711 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 584721004712 Catalytic site [active] 584721004713 active site 584721004714 UTP binding site [chemical binding]; other site 584721004715 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 584721004716 active site 584721004717 putative oxyanion hole; other site 584721004718 catalytic triad [active] 584721004719 enolase; Provisional; Region: eno; PRK00077 584721004720 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 584721004721 dimer interface [polypeptide binding]; other site 584721004722 metal binding site [ion binding]; metal-binding site 584721004723 substrate binding pocket [chemical binding]; other site 584721004724 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 584721004725 hypothetical protein; Validated; Region: PRK00228 584721004726 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 584721004727 RNA methyltransferase, RsmE family; Region: TIGR00046 584721004728 Recombination protein O N terminal; Region: RecO_N; pfam11967 584721004729 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecO; COG1381 584721004730 Recombination protein O C terminal; Region: RecO_C; pfam02565 584721004731 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 584721004732 TRAM domain; Region: TRAM; pfam01938 584721004733 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 584721004734 S-adenosylmethionine binding site [chemical binding]; other site 584721004735 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 584721004736 HD domain; Region: HD_4; pfam13328 584721004737 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 584721004738 synthetase active site [active] 584721004739 NTP binding site [chemical binding]; other site 584721004740 metal binding site [ion binding]; metal-binding site 584721004741 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 584721004742 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 584721004743 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 584721004744 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 584721004745 O-Antigen ligase; Region: Wzy_C; pfam04932 584721004746 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 584721004747 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 584721004748 active site 584721004749 intersubunit interface [polypeptide binding]; other site 584721004750 zinc binding site [ion binding]; other site 584721004751 Na+ binding site [ion binding]; other site 584721004752 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 584721004753 Phosphoglycerate kinase; Region: PGK; pfam00162 584721004754 substrate binding site [chemical binding]; other site 584721004755 hinge regions; other site 584721004756 ADP binding site [chemical binding]; other site 584721004757 catalytic site [active] 584721004758 Ribonuclease I [Translation, ribosomal structure and biogenesis]; Region: Rna; COG3719 584721004759 CAS motifs; other site 584721004760 active site 584721004761 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 584721004762 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 584721004763 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 584721004764 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 584721004765 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 584721004766 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 584721004767 domain interface [polypeptide binding]; other site 584721004768 putative active site [active] 584721004769 catalytic site [active] 584721004770 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 584721004771 domain interface [polypeptide binding]; other site 584721004772 putative active site [active] 584721004773 catalytic site [active] 584721004774 Uncharacterized conserved protein [Function unknown]; Region: COG1556 584721004775 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 584721004776 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 584721004777 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 584721004778 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 584721004779 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 584721004780 Cysteine-rich domain; Region: CCG; pfam02754 584721004781 Cysteine-rich domain; Region: CCG; pfam02754 584721004782 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 584721004783 L-lactate permease; Region: Lactate_perm; cl00701 584721004784 adenylosuccinate lyase; Provisional; Region: PRK09285 584721004785 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 584721004786 tetramer interface [polypeptide binding]; other site 584721004787 active site 584721004788 Uncharacterized protein involved in purine metabolism [General function prediction only]; Region: COG2915 584721004789 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 584721004790 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 584721004791 putative substrate binding site [chemical binding]; other site 584721004792 putative ATP binding site [chemical binding]; other site 584721004793 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 584721004794 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 584721004795 substrate binding [chemical binding]; other site 584721004796 active site 584721004797 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 584721004798 D-fructose-responsive transcription factor; Region: fruct_sucro_rep; TIGR02417 584721004799 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 584721004800 DNA binding site [nucleotide binding] 584721004801 domain linker motif; other site 584721004802 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 584721004803 dimerization interface [polypeptide binding]; other site 584721004804 ligand binding site [chemical binding]; other site 584721004805 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 584721004806 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 584721004807 active site turn [active] 584721004808 phosphorylation site [posttranslational modification] 584721004809 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 584721004810 Copper(I)-binding protein [Inorganic ion transport and metabolism]; Region: COG2847 584721004811 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 584721004812 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 584721004813 putative active site [active] 584721004814 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 584721004815 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 584721004816 putative active site [active] 584721004817 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 584721004818 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 584721004819 ATP binding site [chemical binding]; other site 584721004820 Mg++ binding site [ion binding]; other site 584721004821 motif III; other site 584721004822 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 584721004823 nucleotide binding region [chemical binding]; other site 584721004824 ATP-binding site [chemical binding]; other site 584721004825 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 584721004826 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 584721004827 S-adenosylmethionine binding site [chemical binding]; other site 584721004828 Nicotinamide mononucleotide transporter [Coenzyme metabolism]; Region: PnuC; COG3201 584721004829 potential frameshift: common BLAST hit: gi|378775101|ref|YP_005177344.1| RNA polymerase-associated protein RapA 584721004830 ATP-dependent helicase HepA; Validated; Region: PRK04914 584721004831 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 584721004832 ATP binding site [chemical binding]; other site 584721004833 putative Mg++ binding site [ion binding]; other site 584721004834 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 584721004835 nucleotide binding region [chemical binding]; other site 584721004836 ATP-binding site [chemical binding]; other site 584721004837 RNA polymerase recycling family C-terminal; Region: RapA_C; pfam12137 584721004838 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 584721004839 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 584721004840 active site 584721004841 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3078 584721004842 Protein of unknown function (DUF2489); Region: DUF2489; pfam10675 584721004843 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 584721004844 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 584721004845 FeS/SAM binding site; other site 584721004846 HemN C-terminal domain; Region: HemN_C; pfam06969 584721004847 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 584721004848 dimer interface [polypeptide binding]; other site 584721004849 FMN binding site [chemical binding]; other site 584721004850 Uncharacterized protein family (UPF0075); Region: UPF0075; pfam03702 584721004851 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 584721004852 MutS domain I; Region: MutS_I; pfam01624 584721004853 MutS domain II; Region: MutS_II; pfam05188 584721004854 MutS domain III; Region: MutS_III; pfam05192 584721004855 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 584721004856 Walker A/P-loop; other site 584721004857 ATP binding site [chemical binding]; other site 584721004858 Q-loop/lid; other site 584721004859 ABC transporter signature motif; other site 584721004860 Walker B; other site 584721004861 D-loop; other site 584721004862 H-loop/switch region; other site 584721004863 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 584721004864 metal ion-dependent adhesion site (MIDAS); other site 584721004865 VWA ywmD 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_ywmD_type; cd01456 584721004866 metal ion-dependent adhesion site (MIDAS); other site 584721004867 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 584721004868 Uncharacterized conserved protein [Function unknown]; Region: COG1262 584721004869 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 584721004870 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 584721004871 FtsX-like permease family; Region: FtsX; pfam02687 584721004872 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 584721004873 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 584721004874 Walker A/P-loop; other site 584721004875 ATP binding site [chemical binding]; other site 584721004876 Q-loop/lid; other site 584721004877 ABC transporter signature motif; other site 584721004878 Walker B; other site 584721004879 D-loop; other site 584721004880 H-loop/switch region; other site 584721004881 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 584721004882 metal ion-dependent adhesion site (MIDAS); other site 584721004883 Putative bacterial virulence factor; Region: Virul_Fac; pfam10139 584721004884 Uncharacterized protein conserved in bacteria, putative virulence factor [Function unknown]; Region: SrfB; COG4457 584721004885 potential frameshift: common BLAST hit: gi|378775122|ref|YP_005177365.1| transmembrane protein 584721004886 recombinase A; Provisional; Region: recA; PRK09354 584721004887 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 584721004888 hexamer interface [polypeptide binding]; other site 584721004889 Walker A motif; other site 584721004890 ATP binding site [chemical binding]; other site 584721004891 Walker B motif; other site 584721004892 recombination regulator RecX; Reviewed; Region: recX; PRK00117 584721004893 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 584721004894 HemY protein N-terminus; Region: HemY_N; pfam07219 584721004895 HemX; Region: HemX; pfam04375 584721004896 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 584721004897 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 584721004898 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 584721004899 active site 584721004900 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 584721004901 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 584721004902 domain interfaces; other site 584721004903 active site 584721004904 Adenylate cyclase [Nucleotide transport and metabolism]; Region: CyaA; COG3072 584721004905 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 584721004906 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 584721004907 transcriptional regulator NarP; Provisional; Region: PRK10403 584721004908 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 584721004909 active site 584721004910 phosphorylation site [posttranslational modification] 584721004911 intermolecular recognition site; other site 584721004912 dimerization interface [polypeptide binding]; other site 584721004913 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 584721004914 DNA binding residues [nucleotide binding] 584721004915 dimerization interface [polypeptide binding]; other site 584721004916 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 584721004917 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 584721004918 Surface antigen; Region: Bac_surface_Ag; pfam01103 584721004919 LysE type translocator; Region: LysE; cl00565 584721004920 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 584721004921 Family of unknown function (DUF490); Region: DUF490; pfam04357 584721004922 Family of unknown function (DUF490); Region: DUF490; pfam04357 584721004923 exopolyphosphatase; Provisional; Region: PRK10854 584721004924 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 584721004925 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 584721004926 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 584721004927 Substrate binding site; other site 584721004928 Mg++ binding site; other site 584721004929 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 584721004930 active site 584721004931 substrate binding site [chemical binding]; other site 584721004932 CoA binding site [chemical binding]; other site 584721004933 Putative SAM-dependent methyltransferase; Region: SAM_MT; pfam04445 584721004934 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 584721004935 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 584721004936 S-adenosylmethionine binding site [chemical binding]; other site 584721004937 hypothetical protein; Provisional; Region: PRK11027 584721004938 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 584721004939 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 584721004940 catalytic residues [active] 584721004941 hinge region; other site 584721004942 alpha helical domain; other site 584721004943 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3084 584721004944 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 584721004945 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 584721004946 GTP binding site; other site 584721004947 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK11109 584721004948 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 584721004949 active site 584721004950 phosphorylation site [posttranslational modification] 584721004951 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 584721004952 dimerization domain swap beta strand [polypeptide binding]; other site 584721004953 regulatory protein interface [polypeptide binding]; other site 584721004954 active site 584721004955 regulatory phosphorylation site [posttranslational modification]; other site 584721004956 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 584721004957 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 584721004958 putative substrate binding site [chemical binding]; other site 584721004959 putative ATP binding site [chemical binding]; other site 584721004960 N-terminal domain of the phosphotransferase system fructose-specific component IIB [Carbohydrate transport and metabolism]; Region: COG3925 584721004961 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 584721004962 active site 584721004963 P-loop; other site 584721004964 phosphorylation site [posttranslational modification] 584721004965 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 584721004966 active site 584721004967 P-loop; other site 584721004968 phosphorylation site [posttranslational modification] 584721004969 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 584721004970 trimethylamine N-oxide reductase I catalytic subunit; Provisional; Region: PRK15102 584721004971 Membrane bound FAD containing D-sorbitol dehydrogenase; Region: FAD-SLDH; pfam12318 584721004972 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 584721004973 molybdopterin cofactor binding site [chemical binding]; other site 584721004974 substrate binding site [chemical binding]; other site 584721004975 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 584721004976 molybdopterin cofactor binding site; other site 584721004977 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 584721004978 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 584721004979 Periplasmic nitrate reductase protein NapE; Region: NapE; cl01848 584721004980 Choline-glycine betaine transporter [Cell envelope biogenesis, outer membrane]; Region: BetT; COG1292 584721004981 Uncharacterized conserved protein [Function unknown]; Region: COG2938 584721004982 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 584721004983 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 584721004984 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 584721004985 DNA binding residues [nucleotide binding] 584721004986 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseA; COG3073 584721004987 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 584721004988 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 584721004989 anti-sigma E factor; Provisional; Region: rseB; PRK09455 584721004990 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 584721004991 Positive regulator of sigma E activity [Signal transduction mechanisms]; Region: RseC; COG3086 584721004992 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 584721004993 Walker A motif; other site 584721004994 putative transporter; Provisional; Region: PRK10504 584721004995 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 584721004996 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 584721004997 Abortive infection bacteriophage resistance protein [Defense mechanisms]; Region: AbiF; COG4823 584721004998 Superfamily II helicase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG5519 584721004999 Ash protein family; Region: Phage_ASH; pfam10554 584721005000 phage regulatory protein, rha family; Region: phage_pRha; TIGR02681 584721005001 Uncharacterized phage-encoded protein [Function unknown]; Region: COG3646 584721005002 integrase; Provisional; Region: PRK09692 584721005003 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 584721005004 active site 584721005005 Int/Topo IB signature motif; other site 584721005006 selenocysteine synthase; Provisional; Region: PRK04311 584721005007 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 584721005008 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 584721005009 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 584721005010 catalytic residue [active] 584721005011 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 584721005012 active site 584721005013 tetramer interface [polypeptide binding]; other site 584721005014 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 584721005015 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 584721005016 G1 box; other site 584721005017 putative GEF interaction site [polypeptide binding]; other site 584721005018 GTP/Mg2+ binding site [chemical binding]; other site 584721005019 Switch I region; other site 584721005020 G2 box; other site 584721005021 G3 box; other site 584721005022 Switch II region; other site 584721005023 G4 box; other site 584721005024 G5 box; other site 584721005025 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 584721005026 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 584721005027 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 584721005028 DEP domain, named after Dishevelled, Egl-10, and Pleckstrin, where this domain was first discovered. The function of this domain is still not clear, but it is believed to be important for the membrane association of the signaling proteins in which it is...; Region: DEP; cl02442 584721005029 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 584721005030 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 584721005031 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 584721005032 twin-argninine leader-binding protein DmsD; Provisional; Region: PRK11621 584721005033 DMSO reductase anchor subunit (DmsC); Region: DmsC; pfam04976 584721005034 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 584721005035 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 584721005036 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 584721005037 putative [Fe4-S4] binding site [ion binding]; other site 584721005038 putative molybdopterin cofactor binding site [chemical binding]; other site 584721005039 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 584721005040 putative molybdopterin cofactor binding site; other site 584721005041 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 584721005042 MgtC family; Region: MgtC; pfam02308 584721005043 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 584721005044 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 584721005045 Phosphotransferase system IIB components [Carbohydrate transport and metabolism]; Region: PtsG; COG1264 584721005046 active site turn [active] 584721005047 phosphorylation site [posttranslational modification] 584721005048 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 584721005049 UbiA prenyltransferase family; Region: UbiA; pfam01040 584721005050 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; cl15270 584721005051 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 584721005052 DNA methylase; Region: N6_N4_Mtase; pfam01555 584721005053 DNA methylase; Region: N6_N4_Mtase; cl17433 584721005054 type III restriction-modification system StyLTI enzyme res; Provisional; Region: PRK15483 584721005055 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 584721005056 HslU subunit interaction site [polypeptide binding]; other site 584721005057 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 584721005058 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 584721005059 Walker A motif; other site 584721005060 ATP binding site [chemical binding]; other site 584721005061 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 584721005062 Walker B motif; other site 584721005063 arginine finger; other site 584721005064 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 584721005065 pantothenate kinase; Provisional; Region: PRK05439 584721005066 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 584721005067 ATP-binding site [chemical binding]; other site 584721005068 CoA-binding site [chemical binding]; other site 584721005069 Mg2+-binding site [ion binding]; other site 584721005070 elongation factor Tu; Reviewed; Region: PRK00049 584721005071 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 584721005072 G1 box; other site 584721005073 GEF interaction site [polypeptide binding]; other site 584721005074 GTP/Mg2+ binding site [chemical binding]; other site 584721005075 Switch I region; other site 584721005076 G2 box; other site 584721005077 G3 box; other site 584721005078 Switch II region; other site 584721005079 G4 box; other site 584721005080 G5 box; other site 584721005081 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 584721005082 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 584721005083 Antibiotic Binding Site [chemical binding]; other site 584721005084 Predicted peptidase [General function prediction only]; Region: COG4099 584721005085 fructuronate transporter; Provisional; Region: PRK10034; cl15264 584721005086 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 584721005087 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 584721005088 putative NAD(P) binding site [chemical binding]; other site 584721005089 active site 584721005090 putative substrate binding site [chemical binding]; other site 584721005091 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 584721005092 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 584721005093 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 584721005094 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 584721005095 putative aldolase; Validated; Region: PRK08130 584721005096 intersubunit interface [polypeptide binding]; other site 584721005097 active site 584721005098 Zn2+ binding site [ion binding]; other site 584721005099 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 584721005100 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 584721005101 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 584721005102 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 584721005103 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 584721005104 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 584721005105 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 584721005106 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 584721005107 metal binding site [ion binding]; metal-binding site 584721005108 dimer interface [polypeptide binding]; other site 584721005109 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 584721005110 active site 584721005111 mannonate dehydratase; Provisional; Region: PRK03906 584721005112 mannonate dehydratase; Region: uxuA; TIGR00695 584721005113 DNA-binding transcriptional repressor UxuR; Provisional; Region: PRK10225 584721005114 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 584721005115 DNA-binding site [nucleotide binding]; DNA binding site 584721005116 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 584721005117 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 584721005118 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 584721005119 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 584721005120 DctM-like transporters; Region: DctM; pfam06808 584721005121 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 584721005122 D-mannonate oxidoreductase; Provisional; Region: PRK08277 584721005123 putative D-mannonate oxidoreductase, classical (c) SDR; Region: mannonate_red_SDR_c; cd08935 584721005124 putative NAD(P) binding site [chemical binding]; other site 584721005125 active site 584721005126 Glucuronate isomerase; Region: UxaC; pfam02614 584721005127 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 584721005128 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 584721005129 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 584721005130 substrate binding site [chemical binding]; other site 584721005131 ATP binding site [chemical binding]; other site 584721005132 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 584721005133 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 584721005134 active site 584721005135 intersubunit interface [polypeptide binding]; other site 584721005136 catalytic residue [active] 584721005137 prolyl-tRNA synthetase; Provisional; Region: PRK09194 584721005138 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 584721005139 dimer interface [polypeptide binding]; other site 584721005140 motif 1; other site 584721005141 active site 584721005142 motif 2; other site 584721005143 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 584721005144 putative deacylase active site [active] 584721005145 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 584721005146 active site 584721005147 motif 3; other site 584721005148 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 584721005149 anticodon binding site; other site 584721005150 D-xylulose kinases, subgroup 1; members of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_1; cd07809 584721005151 N- and C-terminal domain interface [polypeptide binding]; other site 584721005152 D-xylulose kinase; Region: XylB; TIGR01312 584721005153 active site 584721005154 MgATP binding site [chemical binding]; other site 584721005155 catalytic site [active] 584721005156 metal binding site [ion binding]; metal-binding site 584721005157 xylulose binding site [chemical binding]; other site 584721005158 putative homodimer interface [polypeptide binding]; other site 584721005159 xylose isomerase; Provisional; Region: PRK05474 584721005160 xylose isomerase; Region: xylose_isom_A; TIGR02630 584721005161 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 584721005162 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 584721005163 pyridoxal 5'-phosphate binding site [chemical binding]; other site 584721005164 homodimer interface [polypeptide binding]; other site 584721005165 catalytic residue [active] 584721005166 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 584721005167 D-xylose transporter subunit XylF; Provisional; Region: xylF; PRK10355 584721005168 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 584721005169 putative ligand binding site [chemical binding]; other site 584721005170 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 584721005171 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 584721005172 Walker A/P-loop; other site 584721005173 ATP binding site [chemical binding]; other site 584721005174 Q-loop/lid; other site 584721005175 ABC transporter signature motif; other site 584721005176 Walker B; other site 584721005177 D-loop; other site 584721005178 H-loop/switch region; other site 584721005179 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 584721005180 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 584721005181 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 584721005182 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 584721005183 TM-ABC transporter signature motif; other site 584721005184 Ligand-binding domain of DNA transcription repressor specific for xylose (XylR); Region: PBP1_XylR; cd01543 584721005185 putative dimerization interface [polypeptide binding]; other site 584721005186 putative ligand binding site [chemical binding]; other site 584721005187 Transcriptional regulators [Transcription]; Region: PurR; COG1609 584721005188 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 584721005189 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 584721005190 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 584721005191 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 584721005192 substrate binding site [chemical binding]; other site 584721005193 ATP binding site [chemical binding]; other site 584721005194 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 584721005195 intersubunit interface [polypeptide binding]; other site 584721005196 active site 584721005197 zinc binding site [ion binding]; other site 584721005198 Na+ binding site [ion binding]; other site 584721005199 Protein of unknown function (DUF1498); Region: DUF1498; cl17840 584721005200 fructokinase; Reviewed; Region: PRK09557 584721005201 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 584721005202 nucleotide binding site [chemical binding]; other site 584721005203 Acetokinase family; Region: Acetate_kinase; cl17229 584721005204 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 584721005205 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 584721005206 active site 584721005207 phosphorylation site [posttranslational modification] 584721005208 intermolecular recognition site; other site 584721005209 dimerization interface [polypeptide binding]; other site 584721005210 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 584721005211 DNA binding site [nucleotide binding] 584721005212 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 584721005213 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_11; cd06321 584721005214 putative ligand binding site [chemical binding]; other site 584721005215 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 584721005216 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 584721005217 TM-ABC transporter signature motif; other site 584721005218 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 584721005219 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 584721005220 Walker A/P-loop; other site 584721005221 ATP binding site [chemical binding]; other site 584721005222 Q-loop/lid; other site 584721005223 ABC transporter signature motif; other site 584721005224 Walker B; other site 584721005225 D-loop; other site 584721005226 H-loop/switch region; other site 584721005227 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 584721005228 Pirin-related protein [General function prediction only]; Region: COG1741 584721005229 Pirin; Region: Pirin; pfam02678 584721005230 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 584721005231 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 584721005232 heme-binding site [chemical binding]; other site 584721005233 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 584721005234 FAD binding pocket [chemical binding]; other site 584721005235 FAD binding motif [chemical binding]; other site 584721005236 phosphate binding motif [ion binding]; other site 584721005237 beta-alpha-beta structure motif; other site 584721005238 NAD binding pocket [chemical binding]; other site 584721005239 Heme binding pocket [chemical binding]; other site 584721005240 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 584721005241 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 584721005242 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 584721005243 dimer interface [polypeptide binding]; other site 584721005244 phosphorylation site [posttranslational modification] 584721005245 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 584721005246 ATP binding site [chemical binding]; other site 584721005247 Mg2+ binding site [ion binding]; other site 584721005248 G-X-G motif; other site 584721005249 Response regulator receiver domain; Region: Response_reg; pfam00072 584721005250 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 584721005251 active site 584721005252 phosphorylation site [posttranslational modification] 584721005253 intermolecular recognition site; other site 584721005254 dimerization interface [polypeptide binding]; other site 584721005255 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 584721005256 agmatinase; Region: agmatinase; TIGR01230 584721005257 oligomer interface [polypeptide binding]; other site 584721005258 putative active site [active] 584721005259 Mn binding site [ion binding]; other site 584721005260 Arginine decarboxylase (spermidine biosynthesis) [Amino acid transport and metabolism]; Region: SpeA; COG1166 584721005261 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 584721005262 dimer interface [polypeptide binding]; other site 584721005263 active site 584721005264 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 584721005265 catalytic residues [active] 584721005266 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 584721005267 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 584721005268 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 584721005269 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 584721005270 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 584721005271 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK01792 584721005272 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 584721005273 Membrane fusogenic activity; Region: BMFP; cl01115 584721005274 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 584721005275 non-specific DNA binding site [nucleotide binding]; other site 584721005276 salt bridge; other site 584721005277 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional; Region: PRK08099 584721005278 sequence-specific DNA binding site [nucleotide binding]; other site 584721005279 Nicotinamide/nicotinate mononucleotide adenylyltransferase of bifunctional NadR-like proteins; Region: NMNAT_NadR; cd02167 584721005280 active site 584721005281 (T/H)XGH motif; other site 584721005282 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 584721005283 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 584721005284 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 584721005285 active site 584721005286 metal binding site [ion binding]; metal-binding site 584721005287 Ribosomal protein L17 [Translation, ribosomal structure and biogenesis]; Region: RplQ; COG0203 584721005288 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 584721005289 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 584721005290 alphaNTD homodimer interface [polypeptide binding]; other site 584721005291 alphaNTD - beta interaction site [polypeptide binding]; other site 584721005292 alphaNTD - beta' interaction site [polypeptide binding]; other site 584721005293 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 584721005294 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 584721005295 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 584721005296 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 584721005297 RNA binding surface [nucleotide binding]; other site 584721005298 30S ribosomal protein S11; Validated; Region: PRK05309 584721005299 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 584721005300 30S ribosomal protein S13; Region: bact_S13; TIGR03631 584721005301 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 584721005302 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 584721005303 SecY translocase; Region: SecY; pfam00344 584721005304 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 584721005305 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 584721005306 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 584721005307 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 584721005308 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 584721005309 5S rRNA interface [nucleotide binding]; other site 584721005310 L27 interface [polypeptide binding]; other site 584721005311 23S rRNA interface [nucleotide binding]; other site 584721005312 L5 interface [polypeptide binding]; other site 584721005313 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 584721005314 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 584721005315 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 584721005316 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 584721005317 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 584721005318 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 584721005319 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 584721005320 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 584721005321 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 584721005322 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 584721005323 RNA binding site [nucleotide binding]; other site 584721005324 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 584721005325 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 584721005326 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 584721005327 23S rRNA interface [nucleotide binding]; other site 584721005328 putative translocon interaction site; other site 584721005329 signal recognition particle (SRP54) interaction site; other site 584721005330 L23 interface [polypeptide binding]; other site 584721005331 trigger factor interaction site; other site 584721005332 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 584721005333 23S rRNA interface [nucleotide binding]; other site 584721005334 5S rRNA interface [nucleotide binding]; other site 584721005335 putative antibiotic binding site [chemical binding]; other site 584721005336 L25 interface [polypeptide binding]; other site 584721005337 L27 interface [polypeptide binding]; other site 584721005338 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 584721005339 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 584721005340 G-X-X-G motif; other site 584721005341 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 584721005342 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 584721005343 protein-rRNA interface [nucleotide binding]; other site 584721005344 putative translocon binding site; other site 584721005345 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 584721005346 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 584721005347 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 584721005348 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 584721005349 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 584721005350 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 584721005351 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 584721005352 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 584721005353 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 584721005354 ClC chloride channel family. These protein sequences, closely related to the ClC Eric family, are putative halogen ion (Cl-, Br- and I-) transport proteins found in eubacteria. They belong to the ClC superfamily of chloride ion channels, which share a...; Region: EriC_like; cd01034 584721005355 putative ion selectivity filter; other site 584721005356 putative pore gating glutamate residue; other site 584721005357 putative H+/Cl- coupling transport residue; other site 584721005358 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 584721005359 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 584721005360 FMN binding site [chemical binding]; other site 584721005361 active site 584721005362 catalytic residues [active] 584721005363 substrate binding site [chemical binding]; other site 584721005364 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; pfam03222 584721005365 aromatic amino acid transport protein; Region: araaP; TIGR00837 584721005366 tryptophanase, leader peptide-associated; Region: tnaA_trp_ase; TIGR02617 584721005367 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 584721005368 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 584721005369 catalytic residue [active] 584721005370 oxaloacetate decarboxylase subunit gamma; Provisional; Region: PRK02919 584721005371 oxaloacetate decarboxylase; Provisional; Region: PRK14040 584721005372 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 584721005373 active site 584721005374 catalytic residues [active] 584721005375 metal binding site [ion binding]; metal-binding site 584721005376 homodimer binding site [polypeptide binding]; other site 584721005377 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 584721005378 carboxyltransferase (CT) interaction site; other site 584721005379 biotinylation site [posttranslational modification]; other site 584721005380 Na+-transporting oxaloacetate decarboxylase beta subunit; Region: OAD_beta; cl00816 584721005381 diaminopimelate decarboxylase; Region: lysA; TIGR01048 584721005382 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 584721005383 active site 584721005384 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 584721005385 substrate binding site [chemical binding]; other site 584721005386 catalytic residues [active] 584721005387 dimer interface [polypeptide binding]; other site 584721005388 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; pfam13627 584721005389 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 584721005390 putative iron binding site [ion binding]; other site 584721005391 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 584721005392 dimerization interface [polypeptide binding]; other site 584721005393 substrate binding site [chemical binding]; other site 584721005394 active site 584721005395 calcium binding site [ion binding]; other site 584721005396 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 584721005397 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 584721005398 ATP binding site [chemical binding]; other site 584721005399 putative Mg++ binding site [ion binding]; other site 584721005400 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 584721005401 nucleotide binding region [chemical binding]; other site 584721005402 ATP-binding site [chemical binding]; other site 584721005403 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 584721005404 HRDC domain; Region: HRDC; pfam00570 584721005405 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 584721005406 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 584721005407 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 584721005408 shikimate 5-dehydrogenase; Reviewed; Region: PRK12550 584721005409 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 584721005410 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 584721005411 shikimate binding site; other site 584721005412 NAD(P) binding site [chemical binding]; other site 584721005413 serine acetyltransferase; Provisional; Region: cysE; PRK11132 584721005414 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 584721005415 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 584721005416 trimer interface [polypeptide binding]; other site 584721005417 active site 584721005418 substrate binding site [chemical binding]; other site 584721005419 CoA binding site [chemical binding]; other site 584721005420 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 584721005421 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 584721005422 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 584721005423 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 584721005424 SecA binding site; other site 584721005425 Preprotein binding site; other site 584721005426 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 584721005427 active site residue [active] 584721005428 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 584721005429 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 584721005430 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 584721005431 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 584721005432 Walker A motif; other site 584721005433 ATP binding site [chemical binding]; other site 584721005434 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 584721005435 active site residue [active] 584721005436 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 584721005437 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 584721005438 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 584721005439 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 584721005440 glycerol-3-phosphate dehydrogenase, anaerobic, C subunit; Region: glycerol3P_GlpC; TIGR03379 584721005441 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 584721005442 Cysteine-rich domain; Region: CCG; pfam02754 584721005443 Cysteine-rich domain; Region: CCG; pfam02754 584721005444 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; COG3075 584721005445 anaerobic glycerol-3-phosphate dehydrogenase subunit B; Validated; Region: PRK05329 584721005446 sn-glycerol-3-phosphate dehydrogenase subunit A; Provisional; Region: glpA; PRK11101 584721005447 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 584721005448 glycerol-3-phosphate transporter; Region: glpT; TIGR00712 584721005449 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 584721005450 putative substrate translocation pore; other site 584721005451 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 584721005452 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 584721005453 Glycerophosphodiester phosphodiesterase domain of Escherichia coli (GlpQ) and similar proteins; Region: GDPD_EcGlpQ_like; cd08600 584721005454 active site 584721005455 catalytic site [active] 584721005456 metal binding site [ion binding]; metal-binding site 584721005457 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 584721005458 amphipathic channel; other site 584721005459 Asn-Pro-Ala signature motifs; other site 584721005460 glycerol kinase; Provisional; Region: glpK; PRK00047 584721005461 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 584721005462 N- and C-terminal domain interface [polypeptide binding]; other site 584721005463 active site 584721005464 MgATP binding site [chemical binding]; other site 584721005465 catalytic site [active] 584721005466 metal binding site [ion binding]; metal-binding site 584721005467 glycerol binding site [chemical binding]; other site 584721005468 homotetramer interface [polypeptide binding]; other site 584721005469 homodimer interface [polypeptide binding]; other site 584721005470 FBP binding site [chemical binding]; other site 584721005471 protein IIAGlc interface [polypeptide binding]; other site 584721005472 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 584721005473 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 584721005474 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 584721005475 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 584721005476 ATP binding site [chemical binding]; other site 584721005477 putative Mg++ binding site [ion binding]; other site 584721005478 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4694 584721005479 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 584721005480 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 584721005481 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 584721005482 Virulence protein [General function prediction only]; Region: COG3943 584721005483 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 584721005484 type I restriction system adenine methylase (hsdM); Region: hsdM; TIGR00497 584721005485 HsdM N-terminal domain; Region: HsdM_N; pfam12161 584721005486 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 584721005487 S-adenosylmethionine binding site [chemical binding]; other site 584721005488 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 584721005489 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 584721005490 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 584721005491 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 584721005492 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 584721005493 RNA binding site [nucleotide binding]; other site 584721005494 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 584721005495 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 584721005496 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 584721005497 Predicted esterase [General function prediction only]; Region: COG0627 584721005498 S-formylglutathione hydrolase; Region: PLN02442 584721005499 Predicted membrane protein [Function unknown]; Region: COG1584 584721005500 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 584721005501 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 584721005502 putative catalytic cysteine [active] 584721005503 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 584721005504 putative active site [active] 584721005505 metal binding site [ion binding]; metal-binding site 584721005506 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 584721005507 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 584721005508 Walker A/P-loop; other site 584721005509 ATP binding site [chemical binding]; other site 584721005510 Q-loop/lid; other site 584721005511 ABC transporter signature motif; other site 584721005512 Walker B; other site 584721005513 D-loop; other site 584721005514 H-loop/switch region; other site 584721005515 TOBE domain; Region: TOBE_2; pfam08402 584721005516 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 584721005517 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 584721005518 dimer interface [polypeptide binding]; other site 584721005519 conserved gate region; other site 584721005520 putative PBP binding loops; other site 584721005521 ABC-ATPase subunit interface; other site 584721005522 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 584721005523 dimer interface [polypeptide binding]; other site 584721005524 conserved gate region; other site 584721005525 putative PBP binding loops; other site 584721005526 ABC-ATPase subunit interface; other site 584721005527 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 584721005528 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 584721005529 Walker A/P-loop; other site 584721005530 ATP binding site [chemical binding]; other site 584721005531 Q-loop/lid; other site 584721005532 ABC transporter signature motif; other site 584721005533 Walker B; other site 584721005534 D-loop; other site 584721005535 H-loop/switch region; other site 584721005536 TOBE domain; Region: TOBE_2; pfam08402 584721005537 2-aminoethylphosphonate ABC transporter substrate-binding protein; Provisional; Region: PRK15046 584721005538 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 584721005539 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 584721005540 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 584721005541 Signal transduction histidine kinase regulating phosphoglycerate transport system [Signal transduction mechanisms]; Region: COG4192 584721005542 HAMP domain; Region: HAMP; pfam00672 584721005543 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 584721005544 dimer interface [polypeptide binding]; other site 584721005545 phosphorylation site [posttranslational modification] 584721005546 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 584721005547 ATP binding site [chemical binding]; other site 584721005548 Mg2+ binding site [ion binding]; other site 584721005549 G-X-G motif; other site 584721005550 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 584721005551 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 584721005552 active site 584721005553 phosphorylation site [posttranslational modification] 584721005554 intermolecular recognition site; other site 584721005555 dimerization interface [polypeptide binding]; other site 584721005556 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 584721005557 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 584721005558 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 584721005559 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 584721005560 Glutamine amidotransferase class-I; Region: GATase; pfam00117 584721005561 glutamine binding [chemical binding]; other site 584721005562 catalytic triad [active] 584721005563 para-aminobenzoate synthase component I; Validated; Region: PRK07093 584721005564 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 584721005565 hypothetical protein; Provisional; Region: PRK07101 584721005566 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 584721005567 substrate-cofactor binding pocket; other site 584721005568 homodimer interface [polypeptide binding]; other site 584721005569 pyridoxal 5'-phosphate binding site [chemical binding]; other site 584721005570 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 584721005571 homotrimer interaction site [polypeptide binding]; other site 584721005572 putative active site [active] 584721005573 NIPSNAP; Region: NIPSNAP; pfam07978 584721005574 Site-specific recombinase [DNA replication, recombination, and repair]; Region: COG4389 584721005575 Domain of unknown function (DUF4153); Region: DUF4153; pfam13687 584721005576 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 584721005577 substrate binding site [chemical binding]; other site 584721005578 Predicted transcriptional regulators [Transcription]; Region: COG1733 584721005579 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 584721005580 Predicted flavoprotein [General function prediction only]; Region: COG0431 584721005581 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 584721005582 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 584721005583 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 584721005584 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 584721005585 Walker A/P-loop; other site 584721005586 ATP binding site [chemical binding]; other site 584721005587 Q-loop/lid; other site 584721005588 ABC transporter signature motif; other site 584721005589 Walker B; other site 584721005590 D-loop; other site 584721005591 H-loop/switch region; other site 584721005592 ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydD; COG4988 584721005593 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 584721005594 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 584721005595 Walker A/P-loop; other site 584721005596 ATP binding site [chemical binding]; other site 584721005597 Q-loop/lid; other site 584721005598 ABC transporter signature motif; other site 584721005599 Walker B; other site 584721005600 D-loop; other site 584721005601 H-loop/switch region; other site 584721005602 EamA-like transporter family; Region: EamA; pfam00892 584721005603 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 584721005604 EamA-like transporter family; Region: EamA; pfam00892 584721005605 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 584721005606 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 584721005607 ATP binding site [chemical binding]; other site 584721005608 Mg2+ binding site [ion binding]; other site 584721005609 G-X-G motif; other site 584721005610 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 584721005611 anchoring element; other site 584721005612 dimer interface [polypeptide binding]; other site 584721005613 ATP binding site [chemical binding]; other site 584721005614 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 584721005615 active site 584721005616 putative metal-binding site [ion binding]; other site 584721005617 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 584721005618 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 584721005619 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 584721005620 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YgaP, and similar uncharacterized putative rhodanese-related sulfurtransferases; Region: RHOD_YgaP; cd01527 584721005621 active site residue [active] 584721005622 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 584721005623 dimerization interface [polypeptide binding]; other site 584721005624 putative DNA binding site [nucleotide binding]; other site 584721005625 putative Zn2+ binding site [ion binding]; other site 584721005626 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 584721005627 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 584721005628 putative active site [active] 584721005629 Protein of unknown function (DUF904); Region: DUF904; pfam06005 584721005630 FMN-binding protein MioC; Provisional; Region: PRK09004 584721005631 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 584721005632 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 584721005633 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 584721005634 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 584721005635 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 584721005636 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 584721005637 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 584721005638 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 584721005639 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 584721005640 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 584721005641 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 584721005642 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 584721005643 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 584721005644 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 584721005645 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 584721005646 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 584721005647 beta subunit interaction interface [polypeptide binding]; other site 584721005648 Walker A motif; other site 584721005649 ATP binding site [chemical binding]; other site 584721005650 Walker B motif; other site 584721005651 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 584721005652 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 584721005653 core domain interface [polypeptide binding]; other site 584721005654 delta subunit interface [polypeptide binding]; other site 584721005655 epsilon subunit interface [polypeptide binding]; other site 584721005656 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 584721005657 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 584721005658 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 584721005659 alpha subunit interaction interface [polypeptide binding]; other site 584721005660 Walker A motif; other site 584721005661 ATP binding site [chemical binding]; other site 584721005662 Walker B motif; other site 584721005663 inhibitor binding site; inhibition site 584721005664 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 584721005665 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 584721005666 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 584721005667 gamma subunit interface [polypeptide binding]; other site 584721005668 epsilon subunit interface [polypeptide binding]; other site 584721005669 LBP interface [polypeptide binding]; other site 584721005670 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 584721005671 CPxP motif; other site 584721005672 hypothetical protein; Provisional; Region: PRK11568 584721005673 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 584721005674 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 584721005675 Cation transport protein; Region: TrkH; cl17365 584721005676 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 584721005677 protoporphyrinogen oxidase; Provisional; Region: hemG; PRK11104 584721005678 potential protein location (hypothetical protein NT08PM_1822 [Pasteurella multocida subsp. multocida str. 3480]) that overlaps RNA (5S ribosomal RNA) 584721005679 hypothetical protein; Validated; Region: PRK05445 584721005680 Surface lipoprotein [Cell envelope biogenesis, outer membrane]; Region: VacJ; COG2853 584721005681 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 584721005682 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 584721005683 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 584721005684 catalytic site [active] 584721005685 subunit interface [polypeptide binding]; other site 584721005686 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 584721005687 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 584721005688 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 584721005689 conserved cys residue [active] 584721005690 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 584721005691 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 584721005692 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 584721005693 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 584721005694 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 584721005695 ATP-grasp domain; Region: ATP-grasp_4; cl17255 584721005696 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 584721005697 IMP binding site; other site 584721005698 dimer interface [polypeptide binding]; other site 584721005699 interdomain contacts; other site 584721005700 partial ornithine binding site; other site 584721005701 potential frameshift: common BLAST hit: gi|383311361|ref|YP_005364171.1| phosphoglyceromutase 584721005702 Phosphoglycerate mutase family; Region: PGAM; smart00855 584721005703 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 584721005704 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 584721005705 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 584721005706 Peptidase family M23; Region: Peptidase_M23; pfam01551 584721005707 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 584721005708 NodB motif; other site 584721005709 putative active site [active] 584721005710 putative catalytic site [active] 584721005711 Zn binding site [ion binding]; other site 584721005712 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 584721005713 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 584721005714 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 584721005715 Mg chelatase-related protein; Region: TIGR00368 584721005716 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 584721005717 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 584721005718 Walker A motif; other site 584721005719 ATP binding site [chemical binding]; other site 584721005720 Walker B motif; other site 584721005721 arginine finger; other site 584721005722 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 584721005723 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 584721005724 G1 box; other site 584721005725 GTP/Mg2+ binding site [chemical binding]; other site 584721005726 Switch I region; other site 584721005727 G2 box; other site 584721005728 G3 box; other site 584721005729 Switch II region; other site 584721005730 G4 box; other site 584721005731 G5 box; other site 584721005732 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VirK; COG2990 584721005733 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 584721005734 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 584721005735 binding surface 584721005736 Tetratricopeptide repeat; Region: TPR_16; pfam13432 584721005737 TPR motif; other site 584721005738 Protein of unknown function (DUF560); Region: DUF560; pfam04575 584721005739 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 584721005740 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 584721005741 S-adenosylmethionine binding site [chemical binding]; other site 584721005742 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 584721005743 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 584721005744 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 584721005745 P loop; other site 584721005746 GTP binding site [chemical binding]; other site 584721005747 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 584721005748 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 584721005749 Walker A/P-loop; other site 584721005750 ATP binding site [chemical binding]; other site 584721005751 Q-loop/lid; other site 584721005752 ABC transporter signature motif; other site 584721005753 Walker B; other site 584721005754 D-loop; other site 584721005755 H-loop/switch region; other site 584721005756 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 584721005757 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 584721005758 Flavin Reductases; Region: FlaRed; cl00801 584721005759 4-hydroxyphenylacetate 3-monooxygenase, oxygenase component; Region: HpaB-2; TIGR02310 584721005760 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 584721005761 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 584721005762 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 584721005763 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 584721005764 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 584721005765 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 584721005766 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 584721005767 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 584721005768 DctM-like transporters; Region: DctM; pfam06808 584721005769 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 584721005770 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, N-terminal subunit; Region: HpaG-N-term; TIGR02305 584721005771 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 584721005772 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 584721005773 5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase; Region: HpaE; TIGR02299 584721005774 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 584721005775 NAD binding site [chemical binding]; other site 584721005776 catalytic residues [active] 584721005777 The Class III extradiol dioxygenase, homoprotocatechuate 2,3-dioxygenase, catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate; Region: HPCD; cd07370 584721005778 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 584721005779 putative active site [active] 584721005780 putative metal binding site [ion binding]; other site 584721005781 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cd00580 584721005782 putative substrate binding pocket [chemical binding]; other site 584721005783 trimer interface [polypeptide binding]; other site 584721005784 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 584721005785 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 584721005786 putative substrate translocation pore; other site 584721005787 2-oxo-hepta-3-ene-1,7-dioic acid hydratase; Region: HpaH; TIGR02312 584721005788 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase; Region: HpaI; TIGR02311 584721005789 succinic semialdehyde dehydrogenase; Region: PLN02278 584721005790 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 584721005791 tetramerization interface [polypeptide binding]; other site 584721005792 NAD(P) binding site [chemical binding]; other site 584721005793 catalytic residues [active] 584721005794 HsdM N-terminal domain; Region: HsdM_N; pfam12161 584721005795 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 584721005796 Methyltransferase domain; Region: Methyltransf_26; pfam13659 584721005797 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 584721005798 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 584721005799 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 584721005800 FRG domain; Region: FRG; pfam08867 584721005801 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 584721005802 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 584721005803 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 584721005804 ATP binding site [chemical binding]; other site 584721005805 putative Mg++ binding site [ion binding]; other site 584721005806 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 584721005807 potential frameshift: common BLAST hit: gi|383311393|ref|YP_005364203.1| phosphoenolpyruvate carboxykinase 584721005808 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_HprK; cl00270 584721005809 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_HprK; cl00270 584721005810 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 584721005811 active site 584721005812 metal-binding site [ion binding] 584721005813 nucleotide-binding site [chemical binding]; other site 584721005814 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 584721005815 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 584721005816 ADP-ribose binding site [chemical binding]; other site 584721005817 dimer interface [polypeptide binding]; other site 584721005818 active site 584721005819 nudix motif; other site 584721005820 metal binding site [ion binding]; metal-binding site 584721005821 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 584721005822 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 584721005823 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 584721005824 RNA binding surface [nucleotide binding]; other site 584721005825 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 584721005826 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 584721005827 dimerization interface [polypeptide binding]; other site 584721005828 domain crossover interface; other site 584721005829 redox-dependent activation switch; other site 584721005830 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 584721005831 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 584721005832 active site 584721005833 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 584721005834 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 584721005835 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 584721005836 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 584721005837 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 584721005838 putative active site [active] 584721005839 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 584721005840 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 584721005841 N-terminal domain interface [polypeptide binding]; other site 584721005842 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 584721005843 Coenzyme A binding pocket [chemical binding]; other site 584721005844 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG0362 584721005845 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 584721005846 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 584721005847 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 584721005848 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 584721005849 active site 584721005850 motif I; other site 584721005851 motif II; other site 584721005852 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 584721005853 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 584721005854 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 584721005855 active site 584721005856 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 584721005857 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 584721005858 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 584721005859 Regulator of competence-specific genes [Transcription]; Region: TfoX; COG3070 584721005860 TfoX C-terminal domain; Region: TfoX_C; pfam04994 584721005861 potential protein location (hypothetical protein NT08PM_1888 [Pasteurella multocida subsp. multocida str. 3480]) that overlaps RNA (5S ribosomal RNA) 584721005862 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 584721005863 active site 584721005864 catalytic residues [active] 584721005865 metal binding site [ion binding]; metal-binding site 584721005866 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 584721005867 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 584721005868 putative active site [active] 584721005869 substrate binding site [chemical binding]; other site 584721005870 putative cosubstrate binding site; other site 584721005871 catalytic site [active] 584721005872 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 584721005873 substrate binding site [chemical binding]; other site 584721005874 16S rRNA methyltransferase B; Provisional; Region: PRK10901 584721005875 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 584721005876 putative RNA binding site [nucleotide binding]; other site 584721005877 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 584721005878 S-adenosylmethionine binding site [chemical binding]; other site 584721005879 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 584721005880 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 584721005881 active site 584721005882 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 584721005883 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 584721005884 TrkA-N domain; Region: TrkA_N; pfam02254 584721005885 TrkA-C domain; Region: TrkA_C; pfam02080 584721005886 TrkA-N domain; Region: TrkA_N; pfam02254 584721005887 TrkA-C domain; Region: TrkA_C; pfam02080 584721005888 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 584721005889 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 584721005890 RNase E inhibitor protein; Provisional; Region: PRK11191 584721005891 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 584721005892 Predicted periplasmic/secreted protein [Function unknown]; Region: COG3471 584721005893 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10737 584721005894 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 584721005895 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 584721005896 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 584721005897 Low molecular weight phosphatase family; Region: LMWPc; cd00115 584721005898 active site 584721005899 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 584721005900 trimer interface [polypeptide binding]; other site 584721005901 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 584721005902 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 584721005903 trimer interface [polypeptide binding]; other site 584721005904 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 584721005905 trimer interface [polypeptide binding]; other site 584721005906 YadA-like C-terminal region; Region: YadA; pfam03895 584721005907 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 584721005908 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 584721005909 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 584721005910 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 584721005911 FeS/SAM binding site; other site 584721005912 TRAM domain; Region: TRAM; cl01282 584721005913 uridine phosphorylase; Provisional; Region: PRK11178 584721005914 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 584721005915 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 584721005916 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 584721005917 putative DNA binding site [nucleotide binding]; other site 584721005918 putative Zn2+ binding site [ion binding]; other site 584721005919 AsnC family; Region: AsnC_trans_reg; pfam01037 584721005920 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 584721005921 dimer interface [polypeptide binding]; other site 584721005922 active site 584721005923 PTS system N-acetylmuramic acid transporter subunits EIIBC; Reviewed; Region: murP; PRK09586 584721005924 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 584721005925 active site turn [active] 584721005926 phosphorylation site [posttranslational modification] 584721005927 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 584721005928 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 584721005929 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 584721005930 putative active site [active] 584721005931 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 584721005932 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11557 584721005933 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 584721005934 putative active site [active] 584721005935 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 584721005936 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 584721005937 substrate binding pocket [chemical binding]; other site 584721005938 membrane-bound complex binding site; other site 584721005939 Uncharacterized conserved protein [Function unknown]; Region: COG4729 584721005940 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 584721005941 DctM-like transporters; Region: DctM; pfam06808 584721005942 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 584721005943 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 584721005944 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 584721005945 Walker A/P-loop; other site 584721005946 ATP binding site [chemical binding]; other site 584721005947 Q-loop/lid; other site 584721005948 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 584721005949 ABC transporter; Region: ABC_tran_2; pfam12848 584721005950 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 584721005951 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 584721005952 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 584721005953 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 584721005954 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 584721005955 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 584721005956 DNA binding residues [nucleotide binding] 584721005957 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 584721005958 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 584721005959 transmembrane helices; other site 584721005960 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 584721005961 PLD-like domain; Region: PLDc_2; pfam13091 584721005962 putative active site [active] 584721005963 catalytic site [active] 584721005964 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 584721005965 PLD-like domain; Region: PLDc_2; pfam13091 584721005966 putative active site [active] 584721005967 catalytic site [active] 584721005968 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 584721005969 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes TehA protein; Region: TDT_TehA; cd09324 584721005970 gating phenylalanine in ion channel; other site 584721005971 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4390 584721005972 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 584721005973 FAD binding domain; Region: FAD_binding_4; pfam01565 584721005974 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 584721005975 Peptidase E [Amino acid transport and metabolism]; Region: PepE; COG3340 584721005976 conserved cys residue [active] 584721005977 nitrate/nitrite sensor protein NarQ; Provisional; Region: PRK10935 584721005978 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 584721005979 HAMP domain; Region: HAMP; pfam00672 584721005980 Histidine kinase; Region: HisKA_3; pfam07730 584721005981 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 584721005982 ATP binding site [chemical binding]; other site 584721005983 Mg2+ binding site [ion binding]; other site 584721005984 G-X-G motif; other site 584721005985 ferredoxin-type protein NapF; Region: napF; TIGR00402 584721005986 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 584721005987 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 584721005988 Uncharacterized protein involved in formation of periplasmic nitrate reductase [Inorganic ion transport and metabolism]; Region: NapD; COG3062 584721005989 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 584721005990 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 584721005991 [4Fe-4S] binding site [ion binding]; other site 584721005992 molybdopterin cofactor binding site; other site 584721005993 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 584721005994 molybdopterin cofactor binding site; other site 584721005995 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 584721005996 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 584721005997 4Fe-4S binding domain; Region: Fer4_5; pfam12801 584721005998 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 584721005999 Nitrate reductase cytochrome c-type subunit [Energy production and conversion]; Region: NapB; COG3043 584721006000 Nitrate/TMAO reductases, membrane-bound tetraheme cytochrome c subunit [Energy production and conversion]; Region: TorC; COG3005 584721006001 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 584721006002 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 584721006003 DNA protecting protein DprA; Region: dprA; TIGR00732 584721006004 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 584721006005 OstA-like protein; Region: OstA; pfam03968 584721006006 Organic solvent tolerance protein; Region: OstA_C; pfam04453 584721006007 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 584721006008 transaldolase-like protein; Provisional; Region: PTZ00411 584721006009 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 584721006010 active site 584721006011 dimer interface [polypeptide binding]; other site 584721006012 catalytic residue [active] 584721006013 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 584721006014 nudix motif; other site 584721006015 23S rRNA pseudouridine synthase E; Provisional; Region: PRK11394 584721006016 Pseudouridine synthase, Escherichia coli RluE; Region: PseudoU_synth_RluE; cd02566 584721006017 probable active site [active] 584721006018 isocitrate dehydrogenase; Validated; Region: PRK07362 584721006019 isocitrate dehydrogenase; Reviewed; Region: PRK07006 584721006020 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 584721006021 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 584721006022 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 584721006023 substrate binding site; other site 584721006024 dimer interface; other site 584721006025 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 584721006026 homotrimer interaction site [polypeptide binding]; other site 584721006027 zinc binding site [ion binding]; other site 584721006028 CDP-binding sites; other site 584721006029 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 584721006030 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 584721006031 Permutation of conserved domain; other site 584721006032 active site 584721006033 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 584721006034 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 584721006035 Sel1-like repeats; Region: SEL1; smart00671 584721006036 Sel1-like repeats; Region: SEL1; smart00671 584721006037 Sel1-like repeats; Region: SEL1; smart00671 584721006038 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 584721006039 Predicted membrane protein [Function unknown]; Region: COG1238 584721006040 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 584721006041 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 584721006042 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 584721006043 Peptidase family M23; Region: Peptidase_M23; pfam01551 584721006044 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 584721006045 putative active site [active] 584721006046 dimerization interface [polypeptide binding]; other site 584721006047 putative tRNAtyr binding site [nucleotide binding]; other site 584721006048 hypothetical protein; Reviewed; Region: PRK01637 584721006049 hypothetical protein; Provisional; Region: PRK01752 584721006050 SEC-C motif; Region: SEC-C; pfam02810 584721006051 Lysine efflux permease [General function prediction only]; Region: COG1279 584721006052 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 584721006053 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 584721006054 substrate binding site [chemical binding]; other site 584721006055 hexamer interface [polypeptide binding]; other site 584721006056 metal binding site [ion binding]; metal-binding site 584721006057 phosphoglycolate phosphatase; Provisional; Region: PRK13222 584721006058 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 584721006059 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 584721006060 motif II; other site 584721006061 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 584721006062 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 584721006063 active site 584721006064 HIGH motif; other site 584721006065 dimer interface [polypeptide binding]; other site 584721006066 KMSKS motif; other site 584721006067 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 584721006068 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 584721006069 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 584721006070 threonine dehydratase; Reviewed; Region: PRK09224 584721006071 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 584721006072 tetramer interface [polypeptide binding]; other site 584721006073 pyridoxal 5'-phosphate binding site [chemical binding]; other site 584721006074 catalytic residue [active] 584721006075 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 584721006076 putative Ile/Val binding site [chemical binding]; other site 584721006077 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 584721006078 putative Ile/Val binding site [chemical binding]; other site 584721006079 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 584721006080 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 584721006081 aspartate racemase; Region: asp_race; TIGR00035 584721006082 acetolactate synthase 2 regulatory subunit; Provisional; Region: ilvM; PRK11152 584721006083 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 584721006084 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 584721006085 PYR/PP interface [polypeptide binding]; other site 584721006086 dimer interface [polypeptide binding]; other site 584721006087 TPP binding site [chemical binding]; other site 584721006088 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 584721006089 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 584721006090 TPP-binding site [chemical binding]; other site 584721006091 dimer interface [polypeptide binding]; other site 584721006092 putative hydrolase; Provisional; Region: PRK10976 584721006093 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 584721006094 active site 584721006095 motif I; other site 584721006096 motif II; other site 584721006097 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 584721006098 chromosome condensation membrane protein; Provisional; Region: PRK14196 584721006099 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 584721006100 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 584721006101 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 584721006102 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 584721006103 transketolase; Reviewed; Region: PRK12753 584721006104 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 584721006105 TPP-binding site [chemical binding]; other site 584721006106 dimer interface [polypeptide binding]; other site 584721006107 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 584721006108 PYR/PP interface [polypeptide binding]; other site 584721006109 dimer interface [polypeptide binding]; other site 584721006110 TPP binding site [chemical binding]; other site 584721006111 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 584721006112 transaldolase-like protein; Provisional; Region: PTZ00411 584721006113 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 584721006114 active site 584721006115 dimer interface [polypeptide binding]; other site 584721006116 catalytic residue [active] 584721006117 triosephosphate isomerase/PTS system glucose/sucrose-specific transporter subunit IIB; Provisional; Region: PRK14905 584721006118 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 584721006119 substrate binding site [chemical binding]; other site 584721006120 dimer interface [polypeptide binding]; other site 584721006121 catalytic triad [active] 584721006122 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 584721006123 active site turn [active] 584721006124 phosphorylation site [posttranslational modification] 584721006125 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 584721006126 DctM-like transporters; Region: DctM; pfam06808 584721006127 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 584721006128 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 584721006129 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 584721006130 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 584721006131 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 584721006132 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 584721006133 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 584721006134 DNA binding residues [nucleotide binding] 584721006135 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 584721006136 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 584721006137 DAK2 domain; Region: Dak2; pfam02734 584721006138 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 584721006139 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 584721006140 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 584721006141 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 584721006142 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 584721006143 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 584721006144 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 584721006145 DctM-like transporters; Region: DctM; pfam06808 584721006146 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 584721006147 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 584721006148 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 584721006149 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 584721006150 phosphoserine phosphatase; Provisional; Region: serB; PRK11133 584721006151 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 584721006152 motif II; other site 584721006153 Uncharacterized membrane protein affecting hemolysin expression [General function prediction only]; Region: AhpA; COG3726 584721006154 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 584721006155 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 584721006156 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 584721006157 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 584721006158 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 584721006159 active site 584721006160 Riboflavin kinase; Region: Flavokinase; smart00904 584721006161 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 584721006162 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 584721006163 active site 584721006164 HIGH motif; other site 584721006165 nucleotide binding site [chemical binding]; other site 584721006166 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 584721006167 active site 584721006168 KMSKS motif; other site 584721006169 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 584721006170 tRNA binding surface [nucleotide binding]; other site 584721006171 anticodon binding site; other site 584721006172 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 584721006173 lipoprotein signal peptidase; Provisional; Region: PRK14787 584721006174 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 584721006175 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 584721006176 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 584721006177 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 584721006178 active site 584721006179 dimerization interface [polypeptide binding]; other site 584721006180 Uncharacterized conserved protein [Function unknown]; Region: COG0393 584721006181 HemN family oxidoreductase; Provisional; Region: PRK05660 584721006182 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 584721006183 FeS/SAM binding site; other site 584721006184 HemN C-terminal domain; Region: HemN_C; pfam06969 584721006185 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 584721006186 tetramer (dimer of dimers) interface [polypeptide binding]; other site 584721006187 active site 584721006188 dimer interface [polypeptide binding]; other site 584721006189 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 584721006190 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 584721006191 ligand binding site [chemical binding]; other site 584721006192 NAD binding site [chemical binding]; other site 584721006193 tetramer interface [polypeptide binding]; other site 584721006194 catalytic site [active] 584721006195 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 584721006196 L-serine binding site [chemical binding]; other site 584721006197 ACT domain interface; other site 584721006198 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 584721006199 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 584721006200 dimerization interface [polypeptide binding]; other site 584721006201 thymidylate kinase; Validated; Region: tmk; PRK00698 584721006202 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 584721006203 TMP-binding site; other site 584721006204 ATP-binding site [chemical binding]; other site 584721006205 DNA polymerase III subunit delta'; Validated; Region: PRK06871 584721006206 DNA polymerase III subunit delta'; Validated; Region: PRK08485 584721006207 DNA polymerase III, delta subunit, C terminal; Region: DNApol3-delta_C; pfam09115 584721006208 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 584721006209 active site 584721006210 Protein of unknown function (DUF1523); Region: DUF1523; pfam07509 584721006211 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 584721006212 Domain of unknown function DUF21; Region: DUF21; pfam01595 584721006213 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 584721006214 Transporter associated domain; Region: CorC_HlyC; smart01091 584721006215 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 584721006216 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 584721006217 FeS/SAM binding site; other site 584721006218 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 584721006219 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 584721006220 membrane-bound complex binding site; other site 584721006221 hinge residues; other site 584721006222 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 584721006223 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 584721006224 Sulfatase; Region: Sulfatase; cl17466 584721006225 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 584721006226 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 584721006227 Sulfatase; Region: Sulfatase; pfam00884 584721006228 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 584721006229 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 584721006230 Pirin-related protein [General function prediction only]; Region: COG1741 584721006231 Pirin; Region: Pirin; pfam02678 584721006232 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 584721006233 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 584721006234 S-adenosylmethionine binding site [chemical binding]; other site 584721006235 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 584721006236 SCP-2 sterol transfer family; Region: SCP2; pfam02036 584721006237 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 584721006238 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 584721006239 twin arginine translocase protein A; Provisional; Region: tatA; PRK01833 584721006240 sec-independent translocase; Provisional; Region: PRK01770 584721006241 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 584721006242 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 584721006243 dimer interface [polypeptide binding]; other site 584721006244 allosteric magnesium binding site [ion binding]; other site 584721006245 active site 584721006246 aspartate-rich active site metal binding site; other site 584721006247 Schiff base residues; other site 584721006248 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 584721006249 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 584721006250 dimer interface [polypeptide binding]; other site 584721006251 pyridoxal 5'-phosphate binding site [chemical binding]; other site 584721006252 catalytic residue [active] 584721006253 putative sulfate transport protein CysZ; Validated; Region: PRK04949 584721006254 cell division protein ZipA; Provisional; Region: PRK01741 584721006255 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 584721006256 FtsZ protein binding site [polypeptide binding]; other site 584721006257 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 584721006258 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 584721006259 homooctamer interface [polypeptide binding]; other site 584721006260 active site 584721006261 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 584721006262 EamA-like transporter family; Region: EamA; pfam00892 584721006263 EamA-like transporter family; Region: EamA; pfam00892 584721006264 SnoaL-like domain; Region: SnoaL_2; pfam12680 584721006265 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 584721006266 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 584721006267 motif II; other site 584721006268 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 584721006269 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 584721006270 active site 584721006271 Int/Topo IB signature motif; other site 584721006272 Protein of unknown function, DUF484; Region: DUF484; cl17449 584721006273 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 584721006274 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 584721006275 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 584721006276 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 584721006277 Clp amino terminal domain; Region: Clp_N; pfam02861 584721006278 Clp amino terminal domain; Region: Clp_N; pfam02861 584721006279 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 584721006280 Walker A motif; other site 584721006281 ATP binding site [chemical binding]; other site 584721006282 Walker B motif; other site 584721006283 arginine finger; other site 584721006284 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 584721006285 Walker A motif; other site 584721006286 ATP binding site [chemical binding]; other site 584721006287 Walker B motif; other site 584721006288 arginine finger; other site 584721006289 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 584721006290 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 584721006291 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 584721006292 catalytic residues [active] 584721006293 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 584721006294 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 584721006295 N-acetylneuraminic acid mutarotase; Provisional; Region: PRK14131 584721006296 Kelch motif; Region: Kelch_1; pfam01344 584721006297 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 584721006298 DctM-like transporters; Region: DctM; pfam06808 584721006299 TRAP transporter, DctM subunit; Region: dctM; TIGR00786 584721006300 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 584721006301 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 584721006302 NnaC (CMP-NeuNAc synthetase) _like subfamily of SGNH_hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: NnaC_like; cd01841 584721006303 active site 584721006304 catalytic triad [active] 584721006305 oxyanion hole [active] 584721006306 Putative N-acetylmannosamine-6-phosphate epimerase [Carbohydrate transport and metabolism]; Region: NanE; COG3010 584721006307 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 584721006308 putative active site cavity [active] 584721006309 N-acetylmannosamine kinase; Provisional; Region: PRK05082 584721006310 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 584721006311 nucleotide binding site [chemical binding]; other site 584721006312 Domain of unknown function (DUF386); Region: DUF386; pfam04074 584721006313 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 584721006314 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 584721006315 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 584721006316 putative active site [active] 584721006317 N-acetylneuraminate lyase; Provisional; Region: PRK04147 584721006318 N-Acetylneuraminic acid aldolase, also called N-acetylneuraminate lyase (NAL); Region: NAL; cd00954 584721006319 inhibitor site; inhibition site 584721006320 active site 584721006321 dimer interface [polypeptide binding]; other site 584721006322 catalytic residue [active] 584721006323 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 584721006324 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 584721006325 nucleotide binding pocket [chemical binding]; other site 584721006326 K-X-D-G motif; other site 584721006327 catalytic site [active] 584721006328 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 584721006329 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 584721006330 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 584721006331 Dimer interface [polypeptide binding]; other site 584721006332 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 584721006333 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 584721006334 Autotransporter beta-domain; Region: Autotransporter; pfam03797 584721006335 potential frameshift: common BLAST hit: gi|170717776|ref|YP_001784841.1| transposase 584721006336 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 584721006337 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 584721006338 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 584721006339 Walker A/P-loop; other site 584721006340 ATP binding site [chemical binding]; other site 584721006341 AAA domain; Region: AAA_21; pfam13304 584721006342 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 584721006343 Walker B; other site 584721006344 D-loop; other site 584721006345 H-loop/switch region; other site 584721006346 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 584721006347 non-specific DNA binding site [nucleotide binding]; other site 584721006348 salt bridge; other site 584721006349 sequence-specific DNA binding site [nucleotide binding]; other site 584721006350 potential frameshift: common BLAST hit: gi|33152648|ref|NP_874001.1| transposase 584721006351 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 584721006352 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 584721006353 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 584721006354 hybrid sensory histidine kinase TorS; Provisional; Region: PRK11466 584721006355 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 584721006356 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 584721006357 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 584721006358 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 584721006359 RNA binding surface [nucleotide binding]; other site 584721006360 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 584721006361 active site 584721006362 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 584721006363 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 584721006364 binding surface 584721006365 TPR motif; other site 584721006366 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 584721006367 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 584721006368 Cell division protein ZapA (stimulator of FtsZ polymerization and Z-ring component) [Cell cycle control, cell division, chromosome partitioning]; Region: zapA; COG3027 584721006369 hypothetical protein; Reviewed; Region: PRK01736 584721006370 proline aminopeptidase P II; Provisional; Region: PRK10879 584721006371 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 584721006372 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 584721006373 active site 584721006374 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK05732 584721006375 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 584721006376 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 584721006377 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 584721006378 potential protein location (hypothetical protein NT08PM_2077 [Pasteurella multocida subsp. multocida str. 3480]) that overlaps RNA (5S ribosomal RNA) 584721006379 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 584721006380 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 584721006381 active site 584721006382 motif I; other site 584721006383 motif II; other site 584721006384 D-methionine ABC transporter, ATP-binding protein; Region: ABC_MetN; TIGR02314 584721006385 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 584721006386 Walker A/P-loop; other site 584721006387 ATP binding site [chemical binding]; other site 584721006388 Q-loop/lid; other site 584721006389 ABC transporter signature motif; other site 584721006390 Walker B; other site 584721006391 D-loop; other site 584721006392 H-loop/switch region; other site 584721006393 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 584721006394 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 584721006395 dimer interface [polypeptide binding]; other site 584721006396 conserved gate region; other site 584721006397 ABC-ATPase subunit interface; other site 584721006398 DL-methionine transporter substrate-binding subunit; Provisional; Region: metQ; PRK11063 584721006399 NLPA lipoprotein; Region: Lipoprotein_9; cl17547 584721006400 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 584721006401 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 584721006402 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 584721006403 glutaminase active site [active] 584721006404 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 584721006405 dimer interface [polypeptide binding]; other site 584721006406 active site 584721006407 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 584721006408 dimer interface [polypeptide binding]; other site 584721006409 active site 584721006410 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 584721006411 IHF dimer interface [polypeptide binding]; other site 584721006412 IHF - DNA interface [nucleotide binding]; other site 584721006413 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3068 584721006414 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 584721006415 substrate binding site [chemical binding]; other site 584721006416 active site 584721006417 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 584721006418 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 584721006419 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 584721006420 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 584721006421 putative NADH binding site [chemical binding]; other site 584721006422 putative active site [active] 584721006423 nudix motif; other site 584721006424 putative metal binding site [ion binding]; other site 584721006425 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 584721006426 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 584721006427 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 584721006428 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 584721006429 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 584721006430 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 584721006431 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 584721006432 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 584721006433 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 584721006434 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 584721006435 DNA binding site [nucleotide binding] 584721006436 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 584721006437 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 584721006438 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 584721006439 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 584721006440 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 584721006441 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 584721006442 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 584721006443 RPB1 interaction site [polypeptide binding]; other site 584721006444 RPB11 interaction site [polypeptide binding]; other site 584721006445 RPB10 interaction site [polypeptide binding]; other site 584721006446 RPB3 interaction site [polypeptide binding]; other site 584721006447 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 584721006448 core dimer interface [polypeptide binding]; other site 584721006449 peripheral dimer interface [polypeptide binding]; other site 584721006450 L10 interface [polypeptide binding]; other site 584721006451 L11 interface [polypeptide binding]; other site 584721006452 putative EF-Tu interaction site [polypeptide binding]; other site 584721006453 putative EF-G interaction site [polypeptide binding]; other site 584721006454 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 584721006455 23S rRNA interface [nucleotide binding]; other site 584721006456 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 584721006457 fructuronate transporter; Provisional; Region: PRK10034; cl15264 584721006458 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 584721006459 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 584721006460 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 584721006461 mRNA/rRNA interface [nucleotide binding]; other site 584721006462 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 584721006463 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 584721006464 23S rRNA interface [nucleotide binding]; other site 584721006465 L7/L12 interface [polypeptide binding]; other site 584721006466 putative thiostrepton binding site; other site 584721006467 L25 interface [polypeptide binding]; other site 584721006468 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 584721006469 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 584721006470 putative homodimer interface [polypeptide binding]; other site 584721006471 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 584721006472 heterodimer interface [polypeptide binding]; other site 584721006473 homodimer interface [polypeptide binding]; other site 584721006474 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 584721006475 elongation factor Tu; Reviewed; Region: PRK00049 584721006476 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 584721006477 G1 box; other site 584721006478 GEF interaction site [polypeptide binding]; other site 584721006479 GTP/Mg2+ binding site [chemical binding]; other site 584721006480 Switch I region; other site 584721006481 G2 box; other site 584721006482 G3 box; other site 584721006483 Switch II region; other site 584721006484 G4 box; other site 584721006485 G5 box; other site 584721006486 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 584721006487 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 584721006488 Antibiotic Binding Site [chemical binding]; other site 584721006489 elongation factor G; Reviewed; Region: PRK00007 584721006490 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 584721006491 G1 box; other site 584721006492 putative GEF interaction site [polypeptide binding]; other site 584721006493 GTP/Mg2+ binding site [chemical binding]; other site 584721006494 Switch I region; other site 584721006495 G2 box; other site 584721006496 G3 box; other site 584721006497 Switch II region; other site 584721006498 G4 box; other site 584721006499 G5 box; other site 584721006500 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 584721006501 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 584721006502 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 584721006503 30S ribosomal protein S7; Validated; Region: PRK05302 584721006504 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 584721006505 S17 interaction site [polypeptide binding]; other site 584721006506 S8 interaction site; other site 584721006507 16S rRNA interaction site [nucleotide binding]; other site 584721006508 streptomycin interaction site [chemical binding]; other site 584721006509 23S rRNA interaction site [nucleotide binding]; other site 584721006510 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 584721006511 Uncharacterized conserved protein involved in oxidation of intracellular sulfur [Inorganic ion transport and metabolism]; Region: DsrH; COG2168 584721006512 sulfur relay protein TusC/DsrF; Region: sulf_tusC_dsrF; TIGR03010 584721006513 sulfur transfer complex subunit TusD; Validated; Region: PRK00207 584721006514 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 584721006515 YheO-like PAS domain; Region: PAS_6; pfam08348 584721006516 HTH domain; Region: HTH_22; pfam13309 584721006517 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 584721006518 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 584721006519 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 584721006520 hypothetical protein; Provisional; Region: PRK02119 584721006521 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 584721006522 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 584721006523 catalytic triad [active] 584721006524 dimer interface [polypeptide binding]; other site 584721006525 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 584721006526 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 584721006527 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 584721006528 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 584721006529 dimerization interface [polypeptide binding]; other site 584721006530 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 584721006531 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 584721006532 DNA-binding transcriptional repressor DeoR; Provisional; Region: PRK10681 584721006533 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 584721006534 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 584721006535 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 584721006536 intersubunit interface [polypeptide binding]; other site 584721006537 active site 584721006538 catalytic residue [active] 584721006539 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 584721006540 ADP-L-glycero-D-mannoheptose-6-epimerase; Provisional; Region: rfaD; PRK11150 584721006541 NADP binding site [chemical binding]; other site 584721006542 homopentamer interface [polypeptide binding]; other site 584721006543 substrate binding site [chemical binding]; other site 584721006544 active site 584721006545 sugar phosphate antiporter; Reviewed; Region: uhpT; PRK09556 584721006546 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 584721006547 putative substrate translocation pore; other site 584721006548 potential frameshift: common BLAST hit: gi|383311595|ref|YP_005364405.1| transcriptional regulatory protein UhpA 584721006549 Response regulator receiver domain; Region: Response_reg; pfam00072 584721006550 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 584721006551 active site 584721006552 phosphorylation site [posttranslational modification] 584721006553 intermolecular recognition site; other site 584721006554 dimerization interface [polypeptide binding]; other site 584721006555 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 584721006556 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 584721006557 dimerization interface [polypeptide binding]; other site 584721006558 DNA binding residues [nucleotide binding] 584721006559 Signal transduction histidine kinase, glucose-6-phosphate specific [Signal transduction mechanisms]; Region: UhpB; COG3851 584721006560 MASE1; Region: MASE1; pfam05231 584721006561 Histidine kinase; Region: HisKA_3; pfam07730 584721006562 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 584721006563 ATP binding site [chemical binding]; other site 584721006564 G-X-G motif; other site 584721006565 regulatory protein UhpC; Provisional; Region: PRK11663 584721006566 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 584721006567 putative substrate translocation pore; other site 584721006568 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 584721006569 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 584721006570 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 584721006571 Ligand Binding Site [chemical binding]; other site 584721006572 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2991 584721006573 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 584721006574 ApbE family; Region: ApbE; pfam02424 584721006575 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 584721006576 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 584721006577 Na+-translocating NADH:quinone oxidoreductase (Na+-NQR) FAD/NADH binding domain. (Na+-NQR) provides a means of storing redox reaction energy via the transmembrane translocation of Na2+ ions. The C-terminal domain resembles ferredoxin:NADP+ oxidoreductase; Region: NADH_quinone_reductase; cd06188 584721006578 FAD binding pocket [chemical binding]; other site 584721006579 FAD binding motif [chemical binding]; other site 584721006580 phosphate binding motif [ion binding]; other site 584721006581 beta-alpha-beta structure motif; other site 584721006582 NAD binding pocket [chemical binding]; other site 584721006583 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 584721006584 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 584721006585 Na+-transporting NADH:ubiquinone oxidoreductase, subunit NqrC [Energy production and conversion]; Region: NqrC; COG2869 584721006586 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 584721006587 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 584721006588 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 584721006589 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 584721006590 E3 interaction surface; other site 584721006591 lipoyl attachment site [posttranslational modification]; other site 584721006592 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 584721006593 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 584721006594 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 584721006595 TM-ABC transporter signature motif; other site 584721006596 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 584721006597 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 584721006598 Walker A/P-loop; other site 584721006599 ATP binding site [chemical binding]; other site 584721006600 Q-loop/lid; other site 584721006601 ABC transporter signature motif; other site 584721006602 Walker B; other site 584721006603 D-loop; other site 584721006604 H-loop/switch region; other site 584721006605 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 584721006606 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 584721006607 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 584721006608 ligand binding site [chemical binding]; other site 584721006609 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 584721006610 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: COG3056 584721006611 Uncharacterized lipoprotein; Region: Lipoprotein_16; pfam03923 584721006612 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 584721006613 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 584721006614 potential frameshift: common BLAST hit: gi|378775568|ref|YP_005177811.1| membrane-bound lytic murein transglycosylase C 584721006615 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 584721006616 N-acetyl-D-glucosamine binding site [chemical binding]; other site 584721006617 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 584721006618 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 584721006619 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 584721006620 catalytic residue [active] 584721006621 catalytic residue [active] 584721006622 oxidative damage protection protein; Provisional; Region: PRK05408 584721006623 adenine DNA glycosylase; Provisional; Region: PRK10880 584721006624 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 584721006625 minor groove reading motif; other site 584721006626 helix-hairpin-helix signature motif; other site 584721006627 substrate binding pocket [chemical binding]; other site 584721006628 active site 584721006629 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 584721006630 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 584721006631 DNA binding and oxoG recognition site [nucleotide binding] 584721006632 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 584721006633 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 584721006634 hypothetical protein; Provisional; Region: PRK11702 584721006635 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 584721006636 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 584721006637 Cl binding site [ion binding]; other site 584721006638 oligomer interface [polypeptide binding]; other site 584721006639 YGGT family; Region: YGGT; pfam02325 584721006640 YGGT family; Region: YGGT; pfam02325 584721006641 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 584721006642 triosephosphate isomerase; Provisional; Region: PRK14567 584721006643 substrate binding site [chemical binding]; other site 584721006644 dimer interface [polypeptide binding]; other site 584721006645 catalytic triad [active] 584721006646 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 584721006647 Methyltransferase domain; Region: Methyltransf_18; pfam12847 584721006648 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 584721006649 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 584721006650 Walker A/P-loop; other site 584721006651 ATP binding site [chemical binding]; other site 584721006652 Q-loop/lid; other site 584721006653 ABC transporter signature motif; other site 584721006654 Walker B; other site 584721006655 D-loop; other site 584721006656 H-loop/switch region; other site 584721006657 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 584721006658 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 584721006659 ABC-ATPase subunit interface; other site 584721006660 dimer interface [polypeptide binding]; other site 584721006661 putative PBP binding regions; other site 584721006662 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 584721006663 Metal binding protein HemV-2. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: HemV-2; cd01147 584721006664 putative metal binding site [ion binding]; other site 584721006665 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 584721006666 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 584721006667 putative metal binding site; other site 584721006668 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 584721006669 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 584721006670 Glycosyl transferases group 1; Region: Glycos_transf_1; pfam00534 584721006671 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 584721006672 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 584721006673 active site 584721006674 (T/H)XGH motif; other site 584721006675 3-deoxy-D-manno-octulosonic-acid kinase; Reviewed; Region: PRK01723 584721006676 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 584721006677 active site 584721006678 ATP binding site [chemical binding]; other site 584721006679 potential frameshift: common BLAST hit: gi|383311556|ref|YP_005364366.1| glycosyltransferase 584721006680 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 584721006681 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 584721006682 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 584721006683 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 584721006684 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 584721006685 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 584721006686 Walker A/P-loop; other site 584721006687 ATP binding site [chemical binding]; other site 584721006688 Q-loop/lid; other site 584721006689 ABC transporter signature motif; other site 584721006690 Walker B; other site 584721006691 D-loop; other site 584721006692 H-loop/switch region; other site 584721006693 potential frameshift: common BLAST hit: gi|383311553|ref|YP_005364363.1| TonB-dependent receptor, beta-barrel domain protein 584721006694 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 584721006695 N-terminal plug; other site 584721006696 ligand-binding site [chemical binding]; other site 584721006697 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 584721006698 potential frameshift: common BLAST hit: gi|383311552|ref|YP_005364362.1| outer membrane autotransporter barrel protein 584721006699 Predicted integral membrane proteins containing uncharacterized repeats [Function unknown]; Region: COG5563 584721006700 Predicted integral membrane proteins containing uncharacterized repeats [Function unknown]; Region: COG5563 584721006701 Autotransporter beta-domain; Region: Autotransporter; smart00869 584721006702 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 584721006703 M20 Peptidases Aminoacyclase-1 indole-3-acetic-L-aspartic acid hydrolase from bacteria and archaea; Region: M20_Acy1_IAAspH_bact; cd05665 584721006704 putative metal binding site [ion binding]; other site 584721006705 dimer interface [polypeptide binding]; other site 584721006706 C4-dicarboxylate transporter [Energy production and conversion]; Region: DcuC; COG3069 584721006707 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 584721006708 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 584721006709 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 584721006710 RimM N-terminal domain; Region: RimM; pfam01782 584721006711 PRC-barrel domain; Region: PRC; pfam05239 584721006712 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 584721006713 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 584721006714 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 584721006715 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 584721006716 putative active site [active] 584721006717 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 584721006718 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 584721006719 Nucleoside recognition; Region: Gate; pfam07670 584721006720 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 584721006721 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 584721006722 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 584721006723 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 584721006724 dimerization interface [polypeptide binding]; other site 584721006725 DNA binding site [nucleotide binding] 584721006726 corepressor binding sites; other site 584721006727 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 584721006728 active site 584721006729 tetramer interface; other site 584721006730 carbon storage regulator; Provisional; Region: PRK01712 584721006731 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 584721006732 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 584721006733 motif 1; other site 584721006734 active site 584721006735 motif 2; other site 584721006736 motif 3; other site 584721006737 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 584721006738 DHHA1 domain; Region: DHHA1; pfam02272 584721006739 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 584721006740 Ligand Binding Site [chemical binding]; other site 584721006741 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 584721006742 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 584721006743 homodimer interface [polypeptide binding]; other site 584721006744 metal binding site [ion binding]; metal-binding site 584721006745 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 584721006746 homodimer interface [polypeptide binding]; other site 584721006747 active site 584721006748 putative chemical substrate binding site [chemical binding]; other site 584721006749 metal binding site [ion binding]; metal-binding site 584721006750 ketol-acid reductoisomerase; Validated; Region: PRK05225 584721006751 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 584721006752 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 584721006753 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 584721006754 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 584721006755 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 584721006756 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 584721006757 putative dimerization interface [polypeptide binding]; other site 584721006758 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 584721006759 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 584721006760 Predicted permeases [General function prediction only]; Region: RarD; COG2962 584721006761 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 584721006762 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 584721006763 substrate binding site [chemical binding]; other site 584721006764 hexamer interface [polypeptide binding]; other site 584721006765 metal binding site [ion binding]; metal-binding site 584721006766 autoinducer-2 (AI-2) modifying protein LsrG; Provisional; Region: PRK10486 584721006767 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 584721006768 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 584721006769 putative active site; other site 584721006770 catalytic residue [active] 584721006771 autoinducer 2-binding protein lsrB; Provisional; Region: PRK15408 584721006772 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 584721006773 ligand binding site [chemical binding]; other site 584721006774 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 584721006775 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 584721006776 TM-ABC transporter signature motif; other site 584721006777 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 584721006778 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 584721006779 TM-ABC transporter signature motif; other site 584721006780 autoinducer 2 ABC transporter ATP-binding protein LsrA; Provisional; Region: PRK15439 584721006781 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 584721006782 Walker A/P-loop; other site 584721006783 ATP binding site [chemical binding]; other site 584721006784 Q-loop/lid; other site 584721006785 ABC transporter signature motif; other site 584721006786 Walker B; other site 584721006787 D-loop; other site 584721006788 H-loop/switch region; other site 584721006789 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 584721006790 transcriptional regulator LsrR; Provisional; Region: PRK15418 584721006791 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 584721006792 non-specific DNA interactions [nucleotide binding]; other site 584721006793 DNA binding site [nucleotide binding] 584721006794 sequence specific DNA binding site [nucleotide binding]; other site 584721006795 putative cAMP binding site [chemical binding]; other site 584721006796 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 584721006797 autoinducer-2 (AI-2) kinase; Provisional; Region: PRK10939 584721006798 Autoinducer-2 kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_AI-2K; cd07775 584721006799 putative N- and C-terminal domain interface [polypeptide binding]; other site 584721006800 putative active site [active] 584721006801 putative MgATP binding site [chemical binding]; other site 584721006802 catalytic site [active] 584721006803 metal binding site [ion binding]; metal-binding site 584721006804 putative carbohydrate binding site [chemical binding]; other site 584721006805 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 584721006806 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 584721006807 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 584721006808 shikimate binding site; other site 584721006809 NAD(P) binding site [chemical binding]; other site 584721006810 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 584721006811 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 584721006812 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 584721006813 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 584721006814 Maf-like protein; Region: Maf; pfam02545 584721006815 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 584721006816 active site 584721006817 dimer interface [polypeptide binding]; other site 584721006818 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 584721006819 RmuC family; Region: RmuC; pfam02646 584721006820 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 584721006821 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 584721006822 Walker A/P-loop; other site 584721006823 ATP binding site [chemical binding]; other site 584721006824 Q-loop/lid; other site 584721006825 ABC transporter signature motif; other site 584721006826 Walker B; other site 584721006827 D-loop; other site 584721006828 H-loop/switch region; other site 584721006829 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 584721006830 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 584721006831 dimer interface [polypeptide binding]; other site 584721006832 conserved gate region; other site 584721006833 putative PBP binding loops; other site 584721006834 ABC-ATPase subunit interface; other site 584721006835 Putative transcription activator [Transcription]; Region: TenA; COG0819 584721006836 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 584721006837 NMT1/THI5 like; Region: NMT1; pfam09084 584721006838 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 584721006839 substrate binding site [chemical binding]; other site 584721006840 multimerization interface [polypeptide binding]; other site 584721006841 ATP binding site [chemical binding]; other site 584721006842 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 584721006843 dimer interface [polypeptide binding]; other site 584721006844 substrate binding site [chemical binding]; other site 584721006845 ATP binding site [chemical binding]; other site 584721006846 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 584721006847 active site 584721006848 thiamine phosphate binding site [chemical binding]; other site 584721006849 pyrophosphate binding site [ion binding]; other site 584721006850 metabolite-proton symporter; Region: 2A0106; TIGR00883 584721006851 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 584721006852 putative substrate translocation pore; other site 584721006853 hypothetical protein; Provisional; Region: PRK05208 584721006854 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 584721006855 Transcriptional regulator [Transcription]; Region: IclR; COG1414 584721006856 Bacterial transcriptional regulator; Region: IclR; pfam01614 584721006857 2,3-diketo-L-gulonate reductase; Provisional; Region: PRK13260 584721006858 Domain of unknown function (DUF386); Region: DUF386; pfam04074 584721006859 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 584721006860 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 584721006861 DctM-like transporters; Region: DctM; pfam06808 584721006862 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 584721006863 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 584721006864 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 584721006865 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 584721006866 Walker A/P-loop; other site 584721006867 ATP binding site [chemical binding]; other site 584721006868 Q-loop/lid; other site 584721006869 ABC transporter signature motif; other site 584721006870 Walker B; other site 584721006871 D-loop; other site 584721006872 H-loop/switch region; other site 584721006873 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 584721006874 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 584721006875 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 584721006876 TM-ABC transporter signature motif; other site 584721006877 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_6; cd06315 584721006878 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 584721006879 putative ligand binding site [chemical binding]; other site 584721006880 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 584721006881 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 584721006882 L-xylulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-XK; cd07802 584721006883 putative N- and C-terminal domain interface [polypeptide binding]; other site 584721006884 putative active site [active] 584721006885 MgATP binding site [chemical binding]; other site 584721006886 catalytic site [active] 584721006887 metal binding site [ion binding]; metal-binding site 584721006888 putative xylulose binding site [chemical binding]; other site 584721006889 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 584721006890 active site 584721006891 dimer interface [polypeptide binding]; other site 584721006892 magnesium binding site [ion binding]; other site 584721006893 putative L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13210 584721006894 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 584721006895 AP (apurinic/apyrimidinic) site pocket; other site 584721006896 DNA interaction; other site 584721006897 Metal-binding active site; metal-binding site 584721006898 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 584721006899 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 584721006900 intersubunit interface [polypeptide binding]; other site 584721006901 active site 584721006902 Zn2+ binding site [ion binding]; other site 584721006903 pyridoxal phosphate (PLP) phosphatase; Provisional; Region: PRK10530 584721006904 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 584721006905 active site 584721006906 motif I; other site 584721006907 motif II; other site 584721006908 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 584721006909 transketolase; Reviewed; Region: PRK12753 584721006910 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 584721006911 TPP-binding site [chemical binding]; other site 584721006912 dimer interface [polypeptide binding]; other site 584721006913 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 584721006914 PYR/PP interface [polypeptide binding]; other site 584721006915 dimer interface [polypeptide binding]; other site 584721006916 TPP binding site [chemical binding]; other site 584721006917 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 584721006918 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 584721006919 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 584721006920 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 584721006921 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 584721006922 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 584721006923 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 584721006924 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 584721006925 DNA binding residues [nucleotide binding] 584721006926 DNA primase; Validated; Region: dnaG; PRK05667 584721006927 CHC2 zinc finger; Region: zf-CHC2; pfam01807 584721006928 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 584721006929 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 584721006930 active site 584721006931 metal binding site [ion binding]; metal-binding site 584721006932 interdomain interaction site; other site 584721006933 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 584721006934 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 584721006935 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 584721006936 UGMP family protein; Validated; Region: PRK09604 584721006937 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 584721006938 thymidine kinase; Provisional; Region: PRK04296 584721006939 glutathione reductase; Validated; Region: PRK06116 584721006940 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 584721006941 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 584721006942 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 584721006943 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 584721006944 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 584721006945 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13152 584721006946 predicted active site [active] 584721006947 catalytic triad [active] 584721006948 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 584721006949 PdxS is a subunit of the pyridoxal 5'-phosphate (PLP) synthase, an important enzyme in deoxyxylulose 5-phosphate (DXP)-independent pathway for de novo biosynthesis of PLP, present in some eubacteria, in archaea, fungi, plants, plasmodia, and some...; Region: pdxS; cd04727 584721006950 active site 584721006951 multimer interface [polypeptide binding]; other site 584721006952 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 584721006953 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 584721006954 DNA-binding site [nucleotide binding]; DNA binding site 584721006955 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 584721006956 pyridoxal 5'-phosphate binding site [chemical binding]; other site 584721006957 homodimer interface [polypeptide binding]; other site 584721006958 catalytic residue [active] 584721006959 potential frameshift: common BLAST hit: gi|383311815|ref|YP_005364625.1| penicillin-binding protein 1A 584721006960 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 584721006961 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 584721006962 Transglycosylase; Region: Transgly; pfam00912 584721006963 Competence protein A; Region: Competence_A; pfam11104 584721006964 Pilus assembly protein, PilP; Region: PilP; pfam04351 584721006965 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 584721006966 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 584721006967 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 584721006968 shikimate kinase; Reviewed; Region: aroK; PRK00131 584721006969 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 584721006970 ADP binding site [chemical binding]; other site 584721006971 magnesium binding site [ion binding]; other site 584721006972 putative shikimate binding site; other site 584721006973 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 584721006974 active site 584721006975 dimer interface [polypeptide binding]; other site 584721006976 metal binding site [ion binding]; metal-binding site 584721006977 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 584721006978 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4701 584721006979 Protein of unknown function (DUF2547); Region: DUF2547; pfam10818 584721006980 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 584721006981 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 584721006982 SEC-C motif; Region: SEC-C; pfam02810 584721006983 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 584721006984 active site 584721006985 8-oxo-dGMP binding site [chemical binding]; other site 584721006986 nudix motif; other site 584721006987 metal binding site [ion binding]; metal-binding site 584721006988 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 584721006989 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 584721006990 Rare lipoprotein B [Cell envelope biogenesis, outer membrane]; Region: RlpB; COG2980 584721006991 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 584721006992 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 584721006993 HIGH motif; other site 584721006994 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 584721006995 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 584721006996 active site 584721006997 KMSKS motif; other site 584721006998 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 584721006999 tRNA binding surface [nucleotide binding]; other site 584721007000 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 584721007001 metal-binding site [ion binding] 584721007002 MerT mercuric transport protein; Region: MerT; cl03578 584721007003 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 584721007004 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 584721007005 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 584721007006 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 584721007007 active site 584721007008 metal binding site [ion binding]; metal-binding site 584721007009 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 584721007010 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 584721007011 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 584721007012 SurA N-terminal domain; Region: SurA_N; pfam09312 584721007013 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 584721007014 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 584721007015 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 584721007016 active site 584721007017 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 584721007018 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 584721007019 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 584721007020 metal binding site [ion binding]; metal-binding site 584721007021 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 584721007022 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 584721007023 substrate binding site [chemical binding]; other site 584721007024 glutamase interaction surface [polypeptide binding]; other site 584721007025 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 584721007026 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 584721007027 catalytic residues [active] 584721007028 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 584721007029 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 584721007030 putative active site [active] 584721007031 oxyanion strand; other site 584721007032 catalytic triad [active] 584721007033 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 584721007034 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 584721007035 active site 584721007036 motif I; other site 584721007037 motif II; other site 584721007038 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 584721007039 putative active site pocket [active] 584721007040 4-fold oligomerization interface [polypeptide binding]; other site 584721007041 metal binding residues [ion binding]; metal-binding site 584721007042 3-fold/trimer interface [polypeptide binding]; other site 584721007043 histidinol-phosphate aminotransferase; Provisional; Region: PRK01688 584721007044 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 584721007045 pyridoxal 5'-phosphate binding site [chemical binding]; other site 584721007046 homodimer interface [polypeptide binding]; other site 584721007047 catalytic residue [active] 584721007048 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 584721007049 Fic/DOC family; Region: Fic; pfam02661 584721007050 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 584721007051 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 584721007052 NAD binding site [chemical binding]; other site 584721007053 dimerization interface [polypeptide binding]; other site 584721007054 product binding site; other site 584721007055 substrate binding site [chemical binding]; other site 584721007056 zinc binding site [ion binding]; other site 584721007057 catalytic residues [active] 584721007058 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 584721007059 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 584721007060 trimer interface [polypeptide binding]; other site 584721007061 active site 584721007062 substrate binding site [chemical binding]; other site 584721007063 CoA binding site [chemical binding]; other site 584721007064 Y-family of DNA polymerases; Region: PolY; cl12025 584721007065 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 584721007066 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 584721007067 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 584721007068 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 584721007069 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 584721007070 S-adenosylmethionine binding site [chemical binding]; other site 584721007071 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 584721007072 Escherichia coli UshA and related proteins, N-terminal metallophosphatase domain; Region: MPP_UshA_N; cd07405 584721007073 active site 584721007074 metal binding site [ion binding]; metal-binding site 584721007075 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 584721007076 aromatic amino acid transport protein; Region: araaP; TIGR00837 584721007077 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 584721007078 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 584721007079 dimer interface [polypeptide binding]; other site 584721007080 substrate binding site [chemical binding]; other site 584721007081 metal binding sites [ion binding]; metal-binding site 584721007082 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 584721007083 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 584721007084 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 584721007085 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 584721007086 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 584721007087 tonB-system energizer ExbB, group 2; Region: exbB2; TIGR02805 584721007088 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 584721007089 Domain of unknown function DUF21; Region: DUF21; pfam01595 584721007090 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 584721007091 Transporter associated domain; Region: CorC_HlyC; smart01091 584721007092 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4137 584721007093 signal recognition particle protein; Provisional; Region: PRK10867 584721007094 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 584721007095 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 584721007096 P loop; other site 584721007097 GTP binding site [chemical binding]; other site 584721007098 Signal peptide binding domain; Region: SRP_SPB; pfam02978 584721007099 Glycerol-3-phosphate O-acyltransferase [Lipid metabolism]; Region: PlsB; COG2937 584721007100 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 584721007101 putative acyl-acceptor binding pocket; other site 584721007102 LexA repressor; Validated; Region: PRK00215 584721007103 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 584721007104 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 584721007105 Catalytic site [active] 584721007106 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 584721007107 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 584721007108 dimer interface [polypeptide binding]; other site 584721007109 ssDNA binding site [nucleotide binding]; other site 584721007110 tetramer (dimer of dimers) interface [polypeptide binding]; other site 584721007111 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 584721007112 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 584721007113 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 584721007114 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 584721007115 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; cl01604 584721007116 glutamine synthetase; Provisional; Region: glnA; PRK09469 584721007117 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 584721007118 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 584721007119 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 584721007120 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 584721007121 G1 box; other site 584721007122 putative GEF interaction site [polypeptide binding]; other site 584721007123 GTP/Mg2+ binding site [chemical binding]; other site 584721007124 Switch I region; other site 584721007125 G2 box; other site 584721007126 G3 box; other site 584721007127 Switch II region; other site 584721007128 G4 box; other site 584721007129 G5 box; other site 584721007130 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 584721007131 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 584721007132 Uncharacterized integral membrane protein [Function unknown]; Region: COG3739 584721007133 Periplasmic protein with OB-fold [Function unknown]; Region: COG3111 584721007134 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 584721007135 homodimer interaction site [polypeptide binding]; other site 584721007136 cofactor binding site; other site 584721007137 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 584721007138 UbiA prenyltransferase family; Region: UbiA; pfam01040 584721007139 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 584721007140 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 584721007141 transmembrane helices; other site 584721007142 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 584721007143 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 584721007144 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 584721007145 trmE is a tRNA modification GTPase; Region: trmE; cd04164 584721007146 G1 box; other site 584721007147 GTP/Mg2+ binding site [chemical binding]; other site 584721007148 Switch I region; other site 584721007149 G2 box; other site 584721007150 Switch II region; other site 584721007151 G3 box; other site 584721007152 G4 box; other site 584721007153 G5 box; other site 584721007154 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 584721007155 membrane protein insertase; Provisional; Region: PRK01318 584721007156 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 584721007157 ribonuclease P; Reviewed; Region: rnpA; PRK01732 584721007158 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399