-- dump date   	20140618_202610
-- class       	Genbank::misc_feature
-- table       	misc_feature_note
-- id	note
429009000001	chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149
429009000002	DnaA N-terminal domain; Region: DnaA_N; pfam11638
429009000003	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
429009000004	Walker A motif; other site
429009000005	ATP binding site [chemical binding]; other site
429009000006	Walker B motif; other site
429009000007	arginine finger; other site
429009000008	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
429009000009	DnaA box-binding interface [nucleotide binding]; other site
429009000010	DNA polymerase III subunit beta; Validated; Region: PRK05643
429009000011	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
429009000012	putative DNA binding surface [nucleotide binding]; other site
429009000013	dimer interface [polypeptide binding]; other site
429009000014	beta-clamp/clamp loader binding surface; other site
429009000015	beta-clamp/translesion DNA polymerase binding surface; other site
429009000016	recombination protein F; Reviewed; Region: recF; PRK00064
429009000017	ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201
429009000018	Walker A/P-loop; other site
429009000019	ATP binding site [chemical binding]; other site
429009000020	Q-loop/lid; other site
429009000021	ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201
429009000022	ABC transporter signature motif; other site
429009000023	Walker B; other site
429009000024	D-loop; other site
429009000025	H-loop/switch region; other site
429009000026	DNA gyrase subunit B; Validated; Region: gyrB; PRK05644
429009000027	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
429009000028	Mg2+ binding site [ion binding]; other site
429009000029	G-X-G motif; other site
429009000030	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
429009000031	anchoring element; other site
429009000032	dimer interface [polypeptide binding]; other site
429009000033	ATP binding site [chemical binding]; other site
429009000034	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
429009000035	active site
429009000036	putative metal-binding site [ion binding]; other site
429009000037	DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986
429009000038	DNA gyrase subunit A; Validated; Region: PRK05560
429009000039	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
429009000040	CAP-like domain; other site
429009000041	active site
429009000042	primary dimer interface [polypeptide binding]; other site
429009000043	DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989
429009000044	DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989
429009000045	DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989
429009000046	DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989
429009000047	DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989
429009000048	DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989
429009000049	pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343
429009000050	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
429009000051	active site
429009000052	multimer interface [polypeptide binding]; other site
429009000053	Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749
429009000054	imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141
429009000055	predicted active site [active]
429009000056	catalytic triad [active]
429009000057	Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451
429009000058	homodimer interface [polypeptide binding]; other site
429009000059	pyridoxal 5'-phosphate binding site [chemical binding]; other site
429009000060	catalytic residue [active]
429009000061	D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581
429009000062	Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173
429009000063	ligand binding site [chemical binding]; other site
429009000064	NAD binding site [chemical binding]; other site
429009000065	dimerization interface [polypeptide binding]; other site
429009000066	catalytic site [active]
429009000067	C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902
429009000068	putative L-serine binding site [chemical binding]; other site
429009000069	seryl-tRNA synthetase; Provisional; Region: PRK05431
429009000070	Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403
429009000071	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
429009000072	dimer interface [polypeptide binding]; other site
429009000073	active site
429009000074	motif 1; other site
429009000075	motif 2; other site
429009000076	motif 3; other site
429009000077	tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225
429009000078	phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189
429009000079	Int/Topo IB signature motif; other site
429009000080	Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443
429009000081	Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396
429009000082	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
429009000083	non-specific DNA binding site [nucleotide binding]; other site
429009000084	salt bridge; other site
429009000085	sequence-specific DNA binding site [nucleotide binding]; other site
429009000086	Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200
429009000087	sequence-specific DNA binding site [nucleotide binding]; other site
429009000088	salt bridge; other site
429009000089	CHC2 zinc finger; Region: zf-CHC2; cl17510
429009000090	Helix-turn-helix domain; Region: HTH_17; cl17695
429009000091	FOG: CBS domain [General function prediction only]; Region: COG0517
429009000092	This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in  the acetoin utilization proteins in bacteria. Acetoin is a product of fermentative metabolism in many prokaryotic and eukaryotic microorganisms.  They produce...; Region: CBS_pair_ACT_assoc; cd04584
429009000093	ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141
429009000094	Protein of unknown function (DUF4001); Region: DUF4001; pfam13165
429009000095	SCIFF radical SAM maturase; Region: rSAM_six_Cys; TIGR03974
429009000096	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
429009000097	FeS/SAM binding site; other site
429009000098	radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085
429009000099	Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739
429009000100	Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118
429009000101	G5 domain; Region: G5; pfam07501
429009000102	Peptidase family M23; Region: Peptidase_M23; pfam01551
429009000103	TPR repeat; Region: TPR_11; pfam13414
429009000104	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
429009000105	binding surface
429009000106	TPR motif; other site
429009000107	Tetratricopeptide repeat; Region: TPR_9; pfam13371
429009000108	RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409
429009000109	Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959
429009000110	Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247
429009000111	Cysteine-rich domain; Region: CCG; pfam02754
429009000112	DsrC like protein; Region: DsrC; pfam04358
429009000113	Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920
429009000114	cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077
429009000115	dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090
429009000116	Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130
429009000117	catalytic triad [active]
429009000118	CutA1 divalent ion tolerance protein; Region: CutA1; cl00584
429009000119	Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559
429009000120	Active_site [active]
429009000121	Uncharacterized ArCR, COG2043; Region: DUF169; cl00894
429009000122	HEPN domain; Region: HEPN; pfam05168
429009000123	Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403
429009000124	active site
429009000125	NTP binding site [chemical binding]; other site
429009000126	metal binding triad [ion binding]; metal-binding site
429009000127	spore cortex-lytic enzyme; Region: spore_SleB; TIGR02869
429009000128	Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471
429009000129	Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486
429009000130	Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833
429009000131	type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844
429009000132	Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782
429009000133	Transcriptional regulators [Transcription]; Region: Lrp; COG1522
429009000134	Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412
429009000135	AsnC family; Region: AsnC_trans_reg; pfam01037
429009000136	hypothetical protein; Validated; Region: PRK07682
429009000137	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
429009000138	pyridoxal 5'-phosphate binding site [chemical binding]; other site
429009000139	homodimer interface [polypeptide binding]; other site
429009000140	catalytic residue [active]
429009000141	Domain of unknown function (DUF1934); Region: DUF1934; pfam09148
429009000142	arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611
429009000143	Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016
429009000144	catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671
429009000145	active site
429009000146	HIGH motif; other site
429009000147	KMSK motif region; other site
429009000148	tRNA binding surface [nucleotide binding]; other site
429009000149	DALR anticodon binding domain; Region: DALR_1; smart00836
429009000150	anticodon binding site; other site
429009000151	CTP synthetase; Validated; Region: pyrG; PRK05380
429009000152	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
429009000153	Catalytic site [active]
429009000154	active site
429009000155	UTP binding site [chemical binding]; other site
429009000156	Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746
429009000157	active site
429009000158	putative oxyanion hole; other site
429009000159	catalytic triad [active]
429009000160	signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706
429009000161	Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023
429009000162	tandem repeat interface [polypeptide binding]; other site
429009000163	oligomer interface [polypeptide binding]; other site
429009000164	active site residues [active]
429009000165	Response regulator receiver domain; Region: Response_reg; pfam00072
429009000166	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
429009000167	active site
429009000168	phosphorylation site [posttranslational modification]
429009000169	intermolecular recognition site; other site
429009000170	dimerization interface [polypeptide binding]; other site
429009000171	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
429009000172	intersubunit interface [polypeptide binding]; other site
429009000173	active site
429009000174	zinc binding site [ion binding]; other site
429009000175	Na+ binding site [ion binding]; other site
429009000176	Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956
429009000177	active site
429009000178	intersubunit interactions; other site
429009000179	catalytic residue [active]
429009000180	transcription termination factor Rho; Provisional; Region: rho; PRK09376
429009000181	Rho termination factor, N-terminal domain; Region: Rho_N; smart00959
429009000182	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
429009000183	RNA binding site [nucleotide binding]; other site
429009000184	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
429009000185	multimer interface [polypeptide binding]; other site
429009000186	Walker A motif; other site
429009000187	ATP binding site [chemical binding]; other site
429009000188	Walker B motif; other site
429009000189	Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170
429009000190	PLD-like domain; Region: PLDc_2; pfam13091
429009000191	putative active site [active]
429009000192	catalytic site [active]
429009000193	50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019
429009000194	Protein of unknown function (DUF1385); Region: DUF1385; pfam07136
429009000195	peptide chain release factor 1; Validated; Region: prfA; PRK00591
429009000196	This domain is found in peptide chain release factors; Region: PCRF; smart00937
429009000197	RF-1 domain; Region: RF-1; pfam00472
429009000198	N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328
429009000199	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
429009000200	S-adenosylmethionine binding site [chemical binding]; other site
429009000201	pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09560
429009000202	transposase, putative, N-terminal domain; Region: tspaseT_teng_N; TIGR01765
429009000203	transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766
429009000204	Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009
429009000205	Predicted membrane protein [Function unknown]; Region: COG1971
429009000206	Domain of unknown function DUF; Region: DUF204; pfam02659
429009000207	Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394
429009000208	Low molecular weight phosphatase family; Region: LMWPc; cd00115
429009000209	active site
429009000210	Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502
429009000211	serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011
429009000212	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
429009000213	dimer interface [polypeptide binding]; other site
429009000214	active site
429009000215	glycine-pyridoxal phosphate binding site [chemical binding]; other site
429009000216	folate binding site [chemical binding]; other site
429009000217	Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286
429009000218	catalytic motif [active]
429009000219	Zn binding site [ion binding]; other site
429009000220	Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in uncharacterized protein from Archaeoglobus fulgidus (Af0060) and its bacterial homologs; Region: NTP-PPase_Af0060_like; cd11533
429009000221	homodimer interface [polypeptide binding]; other site
429009000222	metal binding site [ion binding]; metal-binding site
429009000223	UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381
429009000224	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
429009000225	active site
429009000226	homodimer interface [polypeptide binding]; other site
429009000227	Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527
429009000228	F0F1 ATP synthase subunit A; Validated; Region: PRK05815
429009000229	F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356
429009000230	F0F1 ATP synthase subunit C; Validated; Region: PRK06876
429009000231	F0F1 ATP synthase subunit B; Validated; Region: PRK05759
429009000232	F0F1 ATP synthase subunit B; Provisional; Region: PRK13461
429009000233	F0F1 ATP synthase subunit delta; Provisional; Region: PRK13429
429009000234	F0F1 ATP synthase subunit delta; Validated; Region: PRK05758
429009000235	F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281
429009000236	ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874
429009000237	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
429009000238	beta subunit interaction interface [polypeptide binding]; other site
429009000239	Walker A motif; other site
429009000240	ATP binding site [chemical binding]; other site
429009000241	Walker B motif; other site
429009000242	ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306
429009000243	mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151
429009000244	core domain interface [polypeptide binding]; other site
429009000245	delta subunit interface [polypeptide binding]; other site
429009000246	epsilon subunit interface [polypeptide binding]; other site
429009000247	F0F1 ATP synthase subunit beta; Validated; Region: PRK09280
429009000248	ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874
429009000249	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
429009000250	alpha subunit interaction interface [polypeptide binding]; other site
429009000251	Walker A motif; other site
429009000252	ATP binding site [chemical binding]; other site
429009000253	Walker B motif; other site
429009000254	inhibitor binding site; inhibition site
429009000255	ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306
429009000256	mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152
429009000257	gamma subunit interface [polypeptide binding]; other site
429009000258	LBP interface [polypeptide binding]; other site
429009000259	Stage II sporulation protein; Region: SpoIID; pfam08486
429009000260	SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669
429009000261	Stage III sporulation protein D; Region: SpoIIID; pfam12116
429009000262	Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404
429009000263	Peptidase S8 family domain in Kp43 proteases; Region: Peptidases_S8_Kp43_protease; cd04842
429009000264	active site
429009000265	catalytic triad [active]
429009000266	S-layer homology domain; Region: SLH; pfam00395
429009000267	S-layer homology domain; Region: SLH; pfam00395
429009000268	mycothiol system anti-sigma-R factor; Region: antisig_RsrA; cl15806
429009000269	RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652
429009000270	Sigma-70 region 2; Region: Sigma70_r2; pfam04542
429009000271	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
429009000272	DNA binding residues [nucleotide binding]
429009000273	DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179
429009000274	Ligand binding site; other site
429009000275	Putative Catalytic site; other site
429009000276	DXD motif; other site
429009000277	Protein of unknown function (DUF1462); Region: DUF1462; cl11552
429009000278	4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnE; Provisional; Region: PRK15051
429009000279	4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337
429009000280	UbiA prenyltransferase family; Region: UbiA; pfam01040
429009000281	helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347
429009000282	MarR family; Region: MarR; pfam01047
429009000283	RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730
429009000284	Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533
429009000285	HlyD family secretion protein; Region: HlyD_3; pfam13437
429009000286	Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566
429009000287	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
429009000288	HlyD family secretion protein; Region: HlyD_3; pfam13437
429009000289	drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711
429009000290	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
429009000291	putative substrate translocation pore; other site
429009000292	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
429009000293	Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922
429009000294	The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533
429009000295	Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; COG2327
429009000296	polysaccharide pyruvyl transferase CsaB; Region: S_layer_CsaB; TIGR03609
429009000297	O-Antigen ligase; Region: Wzy_C; cl04850
429009000298	Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438
429009000299	This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801
429009000300	Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: GT1_like_1; cd04950
429009000301	Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438
429009000302	putative homodimer interface [polypeptide binding]; other site
429009000303	threonine synthase; Validated; Region: PRK08197
429009000304	Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of  threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563
429009000305	homodimer interface [polypeptide binding]; other site
429009000306	pyridoxal 5'-phosphate binding site [chemical binding]; other site
429009000307	catalytic residue [active]
429009000308	YheO-like PAS domain; Region: PAS_6; pfam08348
429009000309	Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964
429009000310	HTH domain; Region: HTH_22; pfam13309
429009000311	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
429009000312	homotrimer interaction site [polypeptide binding]; other site
429009000313	putative active site [active]
429009000314	Nucleoside recognition; Region: Gate; pfam07670
429009000315	Uncharacterized membrane protein [Function unknown]; Region: SpmB; cl17667
429009000316	Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301
429009000317	Sodium:dicarboxylate symporter family; Region: SDF; pfam00375
429009000318	sporulation integral membrane protein YlbJ; Region: spore_ylbJ; TIGR02871
429009000319	Nucleoside recognition; Region: Gate; pfam07670
429009000320	phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168
429009000321	Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163
429009000322	active site
429009000323	(T/H)XGH motif; other site
429009000324	Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602
429009000325	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
429009000326	S-adenosylmethionine binding site [chemical binding]; other site
429009000327	Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396
429009000328	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
429009000329	non-specific DNA binding site [nucleotide binding]; other site
429009000330	salt bridge; other site
429009000331	sequence-specific DNA binding site [nucleotide binding]; other site
429009000332	Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396
429009000333	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
429009000334	non-specific DNA binding site [nucleotide binding]; other site
429009000335	salt bridge; other site
429009000336	sequence-specific DNA binding site [nucleotide binding]; other site
429009000337	Bacterial Ig-like domain (group 1); Region: Big_1; cl17740
429009000338	Bacterial Ig-like domain; Region: Big_5; pfam13205
429009000339	Fn3 associated; Region: Fn3_assoc; pfam13287
429009000340	Bacterial Ig-like domain; Region: Big_5; pfam13205
429009000341	S-layer homology domain; Region: SLH; pfam00395
429009000342	S-layer homology domain; Region: SLH; pfam00395
429009000343	Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452
429009000344	Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762
429009000345	DNA binding residues [nucleotide binding]
429009000346	Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of...; Region: SR_IS607_transposase_like; cd03769
429009000347	catalytic residues [active]
429009000348	catalytic nucleophile [active]
429009000349	Probable transposase; Region: OrfB_IS605; pfam01385
429009000350	Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282
429009000351	germination protease; Provisional; Region: PRK12362
429009000352	Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269
429009000353	Y-family of DNA polymerases; Region: PolY; cl12025
429009000354	ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917
429009000355	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
429009000356	putative Mg++ binding site [ion binding]; other site
429009000357	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
429009000358	nucleotide binding region [chemical binding]; other site
429009000359	ATP-binding site [chemical binding]; other site
429009000360	Winged helix-turn helix; Region: HTH_29; pfam13551
429009000361	Homeodomain-like domain; Region: HTH_23; pfam13384
429009000362	Homeodomain-like domain; Region: HTH_32; pfam13565
429009000363	Integrase core domain; Region: rve; pfam00665
429009000364	Integrase core domain; Region: rve_3; pfam13683
429009000365	30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270
429009000366	YabP family; Region: YabP; cl06766
429009000367	Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452
429009000368	Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762
429009000369	DNA binding residues [nucleotide binding]
429009000370	Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of...; Region: SR_IS607_transposase_like; cd03769
429009000371	catalytic residues [active]
429009000372	catalytic nucleophile [active]
429009000373	Probable transposase; Region: OrfB_IS605; pfam01385
429009000374	Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282
429009000375	sporulation protein YqfD; Region: spore_yqfD; TIGR02876
429009000376	Putative stage IV sporulation protein YqfD; Region: YqfD; pfam06898
429009000377	Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702
429009000378	PhoH-like protein; Region: PhoH; pfam02562
429009000379	Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480
429009000380	7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698
429009000381	Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077
429009000382	Zn2+ binding site [ion binding]; other site
429009000383	Mg2+ binding site [ion binding]; other site
429009000384	metal-binding heat shock protein; Provisional; Region: PRK00016
429009000385	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
429009000386	active site
429009000387	catalytic motif [active]
429009000388	Zn binding site [ion binding]; other site
429009000389	GTPase Era; Reviewed; Region: era; PRK00089
429009000390	E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163
429009000391	G1 box; other site
429009000392	GTP/Mg2+ binding site [chemical binding]; other site
429009000393	Switch I region; other site
429009000394	G2 box; other site
429009000395	Switch II region; other site
429009000396	G3 box; other site
429009000397	G4 box; other site
429009000398	G5 box; other site
429009000399	KH domain; Region: KH_2; pfam07650
429009000400	3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163
429009000401	Flavoprotein; Region: Flavoprotein; pfam02441
429009000402	Protein of unknown function (DUF1614); Region: DUF1614; pfam07758
429009000403	Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537
429009000404	nucleotide binding site/active site [active]
429009000405	HIT family signature motif; other site
429009000406	catalytic residue [active]
429009000407	Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071
429009000408	Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745
429009000409	catalytic triad [active]
429009000410	thiamine-phosphate pyrophosphorylase; Provisional; Region: PRK02615
429009000411	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
429009000412	thiamine phosphate binding site [chemical binding]; other site
429009000413	active site
429009000414	pyrophosphate binding site [ion binding]; other site
429009000415	thiamine biosynthesis protein ThiC; Provisional; Region: PRK13352
429009000416	thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190
429009000417	thiamine monophosphate kinase; Provisional; Region: PRK05731
429009000418	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
429009000419	ATP binding site [chemical binding]; other site
429009000420	dimerization interface [polypeptide binding]; other site
429009000421	Predicted ATPase or kinase [General function prediction only]; Region: COG0802
429009000422	tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725
429009000423	Glycoprotease family; Region: Peptidase_M22; pfam00814
429009000424	ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575
429009000425	N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301
429009000426	Coenzyme A binding pocket [chemical binding]; other site
429009000427	UGMP family protein; Validated; Region: PRK09604
429009000428	tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725
429009000429	FdhD/NarQ family; Region: FdhD-NarQ; pfam02634
429009000430	Transposase domain (DUF772); Region: DUF772; pfam05598
429009000431	Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751
429009000432	Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675
429009000433	transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766
429009000434	Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383
429009000435	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
429009000436	catalytic loop [active]
429009000437	iron binding site [ion binding]; other site
429009000438	NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588
429009000439	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
429009000440	Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753
429009000441	[4Fe-4S] binding site [ion binding]; other site
429009000442	molybdopterin cofactor binding site; other site
429009000443	Molybdopterin-Binding, C-terminal (MopB_CT) 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-...; Region: MopB_CT; cl09929
429009000444	molybdopterin cofactor binding site; other site
429009000445	Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980
429009000446	dimer interface [polypeptide binding]; other site
429009000447	[2Fe-2S] cluster binding site [ion binding]; other site
429009000448	NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894
429009000449	SLBB domain; Region: SLBB; pfam10531
429009000450	NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589
429009000451	4Fe-4S binding domain; Region: Fer4; pfam00037
429009000452	4Fe-4S dicluster domain; Region: Fer4_7; pfam12838
429009000453	Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257
429009000454	TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064
429009000455	putative dimer interface [polypeptide binding]; other site
429009000456	[2Fe-2S] cluster binding site [ion binding]; other site
429009000457	5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727
429009000458	5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812
429009000459	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
429009000460	oligomerisation interface [polypeptide binding]; other site
429009000461	mobile loop; other site
429009000462	roof hairpin; other site
429009000463	chaperonin GroEL; Reviewed; Region: groEL; PRK12849
429009000464	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
429009000465	ring oligomerisation interface [polypeptide binding]; other site
429009000466	ATP/Mg binding site [chemical binding]; other site
429009000467	stacking interactions; other site
429009000468	hinge regions; other site
429009000469	Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031
429009000470	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
429009000471	dimer interface [polypeptide binding]; other site
429009000472	pyridoxal 5'-phosphate binding site [chemical binding]; other site
429009000473	catalytic residue [active]
429009000474	Adenylate forming domain, Class I; Region: AFD_class_I; cl17068
429009000475	Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541
429009000476	acyl-activating enzyme (AAE) consensus motif; other site
429009000477	AMP binding site [chemical binding]; other site
429009000478	active site
429009000479	CoA binding site [chemical binding]; other site
429009000480	indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336
429009000481	Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034
429009000482	dimer interface [polypeptide binding]; other site
429009000483	PYR/PP interface [polypeptide binding]; other site
429009000484	TPP binding site [chemical binding]; other site
429009000485	substrate binding site [chemical binding]; other site
429009000486	Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008
429009000487	TPP-binding site; other site
429009000488	4Fe-4S binding domain; Region: Fer4; pfam00037
429009000489	indolepyruvate oxidoreductase subunit beta; Reviewed; Region: PRK06853
429009000490	2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537
429009000491	Adenylate forming domain, Class I; Region: AFD_class_I; cl17068
429009000492	phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155
429009000493	acyl-activating enzyme (AAE) consensus motif; other site
429009000494	AMP binding site [chemical binding]; other site
429009000495	active site
429009000496	CoA binding site [chemical binding]; other site
429009000497	ACT domain-containing protein [General function prediction only]; Region: COG4747
429009000498	N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains; Region: ACT_Bt0572_1; cd04908
429009000499	C-terminal ACT domain of a novel protein composed of just two ACT domains; Region: ACT_Bt0572_2; cd04882
429009000500	YtxC-like family; Region: YtxC; cl08500
429009000501	Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281
429009000502	Malic enzyme, N-terminal domain; Region: malic; pfam00390
429009000503	NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311
429009000504	putative NAD(P) binding site [chemical binding]; other site
429009000505	tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037
429009000506	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
429009000507	Ligand Binding Site [chemical binding]; other site
429009000508	TIGR00269 family protein; Region: TIGR00269
429009000509	Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075
429009000510	sensory histidine kinase AtoS; Provisional; Region: PRK11360
429009000511	PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130
429009000512	putative active site [active]
429009000513	heme pocket [chemical binding]; other site
429009000514	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
429009000515	dimer interface [polypeptide binding]; other site
429009000516	phosphorylation site [posttranslational modification]
429009000517	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
429009000518	ATP binding site [chemical binding]; other site
429009000519	Mg2+ binding site [ion binding]; other site
429009000520	G-X-G motif; other site
429009000521	Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204
429009000522	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
429009000523	active site
429009000524	phosphorylation site [posttranslational modification]
429009000525	intermolecular recognition site; other site
429009000526	dimerization interface [polypeptide binding]; other site
429009000527	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
429009000528	Walker A motif; other site
429009000529	ATP binding site [chemical binding]; other site
429009000530	Walker B motif; other site
429009000531	arginine finger; other site
429009000532	Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954
429009000533	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
429009000534	Ligand Binding Site [chemical binding]; other site
429009000535	Predicted permeases [General function prediction only]; Region: COG0730
429009000536	AAA domain; Region: AAA_32; pfam13654
429009000537	ATP-dependent protease Lon; Provisional; Region: PRK13765
429009000538	Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362
429009000539	Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350
429009000540	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
429009000541	DNA binding site [nucleotide binding]
429009000542	active site
429009000543	50S ribosomal protein L21; Validated; Region: rplU; PRK05573
429009000544	50S ribosomal protein L27; Validated; Region: rpmA; PRK05435
429009000545	cobyric acid synthase; Provisional; Region: PRK00784
429009000546	dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090
429009000547	Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750
429009000548	catalytic triad [active]
429009000549	cofactor-independent phosphoglycerate mutase; Provisional; Region: PRK04200
429009000550	2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: PhosphMutase; cl17294
429009000551	cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077
429009000552	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
429009000553	Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130
429009000554	catalytic triad [active]
429009000555	Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290
429009000556	GTPase CgtA; Reviewed; Region: obgE; PRK12297
429009000557	GTP1/OBG; Region: GTP1_OBG; pfam01018
429009000558	Obg GTPase; Region: Obg; cd01898
429009000559	G1 box; other site
429009000560	GTP/Mg2+ binding site [chemical binding]; other site
429009000561	Switch I region; other site
429009000562	G2 box; other site
429009000563	G3 box; other site
429009000564	Switch II region; other site
429009000565	G4 box; other site
429009000566	G5 box; other site
429009000567	gamma-glutamyl kinase; Provisional; Region: PRK05429
429009000568	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
429009000569	nucleotide binding site [chemical binding]; other site
429009000570	homotetrameric interface [polypeptide binding]; other site
429009000571	putative phosphate binding site [ion binding]; other site
429009000572	putative allosteric binding site; other site
429009000573	PUA domain; Region: PUA; pfam01472
429009000574	FHIT (fragile histidine family): FHIT proteins, related to the HIT family carry a motif HxHxH/Qxx (x, is a hydrophobic amino acid), On the basis of sequence, substrate specificity, structure, evolution and mechanism, HIT proteins are classified into...; Region: FHIT; cd01275
429009000575	nucleotide binding site/active site [active]
429009000576	HIT family signature motif; other site
429009000577	catalytic residue [active]
429009000578	Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079
429009000579	gamma-glutamyl phosphate reductase; Region: proA; TIGR00407
429009000580	putative catalytic cysteine [active]
429009000581	N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860
429009000582	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
429009000583	active site
429009000584	metal binding site [ion binding]; metal-binding site
429009000585	nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071
429009000586	Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165
429009000587	active site
429009000588	(T/H)XGH motif; other site
429009000589	RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399
429009000590	Oligomerisation domain; Region: Oligomerisation; pfam02410
429009000591	diaminopimelate aminotransferase; Provisional; Region: PRK13983
429009000592	M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like1; cd05650
429009000593	metal binding site [ion binding]; metal-binding site
429009000594	Winged helix-turn helix; Region: HTH_29; pfam13551
429009000595	Homeodomain-like domain; Region: HTH_23; pfam13384
429009000596	Homeodomain-like domain; Region: HTH_32; pfam13565
429009000597	Integrase core domain; Region: rve; pfam00665
429009000598	Integrase core domain; Region: rve_3; pfam13683
429009000599	c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206
429009000600	Domain of unknown function (DUF3391); Region: DUF3391; pfam11871
429009000601	Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077
429009000602	Zn2+ binding site [ion binding]; other site
429009000603	Mg2+ binding site [ion binding]; other site
429009000604	Cortical fragment-lytic enzyme (CFLE) is a peptidoglycan hydrolase involved in  bacterial endospore germination.  CFLE is expressed as an inactive preprotein (called SleB) in the forespore compartment of sporulating cells.  SleB translocates across the...; Region: GH18_CFLE_spore_hydrolase; cd02874
429009000605	Glyco_18 domain; Region: Glyco_18; smart00636
429009000606	active site
429009000607	Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265
429009000608	Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365
429009000609	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
429009000610	protein binding site [polypeptide binding]; other site
429009000611	Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872
429009000612	D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768
429009000613	Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936
429009000614	Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283
429009000615	Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690
429009000616	Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690
429009000617	Uncharacterized conserved protein [Function unknown]; Region: COG1543
429009000618	N-terminal catalytic domain of  alpha-amylase ( AmyC ) and similar proteins; Region: GH57N_AmyC_like; cd10792
429009000619	active site
429009000620	substrate binding site [chemical binding]; other site
429009000621	catalytic site [active]
429009000622	Domain of unknown function (DUF1957); Region: DUF1957; pfam09210
429009000623	Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438
429009000624	This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801
429009000625	Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387
429009000626	Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723
429009000627	Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723
429009000628	CIMS - Cobalamine-independent methonine synthase, or MetE. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme catalyses the last step in...; Region: CIMS_like; cd03310
429009000629	histidinol-phosphatase; Provisional; Region: PRK07328
429009000630	Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase of Hisj like; Region: PHP_HisPPase_Hisj_like; cd12110
429009000631	active site
429009000632	dimer interface [polypeptide binding]; other site
429009000633	pyruvoyl-dependent arginine decarboxylase; Reviewed; Region: PRK01285
429009000634	spermidine synthase; Provisional; Region: PRK00811
429009000635	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
429009000636	S-adenosylmethionine binding site [chemical binding]; other site
429009000637	agmatinase; Region: agmatinase; TIGR01230
429009000638	Agmatinase and related proteins; Region: Agmatinase-like_2; cd11593
429009000639	putative active site [active]
429009000640	Mn binding site [ion binding]; other site
429009000641	Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482
429009000642	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
429009000643	Ligand Binding Site [chemical binding]; other site
429009000644	Predicted methyltransferases [General function prediction only]; Region: COG1568
429009000645	HemN C-terminal domain; Region: HemN_C; pfam06969
429009000646	ribonuclease R; Region: RNase_R; TIGR02063
429009000647	Ribonuclease B OB domain; Region: OB_RNB; pfam08206
429009000648	RNB domain; Region: RNB; pfam00773
429009000649	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
429009000650	RNA binding site [nucleotide binding]; other site
429009000651	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
429009000652	23S rRNA interface [nucleotide binding]; other site
429009000653	L3 interface [polypeptide binding]; other site
429009000654	30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132
429009000655	N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860
429009000656	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
429009000657	active site
429009000658	metal binding site [ion binding]; metal-binding site
429009000659	Serine dehydrogenase proteinase; Region: SDH_sah; pfam01972
429009000660	Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763
429009000661	active site
429009000662	LysE type translocator; Region: LysE; cl00565
429009000663	hypothetical protein; Provisional; Region: PRK03881
429009000664	The N-terminal domain, an extradiol dioxygenase class III subunit B-like domain, of unknown proteins containing a C-terminal AMMECR1 domain; Region: ED_3B_N_AMMECR1; cd07951
429009000665	AMMECR1; Region: AMMECR1; pfam01871
429009000666	AmmeMemoRadiSam system radical SAM enzyme; Region: AmmeMemoSam_rS; TIGR04337
429009000667	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
429009000668	FeS/SAM binding site; other site
429009000669	Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115
429009000670	D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558
429009000671	homodimer interface [polypeptide binding]; other site
429009000672	substrate-cofactor binding pocket; other site
429009000673	pyridoxal 5'-phosphate binding site [chemical binding]; other site
429009000674	catalytic residue [active]
429009000675	dihydroxy-acid dehydratase; Provisional; Region: PRK00911
429009000676	6-phosphogluconate dehydratase; Region: edd; TIGR01196
429009000677	acetolactate synthase 3 catalytic subunit; Reviewed; Region: PRK06048
429009000678	Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035
429009000679	PYR/PP interface [polypeptide binding]; other site
429009000680	dimer interface [polypeptide binding]; other site
429009000681	TPP binding site [chemical binding]; other site
429009000682	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; cd00368
429009000683	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
429009000684	TPP-binding site [chemical binding]; other site
429009000685	dimer interface [polypeptide binding]; other site
429009000686	acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895
429009000687	N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878
429009000688	putative valine binding site [chemical binding]; other site
429009000689	dimer interface [polypeptide binding]; other site
429009000690	Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369
429009000691	ketol-acid reductoisomerase; Provisional; Region: PRK05479
429009000692	Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991
429009000693	Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450
429009000694	2-isopropylmalate synthase; Validated; Region: PRK00915
429009000695	2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940
429009000696	active site
429009000697	catalytic residues [active]
429009000698	metal binding site [ion binding]; metal-binding site
429009000699	LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502
429009000700	3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402
429009000701	3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583
429009000702	substrate binding site [chemical binding]; other site
429009000703	ligand binding site [chemical binding]; other site
429009000704	3-isopropylmalate dehydratase small subunit; Reviewed; Region: leuD; PRK00439
429009000705	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
429009000706	substrate binding site [chemical binding]; other site
429009000707	putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344
429009000708	Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941
429009000709	active site
429009000710	catalytic residues [active]
429009000711	metal binding site [ion binding]; metal-binding site
429009000712	LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917
429009000713	phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316
429009000714	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
429009000715	active site
429009000716	substrate binding site [chemical binding]; other site
429009000717	metal binding site [ion binding]; metal-binding site
429009000718	glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331
429009000719	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
429009000720	glutaminase active site [active]
429009000721	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
429009000722	dimer interface [polypeptide binding]; other site
429009000723	active site
429009000724	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
429009000725	dimer interface [polypeptide binding]; other site
429009000726	active site
429009000727	Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051
429009000728	dimanganese center [ion binding]; other site
429009000729	CotJB protein; Region: CotJB; pfam12652
429009000730	Spore coat associated protein JA (CotJA); Region: CotJA; pfam11007
429009000731	Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452
429009000732	Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600
429009000733	DNA binding residues [nucleotide binding]
429009000734	Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of...; Region: SR_IS607_transposase_like; cd03769
429009000735	catalytic residues [active]
429009000736	catalytic nucleophile [active]
429009000737	transposase, putative, N-terminal domain; Region: tspaseT_teng_N; TIGR01765
429009000738	transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766
429009000739	flagellar motor protein MotS; Reviewed; Region: PRK06925
429009000740	Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677
429009000741	Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185
429009000742	ligand binding site [chemical binding]; other site
429009000743	Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291
429009000744	MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568
429009000745	2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982
429009000746	ABC1 family; Region: ABC1; cl17513
429009000747	PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs; Region: PIN_Pae0151; cd09873
429009000748	putative active site [active]
429009000749	homotetrameric interface [polypeptide binding]; other site
429009000750	metal binding site [ion binding]; metal-binding site
429009000751	CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732
429009000752	putative CheA interaction surface; other site
429009000753	Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643
429009000754	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
429009000755	putative binding surface; other site
429009000756	active site
429009000757	P2 response regulator binding domain; Region: P2; pfam07194
429009000758	Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895
429009000759	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
429009000760	ATP binding site [chemical binding]; other site
429009000761	Mg2+ binding site [ion binding]; other site
429009000762	G-X-G motif; other site
429009000763	CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731
429009000764	flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824
429009000765	Flagellar hook-associated protein [Cell motility and secretion]; Region: FlgK; COG1256
429009000766	Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460
429009000767	Flagellin hook IN motif; Region: Flagellin_IN; pfam07196
429009000768	Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429
429009000769	flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK07701
429009000770	Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669
429009000771	Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700
429009000772	flagellin; Provisional; Region: PRK12804
429009000773	Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669
429009000774	Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700
429009000775	UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511
429009000776	putative metal binding site; other site
429009000777	TPR repeat; Region: TPR_11; pfam13414
429009000778	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
429009000779	binding surface
429009000780	TPR motif; other site
429009000781	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
429009000782	binding surface
429009000783	TPR motif; other site
429009000784	Tetratricopeptide repeat; Region: TPR_16; pfam13432
429009000785	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
429009000786	TPR motif; other site
429009000787	FlaG protein; Region: FlaG; pfam03646
429009000788	Flagellar capping protein [Cell motility and secretion]; Region: FliD; COG1345
429009000789	Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465
429009000790	Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195
429009000791	Flagellin-specific chaperone FliS [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliS; COG1516
429009000792	Methyltransferase domain; Region: Methyltransf_23; pfam13489
429009000793	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
429009000794	S-adenosylmethionine binding site [chemical binding]; other site
429009000795	Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641
429009000796	Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186
429009000797	Probable Catalytic site; other site
429009000798	metal-binding site
429009000799	Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438
429009000800	This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801
429009000801	Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641
429009000802	Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186
429009000803	Probable Catalytic site; other site
429009000804	metal-binding site
429009000805	G1P_TT_long represents the long form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_long; cd04189
429009000806	glucose-1-phosphate thymidylylransferase, long form; Region: rmlA_long; TIGR01208
429009000807	substrate binding site; other site
429009000808	metal-binding site
429009000809	Oligomer interface; other site
429009000810	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
429009000811	dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfbC; COG1898
429009000812	dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088
429009000813	dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246
429009000814	NAD binding site [chemical binding]; other site
429009000815	substrate binding site [chemical binding]; other site
429009000816	homodimer interface [polypeptide binding]; other site
429009000817	active site
429009000818	Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118
429009000819	PIN domain of the hypothetical protein MT3492 of Mycobacterium tuberculosis CDC1551 and other uncharacterized, annotated PilT protein domain proteins; Region: PIN_MT3492; cd09874
429009000820	putative active site [active]
429009000821	Protein of unknown function (DUF433); Region: DUF433; pfam04255
429009000822	transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766
429009000823	Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118
429009000824	Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282
429009000825	Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452
429009000826	Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762
429009000827	DNA binding residues [nucleotide binding]
429009000828	Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of...; Region: SR_IS607_transposase_like; cd03769
429009000829	catalytic residues [active]
429009000830	catalytic nucleophile [active]
429009000831	Periplasmic binding protein; Region: Peripla_BP_2; pfam01497
429009000832	Periplasmic binding protein TroA_d.  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_d; cd01141
429009000833	putative ligand binding site [chemical binding]; other site
429009000834	iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577
429009000835	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
429009000836	ABC-ATPase subunit  interface; other site
429009000837	dimer interface [polypeptide binding]; other site
429009000838	putative PBP binding regions; other site
429009000839	Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4634
429009000840	Protein of unknown function (DUF433); Region: DUF433; pfam04255
429009000841	ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120
429009000842	ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214
429009000843	Walker A/P-loop; other site
429009000844	ATP binding site [chemical binding]; other site
429009000845	Q-loop/lid; other site
429009000846	ABC transporter signature motif; other site
429009000847	Walker B; other site
429009000848	D-loop; other site
429009000849	H-loop/switch region; other site
429009000850	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
429009000851	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
429009000852	molybdopterin cofactor binding site; other site
429009000853	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
429009000854	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
429009000855	molybdopterin cofactor binding site; other site
429009000856	DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951
429009000857	formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562
429009000858	cytochrome c nitrate reductase, small subunit; Region: cytochr_NrfH; TIGR03153
429009000859	3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557
429009000860	Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931
429009000861	NAD(P) binding site [chemical binding]; other site
429009000862	active site
429009000863	Hydrogenase specific C-terminal endopeptidases, also called Hydrogen Maturation Proteases (H2MP). These enzymes belong to the peptidase family M52. Maturation of [FeNi] hydrogenases includes formation of the nickel metallocenter, proteolytic processing...; Region: H2MP; cd00518
429009000864	nickel binding site [ion binding]; other site
429009000865	[FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512
429009000866	4Fe-4S binding domain; Region: Fer4; pfam00037
429009000867	Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906
429009000868	Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256
429009000869	4Fe-4S dicluster domain; Region: Fer4_11; pfam13247
429009000870	Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901
429009000871	Polysulphide reductase, NrfD; Region: NrfD; pfam03916
429009000872	RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651
429009000873	Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078
429009000874	putative active site [active]
429009000875	putative NTP binding site [chemical binding]; other site
429009000876	putative nucleic acid binding site [nucleotide binding]; other site
429009000877	Group II intron, maturase-specific domain; Region: GIIM; pfam08388
429009000878	valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729
429009000879	catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817
429009000880	HIGH motif; other site
429009000881	Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603
429009000882	catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817
429009000883	active site
429009000884	KMSKS motif; other site
429009000885	Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962
429009000886	tRNA binding surface [nucleotide binding]; other site
429009000887	anticodon binding site; other site
429009000888	Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285
429009000889	Mur ligase middle domain; Region: Mur_ligase_M; pfam08245
429009000890	Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875
429009000891	Spore germination protein; Region: Spore_permease; cl17796
429009000892	Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323
429009000893	germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887
429009000894	Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504
429009000895	Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220
429009000896	metal-dependent hydrolase; Provisional; Region: PRK00685
429009000897	fumarate hydratase; Provisional; Region: PRK06246
429009000898	Fumarase C-terminus; Region: Fumerase_C; pfam05683
429009000899	selenophosphate synthetase; Provisional; Region: PRK00943
429009000900	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
429009000901	dimerization interface [polypeptide binding]; other site
429009000902	putative ATP binding site [chemical binding]; other site
429009000903	AIR carboxylase; Region: AIRC; pfam00731
429009000904	adenylosuccinate lyase; Provisional; Region: PRK07380
429009000905	Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360
429009000906	tetramer interface [polypeptide binding]; other site
429009000907	active site
429009000908	phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362
429009000909	bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415
429009000910	ATP binding site [chemical binding]; other site
429009000911	active site
429009000912	substrate binding site [chemical binding]; other site
429009000913	Glutamine phosphoribosylpyrophosphate amidotransferase [Nucleotide transport and metabolism]; Region: PurF; COG0034
429009000914	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
429009000915	active site
429009000916	tetramer interface [polypeptide binding]; other site
429009000917	Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223
429009000918	active site
429009000919	phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385
429009000920	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
429009000921	dimerization interface [polypeptide binding]; other site
429009000922	putative ATP binding site [chemical binding]; other site
429009000923	bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881
429009000924	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
429009000925	purine monophosphate binding site [chemical binding]; other site
429009000926	dimer interface [polypeptide binding]; other site
429009000927	putative catalytic residues [active]
429009000928	AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798
429009000929	AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362
429009000930	phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885
429009000931	Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844
429009000932	Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071
429009000933	Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843
429009000934	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
429009000935	histidinol dehydrogenase; Region: hisD; TIGR00069
429009000936	NAD binding site [chemical binding]; other site
429009000937	dimerization interface [polypeptide binding]; other site
429009000938	product binding site; other site
429009000939	substrate binding site [chemical binding]; other site
429009000940	zinc binding site [ion binding]; other site
429009000941	catalytic residues [active]
429009000942	Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914
429009000943	putative active site pocket [active]
429009000944	4-fold oligomerization interface [polypeptide binding]; other site
429009000945	metal binding residues [ion binding]; metal-binding site
429009000946	3-fold/trimer interface [polypeptide binding]; other site
429009000947	imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141
429009000948	Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748
429009000949	putative active site [active]
429009000950	oxyanion strand; other site
429009000951	catalytic triad [active]
429009000952	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
429009000953	phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007
429009000954	catalytic residues [active]
429009000955	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
429009000956	Histidine biosynthesis protein; Region: His_biosynth; pfam00977
429009000957	substrate binding site [chemical binding]; other site
429009000958	glutamase interaction surface [polypeptide binding]; other site
429009000959	bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759
429009000960	phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051
429009000961	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
429009000962	metal binding site [ion binding]; metal-binding site
429009000963	This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801
429009000964	Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438
429009000965	2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: pgm_bpd_ind; TIGR01307
429009000966	B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068
429009000967	Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729
429009000968	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
429009000969	FeS/SAM binding site; other site
429009000970	putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055
429009000971	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
429009000972	FeS/SAM binding site; other site
429009000973	radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085
429009000974	Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082
429009000975	Herpes virus protein UL24; Region: Herpes_UL24; cl17308
429009000976	Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386
429009000977	transposase, putative, N-terminal domain; Region: tspaseT_teng_N; TIGR01765
429009000978	transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766
429009000979	Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282
429009000980	2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: pgm_bpd_ind; TIGR01307
429009000981	Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257
429009000982	TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064
429009000983	putative dimer interface [polypeptide binding]; other site
429009000984	[2Fe-2S] cluster binding site [ion binding]; other site
429009000985	Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980
429009000986	dimer interface [polypeptide binding]; other site
429009000987	[2Fe-2S] cluster binding site [ion binding]; other site
429009000988	NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894
429009000989	SLBB domain; Region: SLBB; pfam10531
429009000990	NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589
429009000991	4Fe-4S dicluster domain; Region: Fer4_7; pfam12838
429009000992	4Fe-4S binding domain; Region: Fer4; pfam00037
429009000993	NADH-quinone oxidoreductase, chain G; Region: NuoG; TIGR01973
429009000994	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
429009000995	catalytic loop [active]
429009000996	iron binding site [ion binding]; other site
429009000997	NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; smart00929
429009000998	4Fe-4S binding domain; Region: Fer4; pfam00037
429009000999	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
429009001000	molybdopterin cofactor binding site; other site
429009001001	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
429009001002	Prismane/CO dehydrogenase family; Region: Prismane; pfam03063
429009001003	ACS interaction site; other site
429009001004	CODH interaction site; other site
429009001005	metal cluster binding site [ion binding]; other site
429009001006	bifunctional acetyl-CoA decarbonylase/synthase complex subunit alpha/beta; Reviewed; Region: PRK09529
429009001007	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
429009001008	metal cluster binding site [ion binding]; other site
429009001009	CO dehydrogenase/acetyl-CoA synthase complex beta subunit; Region: CdhC; pfam03598
429009001010	acetyl-CoA decarbonylase/synthase complex subunit gamma; Provisional; Region: PRK04165
429009001011	Putative Fe-S cluster; Region: FeS; pfam04060
429009001012	acetyl-CoA decarbonylase/synthase complex subunit delta; Provisional; Region: PRK04452
429009001013	Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894
429009001014	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
429009001015	catalytic loop [active]
429009001016	iron binding site [ion binding]; other site
429009001017	CO dehydrogenase maturation factor [Cell division and chromosome partitioning]; Region: CooC; COG3640
429009001018	The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible...; Region: CooC; cd02034
429009001019	P-loop; other site
429009001020	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
429009001021	acetyl-CoA decarbonylase/synthase complex subunit delta; Provisional; Region: PRK04452
429009001022	methyltetrahydrofolate:corrinoid/iron-sulfur protein methyltransferase; Validated; Region: PRK07535
429009001023	Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410
429009001024	substrate binding pocket [chemical binding]; other site
429009001025	dimer interface [polypeptide binding]; other site
429009001026	inhibitor binding site; inhibition site
429009001027	4Fe-4S dicluster domain; Region: Fer4_7; pfam12838
429009001028	4Fe-4S binding domain; Region: Fer4; pfam00037
429009001029	Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148
429009001030	NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500
429009001031	4Fe-4S binding domain; Region: Fer4_6; pfam12837
429009001032	4Fe-4S dicluster domain; Region: Fer4_7; pfam12838
429009001033	Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662
429009001034	Methylene-tetrahydrofolate reductase C terminal; Region: MTHFR_C; pfam12225
429009001035	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
429009001036	FAD binding site [chemical binding]; other site
429009001037	dihydrodipicolinate reductase; Provisional; Region: PRK00048
429009001038	Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113
429009001039	Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173
429009001040	dipicolinate synthase subunit A; Reviewed; Region: PRK08306
429009001041	D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain; Region: 2-Hacid_dh_C; pfam02826
429009001042	dipicolinate synthase subunit B; Reviewed; Region: spoVFB; PRK08305
429009001043	aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874
429009001044	Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859
429009001045	Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950
429009001046	dihydrodipicolinate synthase; Region: dapA; TIGR00674
429009001047	dimer interface [polypeptide binding]; other site
429009001048	active site
429009001049	catalytic residue [active]
429009001050	ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600
429009001051	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
429009001052	dimer interface [polypeptide binding]; other site
429009001053	conserved gate region; other site
429009001054	putative PBP binding loops; other site
429009001055	ABC-ATPase subunit interface; other site
429009001056	ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116
429009001057	ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293
429009001058	Walker A/P-loop; other site
429009001059	ATP binding site [chemical binding]; other site
429009001060	Q-loop/lid; other site
429009001061	ABC transporter signature motif; other site
429009001062	Walker B; other site
429009001063	D-loop; other site
429009001064	H-loop/switch region; other site
429009001065	NMT1-like family; Region: NMT1_2; pfam13379
429009001066	NMT1/THI5 like; Region: NMT1; pfam09084
429009001067	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
429009001068	Radical SAM superfamily; Region: Radical_SAM; pfam04055
429009001069	FeS/SAM binding site; other site
429009001070	transposase, putative, N-terminal domain; Region: tspaseT_teng_N; TIGR01765
429009001071	transposase, putative, N-terminal domain; Region: tspaseT_teng_N; TIGR01765
429009001072	Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675
429009001073	transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766
429009001074	Photosystem II Pbs27; Region: PSII_Pbs27; cl11841
429009001075	ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201
429009001076	ABC transporter signature motif; other site
429009001077	Walker B; other site
429009001078	D-loop; other site
429009001079	H-loop/switch region; other site
429009001080	Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833
429009001081	Transglutaminase-like superfamily; Region: Transglut_core; cl17362
429009001082	Xanthine/uracil/vitamin C permease [Nucleotide transport and    metabolism]; Region: COG2252
429009001083	Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782
429009001084	Transposase; Region: HTH_Tnp_1; pfam01527
429009001085	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
429009001086	putative substrate translocation pore; other site
429009001087	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
429009001088	Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065
429009001089	Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223
429009001090	active site
429009001091	aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856
429009001092	Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729
429009001093	Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185
429009001094	dihydroorotase; Validated; Region: pyrC; PRK09357
429009001095	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
429009001096	Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317
429009001097	active site
429009001098	carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564
429009001099	Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097
429009001100	Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744
429009001101	catalytic site [active]
429009001102	subunit interface [polypeptide binding]; other site
429009001103	carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294
429009001104	Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289
429009001105	Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786
429009001106	Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787
429009001107	Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289
429009001108	ATP-grasp domain; Region: ATP-grasp_4; cl17255
429009001109	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
429009001110	IMP binding site; other site
429009001111	dimer interface [polypeptide binding]; other site
429009001112	interdomain contacts; other site
429009001113	partial ornithine binding site; other site
429009001114	dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054
429009001115	FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218
429009001116	FAD binding pocket [chemical binding]; other site
429009001117	FAD binding motif [chemical binding]; other site
429009001118	phosphate binding motif [ion binding]; other site
429009001119	beta-alpha-beta structure motif; other site
429009001120	NAD binding pocket [chemical binding]; other site
429009001121	Iron coordination center [ion binding]; other site
429009001122	dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037
429009001123	Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine...; Region: DHOD_1B_like; cd04740
429009001124	heterodimer interface [polypeptide binding]; other site
429009001125	active site
429009001126	FMN binding site [chemical binding]; other site
429009001127	homodimer interface [polypeptide binding]; other site
429009001128	substrate binding site [chemical binding]; other site
429009001129	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
429009001130	active site
429009001131	dimer interface [polypeptide binding]; other site
429009001132	Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223
429009001133	active site
429009001134	single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644
429009001135	DHH family; Region: DHH; pfam01368
429009001136	Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317
429009001137	Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077
429009001138	Zn2+ binding site [ion binding]; other site
429009001139	Mg2+ binding site [ion binding]; other site
429009001140	Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399
429009001141	synthetase active site [active]
429009001142	NTP binding site [chemical binding]; other site
429009001143	metal binding site [ion binding]; metal-binding site
429009001144	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
429009001145	ACT  domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876
429009001146	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
429009001147	putative active site [active]
429009001148	dimerization interface [polypeptide binding]; other site
429009001149	putative tRNAtyr binding site [nucleotide binding]; other site
429009001150	Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849
429009001151	Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853
429009001152	GXGXG domain. This domain of unknown function is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS),  in subunit C of tungsten formylmethanofuran dehydrogenase (FwdC) and in subunit C of molybdenum formylmethanofuran...; Region: GXGXG; cl00239
429009001153	domain_subunit interface; other site
429009001154	4Fe-4S dicluster domain; Region: Fer4_7; pfam12838
429009001155	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
429009001156	4Fe-4S binding domain; Region: Fer4_6; pfam12837
429009001157	4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484
429009001158	4Fe-4S binding domain; Region: Fer4; pfam00037
429009001159	Glutamate synthase (GltS) FMN-binding domain.  GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808
429009001160	active site
429009001161	FMN binding site [chemical binding]; other site
429009001162	substrate binding site [chemical binding]; other site
429009001163	3Fe-4S cluster binding site [ion binding]; other site
429009001164	Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319
429009001165	Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319
429009001166	active site
429009001167	glutamine synthetase, type I; Region: GlnA; TIGR00653
429009001168	Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951
429009001169	Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120
429009001170	benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263
429009001171	2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050
429009001172	Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675
429009001173	Probable transposase; Region: OrfB_IS605; pfam01385
429009001174	RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717
429009001175	Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452
429009001176	Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762
429009001177	DNA binding residues [nucleotide binding]
429009001178	Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of...; Region: SR_IS607_transposase_like; cd03769
429009001179	catalytic residues [active]
429009001180	catalytic nucleophile [active]
429009001181	Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715
429009001182	chorismate binding enzyme; Region: Chorismate_bind; cl10555
429009001183	Sulfite exporter TauE/SafE; Region: TauE; pfam01925
429009001184	endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056
429009001185	endonuclease III; Region: ENDO3c; smart00478
429009001186	minor groove reading motif; other site
429009001187	helix-hairpin-helix signature motif; other site
429009001188	substrate binding pocket [chemical binding]; other site
429009001189	active site
429009001190	Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908
429009001191	putative ADP-ribose binding site [chemical binding]; other site
429009001192	putative active site [active]
429009001193	Transglycosylase; Region: Transgly; pfam00912
429009001194	penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074
429009001195	Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905
429009001196	DNA repair protein RadA; Provisional; Region: PRK11823
429009001197	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
429009001198	Walker A motif; other site
429009001199	ATP binding site [chemical binding]; other site
429009001200	Walker B motif; other site
429009001201	DNA integrity scanning protein DisA; Provisional; Region: PRK13482
429009001202	DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457
429009001203	DisA bacterial checkpoint controller linker region; Region: DisA-linker; pfam10635
429009001204	endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786
429009001205	Winged helix-turn helix; Region: HTH_29; pfam13551
429009001206	Homeodomain-like domain; Region: HTH_23; pfam13384
429009001207	Homeodomain-like domain; Region: HTH_32; pfam13565
429009001208	Integrase core domain; Region: rve; pfam00665
429009001209	Integrase core domain; Region: rve_3; pfam13683
429009001210	CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588
429009001211	Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956
429009001212	PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877
429009001213	putative active site [active]
429009001214	bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382
429009001215	CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516
429009001216	substrate binding site; other site
429009001217	dimer interface; other site
429009001218	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
429009001219	homotrimer interaction site [polypeptide binding]; other site
429009001220	zinc binding site [ion binding]; other site
429009001221	CDP-binding sites; other site
429009001222	Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762
429009001223	serine O-acetyltransferase; Region: cysE; TIGR01172
429009001224	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
429009001225	trimer interface [polypeptide binding]; other site
429009001226	active site
429009001227	substrate binding site [chemical binding]; other site
429009001228	CoA binding site [chemical binding]; other site
429009001229	cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260
429009001230	catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672
429009001231	active site
429009001232	HIGH motif; other site
429009001233	catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672
429009001234	KMSKS motif; other site
429009001235	Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020
429009001236	tRNA binding surface [nucleotide binding]; other site
429009001237	anticodon binding site; other site
429009001238	FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847
429009001239	rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566
429009001240	RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032
429009001241	SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588
429009001242	YacP-like NYN domain; Region: NYN_YacP; pfam05991
429009001243	RNA polymerase factor sigma-70; Validated; Region: PRK08295
429009001244	Sigma-70 region 2; Region: Sigma70_r2; pfam04542
429009001245	Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281
429009001246	ThiS family; Region: ThiS; pfam02597
429009001247	charged pocket; other site
429009001248	hydrophobic patch; other site
429009001249	elongation factor Tu; Reviewed; Region: PRK00049
429009001250	Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884
429009001251	G1 box; other site
429009001252	GEF interaction site [polypeptide binding]; other site
429009001253	GTP/Mg2+ binding site [chemical binding]; other site
429009001254	Switch I region; other site
429009001255	G2 box; other site
429009001256	G3 box; other site
429009001257	Switch II region; other site
429009001258	G4 box; other site
429009001259	G5 box; other site
429009001260	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
429009001261	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
429009001262	Antibiotic Binding Site [chemical binding]; other site
429009001263	Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675
429009001264	Probable transposase; Region: OrfB_IS605; pfam01385
429009001265	transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766
429009001266	Helix-turn-helix domain; Region: HTH_17; cl17695
429009001267	Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396
429009001268	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
429009001269	non-specific DNA binding site [nucleotide binding]; other site
429009001270	salt bridge; other site
429009001271	sequence-specific DNA binding site [nucleotide binding]; other site
429009001272	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
429009001273	non-specific DNA binding site [nucleotide binding]; other site
429009001274	salt bridge; other site
429009001275	sequence-specific DNA binding site [nucleotide binding]; other site
429009001276	site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236
429009001277	phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189
429009001278	Int/Topo IB signature motif; other site
429009001279	Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782
429009001280	ribulose-1,5-biphosphate synthetase; Provisional; Region: PRK04176
429009001281	NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822
429009001282	Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664
429009001283	trimerization site [polypeptide binding]; other site
429009001284	active site
429009001285	Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104
429009001286	cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402
429009001287	pyridoxal 5'-phosphate binding pocket [chemical binding]; other site
429009001288	catalytic residue [active]
429009001289	Quinolinate synthetase A protein; Region: NadA; pfam02445
429009001290	Predicted transcriptional regulator [Transcription]; Region: COG1959
429009001291	Transcriptional regulator; Region: Rrf2; cl17282
429009001292	MOSC domain; Region: MOSC; pfam03473
429009001293	transposase, putative, N-terminal domain; Region: tspaseT_teng_N; TIGR01765
429009001294	transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766
429009001295	Uncharacterized conserved protein [Function unknown]; Region: COG1543
429009001296	N-terminal catalytic domain of  alpha-amylase ( AmyC ) and similar proteins; Region: GH57N_AmyC_like; cd10792
429009001297	active site
429009001298	substrate binding site [chemical binding]; other site
429009001299	catalytic site [active]
429009001300	Domain of unknown function (DUF1957); Region: DUF1957; pfam09210
429009001301	Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3330
429009001302	Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387
429009001303	Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723
429009001304	Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219
429009001305	Bacterial SH3 domain; Region: SH3_3; cl17532
429009001306	Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3807
429009001307	Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791
429009001308	NlpC/P60 family; Region: NLPC_P60; pfam00877
429009001309	DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK06826
429009001310	Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113
429009001311	active site
429009001312	PHP Thumb interface [polypeptide binding]; other site
429009001313	metal binding site [ion binding]; metal-binding site
429009001314	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
429009001315	generic binding surface II; other site
429009001316	generic binding surface I; other site
429009001317	transcription attenuation protein MtrB; Provisional; Region: PRK13251
429009001318	acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724
429009001319	acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198
429009001320	6-phosphofructokinase; Provisional; Region: PRK03202
429009001321	6-phosphofructokinase; Region: PFKA_ATP; TIGR02482
429009001322	active site
429009001323	ADP/pyrophosphate binding site [chemical binding]; other site
429009001324	dimerization interface [polypeptide binding]; other site
429009001325	allosteric effector site; other site
429009001326	fructose-1,6-bisphosphate binding site; other site
429009001327	pyruvate kinase; Provisional; Region: PRK06354
429009001328	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
429009001329	domain interfaces; other site
429009001330	active site
429009001331	Phosphohistidine swiveling domain [Signal transduction mechanisms]; Region: COG3848
429009001332	Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586
429009001333	SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335
429009001334	Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317
429009001335	Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888
429009001336	active site
429009001337	dimer interface [polypeptide binding]; other site
429009001338	effector binding site; other site
429009001339	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
429009001340	protein-splicing catalytic site; other site
429009001341	thioester formation/cholesterol transfer; other site
429009001342	Intein/homing endonuclease [DNA replication, recombination, and repair]; Region: COG1372
429009001343	Hint (Hedgehog/Intein) domain C-terminal region; Region: HintC; smart00305
429009001344	Ribonucleotide reductase, barrel domain; Region: Ribonuc_red_lgC; pfam02867
429009001345	Mur ligase middle domain; Region: Mur_ligase_M; pfam08245
429009001346	Domain of unknown function (DUF1727); Region: DUF1727; pfam08353
429009001347	Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750
429009001348	catalytic triad [active]
429009001349	Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071
429009001350	Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain  (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464
429009001351	putative dimer interface [polypeptide binding]; other site
429009001352	Domain of unknown function (DUF3786); Region: DUF3786; pfam12654
429009001353	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
429009001354	dimer interface [polypeptide binding]; other site
429009001355	ADP-ribose binding site [chemical binding]; other site
429009001356	active site
429009001357	nudix motif; other site
429009001358	metal binding site [ion binding]; metal-binding site
429009001359	Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675
429009001360	Probable transposase; Region: OrfB_IS605; pfam01385
429009001361	transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766
429009001362	septum formation inhibitor; Reviewed; Region: minC; PRK00513
429009001363	Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775
429009001364	ADP-glucose phosphorylase; Region: PLN02643
429009001365	HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228
429009001366	nucleotide binding site/active site [active]
429009001367	HIT family signature motif; other site
429009001368	catalytic residue [active]
429009001369	glycogen synthase; Provisional; Region: glgA; PRK00654
429009001370	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
429009001371	ADP-binding pocket [chemical binding]; other site
429009001372	homodimer interface [polypeptide binding]; other site
429009001373	Protein of unknown function (DUF342); Region: DUF342; pfam03961
429009001374	Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519
429009001375	Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719
429009001376	SpoVR like protein; Region: SpoVR; pfam04293
429009001377	ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581
429009001378	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
429009001379	dimer interface [polypeptide binding]; other site
429009001380	conserved gate region; other site
429009001381	putative PBP binding loops; other site
429009001382	ABC-ATPase subunit interface; other site
429009001383	ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573
429009001384	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
429009001385	dimer interface [polypeptide binding]; other site
429009001386	conserved gate region; other site
429009001387	putative PBP binding loops; other site
429009001388	ABC-ATPase subunit interface; other site
429009001389	The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466
429009001390	Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531
429009001391	dimerization interface [polypeptide binding]; other site
429009001392	Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1655
429009001393	Uncharacterized protein conserved in bacteria (DUF2225); Region: DUF2225; pfam09986
429009001394	Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065
429009001395	c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206
429009001396	Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077
429009001397	Zn2+ binding site [ion binding]; other site
429009001398	Mg2+ binding site [ion binding]; other site
429009001399	Winged helix-turn helix; Region: HTH_29; pfam13551
429009001400	Homeodomain-like domain; Region: HTH_23; pfam13384
429009001401	Homeodomain-like domain; Region: HTH_32; pfam13565
429009001402	Integrase core domain; Region: rve; pfam00665
429009001403	Integrase core domain; Region: rve_3; pfam13683
429009001404	Protein of unknown function (DUF964); Region: DUF964; pfam06133
429009001405	GAF domain; Region: GAF; pfam01590
429009001406	FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203
429009001407	c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal    transduction mechanisms]; Region: COG2199
429009001408	Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949
429009001409	metal binding site [ion binding]; metal-binding site
429009001410	active site
429009001411	I-site; other site
429009001412	Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675
429009001413	Probable transposase; Region: OrfB_IS605; pfam01385
429009001414	transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766
429009001415	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
429009001416	30S subunit binding site; other site
429009001417	preprotein translocase subunit SecA; Reviewed; Region: PRK12904
429009001418	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
429009001419	ATP binding site [chemical binding]; other site
429009001420	putative Mg++ binding site [ion binding]; other site
429009001421	SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958
429009001422	Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351
429009001423	nucleotide binding region [chemical binding]; other site
429009001424	peptide chain release factor 2; Validated; Region: prfB; PRK00578
429009001425	PCRF domain; Region: PCRF; pfam03462
429009001426	RF-1 domain; Region: RF-1; pfam00472
429009001427	Uncharacterized conserved protein [Function unknown]; Region: COG1284
429009001428	Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588
429009001429	Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588
429009001430	Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035
429009001431	transketolase; Reviewed; Region: PRK05899
429009001432	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
429009001433	TPP-binding site [chemical binding]; other site
429009001434	dimer interface [polypeptide binding]; other site
429009001435	Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958
429009001436	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
429009001437	PYR/PP interface [polypeptide binding]; other site
429009001438	dimer interface [polypeptide binding]; other site
429009001439	TPP binding site [chemical binding]; other site
429009001440	Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780
429009001441	Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884
429009001442	ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201
429009001443	Walker A/P-loop; other site
429009001444	ATP binding site [chemical binding]; other site
429009001445	Q-loop/lid; other site
429009001446	ABC transporter signature motif; other site
429009001447	Walker B; other site
429009001448	D-loop; other site
429009001449	H-loop/switch region; other site
429009001450	Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177
429009001451	cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026
429009001452	Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739
429009001453	Peptidase family M23; Region: Peptidase_M23; pfam01551
429009001454	C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526
429009001455	C-terminal peptidase (prc); Region: prc; TIGR00225
429009001456	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
429009001457	C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560
429009001458	Catalytic dyad [active]
429009001459	L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734
429009001460	Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376
429009001461	Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471
429009001462	Bacterial SH3 domain; Region: SH3_3; pfam08239
429009001463	Bacterial SH3 domain; Region: SH3_3; pfam08239
429009001464	N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860
429009001465	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
429009001466	active site
429009001467	metal binding site [ion binding]; metal-binding site
429009001468	Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642
429009001469	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
429009001470	dimer interface [polypeptide binding]; other site
429009001471	phosphorylation site [posttranslational modification]
429009001472	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
429009001473	ATP binding site [chemical binding]; other site
429009001474	G-X-G motif; other site
429009001475	glutamate racemase; Provisional; Region: PRK00865
429009001476	Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase subunit, BcrC/BadD/HgdB [Amino acid transport and metabolism]; Region: HgdB; COG1775
429009001477	CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cd09680
429009001478	Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782
429009001479	Winged helix-turn helix; Region: HTH_29; pfam13551
429009001480	Homeodomain-like domain; Region: HTH_23; pfam13384
429009001481	Homeodomain-like domain; Region: HTH_32; pfam13565
429009001482	Integrase core domain; Region: rve; pfam00665
429009001483	Integrase core domain; Region: rve_3; pfam13683
429009001484	Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452
429009001485	Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762
429009001486	DNA binding residues [nucleotide binding]
429009001487	Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of...; Region: SR_IS607_transposase_like; cd03769
429009001488	catalytic residues [active]
429009001489	catalytic nucleophile [active]
429009001490	Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282
429009001491	Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002
429009001492	Antidote-toxin recognition MazE; Region: Antitoxin-MazE; pfam04014
429009001493	trigger factor; Provisional; Region: tig; PRK01490
429009001494	FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254
429009001495	Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698
429009001496	Clp protease; Region: CLP_protease; pfam00574
429009001497	Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017
429009001498	oligomer interface [polypeptide binding]; other site
429009001499	active site residues [active]
429009001500	ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342
429009001501	ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689
429009001502	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
429009001503	Walker A motif; other site
429009001504	ATP binding site [chemical binding]; other site
429009001505	Walker B motif; other site
429009001506	C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086
429009001507	Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675
429009001508	Probable transposase; Region: OrfB_IS605; pfam01385
429009001509	ATP-dependent protease LonB; Region: spore_lonB; TIGR02902
429009001510	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
429009001511	Walker A motif; other site
429009001512	ATP binding site [chemical binding]; other site
429009001513	Walker B motif; other site
429009001514	arginine finger; other site
429009001515	Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362
429009001516	ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466
429009001517	Found in ATP-dependent protease La (LON); Region: LON; smart00464
429009001518	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
429009001519	Walker A motif; other site
429009001520	ATP binding site [chemical binding]; other site
429009001521	Walker B motif; other site
429009001522	arginine finger; other site
429009001523	Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362
429009001524	ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715
429009001525	GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509
429009001526	mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479
429009001527	Substrate binding site; other site
429009001528	Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050
429009001529	phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990
429009001530	This archaeal PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily which includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar...; Region: PGM_like1; cd03087
429009001531	active site
429009001532	substrate binding site [chemical binding]; other site
429009001533	metal binding site [ion binding]; metal-binding site
429009001534	Transposase IS200 like; Region: Y1_Tnp; pfam01797
429009001535	Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675
429009001536	Probable transposase; Region: OrfB_IS605; pfam01385
429009001537	HEPN domain; Region: HEPN; cl00824
429009001538	Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403
429009001539	active site
429009001540	NTP binding site [chemical binding]; other site
429009001541	metal binding triad [ion binding]; metal-binding site
429009001542	antibiotic binding site [chemical binding]; other site
429009001543	Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833
429009001544	Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403
429009001545	active site
429009001546	NTP binding site [chemical binding]; other site
429009001547	metal binding triad [ion binding]; metal-binding site
429009001548	antibiotic binding site [chemical binding]; other site
429009001549	This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808
429009001550	N-acetyl-alpha-D-glucosaminyl L-malate synthase BshA; Region: thiol_BshA; TIGR03999
429009001551	putative ADP-binding pocket [chemical binding]; other site
429009001552	PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881
429009001553	oligomeric interface; other site
429009001554	putative active site [active]
429009001555	homodimer interface [polypeptide binding]; other site
429009001556	ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682
429009001557	ABC-2 type transporter; Region: ABC2_membrane; pfam01061
429009001558	ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201
429009001559	O-Antigen ligase; Region: Wzy_C; pfam04932
429009001560	Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307
429009001561	Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438
429009001562	This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801
429009001563	Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782
429009001564	This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801
429009001565	Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706
429009001566	Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like; cd07473
429009001567	putative active site [active]
429009001568	catalytic triad [active]
429009001569	S-layer homology domain; Region: SLH; pfam00395
429009001570	S-layer homology domain; Region: SLH; pfam00395
429009001571	Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403
429009001572	active site
429009001573	NTP binding site [chemical binding]; other site
429009001574	metal binding triad [ion binding]; metal-binding site
429009001575	antibiotic binding site [chemical binding]; other site
429009001576	HEPN domain; Region: HEPN; pfam05168
429009001577	exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025
429009001578	Bacterial sugar transferase; Region: Bac_transf; pfam02397
429009001579	Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403
429009001580	active site
429009001581	NTP binding site [chemical binding]; other site
429009001582	metal binding triad [ion binding]; metal-binding site
429009001583	antibiotic binding site [chemical binding]; other site
429009001584	transposase, putative, N-terminal domain; Region: tspaseT_teng_N; TIGR01765
429009001585	transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766
429009001586	Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282
429009001587	Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452
429009001588	Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762
429009001589	DNA binding residues [nucleotide binding]
429009001590	Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of...; Region: SR_IS607_transposase_like; cd03769
429009001591	catalytic residues [active]
429009001592	catalytic nucleophile [active]
429009001593	Probable transposase; Region: OrfB_IS605; pfam01385
429009001594	Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675
429009001595	Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833
429009001596	Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038
429009001597	CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400
429009001598	Cl- selectivity filter; other site
429009001599	Cl- binding residues [ion binding]; other site
429009001600	pore gating glutamate residue; other site
429009001601	dimer interface [polypeptide binding]; other site
429009001602	FOG: CBS domain [General function prediction only]; Region: COG0517
429009001603	The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205
429009001604	catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808
429009001605	glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406
429009001606	active site
429009001607	HIGH motif; other site
429009001608	catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808
429009001609	active site
429009001610	KMSKS motif; other site
429009001611	Sulfite exporter TauE/SafE; Region: TauE; pfam01925
429009001612	Putative transmembrane protein (Alph_Pro_TM); Region: Alph_Pro_TM; cl09826
429009001613	sensory histidine kinase AtoS; Provisional; Region: PRK11360
429009001614	PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130
429009001615	putative active site [active]
429009001616	heme pocket [chemical binding]; other site
429009001617	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
429009001618	dimer interface [polypeptide binding]; other site
429009001619	phosphorylation site [posttranslational modification]
429009001620	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
429009001621	ATP binding site [chemical binding]; other site
429009001622	Mg2+ binding site [ion binding]; other site
429009001623	G-X-G motif; other site
429009001624	Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204
429009001625	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
429009001626	active site
429009001627	phosphorylation site [posttranslational modification]
429009001628	intermolecular recognition site; other site
429009001629	dimerization interface [polypeptide binding]; other site
429009001630	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
429009001631	Walker A motif; other site
429009001632	ATP binding site [chemical binding]; other site
429009001633	Walker B motif; other site
429009001634	arginine finger; other site
429009001635	Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954
429009001636	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
429009001637	Ligand Binding Site [chemical binding]; other site
429009001638	translation initiation factor IF-3; Region: infC; TIGR00168
429009001639	Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198
429009001640	Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707
429009001641	50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172
429009001642	Ribosomal protein L20; Region: Ribosomal_L20; cd07026
429009001643	23S rRNA binding site [nucleotide binding]; other site
429009001644	L21 binding site [polypeptide binding]; other site
429009001645	L13 binding site [polypeptide binding]; other site
429009001646	rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566
429009001647	RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967
429009001648	SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588
429009001649	phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488
429009001650	Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912
429009001651	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
429009001652	dimer interface [polypeptide binding]; other site
429009001653	motif 1; other site
429009001654	active site
429009001655	motif 2; other site
429009001656	motif 3; other site
429009001657	phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629
429009001658	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
429009001659	putative tRNA-binding site [nucleotide binding]; other site
429009001660	B3/4 domain; Region: B3_4; pfam03483
429009001661	tRNA synthetase B5 domain; Region: B5; smart00874
429009001662	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
429009001663	dimer interface [polypeptide binding]; other site
429009001664	motif 1; other site
429009001665	motif 3; other site
429009001666	motif 2; other site
429009001667	Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147
429009001668	Cell division protein ZapA; Region: ZapA; cl01146
429009001669	NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371
429009001670	Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826
429009001671	Peptidase family U32; Region: Peptidase_U32; pfam01136
429009001672	Collagenase; Region: DUF3656; pfam12392
429009001673	Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826
429009001674	Peptidase family U32; Region: Peptidase_U32; pfam01136
429009001675	DNA-binding domain of DNA mismatch repair MUTS family; Region: MUTSd; smart00533
429009001676	MutS domain III; Region: MutS_III; pfam05192
429009001677	ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201
429009001678	Walker A/P-loop; other site
429009001679	ATP binding site [chemical binding]; other site
429009001680	Q-loop/lid; other site
429009001681	ABC transporter signature motif; other site
429009001682	Walker B; other site
429009001683	D-loop; other site
429009001684	H-loop/switch region; other site
429009001685	Smr domain; Region: Smr; pfam01713
429009001686	Protein of unknown function DUF89; Region: DUF89; cl15397
429009001687	Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396
429009001688	ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217
429009001689	Walker A/P-loop; other site
429009001690	ATP binding site [chemical binding]; other site
429009001691	Q-loop/lid; other site
429009001692	ABC transporter signature motif; other site
429009001693	Walker B; other site
429009001694	D-loop; other site
429009001695	H-loop/switch region; other site
429009001696	cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223
429009001697	Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458
429009001698	NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662
429009001699	NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361
429009001700	NADH dehydrogenase; Region: NADHdh; cl00469
429009001701	Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260
429009001702	Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; pfam00329
429009001703	Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261
429009001704	NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338
429009001705	4Fe-4S binding domain; Region: Fer4; pfam00037
429009001706	4Fe-4S dicluster domain; Region: Fer4_7; pfam12838
429009001707	4Fe-4S binding domain; Region: Fer4; pfam00037
429009001708	RRXRR protein; Region: RRXRR; pfam14239
429009001709	HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085
429009001710	Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403
429009001711	active site
429009001712	Mg-protoporyphyrin IX chelatase; Region: chlI; CHL00081
429009001713	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
429009001714	Walker A motif; other site
429009001715	ATP binding site [chemical binding]; other site
429009001716	ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131
429009001717	ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201
429009001718	Walker A/P-loop; other site
429009001719	ATP binding site [chemical binding]; other site
429009001720	Q-loop/lid; other site
429009001721	ABC transporter signature motif; other site
429009001722	Walker B; other site
429009001723	D-loop; other site
429009001724	H-loop/switch region; other site
429009001725	ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842
429009001726	ABC-2 type transporter; Region: ABC2_membrane; cl17235
429009001727	ABC-2 type transporter; Region: ABC2_membrane; cl17235
429009001728	ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842
429009001729	Daunorubicin/doxorubicin resistance ATP-binding protein; Region: ABC_DrrA; cd03265
429009001730	daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188
429009001731	Walker A/P-loop; other site
429009001732	ATP binding site [chemical binding]; other site
429009001733	Q-loop/lid; other site
429009001734	ABC transporter signature motif; other site
429009001735	Walker B; other site
429009001736	D-loop; other site
429009001737	H-loop/switch region; other site
429009001738	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
429009001739	Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247
429009001740	Cysteine-rich domain; Region: CCG; pfam02754
429009001741	Cysteine-rich domain; Region: CCG; pfam02754
429009001742	FAD binding domain; Region: FAD_binding_4; pfam01565
429009001743	glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387
429009001744	Transcriptional regulators [Transcription]; Region: FadR; COG2186
429009001745	Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377
429009001746	DNA-binding site [nucleotide binding]; DNA binding site
429009001747	FCD domain; Region: FCD; pfam07729
429009001748	L-lactate permease; Region: Lactate_perm; cl00701
429009001749	L-lactate permease [Energy production and conversion]; Region: LldP; COG1620
429009001750	Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589
429009001751	Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139
429009001752	Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589
429009001753	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
429009001754	Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247
429009001755	Cysteine-rich domain; Region: CCG; pfam02754
429009001756	Cysteine-rich domain; Region: CCG; pfam02754
429009001757	GTP-binding protein YchF; Reviewed; Region: PRK09601
429009001758	Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170
429009001759	G1 box; other site
429009001760	GTP/Mg2+ binding site [chemical binding]; other site
429009001761	G2 box; other site
429009001762	Switch I region; other site
429009001763	G3 box; other site
429009001764	Switch II region; other site
429009001765	G4 box; other site
429009001766	G5 box; other site
429009001767	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
429009001768	Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498
429009001769	Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560
429009001770	pyridoxal 5'-phosphate binding site [chemical binding]; other site
429009001771	catalytic residue [active]
429009001772	integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717
429009001773	(dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14328
429009001774	Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919
429009001775	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
429009001776	FeS/SAM binding site; other site
429009001777	TRAM domain; Region: TRAM; pfam01938
429009001778	Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758
429009001779	DNA protecting protein DprA; Region: dprA; TIGR00732
429009001780	DNA topoisomerase I; Validated; Region: PRK05582
429009001781	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
429009001782	active site
429009001783	interdomain interaction site; other site
429009001784	putative metal-binding site [ion binding]; other site
429009001785	nucleotide binding site [chemical binding]; other site
429009001786	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
429009001787	domain I; other site
429009001788	DNA binding groove [nucleotide binding]
429009001789	phosphate binding site [ion binding]; other site
429009001790	domain II; other site
429009001791	domain III; other site
429009001792	nucleotide binding site [chemical binding]; other site
429009001793	catalytic site [active]
429009001794	domain IV; other site
429009001795	Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396
429009001796	Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396
429009001797	tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335
429009001798	Glucose inhibited division protein A; Region: GIDA; pfam01134
429009001799	site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236
429009001800	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
429009001801	active site
429009001802	DNA binding site [nucleotide binding]
429009001803	Int/Topo IB signature motif; other site
429009001804	Transposase domain (DUF772); Region: DUF772; pfam05598
429009001805	Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751
429009001806	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
429009001807	active site
429009001808	HslU subunit interaction site [polypeptide binding]; other site
429009001809	ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201
429009001810	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
429009001811	Walker A motif; other site
429009001812	ATP binding site [chemical binding]; other site
429009001813	AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724
429009001814	Walker B motif; other site
429009001815	arginine finger; other site
429009001816	C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086
429009001817	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
429009001818	rRNA interaction site [nucleotide binding]; other site
429009001819	S8 interaction site; other site
429009001820	putative laminin-1 binding site; other site
429009001821	elongation factor Ts; Reviewed; Region: tsf; PRK12332
429009001822	UBA/TS-N domain; Region: UBA; pfam00627
429009001823	Elongation factor TS; Region: EF_TS; pfam00889
429009001824	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
429009001825	putative nucleotide binding site [chemical binding]; other site
429009001826	uridine monophosphate binding site [chemical binding]; other site
429009001827	homohexameric interface [polypeptide binding]; other site
429009001828	ribosome recycling factor; Reviewed; Region: frr; PRK00083
429009001829	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
429009001830	hinge region; other site
429009001831	Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020
429009001832	Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475
429009001833	catalytic residue [active]
429009001834	putative FPP diphosphate  binding site; other site
429009001835	putative FPP binding hydrophobic cleft; other site
429009001836	dimer interface [polypeptide binding]; other site
429009001837	putative IPP diphosphate binding site; other site
429009001838	CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575
429009001839	Cytidylyltransferase family; Region: CTP_transf_1; pfam01148
429009001840	Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465
429009001841	1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447
429009001842	1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670
429009001843	1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436
429009001844	DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288
429009001845	Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750
429009001846	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
429009001847	active site
429009001848	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
429009001849	protein binding site [polypeptide binding]; other site
429009001850	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
429009001851	putative substrate binding region [chemical binding]; other site
429009001852	4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366
429009001853	4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694
429009001854	4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694
429009001855	prolyl-tRNA synthetase; Provisional; Region: PRK09194
429009001856	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
429009001857	dimer interface [polypeptide binding]; other site
429009001858	motif 1; other site
429009001859	active site
429009001860	motif 2; other site
429009001861	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
429009001862	putative deacylase active site [active]
429009001863	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
429009001864	active site
429009001865	motif 3; other site
429009001866	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
429009001867	anticodon binding site; other site
429009001868	6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242
429009001869	active site
429009001870	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
429009001871	Ligand Binding Site [chemical binding]; other site
429009001872	Domain of unknown function (DUF366); Region: DUF366; pfam04017
429009001873	Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602
429009001874	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
429009001875	FeS/SAM binding site; other site
429009001876	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
429009001877	homodecamer interface [polypeptide binding]; other site
429009001878	GTP cyclohydrolase I; Provisional; Region: PLN03044
429009001879	active site
429009001880	putative catalytic site residues [active]
429009001881	zinc binding site [ion binding]; other site
429009001882	GTP-CH-I/GFRP interaction surface; other site
429009001883	Protein of unknown function (DUF4264); Region: DUF4264; pfam14084
429009001884	5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346
429009001885	Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269
429009001886	Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124
429009001887	Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269
429009001888	stage II sporulation protein P; Region: spore_II_P; TIGR02867
429009001889	GTP-binding protein LepA; Provisional; Region: PRK05433
429009001890	LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890
429009001891	G1 box; other site
429009001892	putative GEF interaction site [polypeptide binding]; other site
429009001893	GTP/Mg2+ binding site [chemical binding]; other site
429009001894	Switch I region; other site
429009001895	G2 box; other site
429009001896	G3 box; other site
429009001897	Switch II region; other site
429009001898	G4 box; other site
429009001899	G5 box; other site
429009001900	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
429009001901	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
429009001902	GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421
429009001903	coproporphyrinogen III oxidase; Provisional; Region: PRK08599
429009001904	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
429009001905	FeS/SAM binding site; other site
429009001906	HemN C-terminal domain; Region: HemN_C; pfam06969
429009001907	heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082
429009001908	TCP-1/cpn60 chaperonin family; Region: Cpn60_TCP1; pfam00118
429009001909	thermosome, various subunits, archaeal; Region: thermosome_arch; TIGR02339
429009001910	GrpE; Region: GrpE; pfam01025
429009001911	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
429009001912	dimer interface [polypeptide binding]; other site
429009001913	hsp70 (ATPase domain) interactions [polypeptide binding]; other site
429009001914	molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290
429009001915	Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234
429009001916	nucleotide binding site [chemical binding]; other site
429009001917	NEF interaction site [polypeptide binding]; other site
429009001918	SBD interface [polypeptide binding]; other site
429009001919	chaperone protein DnaJ; Region: DnaJ_bact; TIGR02349
429009001920	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
429009001921	HSP70 interaction site [polypeptide binding]; other site
429009001922	C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262
429009001923	substrate binding site [polypeptide binding]; other site
429009001924	Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719
429009001925	Zn binding sites [ion binding]; other site
429009001926	C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747
429009001927	dimer interface [polypeptide binding]; other site
429009001928	Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325
429009001929	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
429009001930	16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713
429009001931	RNA methyltransferase, RsmE family; Region: TIGR00046
429009001932	2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621
429009001933	Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919
429009001934	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; cl15377
429009001935	Stage V sporulation protein S (SpoVS); Region: SpoVS; cl01005
429009001936	S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887
429009001937	Putative catalytic NodB homology domain of a hypothetical protein Ecf1 from Escherichia coli and similar proteins; Region: CE4_Ecf1_like_5s; cd10969
429009001938	putative active site [active]
429009001939	putative metal binding site [ion binding]; other site
429009001940	Domain of unknown function (DUF4198); Region: DUF4198; pfam10670
429009001941	putative iron-only hydrogenase system regulator; Region: hyd_TM1266; TIGR03959
429009001942	transposase, putative, N-terminal domain; Region: tspaseT_teng_N; TIGR01765
429009001943	Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789
429009001944	Phosphoribosylformylglycinamidine (FGAM) synthase, synthetase domain [Nucleotide transport and metabolism]; Region: PurL; COG0046
429009001945	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
429009001946	dimerization interface [polypeptide binding]; other site
429009001947	ATP binding site [chemical binding]; other site
429009001948	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
429009001949	dimerization interface [polypeptide binding]; other site
429009001950	ATP binding site [chemical binding]; other site
429009001951	CobB/CobQ-like glutamine amidotransferase domain; Region: GATase_5; pfam13507
429009001952	Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740
429009001953	putative active site [active]
429009001954	catalytic triad [active]
429009001955	NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094
429009001956	NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210
429009001957	NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479
429009001958	Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077
429009001959	Zn2+ binding site [ion binding]; other site
429009001960	Mg2+ binding site [ion binding]; other site
429009001961	ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241
429009001962	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
429009001963	Walker A motif; other site
429009001964	ATP binding site [chemical binding]; other site
429009001965	Walker B motif; other site
429009001966	arginine finger; other site
429009001967	Peptidase family M41; Region: Peptidase_M41; pfam01434
429009001968	competence damage-inducible protein A; Provisional; Region: PRK00549
429009001969	Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885
429009001970	putative MPT binding site; other site
429009001971	Competence-damaged protein; Region: CinA; pfam02464
429009001972	Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675
429009001973	Probable transposase; Region: OrfB_IS605; pfam01385
429009001974	transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766
429009001975	recombinase A; Provisional; Region: recA; PRK09354
429009001976	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
429009001977	hexamer interface [polypeptide binding]; other site
429009001978	Walker A motif; other site
429009001979	ATP binding site [chemical binding]; other site
429009001980	Walker B motif; other site
429009001981	SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain.  The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY,  and YhhP) belongs to a family of a two-component response...; Region: SirA_like_N; cd03421
429009001982	selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527
429009001983	CPxP  motif; other site
429009001984	DsrE/DsrF-like family; Region: DrsE; pfam02635
429009001985	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
429009001986	Ligand Binding Site [chemical binding]; other site
429009001987	Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325
429009001988	Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529
429009001989	Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742
429009001990	Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918
429009001991	Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918
429009001992	Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370
429009001993	Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879
429009001994	G1 box; other site
429009001995	GTP/Mg2+ binding site [chemical binding]; other site
429009001996	Switch I region; other site
429009001997	G2 box; other site
429009001998	G3 box; other site
429009001999	Switch II region; other site
429009002000	G4 box; other site
429009002001	G5 box; other site
429009002002	Nucleoside recognition; Region: Gate; pfam07670
429009002003	Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664
429009002004	Nucleoside recognition; Region: Gate; pfam07670
429009002005	Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; cl01811
429009002006	c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206
429009002007	Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077
429009002008	Zn2+ binding site [ion binding]; other site
429009002009	Mg2+ binding site [ion binding]; other site
429009002010	molybdate ABC transporter periplasmic substrate-binding protein; Provisional; Region: PRK04168
429009002011	tungstate ABC transporter binding protein WtpA; Region: tungstate_WtpA; TIGR03730
429009002012	ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555
429009002013	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
429009002014	dimer interface [polypeptide binding]; other site
429009002015	conserved gate region; other site
429009002016	putative PBP binding loops; other site
429009002017	ABC-ATPase subunit interface; other site
429009002018	ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842
429009002019	ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201
429009002020	Walker A/P-loop; other site
429009002021	ATP binding site [chemical binding]; other site
429009002022	Q-loop/lid; other site
429009002023	ABC transporter signature motif; other site
429009002024	Walker B; other site
429009002025	D-loop; other site
429009002026	H-loop/switch region; other site
429009002027	TOBE domain; Region: TOBE_2; pfam08402
429009002028	Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782
429009002029	Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745
429009002030	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
429009002031	active site
429009002032	phosphorylation site [posttranslational modification]
429009002033	intermolecular recognition site; other site
429009002034	dimerization interface [polypeptide binding]; other site
429009002035	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
429009002036	DNA binding site [nucleotide binding]
429009002037	Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642
429009002038	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
429009002039	dimerization interface [polypeptide binding]; other site
429009002040	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
429009002041	dimer interface [polypeptide binding]; other site
429009002042	phosphorylation site [posttranslational modification]
429009002043	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
429009002044	ATP binding site [chemical binding]; other site
429009002045	Mg2+ binding site [ion binding]; other site
429009002046	G-X-G motif; other site
429009002047	diacylglycerol glucosyltransferase; Provisional; Region: PRK13609
429009002048	Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925
429009002049	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
429009002050	Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726
429009002051	Catalytic NodB homology domain of uncharacterized bacterial polysaccharide deacetylases; Region: CE4_NodB_like_3; cd10959
429009002052	NodB motif; other site
429009002053	putative active site [active]
429009002054	putative catalytic site [active]
429009002055	putative Zn binding site [ion binding]; other site
429009002056	Divergent PAP2 family; Region: DUF212; pfam02681
429009002057	Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387
429009002058	Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723
429009002059	trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105
429009002060	Trehalose-phosphatase; Region: Trehalose_PPase; pfam02358
429009002061	Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788
429009002062	alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400
429009002063	active site
429009002064	homotetramer interface [polypeptide binding]; other site
429009002065	CoA binding domain; Region: CoA_binding_2; pfam13380
429009002066	GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445
429009002067	putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobA/MobB; Provisional; Region: PRK14489
429009002068	MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503
429009002069	GTP binding site; other site
429009002070	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
429009002071	HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662
429009002072	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
429009002073	active site
429009002074	motif I; other site
429009002075	motif II; other site
429009002076	shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258
429009002077	Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501
429009002078	NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065
429009002079	shikimate binding site; other site
429009002080	NAD(P) binding site [chemical binding]; other site
429009002081	Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082
429009002082	Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304
429009002083	Tetramer interface [polypeptide binding]; other site
429009002084	active site
429009002085	FMN-binding site [chemical binding]; other site
429009002086	shikimate kinase; Provisional; Region: PRK13947
429009002087	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
429009002088	ADP binding site [chemical binding]; other site
429009002089	magnesium binding site [ion binding]; other site
429009002090	putative shikimate binding site; other site
429009002091	Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195
429009002092	active site
429009002093	dimer interface [polypeptide binding]; other site
429009002094	metal binding site [ion binding]; metal-binding site
429009002095	Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312
429009002096	Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312
429009002097	Dehydroquinase class II; Region: DHquinase_II; pfam01220
429009002098	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
429009002099	trimer interface [polypeptide binding]; other site
429009002100	active site
429009002101	dimer interface [polypeptide binding]; other site
429009002102	Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006
429009002103	Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321
429009002104	Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092
429009002105	active site
429009002106	elongation factor P; Validated; Region: PRK00529
429009002107	Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207
429009002108	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
429009002109	RNA binding site [nucleotide binding]; other site
429009002110	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
429009002111	RNA binding site [nucleotide binding]; other site
429009002112	Fructose-1,6-bisphosphatase; Region: FBPase_3; pfam01950
429009002113	PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474
429009002114	active site
429009002115	Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675
429009002116	Probable transposase; Region: OrfB_IS605; pfam01385
429009002117	transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766
429009002118	CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-B; cd09722
429009002119	CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725
429009002120	Menaquinone biosynthesis; Region: VitK2_biosynth; pfam02621
429009002121	menaquinone biosynthesis protein, SCO4550 family; Region: mena_SCO4550; TIGR03699
429009002122	selenocysteine synthase; Provisional; Region: PRK04311
429009002123	Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390
429009002124	Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921
429009002125	pyridoxal 5'-phosphate binding pocket [chemical binding]; other site
429009002126	catalytic residue [active]
429009002127	selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512
429009002128	SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171
429009002129	G1 box; other site
429009002130	putative GEF interaction site [polypeptide binding]; other site
429009002131	GTP/Mg2+ binding site [chemical binding]; other site
429009002132	Switch I region; other site
429009002133	G2 box; other site
429009002134	G3 box; other site
429009002135	Switch II region; other site
429009002136	G4 box; other site
429009002137	G5 box; other site
429009002138	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
429009002139	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
429009002140	Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106
429009002141	Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107
429009002142	Subunit B of Class III Extradiol ring-cleavage dioxygenases; Region: Extradiol_Dioxygenase_3B_like; cl00599
429009002143	Protein of unknown function (DUF1257); Region: DUF1257; cl06088
429009002144	Protein of unknown function (DUF2997); Region: DUF2997; pfam11211
429009002145	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
429009002146	ATPases associated with a variety of cellular activities; Region: AAA; smart00382
429009002147	Walker A motif; other site
429009002148	ATP binding site [chemical binding]; other site
429009002149	Walker B motif; other site
429009002150	arginine finger; other site
429009002151	Protein of unknown function (DUF3150); Region: DUF3150; pfam11348
429009002152	Ribosomal protein S1 [Translation, ribosomal structure and biogenesis]; Region: RpsA; COG0539
429009002153	Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316
429009002154	Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316
429009002155	RNA binding site [nucleotide binding]; other site
429009002156	Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396
429009002157	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
429009002158	non-specific DNA binding site [nucleotide binding]; other site
429009002159	salt bridge; other site
429009002160	sequence-specific DNA binding site [nucleotide binding]; other site
429009002161	Domain of unknown function (DUF955); Region: DUF955; cl01076
429009002162	PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812
429009002163	putative active site [active]
429009002164	Domain of unknown function (DUF3368); Region: DUF3368; pfam11848
429009002165	Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629
429009002166	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
429009002167	dimer interface [polypeptide binding]; other site
429009002168	ssDNA binding site [nucleotide binding]; other site
429009002169	tetramer (dimer of dimers) interface [polypeptide binding]; other site
429009002170	DNA polymerase III subunit beta; Validated; Region: PRK05643
429009002171	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
429009002172	putative DNA binding surface [nucleotide binding]; other site
429009002173	dimer interface [polypeptide binding]; other site
429009002174	beta-clamp/clamp loader binding surface; other site
429009002175	beta-clamp/translesion DNA polymerase binding surface; other site
429009002176	CHC2 zinc finger; Region: zf-CHC2; cl17510
429009002177	DNA primase, catalytic core; Region: dnaG; TIGR01391
429009002178	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
429009002179	active site
429009002180	metal binding site [ion binding]; metal-binding site
429009002181	interdomain interaction site; other site
429009002182	Domain of unknown function (DUF955); Region: DUF955; pfam06114
429009002183	Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396
429009002184	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
429009002185	non-specific DNA binding site [nucleotide binding]; other site
429009002186	salt bridge; other site
429009002187	sequence-specific DNA binding site [nucleotide binding]; other site
429009002188	Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446
429009002189	Helix-turn-helix domain; Region: HTH_36; pfam13730
429009002190	Replication initiation and membrane attachment; Region: DnaB_2; pfam07261
429009002191	HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085
429009002192	active site
429009002193	Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868
429009002194	DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533
429009002195	Restriction endonuclease; Region: Mrr_cat; pfam04471
429009002196	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
429009002197	tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225
429009002198	active site
429009002199	DNA binding site [nucleotide binding]
429009002200	Int/Topo IB signature motif; other site
429009002201	Nucleotidyl transferase of unknown function (DUF2204); Region: DUF2204; cl17690
429009002202	ParB-like nuclease domain; Region: ParB; smart00470
429009002203	ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180
429009002204	transposase, putative, N-terminal domain; Region: tspaseT_teng_N; TIGR01765
429009002205	transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766
429009002206	Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501
429009002207	Domain of unknown function DUF87; Region: DUF87; pfam01935
429009002208	AAA-like domain; Region: AAA_10; pfam12846
429009002209	TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375
429009002210	Domain of unknown function (DUF4412); Region: DUF4412; pfam14371
429009002211	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
429009002212	N-acetyl-D-glucosamine binding site [chemical binding]; other site
429009002213	catalytic residue [active]
429009002214	Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739
429009002215	Peptidase family M23; Region: Peptidase_M23; pfam01551
429009002216	c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal    transduction mechanisms]; Region: COG2199
429009002217	Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949
429009002218	metal binding site [ion binding]; metal-binding site
429009002219	active site
429009002220	I-site; other site
429009002221	Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452
429009002222	Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762
429009002223	DNA binding residues [nucleotide binding]
429009002224	Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of...; Region: SR_IS607_transposase_like; cd03769
429009002225	catalytic residues [active]
429009002226	catalytic nucleophile [active]
429009002227	Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282
429009002228	ParB-like nuclease domain; Region: ParB; smart00470
429009002229	Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475
429009002230	Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931
429009002231	NmrA-like family; Region: NmrA; pfam05368
429009002232	NAD(P) binding site [chemical binding]; other site
429009002233	active site
429009002234	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
429009002235	EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2).  The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948
429009002236	CoA binding domain; Region: CoA_binding; cl17356
429009002237	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
429009002238	Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833
429009002239	Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063
429009002240	Interdomain contacts; other site
429009002241	Cytokine receptor motif; other site
429009002242	LppP/LprE lipoprotein; Region: Lipoprotein_21; pfam14041
429009002243	Protein of unknown function (DUF1664); Region: DUF1664; pfam07889
429009002244	Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833
429009002245	Uncharacterized ACR, COG1430; Region: DUF192; pfam02643
429009002246	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
429009002247	active site
429009002248	4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnF; Provisional; Region: PRK02971
429009002249	Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064
429009002250	Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482
429009002251	Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745
429009002252	SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614
429009002253	Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965
429009002254	AAA domain; Region: AAA_31; pfam13614
429009002255	ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042
429009002256	P-loop; other site
429009002257	Magnesium ion binding site [ion binding]; other site
429009002258	SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614
429009002259	Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455
429009002260	P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782
429009002261	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
429009002262	Walker A motif; other site
429009002263	ATP binding site [chemical binding]; other site
429009002264	Walker B motif; other site
429009002265	Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965
429009002266	Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482
429009002267	Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482
429009002268	Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833
429009002269	TadE-like protein; Region: TadE; pfam07811
429009002270	AAA-like domain; Region: AAA_10; pfam12846
429009002271	Zonular occludens toxin (Zot); Region: Zot; cl17485
429009002272	Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077
429009002273	Zn2+ binding site [ion binding]; other site
429009002274	Mg2+ binding site [ion binding]; other site
429009002275	Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843
429009002276	Fic family protein [Function unknown]; Region: COG3177
429009002277	Fic/DOC family; Region: Fic; pfam02661
429009002278	Fic/DOC family; Region: Fic; cl00960
429009002279	CRISPR/Cas system-associated RAMP superfamily protein Cmr1; Region: Cmr1_III-B; cl17436
429009002280	CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl17214
429009002281	CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cd09701
429009002282	CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cd09701
429009002283	CRISPR/Cas system-associated RAMP superfamily protein Cmr4; Region: Cmr4_III-B; cl17440
429009002284	Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843
429009002285	Fic family protein [Function unknown]; Region: COG3177
429009002286	Fic/DOC family; Region: Fic; pfam02661
429009002287	Fic/DOC family; Region: Fic; cl00960
429009002288	Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227
429009002289	PRTRC system protein D; Region: PRTRC_D; TIGR03739
429009002290	Mg binding site [ion binding]; other site
429009002291	nucleotide binding site [chemical binding]; other site
429009002292	putative protofilament interface [polypeptide binding]; other site
429009002293	Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452
429009002294	Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762
429009002295	DNA binding residues [nucleotide binding]
429009002296	Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of...; Region: SR_IS607_transposase_like; cd03769
429009002297	catalytic residues [active]
429009002298	catalytic nucleophile [active]
429009002299	Probable transposase; Region: OrfB_IS605; pfam01385
429009002300	Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675
429009002301	Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843
429009002302	Type IV secretion-system coupling protein DNA-binding domain; Region: TrwB_AAD_bind; pfam10412
429009002303	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
429009002304	Walker A motif; other site
429009002305	ATP binding site [chemical binding]; other site
429009002306	Walker B motif; other site
429009002307	Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958
429009002308	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
429009002309	S-adenosylmethionine binding site [chemical binding]; other site
429009002310	Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189
429009002311	DNA methylase; Region: N6_N4_Mtase; pfam01555
429009002312	DNA methylase; Region: N6_N4_Mtase; pfam01555
429009002313	DEAD-like helicases superfamily; Region: DEXDc; smart00487
429009002314	DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251
429009002315	ATP binding site [chemical binding]; other site
429009002316	putative Mg++ binding site [ion binding]; other site
429009002317	Helix-turn-helix domain; Region: HTH_17; cl17695
429009002318	phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189
429009002319	Int/Topo IB signature motif; other site
429009002320	Carbohydrate binding domain; Region: CBM_25; smart01066
429009002321	Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438
429009002322	This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801
429009002323	Domain of unknown function (DUF3794); Region: DUF3794; pfam12673
429009002324	Domain of unknown function (DUF3794); Region: DUF3794; pfam12673
429009002325	hypothetical protein; Provisional; Region: PRK11820
429009002326	YicC-like family, N-terminal region; Region: YicC_N; pfam03755
429009002327	Domain of unknown function (DUF1732); Region: DUF1732; pfam08340
429009002328	hypothetical protein; Provisional; Region: PRK04323
429009002329	Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194
429009002330	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
429009002331	catalytic site [active]
429009002332	G-X2-G-X-G-K; other site
429009002333	RRXRR protein; Region: RRXRR; pfam14239
429009002334	HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085
429009002335	Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403
429009002336	active site
429009002337	RRXRR protein; Region: RRXRR; pfam14239
429009002338	HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085
429009002339	active site
429009002340	DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392
429009002341	bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579
429009002342	Flavoprotein; Region: Flavoprotein; pfam02441
429009002343	DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127
429009002344	Putative catalytic polysaccharide deacetylase domain of bacterial intercellular adhesion protein IcaB and similar proteins; Region: CE4_IcaB_5s; cd10965
429009002345	putative active site [active]
429009002346	putative metal binding site [ion binding]; other site
429009002347	N-glycosyltransferase; Provisional; Region: PRK11204
429009002348	CESA_like is  the cellulose synthase superfamily; Region: CESA_like; cd06423
429009002349	DXD motif; other site
429009002350	Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632
429009002351	DivIVA protein; Region: DivIVA; pfam05103
429009002352	DivIVA domain; Region: DivI1A_domain; TIGR03544
429009002353	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
429009002354	binding surface
429009002355	TPR motif; other site
429009002356	Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675
429009002357	Probable transposase; Region: OrfB_IS605; pfam01385
429009002358	MoxR-like ATPases [General function prediction only]; Region: COG0714
429009002359	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
429009002360	Walker A motif; other site
429009002361	ATP binding site [chemical binding]; other site
429009002362	Walker B motif; other site
429009002363	arginine finger; other site
429009002364	VWA domain containing CoxE-like protein; Region: VWA_CoxE; pfam05762
429009002365	RQC domain; Region: RQC; pfam09382
429009002366	primosome assembly protein PriA; Validated; Region: PRK05580
429009002367	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
429009002368	ATP binding site [chemical binding]; other site
429009002369	putative Mg++ binding site [ion binding]; other site
429009002370	helicase superfamily c-terminal domain; Region: HELICc; smart00490
429009002371	ATP-binding site [chemical binding]; other site
429009002372	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
429009002373	active site
429009002374	catalytic residues [active]
429009002375	metal binding site [ion binding]; metal-binding site
429009002376	methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005
429009002377	Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646
429009002378	putative active site [active]
429009002379	substrate binding site [chemical binding]; other site
429009002380	putative cosubstrate binding site; other site
429009002381	catalytic site [active]
429009002382	C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704
429009002383	substrate binding site [chemical binding]; other site
429009002384	16S rRNA methyltransferase B; Provisional; Region: PRK14902
429009002385	NusB family; Region: NusB; pfam01029
429009002386	putative RNA binding site [nucleotide binding]; other site
429009002387	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
429009002388	S-adenosylmethionine binding site [chemical binding]; other site
429009002389	D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686
429009002390	Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872
429009002391	Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936
429009002392	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
429009002393	Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659
429009002394	anti sigma factor interaction site; other site
429009002395	regulatory phosphorylation site [posttranslational modification]; other site
429009002396	Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581
429009002397	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
429009002398	ATP binding site [chemical binding]; other site
429009002399	Mg2+ binding site [ion binding]; other site
429009002400	G-X-G motif; other site
429009002401	sporulation sigma factor SigF; Validated; Region: PRK05572
429009002402	Sigma-70 region 2; Region: Sigma70_r2; pfam04542
429009002403	Sigma-70 region 3; Region: Sigma70_r3; pfam04539
429009002404	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
429009002405	DNA binding residues [nucleotide binding]
429009002406	N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860
429009002407	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
429009002408	active site
429009002409	metal binding site [ion binding]; metal-binding site
429009002410	Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936
429009002411	NodB motif; other site
429009002412	putative active site [active]
429009002413	putative catalytic site [active]
429009002414	Zn binding site [ion binding]; other site
429009002415	Probable transposase; Region: OrfB_IS605; pfam01385
429009002416	Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282
429009002417	Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ); Region: Spore_YhcN_YlaJ; pfam09580
429009002418	polysaccharide deacetylase family sporulation protein PdaB; Region: spore_ybaN_pdaB; TIGR02764
429009002419	D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686
429009002420	Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872
429009002421	Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936
429009002422	Helix-turn-helix domain; Region: HTH_38; pfam13936
429009002423	DnaB-like helicase C terminal domain; Region: DnaB_C; pfam03796
429009002424	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
429009002425	Walker A motif; other site
429009002426	ATP binding site [chemical binding]; other site
429009002427	Walker B motif; other site
429009002428	Prim_Pol: Primase-polymerase (primpol) domain of the type found in bifunctional replicases from archaeal plasmids, including ORF904 protein of the crenarchaeal plasmid pRN1 from Sulfolobus islandicus (pRN1 primpol). These primpol domains belong to the...; Region: Prim_Pol; cd04859
429009002429	polymerase nucleotide-binding site; other site
429009002430	DNA-binding residues [nucleotide binding]; DNA binding site
429009002431	nucleotide binding site [chemical binding]; other site
429009002432	primase nucleotide-binding site [nucleotide binding]; other site
429009002433	Primase C terminal 1 (PriCT-1); Region: PriCT_1; smart00942
429009002434	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; cl00257
429009002435	IHF - DNA interface [nucleotide binding]; other site
429009002436	IHF dimer interface [polypeptide binding]; other site
429009002437	Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090
429009002438	Helix-turn-helix domain; Region: HTH_17; pfam12728
429009002439	homoserine dehydrogenase; Provisional; Region: PRK06349
429009002440	Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447
429009002441	Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742
429009002442	ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881
429009002443	homoserine kinase; Provisional; Region: PRK01212
429009002444	aspartate kinase; Reviewed; Region: PRK06635
429009002445	AAK_AK-DapG-like: Amino Acid Kinase Superfamily (AAK), AK-DapG-like; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the diaminopimelate-sensitive aspartokinase isoenzyme AKI (DapG), a monofunctional enzymes found in Bacilli; Region: AAK_AK-DapG-like; cd04246
429009002446	putative catalytic residues [active]
429009002447	putative nucleotide binding site [chemical binding]; other site
429009002448	putative aspartate binding site [chemical binding]; other site
429009002449	ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913
429009002450	putative allosteric regulatory site; other site
429009002451	ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936
429009002452	putative allosteric regulatory residue; other site
429009002453	Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223
429009002454	active site
429009002455	GMP synthase; Reviewed; Region: guaA; PRK00074
429009002456	Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742
429009002457	AMP/PPi binding site [chemical binding]; other site
429009002458	candidate oxyanion hole; other site
429009002459	catalytic triad [active]
429009002460	potential glutamine specificity residues [chemical binding]; other site
429009002461	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
429009002462	ATP Binding subdomain [chemical binding]; other site
429009002463	Ligand Binding sites [chemical binding]; other site
429009002464	Dimerization subdomain; other site
429009002465	NifU-like domain; Region: NifU; pfam01106
429009002466	Uncharacterized conserved protein [Function unknown]; Region: COG1633
429009002467	Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264
429009002468	dinuclear metal binding motif [ion binding]; other site
429009002469	RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279
429009002470	RNA/DNA hybrid binding site [nucleotide binding]; other site
429009002471	active site
429009002472	anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270
429009002473	ATP cone domain; Region: ATP-cone; pfam03477
429009002474	Class III ribonucleotide reductase; Region: RNR_III; cd01675
429009002475	effector binding site; other site
429009002476	active site
429009002477	Zn binding site [ion binding]; other site
429009002478	glycine loop; other site
429009002479	anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495
429009002480	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
429009002481	FeS/SAM binding site; other site
429009002482	transposase, putative, N-terminal domain; Region: tspaseT_teng_N; TIGR01765
429009002483	Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966
429009002484	Carbon starvation protein CstA; Region: CstA; pfam02554
429009002485	C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722
429009002486	Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279
429009002487	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
429009002488	active site
429009002489	phosphorylation site [posttranslational modification]
429009002490	intermolecular recognition site; other site
429009002491	dimerization interface [polypeptide binding]; other site
429009002492	LytTr DNA-binding domain; Region: LytTR; pfam04397
429009002493	Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275
429009002494	5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694
429009002495	GAF domain; Region: GAF_3; pfam13492
429009002496	Histidine kinase; Region: His_kinase; pfam06580
429009002497	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
429009002498	ATP binding site [chemical binding]; other site
429009002499	Mg2+ binding site [ion binding]; other site
429009002500	G-X-G motif; other site
429009002501	Formyltransferase, catalytic core domain; Region: FMT_core; cl00395
429009002502	active site
429009002503	cosubstrate binding site; other site
429009002504	substrate binding site [chemical binding]; other site
429009002505	catalytic site [active]
429009002506	haloacid dehalogenase-like hydrolase; Region: HAD; cl17202
429009002507	Uncharacterized protein conserved in archaea [Function unknown]; Region: COG4030
429009002508	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
429009002509	Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524
429009002510	ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192
429009002511	substrate binding site [chemical binding]; other site
429009002512	ATP binding site [chemical binding]; other site
429009002513	Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623
429009002514	Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372
429009002515	NAD binding site [chemical binding]; other site
429009002516	homotetramer interface [polypeptide binding]; other site
429009002517	homodimer interface [polypeptide binding]; other site
429009002518	substrate binding site [chemical binding]; other site
429009002519	active site
429009002520	N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860
429009002521	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
429009002522	active site
429009002523	metal binding site [ion binding]; metal-binding site
429009002524	F420-0:Gamma-glutamyl ligase; Region: F420_ligase; pfam01996
429009002525	Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872
429009002526	Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; cl00831
429009002527	Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148
429009002528	4Fe-4S binding domain; Region: Fer4; pfam00037
429009002529	RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409
429009002530	IclR helix-turn-helix domain; Region: HTH_IclR; cl17605
429009002531	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
429009002532	4Fe-4S dicluster domain; Region: Fer4_17; pfam13534
429009002533	CRISPR/Cas system-associated RAMP superfamily protein Cmr1; Region: Cmr1_III-B; cl17436
429009002534	CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cd09726
429009002535	CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cd09701
429009002536	CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cd09701
429009002537	CRISPR/Cas system-associated RAMP superfamily protein Cmr4; Region: Cmr4_III-B; cl17440
429009002538	CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl17214
429009002539	Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718
429009002540	metal binding site [ion binding]; metal-binding site
429009002541	Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303
429009002542	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
429009002543	dimer interface [polypeptide binding]; other site
429009002544	putative functional site; other site
429009002545	putative MPT binding site; other site
429009002546	putative molybdopterin biosynthesis protein MoeA/LysR substrate binding-domain-containing protein; Provisional; Region: PRK14498
429009002547	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
429009002548	dimer interface [polypeptide binding]; other site
429009002549	putative functional site; other site
429009002550	putative MPT binding site; other site
429009002551	PBP superfamily domain; Region: PBP_like; pfam12727
429009002552	MoaC family. 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 derivative to the precursor...; Region: MoaC; cl00242
429009002553	trimer interface [polypeptide binding]; other site
429009002554	dimer interface [polypeptide binding]; other site
429009002555	putative active site [active]
429009002556	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
429009002557	MPT binding site; other site
429009002558	trimer interface [polypeptide binding]; other site
429009002559	Prolipoprotein diacylglyceryl transferase; Region: LGT; pfam01790
429009002560	adenylylsulfate reductase subunit alpha; Validated; Region: PRK06854
429009002561	Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910
429009002562	4Fe-4S dicluster domain; Region: Fer4_10; pfam13237
429009002563	RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409
429009002564	Arginase-like and histone-like hydrolases; Region: Arginase_HDAC; cl17011
429009002565	active site
429009002566	metal binding site [ion binding]; metal-binding site
429009002567	cobalt transport protein CbiM; Validated; Region: PRK08319
429009002568	Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891
429009002569	cobalt transport protein CbiN; Provisional; Region: PRK02898
429009002570	cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13639
429009002571	First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225
429009002572	Walker A/P-loop; other site
429009002573	ATP binding site [chemical binding]; other site
429009002574	Q-loop/lid; other site
429009002575	ABC transporter signature motif; other site
429009002576	Walker B; other site
429009002577	D-loop; other site
429009002578	H-loop/switch region; other site
429009002579	cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075
429009002580	Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644
429009002581	active site
429009002582	putative homodimer interface [polypeptide binding]; other site
429009002583	SAM binding site [chemical binding]; other site
429009002584	Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242
429009002585	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
429009002586	Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645
429009002587	active site
429009002588	SAM binding site [chemical binding]; other site
429009002589	homodimer interface [polypeptide binding]; other site
429009002590	Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641
429009002591	active site
429009002592	SAM binding site [chemical binding]; other site
429009002593	homodimer interface [polypeptide binding]; other site
429009002594	cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788
429009002595	Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760
429009002596	Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761
429009002597	Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890
429009002598	Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646
429009002599	active site
429009002600	SAM binding site [chemical binding]; other site
429009002601	homodimer interface [polypeptide binding]; other site
429009002602	Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099
429009002603	cobalt-precorrin-6x reductase; Reviewed; Region: PRK08057
429009002604	Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416
429009002605	putative active site [active]
429009002606	Precorrin-8X methylmutase; Region: CbiC; pfam02570
429009002607	cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; cl00913
429009002608	putative NTPase; Provisional; Region: PRK13695
429009002609	AAA domain; Region: AAA_18; pfam13238
429009002610	Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030
429009002611	Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020
429009002612	dimer interface [polypeptide binding]; other site
429009002613	active site residues [active]
429009002614	NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957
429009002615	Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330
429009002616	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
429009002617	Domain of unknown function (DUF1858); Region: DUF1858; cl14817
429009002618	Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730
429009002619	Rubredoxin; Region: Rubredoxin; pfam00301
429009002620	iron binding site [ion binding]; other site
429009002621	desulfoferrodoxin; Region: dfx_rbo; TIGR00320
429009002622	Desulforedoxin (DSRD) domain; a small non-heme iron domain present in the desulforedoxin (rubredoxin oxidoreductase) and desulfoferrodoxin proteins of some archeael and bacterial methanogens and sulfate/sulfur reducers. Desulforedoxin is a small; Region: DSRD; cd00974
429009002623	non-heme iron binding site [ion binding]; other site
429009002624	dimer interface [polypeptide binding]; other site
429009002625	Superoxide reductase-like (SORL) domain; present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals as a defense mechanism...; Region: SORL; cl00014
429009002626	non-heme iron binding site [ion binding]; other site
429009002627	transposase, putative, N-terminal domain; Region: tspaseT_teng_N; TIGR01765
429009002628	transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766
429009002629	Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282
429009002630	Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452
429009002631	Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600
429009002632	DNA binding residues [nucleotide binding]
429009002633	Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of...; Region: SR_IS607_transposase_like; cd03769
429009002634	catalytic residues [active]
429009002635	catalytic nucleophile [active]
429009002636	Winged helix-turn helix; Region: HTH_29; pfam13551
429009002637	Homeodomain-like domain; Region: HTH_32; pfam13565
429009002638	Integrase core domain; Region: rve; pfam00665
429009002639	Integrase core domain; Region: rve_3; pfam13683
429009002640	Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114
429009002641	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
429009002642	dimerization interface [polypeptide binding]; other site
429009002643	domain crossover interface; other site
429009002644	redox-dependent activation switch; other site
429009002645	Uncharacterized ACR, COG1399; Region: DUF177; pfam02620
429009002646	50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286
429009002647	transposase, putative, N-terminal domain; Region: tspaseT_teng_N; TIGR01765
429009002648	transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766
429009002649	Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282
429009002650	putative phosphate acyltransferase; Provisional; Region: PRK05331
429009002651	3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352
429009002652	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
429009002653	dimer interface [polypeptide binding]; other site
429009002654	active site
429009002655	CoA binding pocket [chemical binding]; other site
429009002656	(acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331
429009002657	malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128
429009002658	3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557
429009002659	beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333
429009002660	NAD(P) binding site [chemical binding]; other site
429009002661	homotetramer interface [polypeptide binding]; other site
429009002662	homodimer interface [polypeptide binding]; other site
429009002663	active site
429009002664	acyl carrier protein; Provisional; Region: acpP; PRK00982
429009002665	beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150
429009002666	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
429009002667	dimer interface [polypeptide binding]; other site
429009002668	active site
429009002669	ribonuclease III; Reviewed; Region: rnc; PRK00102
429009002670	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
429009002671	dimerization interface [polypeptide binding]; other site
429009002672	active site
429009002673	metal binding site [ion binding]; metal-binding site
429009002674	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
429009002675	dsRNA binding site [nucleotide binding]; other site
429009002676	signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416
429009002677	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
429009002678	Phosphorylase superfamily; Region: PNP_UDP_1; cl00303
429009002679	Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348
429009002680	methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720
429009002681	S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476
429009002682	S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401
429009002683	homotetramer interface [polypeptide binding]; other site
429009002684	ligand binding site [chemical binding]; other site
429009002685	catalytic site [active]
429009002686	NAD binding site [chemical binding]; other site
429009002687	Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; pfam00596
429009002688	intersubunit interface [polypeptide binding]; other site
429009002689	active site
429009002690	Zn2+ binding site [ion binding]; other site
429009002691	N-ethylammeline chlorohydrolase; Provisional; Region: PRK06038
429009002692	TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298
429009002693	active site
429009002694	putative substrate binding pocket [chemical binding]; other site
429009002695	Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092
429009002696	Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572
429009002697	putative RNA binding site [nucleotide binding]; other site
429009002698	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
429009002699	S-adenosylmethionine binding site [chemical binding]; other site
429009002700	Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u2; cd10926
429009002701	putative active site [active]
429009002702	Predicted transcriptional regulator [Transcription]; Region: COG2378
429009002703	WYL domain; Region: WYL; pfam13280
429009002704	CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cd09652
429009002705	CRISPR/Cas system-associated protein Cas8b; Region: Cas8b_I-B; cl09718
429009002706	Family of unknown function (DUF694); Region: DUF694; pfam05107
429009002707	CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I; cl12040
429009002708	CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641
429009002709	CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587
429009002710	DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251
429009002711	Domain of unknown function DUF83; Region: Cas_Cas4; pfam01930
429009002712	Domain of unknown function (DUF1887); Region: DUF1887; pfam09002
429009002713	CRISPR/Cas system-associated protein Csx1; Region: Csx1_III-U; cl11817
429009002714	CRISPR-associated protein (Cas_Cas02710); Region: Cas_Cas02710; pfam09670
429009002715	CRISPR/Cas system-associated protein Csx1; Region: Csx1_III-U; cl11817
429009002716	CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cd09680
429009002717	CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl17214
429009002718	CRISPR/Cas system-associated RAMP superfamily protein Csx10; Region: Csx10; cl17558
429009002719	CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl17214
429009002720	CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl17214
429009002721	CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cd09726
429009002722	Adenylosuccinate lyase C-terminus; Region: ADSL_C; cl17237
429009002723	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
429009002724	Predicted GTPase or GTP-binding protein [General function prediction only]; Region: COG1341
429009002725	Protein of unknown function (DUF1284); Region: DUF1284; cl01419
429009002726	BioY family; Region: BioY; pfam02632
429009002727	YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061
429009002728	ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698
429009002729	ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842
429009002730	ABC-2 type transporter; Region: ABC2_membrane; pfam01061
429009002731	Transcriptional regulator [Transcription]; Region: AcrR; COG1309
429009002732	Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440
429009002733	YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359
429009002734	DsrE/DsrF/DrsH-like family; Region: DrsE_2; cl17453
429009002735	GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661
429009002736	putative active site pocket [active]
429009002737	dimerization interface [polypeptide binding]; other site
429009002738	putative catalytic residue [active]
429009002739	N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145
429009002740	Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378
429009002741	Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968
429009002742	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
429009002743	putative Zn2+ binding site [ion binding]; other site
429009002744	putative DNA binding site [nucleotide binding]; other site
429009002745	Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148
429009002746	RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409
429009002747	Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; cl00831
429009002748	integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718
429009002749	Transposase domain (DUF772); Region: DUF772; pfam05598
429009002750	Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751
429009002751	Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414
429009002752	Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730
429009002753	Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314
429009002754	Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754
429009002755	MoaE interaction surface [polypeptide binding]; other site
429009002756	MoeB interaction surface [polypeptide binding]; other site
429009002757	thiocarboxylated glycine; other site
429009002758	molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690
429009002759	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
429009002760	ATP binding site [chemical binding]; other site
429009002761	substrate interface [chemical binding]; other site
429009002762	Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123
429009002763	Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII; cd09992
429009002764	active site
429009002765	Zn binding site [ion binding]; other site
429009002766	Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496
429009002767	Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578
429009002768	Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745
429009002769	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
429009002770	active site
429009002771	phosphorylation site [posttranslational modification]
429009002772	intermolecular recognition site; other site
429009002773	dimerization interface [polypeptide binding]; other site
429009002774	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
429009002775	DNA binding site [nucleotide binding]
429009002776	phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966
429009002777	PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130
429009002778	putative active site [active]
429009002779	heme pocket [chemical binding]; other site
429009002780	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
429009002781	dimer interface [polypeptide binding]; other site
429009002782	phosphorylation site [posttranslational modification]
429009002783	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
429009002784	ATP binding site [chemical binding]; other site
429009002785	Mg2+ binding site [ion binding]; other site
429009002786	G-X-G motif; other site
429009002787	ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117
429009002788	ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260
429009002789	Walker A/P-loop; other site
429009002790	ATP binding site [chemical binding]; other site
429009002791	Q-loop/lid; other site
429009002792	ABC transporter signature motif; other site
429009002793	Walker B; other site
429009002794	D-loop; other site
429009002795	H-loop/switch region; other site
429009002796	phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135
429009002797	PhoU domain; Region: PhoU; pfam01895
429009002798	PhoU domain; Region: PhoU; pfam01895
429009002799	Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635
429009002800	pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site
429009002801	catalytic residue [active]
429009002802	Protein of unknown function (DUF552); Region: DUF552; pfam04472
429009002803	pyrroline-5-carboxylate reductase; Region: PLN02688
429009002804	pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880
429009002805	YGGT family; Region: YGGT; pfam02325
429009002806	Uncharacterized ACR, YggU family COG1872; Region: DUF167; pfam02594
429009002807	isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743
429009002808	catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818
429009002809	HIGH motif; other site
429009002810	Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603
429009002811	catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818
429009002812	active site
429009002813	KMSKS motif; other site
429009002814	Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960
429009002815	tRNA binding surface [nucleotide binding]; other site
429009002816	anticodon binding site; other site
429009002817	Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827
429009002818	Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741
429009002819	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
429009002820	N-acetyl-D-glucosamine binding site [chemical binding]; other site
429009002821	catalytic residue [active]
429009002822	Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237
429009002823	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
429009002824	CoA-binding site [chemical binding]; other site
429009002825	ATP-binding [chemical binding]; other site
429009002826	formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103
429009002827	N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966
429009002828	DNA binding site [nucleotide binding]
429009002829	catalytic residue [active]
429009002830	H2TH interface [polypeptide binding]; other site
429009002831	putative catalytic residues [active]
429009002832	turnover-facilitating residue; other site
429009002833	intercalation triad [nucleotide binding]; other site
429009002834	8OG recognition residue [nucleotide binding]; other site
429009002835	putative reading head residues; other site
429009002836	Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831
429009002837	Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827
429009002838	DNA polymerase I; Provisional; Region: PRK05755
429009002839	PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859
429009002840	active site
429009002841	metal binding site 1 [ion binding]; metal-binding site
429009002842	putative 5' ssDNA interaction site; other site
429009002843	metal binding site 3; metal-binding site
429009002844	metal binding site 2 [ion binding]; metal-binding site
429009002845	H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898
429009002846	putative DNA binding site [nucleotide binding]; other site
429009002847	putative metal binding site [ion binding]; other site
429009002848	inactive DEDDy 3'-5' exonuclease domain of Bacillus stearothermophilus DNA polymerase I and similar family-A DNA polymerases; Region: DNA_polA_I_Bacillus_like_exo; cd06140
429009002849	Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637
429009002850	active site
429009002851	DNA binding site [nucleotide binding]
429009002852	catalytic site [active]
429009002853	Winged helix-turn helix; Region: HTH_29; pfam13551
429009002854	Homeodomain-like domain; Region: HTH_23; pfam13384
429009002855	Homeodomain-like domain; Region: HTH_32; pfam13565
429009002856	Integrase core domain; Region: rve; pfam00665
429009002857	Integrase core domain; Region: rve_3; pfam13683
429009002858	Stress responsive A/B Barrel Domain; Region: Dabb; cl17744
429009002859	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
429009002860	dimer interface [polypeptide binding]; other site
429009002861	phosphorylation site [posttranslational modification]
429009002862	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
429009002863	ATP binding site [chemical binding]; other site
429009002864	Mg2+ binding site [ion binding]; other site
429009002865	G-X-G motif; other site
429009002866	Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745
429009002867	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
429009002868	active site
429009002869	phosphorylation site [posttranslational modification]
429009002870	intermolecular recognition site; other site
429009002871	dimerization interface [polypeptide binding]; other site
429009002872	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
429009002873	DNA binding site [nucleotide binding]
429009002874	Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586
429009002875	SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335
429009002876	CGGC domain; Region: CGGC; pfam08821
429009002877	Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438
429009002878	This family is most closely related to the GT1 family of glycosyltransferases. UDP-glucose-diacylglycerol glucosyltransferase (UGDG; also known as 1,2-diacylglycerol 3-glucosyltransferase) catalyzes the transfer of glucose from UDP-glucose to 1; Region: GT1_UGDG_like; cd03817
429009002879	putative ADP-binding pocket [chemical binding]; other site
429009002880	Sensor protein DegS; Region: DegS; pfam05384
429009002881	Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585
429009002882	Histidine kinase; Region: HisKA_3; pfam07730
429009002883	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
429009002884	ATP binding site [chemical binding]; other site
429009002885	Mg2+ binding site [ion binding]; other site
429009002886	G-X-G motif; other site
429009002887	Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197
429009002888	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
429009002889	active site
429009002890	phosphorylation site [posttranslational modification]
429009002891	intermolecular recognition site; other site
429009002892	dimerization interface [polypeptide binding]; other site
429009002893	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
429009002894	DNA binding residues [nucleotide binding]
429009002895	dimerization interface [polypeptide binding]; other site
429009002896	Flp/Fap pilin component; Region: Flp_Fap; cl01585
429009002897	Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977
429009002898	Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745
429009002899	SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614
429009002900	Response regulator receiver domain; Region: Response_reg; pfam00072
429009002901	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
429009002902	active site
429009002903	phosphorylation site [posttranslational modification]
429009002904	intermolecular recognition site; other site
429009002905	dimerization interface [polypeptide binding]; other site
429009002906	septum site-determining protein MinD; Region: minD_bact; TIGR01968
429009002907	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
429009002908	Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962
429009002909	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
429009002910	ATP binding site [chemical binding]; other site
429009002911	Walker A motif; other site
429009002912	hexamer interface [polypeptide binding]; other site
429009002913	Walker B motif; other site
429009002914	Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965
429009002915	Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482
429009002916	Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064
429009002917	Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482
429009002918	Uncharacterized ACR, COG1430; Region: DUF192; pfam02643
429009002919	Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer,  utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514
429009002920	FMN binding site [chemical binding]; other site
429009002921	dimer interface [polypeptide binding]; other site
429009002922	Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454
429009002923	iron-containing alcohol dehydrogenases (Fe-ADH)-like; Region: Fe-ADH; cd08551
429009002924	active site
429009002925	metal binding site [ion binding]; metal-binding site
429009002926	Protein of unknown function (DUF763); Region: DUF763; pfam05559
429009002927	putative RNA polymerase sigma factor SigI; Reviewed; Region: PRK08311
429009002928	Sigma-70 region 2; Region: Sigma70_r2; pfam04542
429009002929	Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705
429009002930	Carbohydrate binding domain; Region: CBM_25; smart01066
429009002931	VPS10 domain; Region: VPS10; smart00602
429009002932	Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002
429009002933	SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966
429009002934	PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861
429009002935	putative active site [active]
429009002936	Transcriptional regulator [Transcription]; Region: AcrR; COG1309
429009002937	Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440
429009002938	4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337
429009002939	Putative amidase domain; Region: Amidase_6; pfam12671
429009002940	Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675
429009002941	Probable transposase; Region: OrfB_IS605; pfam01385
429009002942	transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766
429009002943	RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651
429009002944	Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078
429009002945	putative active site [active]
429009002946	putative NTP binding site [chemical binding]; other site
429009002947	putative nucleic acid binding site [nucleotide binding]; other site
429009002948	Group II intron, maturase-specific domain; Region: GIIM; pfam08388
429009002949	S-adenosylmethionine synthetase; Validated; Region: PRK05250
429009002950	S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438
429009002951	S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772
429009002952	S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773
429009002953	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
429009002954	CoenzymeA binding site [chemical binding]; other site
429009002955	subunit interaction site [polypeptide binding]; other site
429009002956	PHB binding site; other site
429009002957	Putative Ser protein kinase [Signal transduction mechanisms]; Region: PrkA; COG2766
429009002958	AAA ATPase domain; Region: AAA_16; pfam13191
429009002959	PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798
429009002960	Protein of unknown function (DUF444); Region: DUF444; cl17371
429009002961	Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809
429009002962	active site
429009002963	substrate binding site [chemical binding]; other site
429009002964	FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070
429009002965	FMN binding site [chemical binding]; other site
429009002966	putative catalytic residues [active]
429009002967	Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071
429009002968	Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain  (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464
429009002969	putative dimer interface [polypeptide binding]; other site
429009002970	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
429009002971	4Fe-4S dicluster domain; Region: Fer4_17; pfam13534
429009002972	4Fe-4S dicluster domain; Region: Fer4_7; pfam12838
429009002973	Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662
429009002974	NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450
429009002975	4Fe-4S dicluster domain; Region: Fer4_7; pfam12838
429009002976	adenylylsulfate reductase subunit alpha; Validated; Region: PRK06854
429009002977	Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910
429009002978	adenosine phosphosulphate reductase, beta subunit; Region: aprB; TIGR02060
429009002979	RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409
429009002980	Adenosine-5'-phosphosulfate reductase beta subunit; Region: APS-reductase_C; pfam12139
429009002981	Peptidase family M48; Region: Peptidase_M48; cl12018
429009002982	Transposase IS200 like; Region: Y1_Tnp; pfam01797
429009002983	Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992
429009002984	Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833
429009002985	This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851
429009002986	This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851
429009002987	This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion; Region: Fer4_NifH_child; cd03110
429009002988	Ferredoxin [Energy production and conversion]; Region: COG1146
429009002989	CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656
429009002990	switch II; other site
429009002991	MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149
429009002992	This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion; Region: Fer4_NifH_child; cd03110
429009002993	P loop nucleotide binding; other site
429009002994	switch II; other site
429009002995	ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073
429009002996	Part of AAA domain; Region: AAA_19; pfam13245
429009002997	Family description; Region: UvrD_C_2; pfam13538
429009002998	Protein of unknown function (DUF2837); Region: DUF2837; pfam10997
429009002999	NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956
429009003000	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
429009003001	nucleotide binding pocket [chemical binding]; other site
429009003002	K-X-D-G motif; other site
429009003003	catalytic site [active]
429009003004	NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120
429009003005	NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119
429009003006	endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786
429009003007	helix-hairpin-helix signature motif; other site
429009003008	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
429009003009	Dimer interface [polypeptide binding]; other site
429009003010	BRCT sequence motif; other site
429009003011	Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154
429009003012	aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012
429009003013	aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477
429009003014	GatB/GatE catalytic domain; Region: GatB_N; pfam02934
429009003015	GatB domain; Region: GatB_Yqey; smart00845
429009003016	trans-homoaconitate synthase; Reviewed; Region: aksA; PRK11858
429009003017	Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939
429009003018	active site
429009003019	catalytic residues [active]
429009003020	metal binding site [ion binding]; metal-binding site
429009003021	3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402
429009003022	3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583
429009003023	substrate binding site [chemical binding]; other site
429009003024	ligand binding site [chemical binding]; other site
429009003025	3-isopropylmalate dehydratase small subunit; Reviewed; Region: leuD; PRK00439
429009003026	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
429009003027	substrate binding site [chemical binding]; other site
429009003028	Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473
429009003029	tartrate dehydrogenase; Region: TTC; TIGR02089
429009003030	twin arginine translocase protein A; Provisional; Region: tatA; PRK14861
429009003031	ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116
429009003032	ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293
429009003033	Walker A/P-loop; other site
429009003034	ATP binding site [chemical binding]; other site
429009003035	Q-loop/lid; other site
429009003036	ABC transporter signature motif; other site
429009003037	Walker B; other site
429009003038	D-loop; other site
429009003039	H-loop/switch region; other site
429009003040	ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; pfam09821
429009003041	ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986
429009003042	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
429009003043	dimer interface [polypeptide binding]; other site
429009003044	conserved gate region; other site
429009003045	putative PBP binding loops; other site
429009003046	ABC-ATPase subunit interface; other site
429009003047	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
429009003048	dimer interface [polypeptide binding]; other site
429009003049	conserved gate region; other site
429009003050	putative PBP binding loops; other site
429009003051	ABC-ATPase subunit interface; other site
429009003052	pantoate--beta-alanine ligase; Reviewed; Region: panC; PRK00380
429009003053	pantoate--beta-alanine ligase; Region: panC; TIGR00018
429009003054	active site
429009003055	nucleotide binding site [chemical binding]; other site
429009003056	HIGH motif; other site
429009003057	KMSKS motif; other site
429009003058	DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586
429009003059	active site
429009003060	DNA polymerase IV; Validated; Region: PRK02406
429009003061	DNA binding site [nucleotide binding]
429009003062	D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372
429009003063	D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820
429009003064	ATP-grasp domain; Region: ATP-grasp_4; cl17255
429009003065	2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959
429009003066	intersubunit interface [polypeptide binding]; other site
429009003067	active site
429009003068	catalytic residue [active]
429009003069	transposase, putative, N-terminal domain; Region: tspaseT_teng_N; TIGR01765
429009003070	transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766
429009003071	Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282
429009003072	Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452
429009003073	Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762
429009003074	DNA binding residues [nucleotide binding]
429009003075	Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of...; Region: SR_IS607_transposase_like; cd03769
429009003076	catalytic residues [active]
429009003077	catalytic nucleophile [active]
429009003078	Predicted transcriptional regulators [Transcription]; Region: COG1695
429009003079	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
429009003080	putative DNA binding site [nucleotide binding]; other site
429009003081	dimerization interface [polypeptide binding]; other site
429009003082	5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222
429009003083	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
429009003084	THF binding site; other site
429009003085	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
429009003086	substrate binding site [chemical binding]; other site
429009003087	THF binding site; other site
429009003088	zinc-binding site [ion binding]; other site
429009003089	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
429009003090	cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664
429009003091	ligand binding site [chemical binding]; other site
429009003092	flexible hinge region; other site
429009003093	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
429009003094	DNA binding site [nucleotide binding]
429009003095	sequence specific DNA binding site [nucleotide binding]; other site
429009003096	putative cAMP binding site [chemical binding]; other site
429009003097	Methyltransferase domain; Region: Methyltransf_23; pfam13489
429009003098	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
429009003099	S-adenosylmethionine binding site [chemical binding]; other site
429009003100	UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511
429009003101	putative metal binding site; other site
429009003102	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
429009003103	binding surface
429009003104	TPR motif; other site
429009003105	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
429009003106	binding surface
429009003107	TPR motif; other site
429009003108	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
429009003109	Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463
429009003110	active site
429009003111	Methyltransferase domain; Region: Methyltransf_23; pfam13489
429009003112	Methyltransferase domain; Region: Methyltransf_11; pfam08241
429009003113	Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641
429009003114	Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186
429009003115	Probable Catalytic site; other site
429009003116	metal-binding site
429009003117	TGF-beta propeptide; Region: TGFb_propeptide; pfam00688
429009003118	Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460
429009003119	Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077
429009003120	Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675
429009003121	Probable transposase; Region: OrfB_IS605; pfam01385
429009003122	transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766
429009003123	Cyclophilin-like; Region: Cyclophil_like; pfam04126
429009003124	Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223
429009003125	active site
429009003126	Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706
429009003127	mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595
429009003128	RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521
429009003129	inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567
429009003130	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
429009003131	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
429009003132	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
429009003133	active site
429009003134	DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; cl01319
429009003135	Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370
429009003136	Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879
429009003137	G1 box; other site
429009003138	GTP/Mg2+ binding site [chemical binding]; other site
429009003139	Switch I region; other site
429009003140	G2 box; other site
429009003141	G3 box; other site
429009003142	Switch II region; other site
429009003143	G4 box; other site
429009003144	G5 box; other site
429009003145	Nucleoside recognition; Region: Gate; pfam07670
429009003146	Nucleoside recognition; Region: Gate; pfam07670
429009003147	FeoA domain; Region: FeoA; pfam04023
429009003148	Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894
429009003149	Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1655
429009003150	transposase, putative, N-terminal domain; Region: tspaseT_teng_N; TIGR01765
429009003151	Transcription factor zinc-finger; Region: zf-TFIIB; cl01565
429009003152	Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853
429009003153	4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding domain protein; Reviewed; Region: PRK00087
429009003154	4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761
429009003155	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
429009003156	RNA binding site [nucleotide binding]; other site
429009003157	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
429009003158	RNA binding site [nucleotide binding]; other site
429009003159	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
429009003160	RNA binding site [nucleotide binding]; other site
429009003161	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
429009003162	RNA binding site [nucleotide binding]; other site
429009003163	domain interface; other site
429009003164	1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204
429009003165	Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989
429009003166	putative acyl-acceptor binding pocket; other site
429009003167	cytidylate kinase; Provisional; Region: cmk; PRK00023
429009003168	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
429009003169	CMP-binding site; other site
429009003170	The sites determining sugar specificity; other site
429009003171	3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427
429009003172	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
429009003173	hinge; other site
429009003174	active site
429009003175	prephenate dehydrogenase; Validated; Region: PRK06545
429009003176	prephenate dehydrogenase; Validated; Region: PRK08507
429009003177	C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH); Region: ACT_PDH-BS; cd04909
429009003178	transposase, putative, N-terminal domain; Region: tspaseT_teng_N; TIGR01765
429009003179	transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766
429009003180	prephenate dehydratase; Provisional; Region: PRK11898
429009003181	Prephenate dehydratase; Region: PDT; pfam00800
429009003182	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
429009003183	putative L-Phe binding site [chemical binding]; other site
429009003184	3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673
429009003185	phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361
429009003186	histidinol-phosphate aminotransferase; Validated; Region: PRK02731
429009003187	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
429009003188	pyridoxal 5'-phosphate binding site [chemical binding]; other site
429009003189	homodimer interface [polypeptide binding]; other site
429009003190	catalytic residue [active]
429009003191	tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200
429009003192	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
429009003193	substrate binding site [chemical binding]; other site
429009003194	active site
429009003195	catalytic residues [active]
429009003196	heterodimer interface [polypeptide binding]; other site
429009003197	tryptophan synthase, beta subunit; Region: trpB; TIGR00263
429009003198	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
429009003199	pyridoxal 5'-phosphate binding site [chemical binding]; other site
429009003200	catalytic residue [active]
429009003201	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
429009003202	active site
429009003203	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
429009003204	active site
429009003205	ribulose/triose binding site [chemical binding]; other site
429009003206	phosphate binding site [ion binding]; other site
429009003207	substrate (anthranilate) binding pocket [chemical binding]; other site
429009003208	product (indole) binding pocket [chemical binding]; other site
429009003209	anthranilate phosphoribosyltransferase; Region: trpD; TIGR01245
429009003210	Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885
429009003211	Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591
429009003212	para-aminobenzoate synthase component II; Provisional; Region: PRK08857
429009003213	Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743
429009003214	glutamine binding [chemical binding]; other site
429009003215	catalytic triad [active]
429009003216	anthranilate synthase component I, non-proteobacterial lineages; Region: trpE_most; TIGR00564
429009003217	Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715
429009003218	chorismate binding enzyme; Region: Chorismate_bind; pfam00425
429009003219	Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782
429009003220	transposase, putative, N-terminal domain; Region: tspaseT_teng_N; TIGR01765
429009003221	Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284
429009003222	Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482
429009003223	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
429009003224	Ligand Binding Site [chemical binding]; other site
429009003225	Domain of unknown function (DUF814); Region: DUF814; pfam05670
429009003226	Uncharacterized conserved protein [Function unknown]; Region: COG1683
429009003227	Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452
429009003228	Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762
429009003229	DNA binding residues [nucleotide binding]
429009003230	Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788
429009003231	catalytic residues [active]
429009003232	catalytic nucleophile [active]
429009003233	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
429009003234	non-specific DNA binding site [nucleotide binding]; other site
429009003235	salt bridge; other site
429009003236	sequence-specific DNA binding site [nucleotide binding]; other site
429009003237	Prim_Pol: Primase-polymerase (primpol) domain of the type found in bifunctional replicases from archaeal plasmids, including ORF904 protein of the crenarchaeal plasmid pRN1 from Sulfolobus islandicus (pRN1 primpol). These primpol domains belong to the...; Region: Prim_Pol; cd04859
429009003238	polymerase nucleotide-binding site; other site
429009003239	DNA-binding residues [nucleotide binding]; DNA binding site
429009003240	nucleotide binding site [chemical binding]; other site
429009003241	primase nucleotide-binding site [nucleotide binding]; other site
429009003242	Primase C terminal 1 (PriCT-1); Region: PriCT_1; smart00942
429009003243	Protein of unknown function (DUF3987); Region: DUF3987; pfam13148
429009003244	Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396
429009003245	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
429009003246	non-specific DNA binding site [nucleotide binding]; other site
429009003247	salt bridge; other site
429009003248	sequence-specific DNA binding site [nucleotide binding]; other site
429009003249	site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236
429009003250	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
429009003251	active site
429009003252	DNA binding site [nucleotide binding]
429009003253	Int/Topo IB signature motif; other site
429009003254	Winged helix-turn helix; Region: HTH_29; pfam13551
429009003255	Homeodomain-like domain; Region: HTH_23; pfam13384
429009003256	Homeodomain-like domain; Region: HTH_32; pfam13565
429009003257	Integrase core domain; Region: rve; pfam00665
429009003258	Integrase core domain; Region: rve_3; pfam13683
429009003259	Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075
429009003260	Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452
429009003261	Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762
429009003262	DNA binding residues [nucleotide binding]
429009003263	Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of...; Region: SR_IS607_transposase_like; cd03769
429009003264	catalytic residues [active]
429009003265	catalytic nucleophile [active]
429009003266	Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298
429009003267	zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_2; TIGR02822
429009003268	putative NAD(P) binding site [chemical binding]; other site
429009003269	putative substrate binding site [chemical binding]; other site
429009003270	catalytic Zn binding site [ion binding]; other site
429009003271	structural Zn binding site [ion binding]; other site
429009003272	ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120
429009003273	ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214
429009003274	Walker A/P-loop; other site
429009003275	ATP binding site [chemical binding]; other site
429009003276	Q-loop/lid; other site
429009003277	ABC transporter signature motif; other site
429009003278	Walker B; other site
429009003279	D-loop; other site
429009003280	H-loop/switch region; other site
429009003281	iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577
429009003282	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
429009003283	ABC-ATPase subunit  interface; other site
429009003284	dimer interface [polypeptide binding]; other site
429009003285	putative PBP binding regions; other site
429009003286	ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614
429009003287	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
429009003288	putative metal binding site [ion binding]; other site
429009003289	Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]; Region: COG2191
429009003290	FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663
429009003291	Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755
429009003292	Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216
429009003293	formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562
429009003294	Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901
429009003295	Polysulphide reductase, NrfD; Region: NrfD; pfam03916
429009003296	DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951
429009003297	Molybdopterin oxidoreductase Fe4S4 domain; Region: Molybdop_Fe4S4; smart00926
429009003298	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
429009003299	Sensory domain found in PocR; Region: PocR; pfam10114
429009003300	Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936
429009003301	GAF domain; Region: GAF; cl17456
429009003302	GAF domain; Region: GAF; cl17456
429009003303	FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203
429009003304	Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065
429009003305	c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206
429009003306	Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077
429009003307	Zn2+ binding site [ion binding]; other site
429009003308	Mg2+ binding site [ion binding]; other site
429009003309	FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784
429009003310	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
429009003311	active site
429009003312	phosphorylation site [posttranslational modification]
429009003313	intermolecular recognition site; other site
429009003314	dimerization interface [polypeptide binding]; other site
429009003315	Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949
429009003316	metal binding site [ion binding]; metal-binding site
429009003317	active site
429009003318	I-site; other site
429009003319	Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030
429009003320	Fe-S cluster binding site [ion binding]; other site
429009003321	active site
429009003322	ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122
429009003323	First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225
429009003324	Walker A/P-loop; other site
429009003325	ATP binding site [chemical binding]; other site
429009003326	Q-loop/lid; other site
429009003327	ABC transporter signature motif; other site
429009003328	Walker B; other site
429009003329	D-loop; other site
429009003330	H-loop/switch region; other site
429009003331	Predicted RNA-binding protein; Region: RNA_bind_2; pfam10133
429009003332	Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482
429009003333	Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999
429009003334	Putative regulatory, ligand-binding protein related to C-terminal domains of K+ channels [Inorganic ion transport and metabolism]; Region: COG0490
429009003335	TrkA-C domain; Region: TrkA_C; pfam02080
429009003336	Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879
429009003337	ferrous iron transporter FeoB; Region: feoB; TIGR00437
429009003338	G1 box; other site
429009003339	GTP/Mg2+ binding site [chemical binding]; other site
429009003340	Switch I region; other site
429009003341	G2 box; other site
429009003342	G3 box; other site
429009003343	Switch II region; other site
429009003344	G4 box; other site
429009003345	Nucleoside recognition; Region: Gate; pfam07670
429009003346	FeoA domain; Region: FeoA; pfam04023
429009003347	Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894
429009003348	Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560
429009003349	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
429009003350	active site
429009003351	motif I; other site
429009003352	motif II; other site
429009003353	ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108
429009003354	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
429009003355	ABC-ATPase subunit  interface; other site
429009003356	dimer interface [polypeptide binding]; other site
429009003357	putative PBP binding regions; other site
429009003358	ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121
429009003359	ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235
429009003360	ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803
429009003361	Metal binding protein AcdA.  These proteins have been shown to function in the ABC uptake of Zn2+ and Mn2+ and in competence for genetic transformation and adhesion. The AcdA proteins belong to the TroA superfamily of helical backbone metal receptor...; Region: AdcA; cd01017
429009003362	metal binding site [ion binding]; metal-binding site
429009003363	ferric uptake regulator; Provisional; Region: fur; PRK09462
429009003364	Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153
429009003365	metal binding site 2 [ion binding]; metal-binding site
429009003366	putative DNA binding helix; other site
429009003367	metal binding site 1 [ion binding]; metal-binding site
429009003368	dimer interface [polypeptide binding]; other site
429009003369	structural Zn2+ binding site [ion binding]; other site
429009003370	Uncharacterized protein conserved in archaea (DUF2250); Region: DUF2250; pfam10007
429009003371	Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099
429009003372	TatD related DNase; Region: TatD_DNase; pfam01026
429009003373	active site
429009003374	Uncharacterized conserved protein [Function unknown]; Region: COG1416
429009003375	Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460
429009003376	Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077
429009003377	Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410
429009003378	GTP-binding protein Der; Reviewed; Region: PRK00093
429009003379	EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894
429009003380	G1 box; other site
429009003381	GTP/Mg2+ binding site [chemical binding]; other site
429009003382	Switch I region; other site
429009003383	G2 box; other site
429009003384	Switch II region; other site
429009003385	G3 box; other site
429009003386	G4 box; other site
429009003387	G5 box; other site
429009003388	EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895
429009003389	G1 box; other site
429009003390	GTP/Mg2+ binding site [chemical binding]; other site
429009003391	Switch I region; other site
429009003392	G2 box; other site
429009003393	G3 box; other site
429009003394	Switch II region; other site
429009003395	G4 box; other site
429009003396	G5 box; other site
429009003397	putative FeS-containing Cyanobacterial-specific oxidoreductase; Region: cyano_FeS_chp; TIGR03279
429009003398	Protein of unknown function (DUF512); Region: DUF512; pfam04459
429009003399	Stage II sporulation protein P (SpoIIP); Region: SpoIIP; pfam07454
429009003400	stage II sporulation protein P; Region: spore_II_P; TIGR02867
429009003401	Protein of unknown function (DUF1614); Region: DUF1614; pfam07758
429009003402	Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386
429009003403	dimer interface [polypeptide binding]; other site
429009003404	Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015
429009003405	putative CheW interface [polypeptide binding]; other site
429009003406	Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805
429009003407	Sec-independent protein secretion pathway components [Intracellular trafficking and secretion]; Region: TatA; COG1826
429009003408	Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374
429009003409	Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374
429009003410	Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740
429009003411	NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058
429009003412	Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062
429009003413	coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130
429009003414	putative substrate-binding site; other site
429009003415	nickel binding site [ion binding]; other site
429009003416	6-phosphofructokinase; Provisional; Region: PRK03202
429009003417	6-phosphofructokinase; Region: PFKA_ATP; TIGR02482
429009003418	active site
429009003419	ADP/pyrophosphate binding site [chemical binding]; other site
429009003420	dimerization interface [polypeptide binding]; other site
429009003421	allosteric effector site; other site
429009003422	fructose-1,6-bisphosphate binding site; other site
429009003423	Soluble P-type ATPase [General function prediction only]; Region: COG4087
429009003424	adenylate kinase; Reviewed; Region: adk; PRK00279
429009003425	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
429009003426	AMP-binding site [chemical binding]; other site
429009003427	ATP-AMP (Ap5A)-binding site [chemical binding]; other site
429009003428	Winged helix-turn helix; Region: HTH_29; pfam13551
429009003429	Homeodomain-like domain; Region: HTH_23; pfam13384
429009003430	Homeodomain-like domain; Region: HTH_32; pfam13565
429009003431	Integrase core domain; Region: rve; pfam00665
429009003432	Integrase core domain; Region: rve_3; pfam13683
429009003433	putative iron-only hydrogenase system regulator; Region: hyd_TM1266; TIGR03959
429009003434	aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273
429009003435	Aspartase; Region: Aspartase; cd01357
429009003436	active sites [active]
429009003437	tetramer interface [polypeptide binding]; other site
429009003438	thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09613
429009003439	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
429009003440	FeS/SAM binding site; other site
429009003441	Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968
429009003442	[FeFe] hydrogenase H-cluster maturation GTPase HydF; Region: GTP_HydF; TIGR03918
429009003443	E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880
429009003444	G1 box; other site
429009003445	GTP/Mg2+ binding site [chemical binding]; other site
429009003446	Switch I region; other site
429009003447	G2 box; other site
429009003448	Switch II region; other site
429009003449	G3 box; other site
429009003450	G4 box; other site
429009003451	G5 box; other site
429009003452	biotin synthase; Provisional; Region: PRK07094
429009003453	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
429009003454	FeS/SAM binding site; other site
429009003455	Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149
429009003456	Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323
429009003457	SpoVA protein; Region: SpoVA; cl04298
429009003458	stage V sporulation protein AD; Validated; Region: PRK08304
429009003459	stage V sporulation protein AD; Provisional; Region: PRK12404
429009003460	SpoVA protein; Region: SpoVA; cl04298
429009003461	Dodecin; Region: Dodecin; pfam07311
429009003462	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
429009003463	H+ Antiporter protein; Region: 2A0121; TIGR00900
429009003464	putative substrate translocation pore; other site
429009003465	Formate hydrogenlyase subunit 6/NADH:ubiquinone oxidoreductase 23 kD subunit (chain I) [Energy production and conversion]; Region: NuoI; COG1143
429009003466	4Fe-4S binding domain; Region: Fer4; pfam00037
429009003467	glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062
429009003468	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
429009003469	inhibitor-cofactor binding pocket; inhibition site
429009003470	pyridoxal 5'-phosphate binding site [chemical binding]; other site
429009003471	catalytic residue [active]
429009003472	Transcriptional regulators [Transcription]; Region: Lrp; COG1522
429009003473	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
429009003474	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
429009003475	putative DNA binding site [nucleotide binding]; other site
429009003476	dimerization interface [polypeptide binding]; other site
429009003477	Transcriptional regulators [Transcription]; Region: Lrp; COG1522
429009003478	putative Zn2+ binding site [ion binding]; other site
429009003479	putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055
429009003480	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
429009003481	FeS/SAM binding site; other site
429009003482	radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085
429009003483	Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS; cd00384
429009003484	dimer interface [polypeptide binding]; other site
429009003485	active site
429009003486	Schiff base residues; other site
429009003487	Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642
429009003488	homodimer interface [polypeptide binding]; other site
429009003489	active site
429009003490	SAM binding site [chemical binding]; other site
429009003491	Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587
429009003492	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
429009003493	active site
429009003494	porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072
429009003495	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
429009003496	domain interfaces; other site
429009003497	active site
429009003498	glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045
429009003499	NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213
429009003500	tRNA; other site
429009003501	putative tRNA binding site [nucleotide binding]; other site
429009003502	putative NADP binding site [chemical binding]; other site
429009003503	Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745
429009003504	Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648
429009003505	Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241
429009003506	Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142
429009003507	Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685
429009003508	substrate binding pocket [chemical binding]; other site
429009003509	chain length determination region; other site
429009003510	substrate-Mg2+ binding site; other site
429009003511	catalytic residues [active]
429009003512	aspartate-rich region 1; other site
429009003513	active site lid residues [active]
429009003514	aspartate-rich region 2; other site
429009003515	Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755
429009003516	YlzJ-like protein; Region: YlzJ; pfam14035
429009003517	Clp protease; Region: CLP_protease; pfam00574
429009003518	Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763
429009003519	active site
429009003520	NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189
429009003521	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
429009003522	S-adenosylmethionine binding site [chemical binding]; other site
429009003523	Uncharacterized conserved protein [Function unknown]; Region: COG3270
429009003524	pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636
429009003525	geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032
429009003526	NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450
429009003527	Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025
429009003528	ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872
429009003529	preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022
429009003530	SecD/SecF GG Motif; Region: Sec_GG; pfam07549
429009003531	Protein export membrane protein; Region: SecD_SecF; pfam02355
429009003532	preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812
429009003533	SecD/SecF GG Motif; Region: Sec_GG; pfam07549
429009003534	protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916
429009003535	Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077
429009003536	Zn2+ binding site [ion binding]; other site
429009003537	Mg2+ binding site [ion binding]; other site
429009003538	Preprotein translocase subunit; Region: YajC; pfam02699
429009003539	Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343
429009003540	queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112
429009003541	Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053
429009003542	Cation efflux family; Region: Cation_efflux; pfam01545
429009003543	This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme.  This...; Region: NifX_NifB; cl00252
429009003544	Formiminotransferase-cyclodeaminase; Region: FTCD_C; pfam04961
429009003545	Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763
429009003546	5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190
429009003547	NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080
429009003548	homodimer interface [polypeptide binding]; other site
429009003549	NADP binding site [chemical binding]; other site
429009003550	substrate binding site [chemical binding]; other site
429009003551	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
429009003552	putative RNA binding site [nucleotide binding]; other site
429009003553	Small integral membrane protein (DUF2273); Region: DUF2273; pfam10031
429009003554	Asp23 family; Region: Asp23; cl00574
429009003555	Asp23 family; Region: Asp23; pfam03780
429009003556	acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591
429009003557	Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289
429009003558	ATP-grasp domain; Region: ATP-grasp_4; cl17255
429009003559	Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878
429009003560	pyruvate carboxylase subunit B; Validated; Region: PRK09282
429009003561	Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937
429009003562	active site
429009003563	catalytic residues [active]
429009003564	metal binding site [ion binding]; metal-binding site
429009003565	homodimer binding site [polypeptide binding]; other site
429009003566	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
429009003567	carboxyltransferase (CT) interaction site; other site
429009003568	biotinylation site [posttranslational modification]; other site
429009003569	Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586
429009003570	SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335
429009003571	GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585
429009003572	Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438
429009003573	This family is most closely related to the GT1 family of glycosyltransferases. UDP-glucose-diacylglycerol glucosyltransferase (UGDG; also known as 1,2-diacylglycerol 3-glucosyltransferase) catalyzes the transfer of glucose from UDP-glucose to 1; Region: GT1_UGDG_like; cd03817
429009003574	putative ADP-binding pocket [chemical binding]; other site
429009003575	Chorismate mutase (AroH) is one of at least five chorismate-utilizing enzymes present in microorganisms that catalyze the rearrangement of chorismate to prephenic acid, the first committed step in the biosynthesis of aromatic amino acids. In prokaryotes; Region: AroH; cd02185
429009003576	homotrimer interaction site [polypeptide binding]; other site
429009003577	active site
429009003578	16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187
429009003579	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
429009003580	RNA binding surface [nucleotide binding]; other site
429009003581	Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870
429009003582	active site
429009003583	Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700
429009003584	Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741
429009003585	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
429009003586	N-acetyl-D-glucosamine binding site [chemical binding]; other site
429009003587	catalytic residue [active]
429009003588	TRAM domain; Region: TRAM; pfam01938
429009003589	SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265
429009003590	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
429009003591	S-adenosylmethionine binding site [chemical binding]; other site
429009003592	Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715
429009003593	sporulation protein YtfJ; Region: spore_ytfJ; TIGR02874
429009003594	Mth938-like domain. The members of this family include: Mth938, 2P1, Xcr35, Rpa2829, and several uncharacterized sequences. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a...; Region: Mth938-like; cl00182
429009003595	Protein of unknown function (DUF2953); Region: DUF2953; pfam11167
429009003596	tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282
429009003597	catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806
429009003598	active site
429009003599	HIGH motif; other site
429009003600	dimer interface [polypeptide binding]; other site
429009003601	KMSKS motif; other site
429009003602	Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158
429009003603	Peptidase family M50; Region: Peptidase_M50; pfam02163
429009003604	active site
429009003605	putative substrate binding region [chemical binding]; other site
429009003606	DHH family; Region: DHH; pfam01368
429009003607	FOG: CBS domain [General function prediction only]; Region: COG0517
429009003608	This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with an upstream DHH domain which performs a phosphoesterase function and a downstream polyA polymerase domain. CBS is a small domain originally...; Region: CBS_pair_DHH_polyA_Pol_assoc; cd04595
429009003609	tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617
429009003610	RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966
429009003611	metal binding triad [ion binding]; metal-binding site
429009003612	diaminopimelate decarboxylase; Region: lysA; TIGR01048
429009003613	Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828
429009003614	active site
429009003615	pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site
429009003616	substrate binding site [chemical binding]; other site
429009003617	catalytic residues [active]
429009003618	dimer interface [polypeptide binding]; other site
429009003619	HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304
429009003620	dimerization interface [polypeptide binding]; other site
429009003621	FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203
429009003622	GAF domain; Region: GAF; cl17456
429009003623	c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal    transduction mechanisms]; Region: COG2199
429009003624	Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949
429009003625	metal binding site [ion binding]; metal-binding site
429009003626	active site
429009003627	I-site; other site
429009003628	Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695
429009003629	redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472
429009003630	Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971
429009003631	CoA binding domain; Region: CoA_binding; smart00881
429009003632	Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036
429009003633	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
429009003634	substrate binding site [chemical binding]; other site
429009003635	hexamer interface [polypeptide binding]; other site
429009003636	metal binding site [ion binding]; metal-binding site
429009003637	GTPase RsgA; Reviewed; Region: PRK00098
429009003638	S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466
429009003639	RNA binding site [nucleotide binding]; other site
429009003640	homodimer interface [polypeptide binding]; other site
429009003641	Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854
429009003642	GTPase/Zn-binding domain interface [polypeptide binding]; other site
429009003643	GTP/Mg2+ binding site [chemical binding]; other site
429009003644	G4 box; other site
429009003645	G5 box; other site
429009003646	G1 box; other site
429009003647	Switch I region; other site
429009003648	G2 box; other site
429009003649	G3 box; other site
429009003650	Switch II region; other site
429009003651	Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220
429009003652	Catalytic domain of Protein Kinases; Region: PKc; cd00180
429009003653	active site
429009003654	ATP binding site [chemical binding]; other site
429009003655	substrate binding site [chemical binding]; other site
429009003656	activation loop (A-loop); other site
429009003657	Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815
429009003658	PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577
429009003659	PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577
429009003660	PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577
429009003661	Protein phosphatase 2C; Region: PP2C; pfam00481
429009003662	Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143
429009003663	active site
429009003664	ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14454
429009003665	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
429009003666	FeS/SAM binding site; other site
429009003667	Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675
429009003668	Probable transposase; Region: OrfB_IS605; pfam01385
429009003669	transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766
429009003670	pyrimidine-nucleoside phosphorylase; Region: Y_phosphoryl; TIGR02644
429009003671	Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885
429009003672	Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591
429009003673	Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941
429009003674	phosphopentomutase; Provisional; Region: PRK05362
429009003675	Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676
429009003676	tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225
429009003677	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
429009003678	active site
429009003679	Int/Topo IB signature motif; other site
429009003680	Integral membrane protein DUF95; Region: DUF95; cl00572
429009003681	Protein of unknown function (DUF3866); Region: DUF3866; pfam12982
429009003682	Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833
429009003683	Domain of unknown function (DUF814); Region: DUF814; pfam05670
429009003684	Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain putative pyrophosphatase YpjD from Bacillus subtilis and its bacterial homologs; Region: NTP-PPase_BsYpjD; cd11531
429009003685	homodimer interface [polypeptide binding]; other site
429009003686	metal binding site [ion binding]; metal-binding site
429009003687	Protein of unknown function (DUF1015); Region: DUF1015; pfam06245
429009003688	Uncharacterized conserved protein [Function unknown]; Region: COG4198
429009003689	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
429009003690	AAA domain; Region: AAA_31; pfam13614
429009003691	Walker A motif; other site
429009003692	cytochrome-c3 hydrogenase subunit gamma; Provisional; Region: PRK08345
429009003693	Anaerobic sulfite reductase contains an FAD and NADPH binding module with structural similarity to ferredoxin reductase and sequence similarity to dihydroorotate dehydrogenases. Clostridium pasteurianum inducible dissimilatory type sulfite reductase is...; Region: sulfite_reductase_like; cd06221
429009003694	FAD binding pocket [chemical binding]; other site
429009003695	FAD binding motif [chemical binding]; other site
429009003696	phosphate binding motif [ion binding]; other site
429009003697	beta-alpha-beta structure motif; other site
429009003698	NAD binding pocket [chemical binding]; other site
429009003699	Iron coordination center [ion binding]; other site
429009003700	sulfite reductase, subunit A; Region: sulfite_red_A; TIGR02910
429009003701	Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432
429009003702	Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662
429009003703	Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148
429009003704	Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048
429009003705	Cysteine-rich domain; Region: CCG; pfam02754
429009003706	Cysteine-rich domain; Region: CCG; pfam02754
429009003707	4Fe-4S dicluster domain; Region: Fer4_8; pfam13183
429009003708	phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189
429009003709	Int/Topo IB signature motif; other site
429009003710	PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881
429009003711	oligomeric interface; other site
429009003712	putative active site [active]
429009003713	homodimer interface [polypeptide binding]; other site
429009003714	Protein of unknown function (DUF2281); Region: DUF2281; cl02355
429009003715	Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833
429009003716	Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833
429009003717	The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013
429009003718	Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305
429009003719	Transglutaminase-like superfamily; Region: Transglut_core; pfam01841
429009003720	Staphylococcal nuclease homologues; Region: SNc; smart00318
429009003721	Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175
429009003722	Catalytic site; other site
429009003723	Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805
429009003724	Restriction endonuclease; Region: Mrr_cat; pfam04471
429009003725	DEAD-like helicases superfamily; Region: DEXDc; smart00487
429009003726	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
429009003727	ATP binding site [chemical binding]; other site
429009003728	putative Mg++ binding site [ion binding]; other site
429009003729	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
429009003730	Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513
429009003731	nucleotide binding region [chemical binding]; other site
429009003732	ATP-binding site [chemical binding]; other site
429009003733	Domain of unknown function (DUF3368); Region: DUF3368; pfam11848
429009003734	Uncharacterized protein family (UPF0175); Region: UPF0175; pfam03683
429009003735	Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4634
429009003736	Protein of unknown function (DUF433); Region: DUF433; pfam04255
429009003737	c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal    transduction mechanisms]; Region: COG2199
429009003738	Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949
429009003739	metal binding site [ion binding]; metal-binding site
429009003740	active site
429009003741	I-site; other site
429009003742	EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2).  The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948
429009003743	Helix-turn-helix domain; Region: HTH_17; pfam12728
429009003744	Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973
429009003745	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
429009003746	sequence-specific DNA binding site [nucleotide binding]; other site
429009003747	salt bridge; other site
429009003748	AAA-like domain; Region: AAA_10; pfam12846
429009003749	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
429009003750	Walker A motif; other site
429009003751	ATP binding site [chemical binding]; other site
429009003752	Walker B motif; other site
429009003753	Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227
429009003754	PRTRC system protein D; Region: PRTRC_D; TIGR03739
429009003755	Mg binding site [ion binding]; other site
429009003756	nucleotide binding site [chemical binding]; other site
429009003757	putative protofilament interface [polypeptide binding]; other site
429009003758	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; cl00257
429009003759	IHF - DNA interface [nucleotide binding]; other site
429009003760	IHF dimer interface [polypeptide binding]; other site
429009003761	DNA topoisomerase VI, subunit B [DNA replication, recombination, and repair]; Region: COG1389
429009003762	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
429009003763	Mg2+ binding site [ion binding]; other site
429009003764	G-X-G motif; other site
429009003765	Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718
429009003766	active site
429009003767	metal binding site [ion binding]; metal-binding site
429009003768	DnaB-like helicase C terminal domain; Region: DnaB_C; pfam03796
429009003769	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
429009003770	Walker A motif; other site
429009003771	ATP binding site [chemical binding]; other site
429009003772	Walker B motif; other site
429009003773	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
429009003774	salt bridge; other site
429009003775	non-specific DNA binding site [nucleotide binding]; other site
429009003776	sequence-specific DNA binding site [nucleotide binding]; other site
429009003777	peroxiredoxin; Provisional; Region: PRK13189
429009003778	Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016
429009003779	dimer interface [polypeptide binding]; other site
429009003780	decamer (pentamer of dimers) interface [polypeptide binding]; other site
429009003781	catalytic triad [active]
429009003782	aspartate aminotransferase; Provisional; Region: PRK05764
429009003783	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
429009003784	pyridoxal 5'-phosphate binding site [chemical binding]; other site
429009003785	homodimer interface [polypeptide binding]; other site
429009003786	catalytic residue [active]
429009003787	LL-diaminopimelate aminotransferase; Provisional; Region: PRK09276
429009003788	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
429009003789	pyridoxal 5'-phosphate binding site [chemical binding]; other site
429009003790	homodimer interface [polypeptide binding]; other site
429009003791	catalytic residue [active]
429009003792	diaminopimelate epimerase; Provisional; Region: dapF; PRK00450
429009003793	Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678
429009003794	Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678
429009003795	2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537
429009003796	Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558
429009003797	Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, beta subunit [Energy production and conversion]; Region: PorB; COG1013
429009003798	Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375
429009003799	TPP-binding site [chemical binding]; other site
429009003800	2-ketoisovalerate ferredoxin reductase; Validated; Region: PRK07119
429009003801	Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034
429009003802	dimer interface [polypeptide binding]; other site
429009003803	PYR/PP interface [polypeptide binding]; other site
429009003804	TPP binding site [chemical binding]; other site
429009003805	substrate binding site [chemical binding]; other site
429009003806	4Fe-4S dicluster domain; Region: Fer4_7; pfam12838
429009003807	ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042
429009003808	P-loop; other site
429009003809	Magnesium ion binding site [ion binding]; other site
429009003810	Glycosyltransferase 4 (GT4) includes both eukaryotic and prokaryotic UDP-D-N-acetylhexosamine:polyprenol phosphate D-N-acetylhexosamine-1-phosphate transferases. They catalyze the transfer of a D-N-acetylhexosamine 1-phosphate to a membrane-bound...; Region: GT_MraY-like; cl10571
429009003811	putative catalytic motif [active]
429009003812	Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641
429009003813	DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179
429009003814	Ligand binding site; other site
429009003815	Putative Catalytic site; other site
429009003816	DXD motif; other site
429009003817	Protein of unknown function (DUF3186); Region: DUF3186; pfam11382
429009003818	Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4825
429009003819	Thiamine pyrophosphokinase; Region: TPK; cl08415
429009003820	active site
429009003821	Thiamine pyrophosphokinase C terminal; Region: TPPK_C; pfam12555
429009003822	sporulation transcription factor Spo0A; Region: spore_0_A; TIGR02875
429009003823	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
429009003824	active site
429009003825	phosphorylation site [posttranslational modification]
429009003826	intermolecular recognition site; other site
429009003827	dimerization interface [polypeptide binding]; other site
429009003828	Sporulation initiation factor Spo0A C terminal; Region: Spo0A_C; pfam08769
429009003829	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
429009003830	SpoIVB peptidase S55; Region: Peptidase_S55; pfam05580
429009003831	ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497
429009003832	ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241
429009003833	Walker A/P-loop; other site
429009003834	ATP binding site [chemical binding]; other site
429009003835	Q-loop/lid; other site
429009003836	ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241
429009003837	ABC transporter signature motif; other site
429009003838	Walker B; other site
429009003839	D-loop; other site
429009003840	H-loop/switch region; other site
429009003841	Arginine repressor [Transcription]; Region: ArgR; COG1438
429009003842	Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316
429009003843	Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863
429009003844	NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061
429009003845	Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189
429009003846	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
429009003847	RNA binding surface [nucleotide binding]; other site
429009003848	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
429009003849	S-adenosylmethionine binding site [chemical binding]; other site
429009003850	1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444
429009003851	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
429009003852	TPP-binding site; other site
429009003853	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
429009003854	PYR/PP interface [polypeptide binding]; other site
429009003855	dimer interface [polypeptide binding]; other site
429009003856	TPP binding site [chemical binding]; other site
429009003857	Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780
429009003858	Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536
429009003859	Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142
429009003860	Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685
429009003861	substrate binding pocket [chemical binding]; other site
429009003862	chain length determination region; other site
429009003863	substrate-Mg2+ binding site; other site
429009003864	catalytic residues [active]
429009003865	aspartate-rich region 1; other site
429009003866	active site lid residues [active]
429009003867	aspartate-rich region 2; other site
429009003868	Stage IV sporulation protein A (spore_IV_A); Region: Spore_IV_A; pfam09547
429009003869	stage IV sporulation protein A; Region: spore_IV_A; TIGR02836
429009003870	Predicted DNA-binding proteins [General function prediction only]; Region: COG1342
429009003871	RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937
429009003872	DNA binding residues [nucleotide binding]
429009003873	Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675
429009003874	Probable transposase; Region: OrfB_IS605; pfam01385
429009003875	Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719
429009003876	Probable transposase; Region: OrfB_IS605; pfam01385
429009003877	Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282
429009003878	hypothetical protein; Reviewed; Region: PRK12497
429009003879	bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182
429009003880	RNA/DNA hybrid binding site [nucleotide binding]; other site
429009003881	active site
429009003882	Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509
429009003883	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
429009003884	FeS/SAM binding site; other site
429009003885	Lysine-2,3-aminomutase; Region: LAM_C; pfam12544
429009003886	ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596
429009003887	Circularly permuted YlqF GTPase; Region: YlqF; cd01856
429009003888	GTP/Mg2+ binding site [chemical binding]; other site
429009003889	G4 box; other site
429009003890	G5 box; other site
429009003891	G1 box; other site
429009003892	Switch I region; other site
429009003893	G2 box; other site
429009003894	G3 box; other site
429009003895	Switch II region; other site
429009003896	signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227
429009003897	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
429009003898	Catalytic site [active]
429009003899	50S ribosomal protein L19; Provisional; Region: rplS; PRK05338
429009003900	tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026
429009003901	16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122
429009003902	RimM N-terminal domain; Region: RimM; pfam01782
429009003903	PRC-barrel domain; Region: PRC; pfam05239
429009003904	Protein of unknown function (DUF2869); Region: DUF2869; pfam11068
429009003905	Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837
429009003906	hypothetical protein; Provisional; Region: PRK00468
429009003907	G-X-X-G motif; other site
429009003908	30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040
429009003909	signal recognition particle protein; Provisional; Region: PRK10867
429009003910	SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963
429009003911	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
429009003912	P loop; other site
429009003913	GTP binding site [chemical binding]; other site
429009003914	Signal peptide binding domain; Region: SRP_SPB; pfam02978
429009003915	reverse gyrase; Reviewed; Region: PRK09401
429009003916	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
429009003917	ATP binding site [chemical binding]; other site
429009003918	putative Mg++ binding site [ion binding]; other site
429009003919	Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718
429009003920	active site
429009003921	metal binding site [ion binding]; metal-binding site
429009003922	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
429009003923	domain I; other site
429009003924	DNA binding groove [nucleotide binding]
429009003925	phosphate binding site [ion binding]; other site
429009003926	domain II; other site
429009003927	domain III; other site
429009003928	nucleotide binding site [chemical binding]; other site
429009003929	catalytic site [active]
429009003930	domain IV; other site
429009003931	acetylornithine aminotransferase; Provisional; Region: argD; PRK02936
429009003932	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
429009003933	inhibitor-cofactor binding pocket; inhibition site
429009003934	pyridoxal 5'-phosphate binding site [chemical binding]; other site
429009003935	catalytic residue [active]
429009003936	Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841
429009003937	active site
429009003938	metal binding site [ion binding]; metal-binding site
429009003939	homotetramer interface [polypeptide binding]; other site
429009003940	drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711
429009003941	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
429009003942	putative substrate translocation pore; other site
429009003943	Domain of unknown function (DUF1848); Region: DUF1848; pfam08902
429009003944	Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148
429009003945	NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450
429009003946	4Fe-4S binding domain; Region: Fer4; pfam00037
429009003947	RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409
429009003948	Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662
429009003949	4Fe-4S binding domain; Region: Fer4_5; pfam12801
429009003950	4Fe-4S dicluster domain; Region: Fer4_9; pfam13187
429009003951	Cytochrome b (N-terminus)/b6/petB:  Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859
429009003952	formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583
429009003953	CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385
429009003954	Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070
429009003955	Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852
429009003956	hypothetical protein; Provisional; Region: PRK04334
429009003957	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
429009003958	4Fe-4S dicluster domain; Region: Fer4_10; pfam13237
429009003959	RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409
429009003960	Domain of unknown function DUF39; Region: DUF39; pfam01837
429009003961	putative methanogenesis marker 16 metalloprotein; Region: methan_mark_16; TIGR03287
429009003962	Winged helix-turn helix; Region: HTH_29; pfam13551
429009003963	Homeodomain-like domain; Region: HTH_23; pfam13384
429009003964	Homeodomain-like domain; Region: HTH_32; pfam13565
429009003965	Integrase core domain; Region: rve; pfam00665
429009003966	Integrase core domain; Region: rve_3; pfam13683
429009003967	Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768
429009003968	Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717
429009003969	Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905
429009003970	YceG-like family; Region: YceG; pfam02618
429009003971	proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010
429009003972	dimerization interface [polypeptide binding]; other site
429009003973	Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229
429009003974	VanW like protein; Region: VanW; pfam04294
429009003975	G5 domain; Region: G5; pfam07501
429009003976	Protein of unknown function (DUF1292); Region: DUF1292; pfam06949
429009003977	Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652
429009003978	hypothetical protein; Provisional; Region: PRK05473
429009003979	alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252
429009003980	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
429009003981	motif 1; other site
429009003982	active site
429009003983	motif 2; other site
429009003984	motif 3; other site
429009003985	Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863
429009003986	SEC-C motif; Region: SEC-C; pfam02810
429009003987	ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747
429009003988	Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038
429009003989	CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400
429009003990	Cl- selectivity filter; other site
429009003991	Cl- binding residues [ion binding]; other site
429009003992	pore gating glutamate residue; other site
429009003993	dimer interface [polypeptide binding]; other site
429009003994	FOG: CBS domain [General function prediction only]; Region: COG0517
429009003995	The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205
429009003996	transposase, putative, N-terminal domain; Region: tspaseT_teng_N; TIGR01765
429009003997	transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766
429009003998	Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452
429009003999	Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600
429009004000	DNA binding residues [nucleotide binding]
429009004001	Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of...; Region: SR_IS607_transposase_like; cd03769
429009004002	catalytic residues [active]
429009004003	catalytic nucleophile [active]
429009004004	putative menaquinone biosynthesis protein, SCO4494 family; Region: mena_SCO4494; TIGR03700
429009004005	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
429009004006	FeS/SAM binding site; other site
429009004007	4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337
429009004008	UbiA prenyltransferase family; Region: UbiA; pfam01040
429009004009	menaquinone biosynthesis decarboxylase, SCO4490 family; Region: mena_SCO4490; TIGR03701
429009004010	Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226
429009004011	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
429009004012	S-adenosylmethionine binding site [chemical binding]; other site
429009004013	S-adenosylmethionine decarboxylase proenzyme; Provisional; Region: PRK03124
429009004014	Winged helix-turn helix; Region: HTH_29; pfam13551
429009004015	Homeodomain-like domain; Region: HTH_32; pfam13565
429009004016	Integrase core domain; Region: rve; pfam00665
429009004017	Integrase core domain; Region: rve_3; pfam13683
429009004018	Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475
429009004019	Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999
429009004020	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
429009004021	Ligand Binding Site [chemical binding]; other site
429009004022	zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240
429009004023	Double zinc ribbon; Region: DZR; pfam12773
429009004024	HEAT repeats; Region: HEAT_2; pfam13646
429009004025	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
429009004026	Major Facilitator Superfamily; Region: MFS_1; pfam07690
429009004027	putative substrate translocation pore; other site
429009004028	Uncharacterized protein conserved in archaea [Function unknown]; Region: COG1689
429009004029	This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cl08267
429009004030	Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269
429009004031	Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668
429009004032	Mechanosensitive ion channel; Region: MS_channel; pfam00924
429009004033	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
429009004034	catalytic core [active]
429009004035	L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140
429009004036	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
429009004037	pyridoxal 5'-phosphate binding site [chemical binding]; other site
429009004038	homodimer interface [polypeptide binding]; other site
429009004039	catalytic residue [active]
429009004040	cobalamin synthase; Reviewed; Region: cobS; PRK00235
429009004041	CobD/Cbib protein; Region: CobD_Cbib; pfam03186
429009004042	Domain of unknown function (DUF3842); Region: DUF3842; pfam12953
429009004043	Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613
429009004044	Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438
429009004045	active site
429009004046	Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438
429009004047	Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355
429009004048	renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301
429009004049	active site
429009004050	dimer interface [polypeptide binding]; other site
429009004051	Stage V sporulation protein S (SpoVS); Region: SpoVS; pfam04232
429009004052	Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382
429009004053	Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149
429009004054	putative active site [active]
429009004055	metal binding site [ion binding]; metal-binding site
429009004056	homodimer binding site [polypeptide binding]; other site
429009004057	Domain of unknown function (DUF3552); Region: DUF3552; pfam12072
429009004058	Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418
429009004059	Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077
429009004060	Zn2+ binding site [ion binding]; other site
429009004061	Mg2+ binding site [ion binding]; other site
429009004062	c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal    transduction mechanisms]; Region: COG2199
429009004063	Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949
429009004064	metal binding site [ion binding]; metal-binding site
429009004065	active site
429009004066	I-site; other site
429009004067	Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438
429009004068	This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801
429009004069	Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408
429009004070	Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202
429009004071	potassium-transporting ATPase subunit A; Provisional; Region: PRK05482
429009004072	potassium-transporting ATPase subunit B; Provisional; Region: PRK01122
429009004073	E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122
429009004074	Soluble P-type ATPase [General function prediction only]; Region: COG4087
429009004075	potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315
429009004076	Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702
429009004077	Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which  binds to Adenosine nucleotide; Region: AANH_like; cl00292
429009004078	Ligand Binding Site [chemical binding]; other site
429009004079	Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702
429009004080	USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987
429009004081	Ligand Binding Site [chemical binding]; other site
429009004082	Domain of unknown function (DUF4131); Region: DUF4131; pfam13567
429009004083	DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361
429009004084	Competence protein; Region: Competence; pfam03772
429009004085	Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753
429009004086	SLBB domain; Region: SLBB; pfam10531
429009004087	RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966
429009004088	Helix-hairpin-helix motif; Region: HHH_3; pfam12836
429009004089	Predicted membrane protein [Function unknown]; Region: COG2323
429009004090	ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177
429009004091	Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581
429009004092	TM-ABC transporter signature motif; other site
429009004093	ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411
429009004094	ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219
429009004095	Walker A/P-loop; other site
429009004096	ATP binding site [chemical binding]; other site
429009004097	Q-loop/lid; other site
429009004098	ABC transporter signature motif; other site
429009004099	Walker B; other site
429009004100	D-loop; other site
429009004101	H-loop/switch region; other site
429009004102	ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410
429009004103	ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224
429009004104	Walker A/P-loop; other site
429009004105	ATP binding site [chemical binding]; other site
429009004106	Q-loop/lid; other site
429009004107	ABC transporter signature motif; other site
429009004108	Walker B; other site
429009004109	D-loop; other site
429009004110	H-loop/switch region; other site
429009004111	ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683
429009004112	Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011
429009004113	Sporulation and spore germination; Region: Germane; pfam10646
429009004114	Predicted amidohydrolase [General function prediction only]; Region: COG0388
429009004115	Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197
429009004116	active site
429009004117	catalytic triad [active]
429009004118	dimer interface [polypeptide binding]; other site
429009004119	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
429009004120	SmpB-tmRNA interface; other site
429009004121	tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021
429009004122	Eukaryotic and bacterial pseudouridine synthases similar to E.  coli TruA; Region: PseudoU_synth_EcTruA; cd02570
429009004123	dimerization interface 3.5A [polypeptide binding]; other site
429009004124	active site
429009004125	50S ribosomal protein L17; Validated; Region: rplQ; PRK05591
429009004126	DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182
429009004127	N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928
429009004128	alphaNTD - beta interaction site [polypeptide binding]; other site
429009004129	alphaNTD homodimer interface [polypeptide binding]; other site
429009004130	alphaNTD - beta' interaction site [polypeptide binding]; other site
429009004131	Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118
429009004132	30S ribosomal protein S4; Validated; Region: rpsD; PRK05327
429009004133	Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163
429009004134	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
429009004135	RNA binding surface [nucleotide binding]; other site
429009004136	30S ribosomal protein S11; Validated; Region: PRK05309
429009004137	30S ribosomal protein S13; Validated; Region: rpsM; PRK05179
429009004138	30S ribosomal protein S13; Region: bact_S13; TIGR03631
429009004139	50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465
429009004140	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
429009004141	rRNA binding site [nucleotide binding]; other site
429009004142	predicted 30S ribosome binding site; other site
429009004143	KOW motif of Ribosomal Protein L14; Region: KOW_RPL14; cd06088
429009004144	RNA binding site [nucleotide binding]; other site
429009004145	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
429009004146	active site
429009004147	preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204
429009004148	SecY translocase; Region: SecY; pfam00344
429009004149	50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592
429009004150	Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658
429009004151	23S rRNA binding site [nucleotide binding]; other site
429009004152	30S ribosomal protein S5; Validated; Region: rpsE; PRK00550
429009004153	Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333
429009004154	Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719
429009004155	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
429009004156	5S rRNA interface [nucleotide binding]; other site
429009004157	L5 interface [polypeptide binding]; other site
429009004158	50S ribosomal protein L6; Validated; Region: rplF; PRK05498
429009004159	Ribosomal protein L6; Region: Ribosomal_L6; pfam00347
429009004160	Ribosomal protein L6; Region: Ribosomal_L6; pfam00347
429009004161	30S ribosomal protein S8; Validated; Region: rpsH; PRK00136
429009004162	30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061
429009004163	50S ribosomal protein L5; Validated; Region: rplE; PRK00010
429009004164	Ribosomal protein L5; Region: Ribosomal_L5; pfam00281
429009004165	ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673
429009004166	50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004
429009004167	KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089
429009004168	RNA binding site [nucleotide binding]; other site
429009004169	50S ribosomal protein L14; Validated; Region: rplN; PRK05483
429009004170	30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610
429009004171	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
429009004172	23S rRNA interface [nucleotide binding]; other site
429009004173	putative translocon interaction site; other site
429009004174	signal recognition particle (SRP54) interaction site; other site
429009004175	L23 interface [polypeptide binding]; other site
429009004176	trigger factor interaction site; other site
429009004177	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
429009004178	23S rRNA interface [nucleotide binding]; other site
429009004179	5S rRNA interface [nucleotide binding]; other site
429009004180	putative antibiotic binding site [chemical binding]; other site
429009004181	L25 interface [polypeptide binding]; other site
429009004182	L27 interface [polypeptide binding]; other site
429009004183	30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310
429009004184	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
429009004185	G-X-X-G motif; other site
429009004186	Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189
429009004187	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
429009004188	putative translocon binding site; other site
429009004189	protein-rRNA interface [nucleotide binding]; other site
429009004190	30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357
429009004191	50S ribosomal protein L2; Validated; Region: rplB; PRK09374
429009004192	Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181
429009004193	Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947
429009004194	50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738
429009004195	50S ribosomal protein L4; Provisional; Region: rplD; PRK05319
429009004196	50S ribosomal protein L3; Validated; Region: rplC; PRK00001
429009004197	30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596
429009004198	elongation factor Tu; Reviewed; Region: PRK00049
429009004199	Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884
429009004200	G1 box; other site
429009004201	GEF interaction site [polypeptide binding]; other site
429009004202	GTP/Mg2+ binding site [chemical binding]; other site
429009004203	Switch I region; other site
429009004204	G2 box; other site
429009004205	G3 box; other site
429009004206	Switch II region; other site
429009004207	G4 box; other site
429009004208	G5 box; other site
429009004209	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
429009004210	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
429009004211	Antibiotic Binding Site [chemical binding]; other site
429009004212	elongation factor G; Reviewed; Region: PRK00007
429009004213	Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886
429009004214	G1 box; other site
429009004215	putative GEF interaction site [polypeptide binding]; other site
429009004216	GTP/Mg2+ binding site [chemical binding]; other site
429009004217	Switch I region; other site
429009004218	G2 box; other site
429009004219	G3 box; other site
429009004220	Switch II region; other site
429009004221	G4 box; other site
429009004222	G5 box; other site
429009004223	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
429009004224	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
429009004225	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
429009004226	30S ribosomal protein S7; Validated; Region: PRK05302
429009004227	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
429009004228	S17 interaction site [polypeptide binding]; other site
429009004229	S8 interaction site; other site
429009004230	16S rRNA interaction site [nucleotide binding]; other site
429009004231	streptomycin interaction site [chemical binding]; other site
429009004232	23S rRNA interaction site [nucleotide binding]; other site
429009004233	aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site
429009004234	putative ribosomal protein L7Ae-like; Provisional; Region: PRK13602
429009004235	DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566
429009004236	RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997
429009004237	RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663
429009004238	RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983
429009004239	RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000
429009004240	Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655
429009004241	Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site
429009004242	G-loop; other site
429009004243	Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655
429009004244	DNA binding site [nucleotide binding]
429009004245	Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site
429009004246	DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405
429009004247	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
429009004248	RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561
429009004249	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
429009004250	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
429009004251	RPB10 interaction site [polypeptide binding]; other site
429009004252	RPB1 interaction site [polypeptide binding]; other site
429009004253	RPB11 interaction site [polypeptide binding]; other site
429009004254	RPB3 interaction site [polypeptide binding]; other site
429009004255	RPB12 interaction site [polypeptide binding]; other site
429009004256	Septum formation topological specificity factor MinE; Region: MinE; cl00538
429009004257	septum site-determining protein MinD; Region: minD_bact; TIGR01968
429009004258	Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036
429009004259	Switch I; other site
429009004260	Switch II; other site
429009004261	Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775
429009004262	Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153
429009004263	metal binding site 2 [ion binding]; metal-binding site
429009004264	putative DNA binding helix; other site
429009004265	metal binding site 1 [ion binding]; metal-binding site
429009004266	dimer interface [polypeptide binding]; other site
429009004267	structural Zn2+ binding site [ion binding]; other site
429009004268	penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423
429009004269	Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717
429009004270	Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905
429009004271	Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760
429009004272	rod shape-determining protein MreD; Region: MreD; cl01087
429009004273	rod shape-determining protein MreC; Provisional; Region: PRK13922
429009004274	Protein of unknown function (DUF1192); Region: DUF1192; pfam06698
429009004275	rod shape-determining protein MreC; Region: MreC; pfam04085
429009004276	rod shape-determining protein MreB; Provisional; Region: PRK13927
429009004277	MreB and similar proteins; Region: MreB_like; cd10225
429009004278	nucleotide binding site [chemical binding]; other site
429009004279	Mg binding site [ion binding]; other site
429009004280	putative protofilament interaction site [polypeptide binding]; other site
429009004281	RodZ interaction site [polypeptide binding]; other site
429009004282	hypothetical protein; Reviewed; Region: PRK00024
429009004283	Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071
429009004284	MPN+ (JAMM) motif; other site
429009004285	Zinc-binding site [ion binding]; other site
429009004286	Maf-like protein; Region: Maf; pfam02545
429009004287	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
429009004288	active site
429009004289	dimer interface [polypeptide binding]; other site
429009004290	Domain of unknown function (DUF4321); Region: DUF4321; pfam14209
429009004291	putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605
429009004292	Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535
429009004293	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
429009004294	FeS/SAM binding site; other site
429009004295	Domain of unknown function (DUF4008); Region: DUF4008; cl14869
429009004296	4Fe-4S single cluster domain; Region: Fer4_12; pfam13353
429009004297	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
429009004298	FeS/SAM binding site; other site
429009004299	anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK07111
429009004300	ATP cone domain; Region: ATP-cone; pfam03477
429009004301	Class III ribonucleotide reductase; Region: RNR_III; cd01675
429009004302	effector binding site; other site
429009004303	active site
429009004304	Zn binding site [ion binding]; other site
429009004305	glycine loop; other site
429009004306	transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464
429009004307	ATP cone domain; Region: ATP-cone; pfam03477
429009004308	sporulation protein, YlmC/YmxH family; Region: spore_YlmC_YmxH; TIGR02888
429009004309	Stage II sporulation protein R (spore_II_R); Region: Spore_II_R; pfam09551
429009004310	sporulation sigma factor SigG; Reviewed; Region: PRK08215
429009004311	Sigma-70 region 2; Region: Sigma70_r2; pfam04542
429009004312	Sigma-70 region 3; Region: Sigma70_r3; pfam04539
429009004313	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
429009004314	DNA binding residues [nucleotide binding]
429009004315	RNA polymerase sigma-70 factor, sigma-B/F/G subfamily; Region: SigBFG; TIGR02980
429009004316	Sigma-70 region 2; Region: Sigma70_r2; pfam04542
429009004317	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
429009004318	DNA binding residues [nucleotide binding]
429009004319	Sporulation factor SpoIIGA; Region: Peptidase_U4; pfam03419
429009004320	sigma-E processing peptidase SpoIIGA; Region: spore_II_GA; TIGR02854
429009004321	cell division protein FtsZ; Region: ftsZ; TIGR00065
429009004322	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
429009004323	nucleotide binding site [chemical binding]; other site
429009004324	SulA interaction site; other site
429009004325	Protein of unknown function (DUF1290); Region: DUF1290; pfam06947
429009004326	Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949
429009004327	basic leucine zipper DNA-binding and multimerization region of GCN4 and related proteins; Region: B_zip1; cl02576
429009004328	Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949
429009004329	Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589
429009004330	POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478
429009004331	Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675
429009004332	Probable transposase; Region: OrfB_IS605; pfam01385
429009004333	transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766
429009004334	UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072
429009004335	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
429009004336	hinge; other site
429009004337	active site
429009004338	UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905
429009004339	FAD binding domain; Region: FAD_binding_4; pfam01565
429009004340	UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873
429009004341	UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421
429009004342	Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225
429009004343	Mur ligase middle domain; Region: Mur_ligase_M; pfam08245
429009004344	Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875
429009004345	undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726
429009004346	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
429009004347	active site
429009004348	homodimer interface [polypeptide binding]; other site
429009004349	cell division protein FtsW; Region: ftsW; TIGR02614
429009004350	Putative NAD(P)-binding; Region: NAD_binding_7; cl17660
429009004351	UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK14106
429009004352	Mur ligase middle domain; Region: Mur_ligase_M; pfam08245
429009004353	Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875
429009004354	phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108
429009004355	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
429009004356	Mg++ binding site [ion binding]; other site
429009004357	putative catalytic motif [active]
429009004358	putative substrate binding site [chemical binding]; other site
429009004359	UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770
429009004360	Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225
429009004361	Mur ligase middle domain; Region: Mur_ligase_M; pfam08245
429009004362	Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875
429009004363	UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139
429009004364	Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225
429009004365	Mur ligase middle domain; Region: Mur_ligase_M; pfam08245
429009004366	Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875
429009004367	stage V sporulation protein D; Region: spoVD_pbp; TIGR02214
429009004368	Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717
429009004369	Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905
429009004370	PASTA domain of PBP2x-like proteins, first repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_1; cd06576
429009004371	PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575
429009004372	Cell division protein FtsL; Region: FtsL; cl11433
429009004373	MraW methylase family; Region: Methyltransf_5; cl17771
429009004374	16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050
429009004375	cell division protein MraZ; Reviewed; Region: PRK00326
429009004376	MraZ protein; Region: MraZ; pfam02381
429009004377	MraZ protein; Region: MraZ; pfam02381
429009004378	30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239
429009004379	DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574
429009004380	DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144
429009004381	Domain of unknown function DUF77; Region: DUF77; pfam01910
429009004382	MarR family; Region: MarR_2; cl17246
429009004383	dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254
429009004384	RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321
429009004385	NADP binding site [chemical binding]; other site
429009004386	active site
429009004387	putative substrate binding site [chemical binding]; other site
429009004388	Menaquinone biosynthesis; Region: VitK2_biosynth; cl17475
429009004389	A subgroup of L-lactate dehydrogenases; Region: LDH_2; cd05292
429009004390	L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771
429009004391	NAD binding site [chemical binding]; other site
429009004392	dimer interface [polypeptide binding]; other site
429009004393	substrate binding site [chemical binding]; other site
429009004394	tetramer (dimer of dimers) interface [polypeptide binding]; other site
429009004395	S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147
429009004396	S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113
429009004397	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
429009004398	Ligand Binding Site [chemical binding]; other site
429009004399	tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Translation, ribosomal structure and biogenesis]; Region: GCD14; COG2519
429009004400	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
429009004401	S-adenosylmethionine binding site [chemical binding]; other site
429009004402	Protein of unknown function DUF72; Region: DUF72; pfam01904
429009004403	molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164
429009004404	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
429009004405	FeS/SAM binding site; other site
429009004406	Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463
429009004407	Domain of unknown function (DUF202); Region: DUF202; cl09954
429009004408	Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541
429009004409	Adenylate forming domain, Class I; Region: AFD_class_I; cl17068
429009004410	acyl-activating enzyme (AAE) consensus motif; other site
429009004411	active site
429009004412	AMP binding site [chemical binding]; other site
429009004413	CoA binding site [chemical binding]; other site
429009004414	ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410
429009004415	ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224
429009004416	Walker A/P-loop; other site
429009004417	ATP binding site [chemical binding]; other site
429009004418	Q-loop/lid; other site
429009004419	ABC transporter signature motif; other site
429009004420	Walker B; other site
429009004421	D-loop; other site
429009004422	H-loop/switch region; other site
429009004423	Periplasmic binding protein; Region: Peripla_BP_6; pfam13458
429009004424	Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_1; cd06334
429009004425	putative ligand binding site [chemical binding]; other site
429009004426	Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653
429009004427	Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581
429009004428	TM-ABC transporter signature motif; other site
429009004429	Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653
429009004430	Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582
429009004431	TM-ABC transporter signature motif; other site
429009004432	Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022
429009004433	Adenylate forming domain, Class I; Region: AFD_class_I; cl17068
429009004434	Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907
429009004435	acyl-activating enzyme (AAE) consensus motif; other site
429009004436	putative AMP binding site [chemical binding]; other site
429009004437	putative active site [active]
429009004438	putative CoA binding site [chemical binding]; other site
429009004439	ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411
429009004440	ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219
429009004441	Walker A/P-loop; other site
429009004442	ATP binding site [chemical binding]; other site
429009004443	Q-loop/lid; other site
429009004444	ABC transporter signature motif; other site
429009004445	Walker B; other site
429009004446	D-loop; other site
429009004447	H-loop/switch region; other site
429009004448	RmuC family; Region: RmuC; pfam02646
429009004449	cofactor-independent phosphoglycerate mutase; Provisional; Region: PRK04135
429009004450	Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676
429009004451	Protein of unknown function (DUF2619); Region: DUF2619; pfam10942
429009004452	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
429009004453	Major Facilitator Superfamily; Region: MFS_1; pfam07690
429009004454	putative substrate translocation pore; other site
429009004455	(2R)-phospho-3-sulfolactate synthase (ComA); Region: ComA; pfam02679
429009004456	Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564
429009004457	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
429009004458	RNA binding surface [nucleotide binding]; other site
429009004459	Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869
429009004460	active site
429009004461	lipoprotein signal peptidase; Provisional; Region: PRK14787
429009004462	Signal peptidase (SPase) II; Region: Peptidase_A8; pfam01252
429009004463	Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675
429009004464	Probable transposase; Region: OrfB_IS605; pfam01385
429009004465	transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766
429009004466	ribulose-1,5-biphosphate synthetase; Provisional; Region: PRK04176
429009004467	NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450
429009004468	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
429009004469	S-adenosylmethionine binding site [chemical binding]; other site
429009004470	rod shape-determining protein RodA; Region: rodA_shape; TIGR02210
429009004471	putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427
429009004472	The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354
429009004473	DHHA2 domain; Region: DHHA2; pfam02833
429009004474	Preprotein translocase SecG subunit; Region: SecG; cl09123
429009004475	enolase; Provisional; Region: eno; PRK00077
429009004476	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
429009004477	dimer interface [polypeptide binding]; other site
429009004478	metal binding site [ion binding]; metal-binding site
429009004479	substrate binding pocket [chemical binding]; other site
429009004480	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
429009004481	triosephosphate isomerase; Provisional; Region: PRK14565
429009004482	substrate binding site [chemical binding]; other site
429009004483	dimer interface [polypeptide binding]; other site
429009004484	catalytic triad [active]
429009004485	Phosphoglycerate kinase; Region: PGK; pfam00162
429009004486	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
429009004487	substrate binding site [chemical binding]; other site
429009004488	hinge regions; other site
429009004489	ADP binding site [chemical binding]; other site
429009004490	catalytic site [active]
429009004491	glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK07729
429009004492	Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846
429009004493	Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800
429009004494	RNA polymerase factor sigma-54; Reviewed; Region: PRK05932
429009004495	Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309
429009004496	Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963
429009004497	Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552
429009004498	Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481
429009004499	Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298
429009004500	Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918
429009004501	putative active site [active]
429009004502	putative metal binding site [ion binding]; other site
429009004503	glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416
429009004504	AAA domain; Region: AAA_18; pfam13238
429009004505	glucose-6-phosphate isomerase; Provisional; Region: PRK00973
429009004506	GTP cyclohydrolase III; Provisional; Region: PRK02240
429009004507	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
429009004508	active site
429009004509	dimer interface [polypeptide binding]; other site
429009004510	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
429009004511	dimer interface [polypeptide binding]; other site
429009004512	active site
429009004513	GTP-binding protein HflX; Region: GTP_HflX; TIGR03156
429009004514	GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167
429009004515	HflX GTPase family; Region: HflX; cd01878
429009004516	G1 box; other site
429009004517	GTP/Mg2+ binding site [chemical binding]; other site
429009004518	Switch I region; other site
429009004519	G2 box; other site
429009004520	G3 box; other site
429009004521	Switch II region; other site
429009004522	G4 box; other site
429009004523	G5 box; other site
429009004524	GAF domain; Region: GAF_2; pfam13185
429009004525	c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal    transduction mechanisms]; Region: COG2199
429009004526	Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949
429009004527	metal binding site [ion binding]; metal-binding site
429009004528	active site
429009004529	I-site; other site
429009004530	EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2).  The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948
429009004531	4Fe-4S single cluster domain; Region: Fer4_15; pfam13459
429009004532	Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118
429009004533	Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118
429009004534	Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486
429009004535	Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833
429009004536	Bacterial SH3 domain; Region: SH3_3; pfam08239
429009004537	Stage II sporulation protein; Region: SpoIID; pfam08486
429009004538	SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669
429009004539	Protein of unknown function (DUF2905); Region: DUF2905; pfam11146
429009004540	Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases and ATP sulphurylases. The domain forms a apha/beta/apha fold which  binds to Adenosine group; Region: Alpha_ANH_like; cd01986
429009004541	Ligand Binding Site [chemical binding]; other site
429009004542	Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080
429009004543	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
429009004544	Walker A motif; other site
429009004545	ATP binding site [chemical binding]; other site
429009004546	Walker B motif; other site
429009004547	arginine finger; other site
429009004548	Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491
429009004549	Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116
429009004550	RuvA N terminal domain; Region: RuvA_N; pfam01330
429009004551	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
429009004552	active site
429009004553	putative DNA-binding cleft [nucleotide binding]; other site
429009004554	dimer interface [polypeptide binding]; other site
429009004555	hypothetical protein; Validated; Region: PRK00110
429009004556	NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171
429009004557	NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553
429009004558	homodimer interface [polypeptide binding]; other site
429009004559	NAD binding pocket [chemical binding]; other site
429009004560	ATP binding pocket [chemical binding]; other site
429009004561	Mg binding site [ion binding]; other site
429009004562	active-site loop [active]
429009004563	Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561
429009004564	ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842
429009004565	ABC-2 type transporter; Region: ABC2_membrane; cl17235
429009004566	ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779
429009004567	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
429009004568	ABC-ATPase subunit  interface; other site
429009004569	dimer interface [polypeptide binding]; other site
429009004570	putative PBP binding regions; other site
429009004571	Uncharacterized conserved protein (DUF2149); Region: DUF2149; pfam09919
429009004572	Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811
429009004573	ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120
429009004574	ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214
429009004575	Walker A/P-loop; other site
429009004576	ATP binding site [chemical binding]; other site
429009004577	Q-loop/lid; other site
429009004578	ABC transporter signature motif; other site
429009004579	Walker B; other site
429009004580	D-loop; other site
429009004581	H-loop/switch region; other site
429009004582	Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833
429009004583	Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833
429009004584	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
429009004585	Periplasmic binding protein; Region: Peripla_BP_2; pfam01497
429009004586	intersubunit interface [polypeptide binding]; other site
429009004587	ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614
429009004588	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
429009004589	intersubunit interface [polypeptide binding]; other site
429009004590	Domain of unknown function (DUF3479); Region: DUF3479; pfam11965
429009004591	cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989
429009004592	CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150
429009004593	CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150
429009004594	lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484
429009004595	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
429009004596	dimer interface [polypeptide binding]; other site
429009004597	putative anticodon binding site; other site
429009004598	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
429009004599	motif 1; other site
429009004600	active site
429009004601	motif 2; other site
429009004602	motif 3; other site
429009004603	transcription elongation factor GreA; Reviewed; Region: greA; PRK00226
429009004604	Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449
429009004605	Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272
429009004606	NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226
429009004607	NAD(P) binding pocket [chemical binding]; other site
429009004608	sporulation protein, YlmC/YmxH family; Region: spore_YlmC_YmxH; TIGR02888
429009004609	Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557
429009004610	trimer interface [polypeptide binding]; other site
429009004611	active site
429009004612	Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612
429009004613	Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675
429009004614	Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193
429009004615	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
429009004616	N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860
429009004617	active site
429009004618	metal binding site [ion binding]; metal-binding site
429009004619	Putative catalytic NodB homology domain of uncharacterized protein YlxY from Bacillus subtilis and its bacterial homologs; Region: CE4_BsYlxY_like; cd10950
429009004620	NodB motif; other site
429009004621	polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824
429009004622	Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363
429009004623	RNase E interface [polypeptide binding]; other site
429009004624	trimer interface [polypeptide binding]; other site
429009004625	Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726
429009004626	Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364
429009004627	RNase E interface [polypeptide binding]; other site
429009004628	trimer interface [polypeptide binding]; other site
429009004629	active site
429009004630	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
429009004631	putative nucleic acid binding region [nucleotide binding]; other site
429009004632	G-X-X-G motif; other site
429009004633	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
429009004634	RNA binding site [nucleotide binding]; other site
429009004635	domain interface; other site
429009004636	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
429009004637	16S/18S rRNA binding site [nucleotide binding]; other site
429009004638	S13e-L30e interaction site [polypeptide binding]; other site
429009004639	25S rRNA binding site [nucleotide binding]; other site
429009004640	FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064
429009004641	bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627
429009004642	active site
429009004643	Riboflavin kinase; Region: Flavokinase; pfam01687
429009004644	Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573
429009004645	tRNA pseudouridine(55) synthase; Region: TruB; TIGR00431
429009004646	RNA binding site [nucleotide binding]; other site
429009004647	active site
429009004648	Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618
429009004649	DHH family; Region: DHH; pfam01368
429009004650	DHHA1 domain; Region: DHHA1; pfam02272
429009004651	ribosome-binding factor A; Validated; Region: rbfA; PRK00521
429009004652	Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760
429009004653	translation initiation factor IF-2; Region: IF-2; TIGR00487
429009004654	Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760
429009004655	Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887
429009004656	G1 box; other site
429009004657	putative GEF interaction site [polypeptide binding]; other site
429009004658	GTP/Mg2+ binding site [chemical binding]; other site
429009004659	Switch I region; other site
429009004660	G2 box; other site
429009004661	G3 box; other site
429009004662	Switch II region; other site
429009004663	G4 box; other site
429009004664	G5 box; other site
429009004665	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
429009004666	Translation-initiation factor 2; Region: IF-2; pfam11987
429009004667	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
429009004668	Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600
429009004669	Protein of unknown function (DUF448); Region: DUF448; pfam04296
429009004670	putative RNA binding cleft [nucleotide binding]; other site
429009004671	transcription elongation factor NusA; Provisional; Region: nusA; PRK12327
429009004672	NusA N-terminal domain; Region: NusA_N; pfam08529
429009004673	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
429009004674	RNA binding site [nucleotide binding]; other site
429009004675	homodimer interface [polypeptide binding]; other site
429009004676	NusA-like KH domain; Region: KH_5; pfam13184
429009004677	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
429009004678	G-X-X-G motif; other site
429009004679	ribosome maturation protein RimP; Reviewed; Region: PRK00092
429009004680	hypothetical protein; Provisional; Region: PRK14641
429009004681	Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734
429009004682	putative oligomer interface [polypeptide binding]; other site
429009004683	putative RNA binding site [nucleotide binding]; other site
429009004684	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
429009004685	Thioredoxin-like; Region: Thioredoxin_8; pfam13905
429009004686	catalytic residues [active]
429009004687	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
429009004688	non-specific DNA binding site [nucleotide binding]; other site
429009004689	salt bridge; other site
429009004690	sequence-specific DNA binding site [nucleotide binding]; other site
429009004691	Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396
429009004692	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
429009004693	non-specific DNA binding site [nucleotide binding]; other site
429009004694	salt bridge; other site
429009004695	sequence-specific DNA binding site [nucleotide binding]; other site
429009004696	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
429009004697	non-specific DNA binding site [nucleotide binding]; other site
429009004698	salt bridge; other site
429009004699	sequence-specific DNA binding site [nucleotide binding]; other site
429009004700	threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413
429009004701	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
429009004702	Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863
429009004703	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
429009004704	dimer interface [polypeptide binding]; other site
429009004705	active site
429009004706	motif 1; other site
429009004707	motif 2; other site
429009004708	motif 3; other site
429009004709	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
429009004710	anticodon binding site; other site
429009004711	N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301
429009004712	Coenzyme A binding pocket [chemical binding]; other site
429009004713	acetylornithine deacetylase; Provisional; Region: PRK08652
429009004714	Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659
429009004715	metal binding site [ion binding]; metal-binding site
429009004716	dimer interface [polypeptide binding]; other site
429009004717	Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690
429009004718	Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283
429009004719	Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690
429009004720	PhoU domain; Region: PhoU; pfam01895
429009004721	aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476
429009004722	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
429009004723	dimer interface [polypeptide binding]; other site
429009004724	anticodon binding site; other site
429009004725	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
429009004726	homodimer interface [polypeptide binding]; other site
429009004727	motif 1; other site
429009004728	active site
429009004729	motif 2; other site
429009004730	GAD domain; Region: GAD; pfam02938
429009004731	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
429009004732	motif 3; other site
429009004733	histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037
429009004734	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
429009004735	dimer interface [polypeptide binding]; other site
429009004736	motif 1; other site
429009004737	active site
429009004738	motif 2; other site
429009004739	motif 3; other site
429009004740	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
429009004741	anticodon binding site; other site
429009004742	Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641
429009004743	EpsO protein participates in the methanolan synthesis; Region: EpsO_like; cd06438
429009004744	DXD motif; other site
429009004745	Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702
429009004746	NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271
429009004747	putative NAD(P) binding site [chemical binding]; other site
429009004748	active site
429009004749	mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595
429009004750	Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849
429009004751	RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521
429009004752	SpoIIIAH-like protein; Region: SpoIIIAH; pfam12685
429009004753	stage III sporulation protein AG; Region: spore_III_AG; TIGR02830
429009004754	Stage III sporulation protein AF (Spore_III_AF); Region: Spore_III_AF; cl17562
429009004755	Stage III sporulation protein AE (spore_III_AE); Region: Spore_III_AE; cl09771
429009004756	Stage III sporulation protein AC/AD protein family; Region: SpoIIIAC; cl05961
429009004757	stage III sporulation protein AC; Region: spore_III_AC; TIGR02848
429009004758	Stage III sporulation protein AB (spore_III_AB); Region: Spore_III_AB; cl08022
429009004759	stage III sporulation protein AA; Region: spore_III_AA; TIGR02858
429009004760	Transposase IS200 like; Region: Y1_Tnp; pfam01797
429009004761	Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675
429009004762	Probable transposase; Region: OrfB_IS605; pfam01385
429009004763	Phosphoribosyltransferase; Region: DBI_PRT; pfam02277
429009004764	Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439
429009004765	putative dimer interface [polypeptide binding]; other site
429009004766	active site pocket [active]
429009004767	putative cataytic base [active]
429009004768	Uncharacterized protein containing a ferredoxin domain [Function unknown]; Region: COG4739
429009004769	Uncharacterized protein containing a ferredoxin domain (DUF2148); Region: DUF2148; pfam09918
429009004770	Transposase IS200 like; Region: Y1_Tnp; pfam01797
429009004771	Sporulation protein YunB (Spo_YunB); Region: Spore_YunB; cl09783
429009004772	tyrosyl-tRNA synthetase; Validated; Region: PRK05912
429009004773	catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805
429009004774	active site
429009004775	HIGH motif; other site
429009004776	dimer interface [polypeptide binding]; other site
429009004777	KMSKS motif; other site
429009004778	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
429009004779	RNA binding surface [nucleotide binding]; other site
429009004780	Transglycosylase; Region: Transgly; pfam00912
429009004781	penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074
429009004782	Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905
429009004783	DAK2 domain fusion protein YloV; Region: YloV; TIGR03599
429009004784	DAK2 domain; Region: Dak2; pfam02734
429009004785	EDD domain protein, DegV family; Region: DegV; TIGR00762
429009004786	Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645
429009004787	BioD-like N-terminal domain of phosphotransacetylase [General function prediction only]; Region: Pta; COG0857
429009004788	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
429009004789	DRTGG domain; Region: DRTGG; pfam07085
429009004790	acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717
429009004791	CoA binding domain; Region: CoA_binding_2; pfam13380
429009004792	Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607
429009004793	ATP-grasp domain; Region: ATP-grasp_5; pfam13549
429009004794	Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042
429009004795	FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388
429009004796	Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118
429009004797	Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486
429009004798	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
429009004799	ATPases associated with a variety of cellular activities; Region: AAA; smart00382
429009004800	Walker A motif; other site
429009004801	ATP binding site [chemical binding]; other site
429009004802	Walker B motif; other site
429009004803	Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935
429009004804	Replication initiation and membrane attachment; Region: DnaB_2; pfam07261
429009004805	Protein of unknown function (DUF503); Region: DUF503; pfam04456
429009004806	Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544
429009004807	homotrimer interface [polypeptide binding]; other site
429009004808	Walker A motif; other site
429009004809	GTP binding site [chemical binding]; other site
429009004810	Walker B motif; other site
429009004811	Protein of unknown function (DUF456); Region: DUF456; pfam04306
429009004812	BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271
429009004813	2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050
429009004814	2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050
429009004815	benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263
429009004816	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
429009004817	Ligand Binding Site [chemical binding]; other site
429009004818	glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK07729
429009004819	Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044
429009004820	Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800
429009004821	sulfate adenylyltransferase; Reviewed; Region: sat; PRK04149
429009004822	ATP-sulfurylase; Region: ATPS; cd00517
429009004823	active site
429009004824	HXXH motif; other site
429009004825	flexible loop; other site
429009004826	Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675
429009004827	Probable transposase; Region: OrfB_IS605; pfam01385
429009004828	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
429009004829	Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750
429009004830	Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960
429009004831	Pilus assembly protein, PilO; Region: PilO; cl01234
429009004832	Fimbrial assembly protein (PilN); Region: PilN; pfam05137
429009004833	Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972
429009004834	Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037
429009004835	Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165
429009004836	Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544
429009004837	Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334
429009004838	Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459
429009004839	Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482
429009004840	Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482
429009004841	Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805
429009004842	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
429009004843	Walker A motif; other site
429009004844	ATP binding site [chemical binding]; other site
429009004845	Walker B motif; other site
429009004846	Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157
429009004847	Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804
429009004848	PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129
429009004849	Walker A motif; other site
429009004850	ATP binding site [chemical binding]; other site
429009004851	Walker B motif; other site
429009004852	RNA polymerase sigma factor RpoD; Validated; Region: PRK09210
429009004853	Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979
429009004854	Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140
429009004855	Sigma-70 region 2; Region: Sigma70_r2; pfam04542
429009004856	Sigma-70 region 3; Region: Sigma70_r3; pfam04539
429009004857	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
429009004858	DNA binding residues [nucleotide binding]
429009004859	DNA primase; Validated; Region: dnaG; PRK05667
429009004860	CHC2 zinc finger; Region: zf-CHC2; pfam01807
429009004861	DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275
429009004862	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
429009004863	active site
429009004864	metal binding site [ion binding]; metal-binding site
429009004865	interdomain interaction site; other site
429009004866	deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286
429009004867	Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077
429009004868	Zn2+ binding site [ion binding]; other site
429009004869	Mg2+ binding site [ion binding]; other site
429009004870	Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286
429009004871	2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258
429009004872	LigT like Phosphoesterase; Region: LigT_PEase; pfam02834
429009004873	LigT like Phosphoesterase; Region: LigT_PEase; pfam02834
429009004874	phosphoenolpyruvate synthase; Validated; Region: PRK06464
429009004875	Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326
429009004876	Phosphohistidine swiveling domain [Signal transduction mechanisms]; Region: COG3848
429009004877	PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896
429009004878	PEP synthetase regulatory protein; Provisional; Region: PRK05339
429009004879	HTH domain; Region: HTH_11; pfam08279
429009004880	The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_4; cd04617
429009004881	FOG: CBS domain [General function prediction only]; Region: COG0517
429009004882	glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233
429009004883	Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020
429009004884	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
429009004885	dimer interface [polypeptide binding]; other site
429009004886	motif 1; other site
429009004887	active site
429009004888	motif 2; other site
429009004889	motif 3; other site
429009004890	Recombination protein O N terminal; Region: RecO_N; pfam11967
429009004891	DNA repair protein RecO; Region: reco; TIGR00613
429009004892	Recombination protein O C terminal; Region: RecO_C; pfam02565
429009004893	4Fe-4S binding domain; Region: Fer4_5; pfam12801
429009004894	Ferredoxin [Energy production and conversion]; Region: COG1146
429009004895	transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766
429009004896	Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727
429009004897	4Fe-4S dicluster domain; Region: Fer4_9; pfam13187
429009004898	Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414
429009004899	Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730
429009004900	Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314
429009004901	endonuclease IV; Provisional; Region: PRK01060
429009004902	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
429009004903	AP (apurinic/apyrimidinic) site pocket; other site
429009004904	DNA interaction; other site
429009004905	Metal-binding active site; metal-binding site
429009004906	Armadillo/beta-catenin-like repeats. An approximately 40 amino acid long tandemly repeated sequence motif first identified in the Drosophila segment polarity gene armadillo; these repeats were also found in the mammalian armadillo homolog beta-catenin; Region: ARM; cl02500
429009004907	HEAT-like repeat; Region: HEAT_EZ; pfam13513
429009004908	protein binding surface [polypeptide binding]; other site
429009004909	Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400
429009004910	Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148
429009004911	putative homodimer interface [polypeptide binding]; other site
429009004912	putative homotetramer interface [polypeptide binding]; other site
429009004913	putative allosteric switch controlling residues; other site
429009004914	putative metal binding site [ion binding]; other site
429009004915	putative homodimer-homodimer interface [polypeptide binding]; other site
429009004916	ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201
429009004917	Walker B; other site
429009004918	D-loop; other site
429009004919	H-loop/switch region; other site
429009004920	ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201
429009004921	AAA domain; Region: AAA_23; pfam13476
429009004922	Walker A/P-loop; other site
429009004923	ATP binding site [chemical binding]; other site
429009004924	metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995
429009004925	Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149
429009004926	active site
429009004927	metal binding site [ion binding]; metal-binding site
429009004928	HerA helicase [Replication, recombination, and repair]; Region: COG0433
429009004929	FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580
429009004930	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
429009004931	NurA nuclease; Region: NurA; smart00933
429009004932	Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118
429009004933	FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388
429009004934	Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118
429009004935	Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791
429009004936	NlpC/P60 family; Region: NLPC_P60; pfam00877
429009004937	Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398
429009004938	active site
429009004939	NTP binding site [chemical binding]; other site
429009004940	metal binding triad [ion binding]; metal-binding site
429009004941	Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627
429009004942	Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; smart00471
429009004943	tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735
429009004944	Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139
429009004945	hypothetical protein; Reviewed; Region: PRK09588
429009004946	Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430
429009004947	alanine racemase; Reviewed; Region: alr; PRK00053
429009004948	active site
429009004949	pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site
429009004950	dimer interface [polypeptide binding]; other site
429009004951	substrate binding site [chemical binding]; other site
429009004952	catalytic residues [active]
429009004953	Uncharacterized conserved protein [Function unknown]; Region: COG0062
429009004954	putative carbohydrate kinase; Provisional; Region: PRK10565
429009004955	B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171
429009004956	putative substrate binding site [chemical binding]; other site
429009004957	putative ATP binding site [chemical binding]; other site
429009004958	4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070
429009004959	Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279
429009004960	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
429009004961	active site
429009004962	phosphorylation site [posttranslational modification]
429009004963	intermolecular recognition site; other site
429009004964	dimerization interface [polypeptide binding]; other site
429009004965	LytTr DNA-binding domain; Region: LytTR; smart00850
429009004966	FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203
429009004967	Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065
429009004968	Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920
429009004969	Histidine kinase; Region: His_kinase; pfam06580
429009004970	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
429009004971	ATP binding site [chemical binding]; other site
429009004972	Mg2+ binding site [ion binding]; other site
429009004973	G-X-G motif; other site
429009004974	Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217
429009004975	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
429009004976	metal-binding site [ion binding]
429009004977	E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122
429009004978	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
429009004979	motif II; other site
429009004980	Archaeal protein of unknown function (DUF911); Region: DUF911; pfam06023
429009004981	CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A; cl17680
429009004982	CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641
429009004983	CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725
429009004984	CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cd09634
429009004985	P-loop Domain of unknown function (DUF2791); Region: DUF2791; pfam10923
429009004986	P-loop Domain of unknown function (DUF2791); Region: DUF2791; pfam10923
429009004987	Domain of unknown function (DUF4282); Region: DUF4282; pfam14110
429009004988	CRISPR/Cas system-associated protein Csc2; Region: Csc2_I-D; cl11869
429009004989	CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641
429009004990	DEAD-like helicases superfamily; Region: DEXDc; smart00487
429009004991	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
429009004992	putative Mg++ binding site [ion binding]; other site
429009004993	Helicase conserved C-terminal domain; Region: Helicase_C; pfam00271
429009004994	nucleotide binding region [chemical binding]; other site
429009004995	ATP-binding site [chemical binding]; other site
429009004996	Predicted transcriptional regulator [Transcription]; Region: COG2378
429009004997	HTH domain; Region: HTH_11; cl17392
429009004998	WYL domain; Region: WYL; pfam13280
429009004999	CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cl11443
429009005000	CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cl11443
429009005001	Mn-containing catalase [Inorganic ion transport and metabolism]; Region: COG3546
429009005002	Uncharacterized conserved protein [Function unknown]; Region: COG1633
429009005003	dinuclear metal binding motif [ion binding]; other site
429009005004	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
429009005005	catalytic loop [active]
429009005006	iron binding site [ion binding]; other site
429009005007	NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588
429009005008	[FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512
429009005009	4Fe-4S binding domain; Region: Fer4; pfam00037
429009005010	Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906
429009005011	Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256
429009005012	bidirectional hydrogenase complex protein HoxU; Validated; Region: PRK07569
429009005013	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
429009005014	catalytic loop [active]
429009005015	iron binding site [ion binding]; other site
429009005016	NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588
429009005017	[FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512
429009005018	4Fe-4S binding domain; Region: Fer4; pfam00037
429009005019	Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906
429009005020	Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256
429009005021	Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662
429009005022	NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928
429009005023	Domain of unknown function (DUF3842); Region: DUF3842; pfam12953
429009005024	Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374
429009005025	Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374
429009005026	Uncharacterized conserved protein [Function unknown]; Region: COG2928
429009005027	RRXRR protein; Region: RRXRR; pfam14239
429009005028	HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085
429009005029	Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403
429009005030	active site
429009005031	Nucleotidyltransferase (NT) domain of family X DNA Polymerases; Region: NT_POLXc; cd00141
429009005032	hypothetical protein; Provisional; Region: PRK08609
429009005033	active site
429009005034	primer binding site [nucleotide binding]; other site
429009005035	NTP  binding site [chemical binding]; other site
429009005036	metal binding triad [ion binding]; metal-binding site
429009005037	Polymerase and Histidinol Phosphatase domain of bacterial polymerase X; Region: PHP_PolX; cd07436
429009005038	active site
429009005039	Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237
429009005040	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
429009005041	Major Facilitator Superfamily; Region: MFS_1; pfam07690
429009005042	putative substrate translocation pore; other site
429009005043	Acylphosphatases [Energy production and conversion]; Region: AcyP; COG1254
429009005044	Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727
429009005045	Adenylate forming domain, Class I; Region: AFD_class_I; cl17068
429009005046	Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541
429009005047	acyl-activating enzyme (AAE) consensus motif; other site
429009005048	AMP binding site [chemical binding]; other site
429009005049	active site
429009005050	CoA binding site [chemical binding]; other site
429009005051	Sulfite exporter TauE/SafE; Region: TauE; pfam01925
429009005052	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
429009005053	Ligand Binding Site [chemical binding]; other site
429009005054	leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390
429009005055	catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812
429009005056	HIGH motif; other site
429009005057	Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603
429009005058	catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812
429009005059	active site
429009005060	KMSKS motif; other site
429009005061	Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958
429009005062	tRNA binding surface [nucleotide binding]; other site
429009005063	Winged helix-turn helix; Region: HTH_29; pfam13551
429009005064	Homeodomain-like domain; Region: HTH_23; pfam13384
429009005065	Homeodomain-like domain; Region: HTH_32; pfam13565
429009005066	Integrase core domain; Region: rve; pfam00665
429009005067	Integrase core domain; Region: rve_3; pfam13683
429009005068	transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766
429009005069	Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452
429009005070	Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762
429009005071	DNA binding residues [nucleotide binding]
429009005072	Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of...; Region: SR_IS607_transposase_like; cd03769
429009005073	catalytic residues [active]
429009005074	catalytic nucleophile [active]
429009005075	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
429009005076	putative binding surface; other site
429009005077	active site
429009005078	P2 response regulator binding domain; Region: P2; pfam07194
429009005079	Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041
429009005080	Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041
429009005081	Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172
429009005082	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
429009005083	ATP binding site [chemical binding]; other site
429009005084	Mg2+ binding site [ion binding]; other site
429009005085	G-X-G motif; other site
429009005086	c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal    transduction mechanisms]; Region: COG2199
429009005087	Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949
429009005088	metal binding site [ion binding]; metal-binding site
429009005089	active site
429009005090	I-site; other site
429009005091	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
429009005092	Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675
429009005093	Probable transposase; Region: OrfB_IS605; pfam01385
429009005094	Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719
429009005095	Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495
429009005096	ribosomal protein L25, Ctc-form; Region: ctc_TL5; TIGR00731
429009005097	5S rRNA interface [nucleotide binding]; other site
429009005098	CTC domain interface [polypeptide binding]; other site
429009005099	L16 interface [polypeptide binding]; other site
429009005100	Glycogen debranching enzyme N terminal; Region: GDE_N; pfam12439
429009005101	glycogen debranching enzyme, archaeal type, putative; Region: gde_arch; TIGR01561
429009005102	Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202
429009005103	Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940
429009005104	Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012
429009005105	nucleotide binding site [chemical binding]; other site
429009005106	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
429009005107	haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282
429009005108	active site
429009005109	motif I; other site
429009005110	motif II; other site
429009005111	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
429009005112	excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558
429009005113	Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434
429009005114	GIY-YIG motif/motif A; other site
429009005115	active site
429009005116	catalytic site [active]
429009005117	putative DNA binding site [nucleotide binding]; other site
429009005118	metal binding site [ion binding]; metal-binding site
429009005119	UvrB/uvrC motif; Region: UVR; pfam02151
429009005120	UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459
429009005121	excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349
429009005122	ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270
429009005123	ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270
429009005124	ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271
429009005125	excinuclease ABC subunit B; Provisional; Region: PRK05298
429009005126	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
429009005127	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
429009005128	ATP-binding site [chemical binding]; other site
429009005129	ATP binding site [chemical binding]; other site
429009005130	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
429009005131	nucleotide binding region [chemical binding]; other site
429009005132	ATP-binding site [chemical binding]; other site
429009005133	Ultra-violet resistance protein B; Region: UvrB; pfam12344
429009005134	UvrB/uvrC motif; Region: UVR; pfam02151
429009005135	argininosuccinate lyase; Provisional; Region: PRK00855
429009005136	Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359
429009005137	active sites [active]
429009005138	tetramer interface [polypeptide binding]; other site
429009005139	argininosuccinate synthase; Provisional; Region: PRK13820
429009005140	Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate .  In...; Region: Argininosuccinate_Synthase; cd01999
429009005141	ANP binding site [chemical binding]; other site
429009005142	Substrate Binding Site II [chemical binding]; other site
429009005143	Substrate Binding Site I [chemical binding]; other site
429009005144	ornithine carbamoyltransferase; Provisional; Region: PRK00779
429009005145	Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729
429009005146	Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185
429009005147	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
429009005148	acetylornithine aminotransferase; Provisional; Region: PRK02627
429009005149	inhibitor-cofactor binding pocket; inhibition site
429009005150	pyridoxal 5'-phosphate binding site [chemical binding]; other site
429009005151	catalytic residue [active]
429009005152	AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250
429009005153	feedback inhibition sensing region; other site
429009005154	homohexameric interface [polypeptide binding]; other site
429009005155	nucleotide binding site [chemical binding]; other site
429009005156	N-acetyl-L-glutamate binding site [chemical binding]; other site
429009005157	Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152
429009005158	heterotetramer interface [polypeptide binding]; other site
429009005159	active site pocket [active]
429009005160	cleavage site
429009005161	N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436
429009005162	Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859
429009005163	Predicted ATPase of the ABC class; Region: ABC_ATPase; pfam09818
429009005164	ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201
429009005165	Walker A/P-loop; other site
429009005166	ATP binding site [chemical binding]; other site
429009005167	Q-loop/lid; other site
429009005168	ABC transporter signature motif; other site
429009005169	Walker B; other site
429009005170	D-loop; other site
429009005171	H-loop/switch region; other site
429009005172	pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825
429009005173	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
429009005174	substrate-cofactor binding pocket; other site
429009005175	pyridoxal 5'-phosphate binding site [chemical binding]; other site
429009005176	catalytic residue [active]
429009005177	dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090
429009005178	AAA domain; Region: AAA_26; pfam13500
429009005179	Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782
429009005180	transposase, putative, N-terminal domain; Region: tspaseT_teng_N; TIGR01765
429009005181	transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766
429009005182	Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833
429009005183	Bifunctional nuclease; Region: DNase-RNase; pfam02577
429009005184	Bacitracin resistance protein BacA; Region: BacA; pfam02673
429009005185	acetyl-CoA synthetase; Provisional; Region: PRK00174
429009005186	Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966
429009005187	active site
429009005188	CoA binding site [chemical binding]; other site
429009005189	acyl-activating enzyme (AAE) consensus motif; other site
429009005190	AMP binding site [chemical binding]; other site
429009005191	acetate binding site [chemical binding]; other site
429009005192	Predicted thioesterase [General function prediction only]; Region: COG5496
429009005193	DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127
429009005194	active site
429009005195	catalytic site [active]
429009005196	substrate binding site [chemical binding]; other site
429009005197	Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905
429009005198	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
429009005199	ligand binding site [chemical binding]; other site
429009005200	flexible hinge region; other site
429009005201	This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800
429009005202	Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401
429009005203	metal binding triad; other site
429009005204	Predicted symporter [General function prediction only]; Region: DhlC; COG4147
429009005205	Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480
429009005206	Na binding site [ion binding]; other site
429009005207	Protein of unknown function, DUF485; Region: DUF485; pfam04341
429009005208	acetyl-CoA synthetase; Provisional; Region: PRK00174
429009005209	Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966
429009005210	active site
429009005211	CoA binding site [chemical binding]; other site
429009005212	acyl-activating enzyme (AAE) consensus motif; other site
429009005213	AMP binding site [chemical binding]; other site
429009005214	acetate binding site [chemical binding]; other site
429009005215	thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292
429009005216	NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500
429009005217	Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070
429009005218	acetyl-CoA synthetase; Provisional; Region: PRK04319
429009005219	Adenylate forming domain, Class I; Region: AFD_class_I; cl17068
429009005220	acyl-activating enzyme (AAE) consensus motif; other site
429009005221	AMP binding site [chemical binding]; other site
429009005222	active site
429009005223	CoA binding site [chemical binding]; other site
429009005224	helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346
429009005225	Transcriptional regulator [Transcription]; Region: IclR; COG1414
429009005226	Bacterial transcriptional regulator; Region: IclR; pfam01614
429009005227	glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK07729
429009005228	Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846
429009005229	Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800
429009005230	Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036
429009005231	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
429009005232	substrate binding site [chemical binding]; other site
429009005233	hexamer interface [polypeptide binding]; other site
429009005234	metal binding site [ion binding]; metal-binding site
429009005235	Fructose-1,6-bisphosphatase; Region: FBPase_3; pfam01950
429009005236	Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958
429009005237	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
429009005238	PYR/PP interface [polypeptide binding]; other site
429009005239	dimer interface [polypeptide binding]; other site
429009005240	TPP binding site [chemical binding]; other site
429009005241	Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780
429009005242	transketolase; Reviewed; Region: PRK05899
429009005243	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
429009005244	TPP-binding site [chemical binding]; other site
429009005245	dimer interface [polypeptide binding]; other site
429009005246	Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190
429009005247	active site
429009005248	ribulose bisphosphate carboxylase, type III; Region: rubisco_III; TIGR03326
429009005249	Ribulose bisphosphate carboxylase large chain, Form III; Region: RuBisCO_large_III; cd08213
429009005250	dimer interface [polypeptide binding]; other site
429009005251	active site
429009005252	catalytic residue [active]
429009005253	metal binding site [ion binding]; metal-binding site
429009005254	Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956
429009005255	active site
429009005256	intersubunit interactions; other site
429009005257	catalytic residue [active]
429009005258	Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403
429009005259	active site
429009005260	NTP binding site [chemical binding]; other site
429009005261	metal binding triad [ion binding]; metal-binding site
429009005262	antibiotic binding site [chemical binding]; other site
429009005263	putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737
429009005264	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
429009005265	FMN binding site [chemical binding]; other site
429009005266	active site
429009005267	catalytic residues [active]
429009005268	substrate binding site [chemical binding]; other site
429009005269	pantothenate kinase; Reviewed; Region: PRK13318
429009005270	transposase, putative, N-terminal domain; Region: tspaseT_teng_N; TIGR01765
429009005271	transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766
429009005272	HTH domain; Region: HTH_11; pfam08279
429009005273	Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340
429009005274	Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099
429009005275	Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157
429009005276	Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572
429009005277	dimerization interface [polypeptide binding]; other site
429009005278	active site
429009005279	Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029
429009005280	L-aspartate oxidase; Provisional; Region: PRK06175
429009005281	Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910
429009005282	Quinolinate synthetase A protein; Region: NadA; pfam02445
429009005283	Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent  decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919
429009005284	tetramerization interface [polypeptide binding]; other site
429009005285	active site
429009005286	pantoate--beta-alanine ligase; Region: panC; TIGR00018
429009005287	Pantoate-beta-alanine ligase; Region: PanC; cd00560
429009005288	active site
429009005289	ATP-binding site [chemical binding]; other site
429009005290	pantoate-binding site; other site
429009005291	HXXH motif; other site
429009005292	Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557
429009005293	oligomerization interface [polypeptide binding]; other site
429009005294	active site
429009005295	metal binding site [ion binding]; metal-binding site
429009005296	Uncharacterized conserved protein [Function unknown]; Region: COG5495
429009005297	Rossmann-like domain; Region: Rossmann-like; pfam10727
429009005298	Domain of unknown function (DUF2520); Region: DUF2520; pfam10728
429009005299	spermidine synthase; Provisional; Region: PRK00811
429009005300	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
429009005301	S-adenosylmethionine binding site [chemical binding]; other site
429009005302	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
429009005303	putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055
429009005304	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
429009005305	FeS/SAM binding site; other site
429009005306	radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085
429009005307	NAD-dependent deacetylase; Provisional; Region: PRK00481
429009005308	SIR2 family of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2-fam; cd01407
429009005309	NAD+ binding site [chemical binding]; other site
429009005310	substrate binding site [chemical binding]; other site
429009005311	Zn binding site [ion binding]; other site
429009005312	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
429009005313	homooctamer interface [polypeptide binding]; other site
429009005314	active site
429009005315	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
429009005316	catalytic center binding site [active]
429009005317	ATP binding site [chemical binding]; other site
429009005318	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
429009005319	dihydropteroate synthase; Region: DHPS; TIGR01496
429009005320	substrate binding pocket [chemical binding]; other site
429009005321	dimer interface [polypeptide binding]; other site
429009005322	inhibitor binding site; inhibition site
429009005323	Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247
429009005324	4Fe-4S dicluster domain; Region: Fer4_10; pfam13237
429009005325	4Fe-4S binding domain; Region: Fer4; pfam00037
429009005326	Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148
429009005327	NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450
429009005328	Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148
429009005329	4Fe-4S binding domain; Region: Fer4; pfam00037
429009005330	GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518
429009005331	Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741
429009005332	catalytic triad [active]
429009005333	Nitrogen regulatory protein P-II; Region: P-II; pfam00543
429009005334	Nitrogen regulatory protein P-II; Region: P-II; smart00938
429009005335	Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004
429009005336	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; cl17736
429009005337	phosphorylation site [posttranslational modification]
429009005338	ANTAR domain; Region: ANTAR; pfam03861
429009005339	glutamine synthetase, type I; Region: GlnA; TIGR00653
429009005340	Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951
429009005341	Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120
429009005342	Cytochrome c552; Region: Cytochrom_C552; pfam02335
429009005343	cytochrome c nitrate reductase, small subunit; Region: cytochr_NrfH; TIGR03153
429009005344	cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554
429009005345	cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144
429009005346	ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125
429009005347	ResB-like family; Region: ResB; pfam05140
429009005348	HPP family; Region: HPP; pfam04982
429009005349	Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745
429009005350	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
429009005351	active site
429009005352	phosphorylation site [posttranslational modification]
429009005353	intermolecular recognition site; other site
429009005354	dimerization interface [polypeptide binding]; other site
429009005355	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
429009005356	DNA binding site [nucleotide binding]
429009005357	Protein of unknown function (DUF3365); Region: DUF3365; pfam11845
429009005358	Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642
429009005359	HAMP domain; Region: HAMP; pfam00672
429009005360	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
429009005361	dimer interface [polypeptide binding]; other site
429009005362	phosphorylation site [posttranslational modification]
429009005363	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
429009005364	ATP binding site [chemical binding]; other site
429009005365	Mg2+ binding site [ion binding]; other site
429009005366	G-X-G motif; other site
429009005367	Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958
429009005368	DMSO reductase family type II enzyme, iron-sulfur subunit; Region: DMSO_red_II_bet; TIGR03478
429009005369	DMSO reductase family type II enzyme, molybdopterin subunit; Region: DMSO_red_II_alp; TIGR03479
429009005370	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
429009005371	molybdopterin cofactor binding site; other site
429009005372	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
429009005373	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
429009005374	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
429009005375	Molybdopterin-Binding, C-terminal (MopB_CT) 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-...; Region: MopB_CT; cl09929
429009005376	molybdopterin cofactor binding site; other site
429009005377	Ferredoxin [Energy production and conversion]; Region: NapF; COG1145
429009005378	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
429009005379	4Fe-4S dicluster domain; Region: Fer4_10; pfam13237
429009005380	hydroxylamine reductase; Provisional; Region: PRK12310
429009005381	Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914
429009005382	cubane metal cluster [ion binding]; other site
429009005383	hybrid metal cluster; other site
429009005384	FeS assembly SUF system regulator, gammaproteobacterial; Region: suf_reg_Xantho; TIGR02944
429009005385	Transcriptional regulator; Region: Rrf2; pfam02082
429009005386	Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841
429009005387	RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730
429009005388	Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533
429009005389	HlyD family secretion protein; Region: HlyD_3; pfam13437
429009005390	Transcriptional regulator [Transcription]; Region: AcrR; COG1309
429009005391	Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440
429009005392	YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359
429009005393	cobaltochelatase subunit; Region: Cob-chelat-sub; TIGR02442
429009005394	Magnesium chelatase: Mg-chelatase catalyses the insertion of Mg into protoporphyrin IX (Proto). In chlorophyll biosynthesis, insertion of Mg2+ into protoporphyrin IX is catalysed by magnesium chelatase in an ATP-dependent reaction. Magnesium chelatase is...; Region: vWA_Magnesium_chelatase; cd01451
429009005395	metal ion-dependent adhesion site (MIDAS); other site
429009005396	3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673
429009005397	phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361
429009005398	transposase, putative, N-terminal domain; Region: tspaseT_teng_N; TIGR01765
429009005399	RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651
429009005400	Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078
429009005401	putative active site [active]
429009005402	putative NTP binding site [chemical binding]; other site
429009005403	putative nucleic acid binding site [nucleotide binding]; other site
429009005404	Group II intron, maturase-specific domain; Region: GIIM; pfam08388
429009005405	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
429009005406	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
429009005407	S-adenosylmethionine binding site [chemical binding]; other site
429009005408	Predicted amidohydrolase [General function prediction only]; Region: COG0388
429009005409	Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572
429009005410	putative active site [active]
429009005411	catalytic triad [active]
429009005412	dimer interface [polypeptide binding]; other site
429009005413	thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292
429009005414	Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738
429009005415	Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100
429009005416	Aluminium resistance protein; Region: Alum_res; pfam06838
429009005417	bacterial Hfq-like; Region: Hfq; cd01716
429009005418	hexamer interface [polypeptide binding]; other site
429009005419	Sm1 motif; other site
429009005420	RNA binding site [nucleotide binding]; other site
429009005421	Sm2 motif; other site
429009005422	tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091
429009005423	tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324
429009005424	Brix domain; Region: Brix; cl00935
429009005425	Putative SAM-dependent methyltransferase; Region: SAM_MT; cl17517
429009005426	DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095
429009005427	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
429009005428	ATP binding site [chemical binding]; other site
429009005429	Mg2+ binding site [ion binding]; other site
429009005430	G-X-G motif; other site
429009005431	MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782
429009005432	ATP binding site [chemical binding]; other site
429009005433	MutL C terminal dimerisation domain; Region: MutL_C; pfam08676
429009005434	DNA mismatch repair protein MutS; Provisional; Region: PRK05399
429009005435	MutS domain I; Region: MutS_I; pfam01624
429009005436	MutS domain II; Region: MutS_II; pfam05188
429009005437	MutS domain III; Region: MutS_III; pfam05192
429009005438	ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284
429009005439	Walker A/P-loop; other site
429009005440	ATP binding site [chemical binding]; other site
429009005441	Q-loop/lid; other site
429009005442	ABC transporter signature motif; other site
429009005443	Walker B; other site
429009005444	D-loop; other site
429009005445	H-loop/switch region; other site
429009005446	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
429009005447	peripheral dimer interface [polypeptide binding]; other site
429009005448	core dimer interface [polypeptide binding]; other site
429009005449	L10 interface [polypeptide binding]; other site
429009005450	L11 interface [polypeptide binding]; other site
429009005451	putative EF-Tu interaction site [polypeptide binding]; other site
429009005452	putative EF-G interaction site [polypeptide binding]; other site
429009005453	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
429009005454	23S rRNA interface [nucleotide binding]; other site
429009005455	Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site
429009005456	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
429009005457	mRNA/rRNA interface [nucleotide binding]; other site
429009005458	50S ribosomal protein L11; Validated; Region: rplK; PRK00140
429009005459	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
429009005460	23S rRNA interface [nucleotide binding]; other site
429009005461	L7/L12 interface [polypeptide binding]; other site
429009005462	putative thiostrepton binding site; other site
429009005463	L25 interface [polypeptide binding]; other site
429009005464	transcription antitermination protein NusG; Validated; Region: nusG; PRK05609
429009005465	Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891
429009005466	putative homodimer interface [polypeptide binding]; other site
429009005467	NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091
429009005468	heterodimer interface [polypeptide binding]; other site
429009005469	homodimer interface [polypeptide binding]; other site
429009005470	SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584
429009005471	50S ribosomal protein L33; Validated; Region: rpmG; PRK00504
429009005472	Winged helix-turn helix; Region: HTH_29; pfam13551
429009005473	Homeodomain-like domain; Region: HTH_23; pfam13384
429009005474	Homeodomain-like domain; Region: HTH_32; pfam13565
429009005475	Integrase core domain; Region: rve; pfam00665
429009005476	Integrase core domain; Region: rve_3; pfam13683
429009005477	Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394
429009005478	Low molecular weight phosphatase family; Region: LMWPc; cd00115
429009005479	active site
429009005480	Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675
429009005481	Probable transposase; Region: OrfB_IS605; pfam01385
429009005482	transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766
429009005483	Predicted permease; Region: DUF318; cl17795
429009005484	Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798
429009005485	arsenical-resistance protein; Region: acr3; TIGR00832
429009005486	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
429009005487	dimerization interface [polypeptide binding]; other site
429009005488	putative DNA binding site [nucleotide binding]; other site
429009005489	putative Zn2+ binding site [ion binding]; other site
429009005490	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
429009005491	nucleotide binding site/active site [active]
429009005492	HIT family signature motif; other site
429009005493	catalytic residue [active]
429009005494	ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125
429009005495	Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919
429009005496	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
429009005497	FeS/SAM binding site; other site
429009005498	TRAM domain; Region: TRAM; cl01282
429009005499	Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426
429009005500	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
429009005501	non-specific DNA binding site [nucleotide binding]; other site
429009005502	salt bridge; other site
429009005503	sequence-specific DNA binding site [nucleotide binding]; other site
429009005504	Domain of unknown function (DUF4115); Region: DUF4115; pfam13464
429009005505	DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674
429009005506	FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580
429009005507	Ftsk gamma domain; Region: Ftsk_gamma; pfam09397
429009005508	radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936
429009005509	Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; pfam10105
429009005510	radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960
429009005511	B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293
429009005512	B12 binding site [chemical binding]; other site
429009005513	Peptidase family M23; Region: Peptidase_M23; pfam01551
429009005514	Clp protease ATP binding subunit; Region: clpC; CHL00095
429009005515	Clp amino terminal domain; Region: Clp_N; pfam02861
429009005516	Clp amino terminal domain; Region: Clp_N; pfam02861
429009005517	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
429009005518	Walker A motif; other site
429009005519	ATP binding site [chemical binding]; other site
429009005520	Walker B motif; other site
429009005521	arginine finger; other site
429009005522	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
429009005523	Walker A motif; other site
429009005524	ATP binding site [chemical binding]; other site
429009005525	Walker B motif; other site
429009005526	C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086
429009005527	ATP:guanido phosphotransferase; Provisional; Region: PRK01059
429009005528	Phosphagen (guanidino) kinases found in bacteria; Region: bacterial_phosphagen_kinase; cd07930
429009005529	ADP binding site [chemical binding]; other site
429009005530	phosphagen binding site; other site
429009005531	substrate specificity loop; other site
429009005532	Modulator of heat shock repressor CtsR, McsA [Signal transduction    mechanisms]; Region: COG3880
429009005533	Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; cl01850
429009005534	ribonuclease PH; Reviewed; Region: rph; PRK00173
429009005535	Ribonuclease PH; Region: RNase_PH_bact; cd11362
429009005536	hexamer interface [polypeptide binding]; other site
429009005537	active site
429009005538	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
429009005539	active site
429009005540	dimerization interface [polypeptide binding]; other site
429009005541	Winged helix-turn helix; Region: HTH_29; pfam13551
429009005542	Homeodomain-like domain; Region: HTH_23; pfam13384
429009005543	Homeodomain-like domain; Region: HTH_32; pfam13565
429009005544	Integrase core domain; Region: rve; pfam00665
429009005545	Integrase core domain; Region: rve_3; pfam13683
429009005546	cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664
429009005547	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
429009005548	ligand binding site [chemical binding]; other site
429009005549	flexible hinge region; other site
429009005550	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
429009005551	putative switch regulator; other site
429009005552	non-specific DNA interactions [nucleotide binding]; other site
429009005553	DNA binding site [nucleotide binding]
429009005554	sequence specific DNA binding site [nucleotide binding]; other site
429009005555	putative cAMP binding site [chemical binding]; other site
429009005556	Radical SAM superfamily; Region: Radical_SAM; pfam04055
429009005557	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
429009005558	FeS/SAM binding site; other site
429009005559	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
429009005560	TPR motif; other site
429009005561	TPR repeat; Region: TPR_11; pfam13414
429009005562	binding surface
429009005563	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
429009005564	binding surface
429009005565	TPR motif; other site
429009005566	TPR repeat; Region: TPR_11; pfam13414
429009005567	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
429009005568	binding surface
429009005569	TPR motif; other site
429009005570	Winged helix-turn helix; Region: HTH_29; pfam13551
429009005571	Homeodomain-like domain; Region: HTH_23; pfam13384
429009005572	Homeodomain-like domain; Region: HTH_32; pfam13565
429009005573	Integrase core domain; Region: rve; pfam00665
429009005574	Integrase core domain; Region: rve_3; pfam13683
429009005575	cobalt transport protein CbiM; Provisional; Region: PRK11909
429009005576	Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891
429009005577	PDGLE domain; Region: PDGLE; pfam13190
429009005578	cobalt ABC transporter, permease protein CbiQ; Region: CbiQ_TIGR; TIGR02454
429009005579	3-isopropylmalate dehydrogenase; Provisional; Region: PRK03437
429009005580	tartrate dehydrogenase; Region: TTC; TIGR02089
429009005581	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
429009005582	dimerization interface [polypeptide binding]; other site
429009005583	Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283
429009005584	Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386
429009005585	dimer interface [polypeptide binding]; other site
429009005586	putative CheW interface [polypeptide binding]; other site
429009005587	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
429009005588	KaiC; Region: KaiC; pfam06745
429009005589	Walker A motif; other site
429009005590	ATP binding site [chemical binding]; other site
429009005591	Walker B motif; other site
429009005592	Protein implicated in RNA metabolism, contains PRC-barrel domain [General    function prediction only]; Region: COG1873; cl17889
429009005593	Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728
429009005594	MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123
429009005595	Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109
429009005596	This PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily and is found in both archaea and bacteria. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible...; Region: PGM_like2; cd05800
429009005597	active site
429009005598	substrate binding site [chemical binding]; other site
429009005599	metal binding site [ion binding]; metal-binding site
429009005600	Predicted membrane protein [Function unknown]; Region: COG2323
429009005601	Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451
429009005602	UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs; Region: UDP_AE_SDR_e; cd05256
429009005603	NAD binding site [chemical binding]; other site
429009005604	substrate binding site [chemical binding]; other site
429009005605	homodimer interface [polypeptide binding]; other site
429009005606	active site
429009005607	Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541
429009005608	dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209
429009005609	active site
429009005610	tetramer interface; other site
429009005611	UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472
429009005612	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
429009005613	Mg++ binding site [ion binding]; other site
429009005614	putative catalytic motif [active]
429009005615	substrate binding site [chemical binding]; other site
429009005616	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
429009005617	Transcriptional regulator [Transcription]; Region: LytR; COG1316
429009005618	Domain of unknown function (DUF4330); Region: DUF4330; pfam14221
429009005619	CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; pfam09989
429009005620	Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581
429009005621	Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924
429009005622	Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012
429009005623	nucleotide binding site [chemical binding]; other site
429009005624	BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271
429009005625	50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359
429009005626	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
429009005627	homopentamer interface [polypeptide binding]; other site
429009005628	active site
429009005629	bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311
429009005630	3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926
429009005631	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
429009005632	dimerization interface [polypeptide binding]; other site
429009005633	active site
429009005634	riboflavin synthase subunit alpha; Provisional; Region: PRK09289
429009005635	Lumazine binding domain; Region: Lum_binding; pfam00677
429009005636	Lumazine binding domain; Region: Lum_binding; pfam00677
429009005637	riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326
429009005638	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
429009005639	catalytic motif [active]
429009005640	Zn binding site [ion binding]; other site
429009005641	RibD C-terminal domain; Region: RibD_C; cl17279
429009005642	MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704
429009005643	FtsX-like permease family; Region: FtsX; pfam02687
429009005644	ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136
429009005645	ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255
429009005646	Walker A/P-loop; other site
429009005647	ATP binding site [chemical binding]; other site
429009005648	Q-loop/lid; other site
429009005649	ABC transporter signature motif; other site
429009005650	Walker B; other site
429009005651	D-loop; other site
429009005652	H-loop/switch region; other site
429009005653	ABC exporter membrane fusion protein, DevB family; Region: heterocyst_DevB; TIGR02971
429009005654	Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533
429009005655	RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730
429009005656	HlyD family secretion protein; Region: HlyD_3; pfam13437
429009005657	Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675
429009005658	Probable transposase; Region: OrfB_IS605; pfam01385
429009005659	transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766
429009005660	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
429009005661	dimerization interface [polypeptide binding]; other site
429009005662	putative DNA binding site [nucleotide binding]; other site
429009005663	putative Zn2+ binding site [ion binding]; other site
429009005664	Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782
429009005665	site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236
429009005666	Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495
429009005667	DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182
429009005668	active site
429009005669	catalytic residues [active]
429009005670	DNA binding site [nucleotide binding]
429009005671	Int/Topo IB signature motif; other site
429009005672	Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396
429009005673	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
429009005674	non-specific DNA binding site [nucleotide binding]; other site
429009005675	salt bridge; other site
429009005676	sequence-specific DNA binding site [nucleotide binding]; other site
429009005677	Protein of unknown function (DUF3987); Region: DUF3987; pfam13148
429009005678	Prim_Pol: Primase-polymerase (primpol) domain of the type found in bifunctional replicases from archaeal plasmids, including ORF904 protein of the crenarchaeal plasmid pRN1 from Sulfolobus islandicus (pRN1 primpol). These primpol domains belong to the...; Region: Prim_Pol; cd04859
429009005679	polymerase nucleotide-binding site; other site
429009005680	DNA-binding residues [nucleotide binding]; DNA binding site
429009005681	nucleotide binding site [chemical binding]; other site
429009005682	primase nucleotide-binding site [nucleotide binding]; other site
429009005683	Primase C terminal 1 (PriCT-1); Region: PriCT_1; smart00942
429009005684	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
429009005685	Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396
429009005686	non-specific DNA binding site [nucleotide binding]; other site
429009005687	salt bridge; other site
429009005688	sequence-specific DNA binding site [nucleotide binding]; other site
429009005689	putative membrane protein, TIGR04086 family; Region: TIGR04086_membr
429009005690	Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006
429009005691	Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321
429009005692	A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066
429009005693	active site
429009005694	HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis.  HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197
429009005695	dimerization interface [polypeptide binding]; other site
429009005696	hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124
429009005697	ATP binding site [chemical binding]; other site
429009005698	hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062
429009005699	hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075
429009005700	HupF/HypC family; Region: HupF_HypC; pfam01455
429009005701	Acylphosphatase; Region: Acylphosphatase; pfam00708
429009005702	Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068
429009005703	HypF finger; Region: zf-HYPF; pfam07503
429009005704	HypF finger; Region: zf-HYPF; pfam07503
429009005705	Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300
429009005706	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
429009005707	Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375
429009005708	Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155
429009005709	coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130
429009005710	Hydrogenase specific C-terminal endopeptidases, also called Hydrogen Maturation Proteases (H2MP). These enzymes belong to the peptidase family M52. Maturation of [FeNi] hydrogenases includes formation of the nickel metallocenter, proteolytic processing...; Region: H2MP; cd00518
429009005711	nickel binding site [ion binding]; other site
429009005712	Coenzyme F420-reducing hydrogenase, alpha subunit [Energy production and conversion]; Region: FrhA; COG3259
429009005713	Coenzyme F420-reducing hydrogenase, gamma subunit [Energy production and conversion]; Region: FrhG; COG1941
429009005714	NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058
429009005715	Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662
429009005716	O-Antigen ligase; Region: Wzy_C; pfam04932
429009005717	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
429009005718	TPR motif; other site
429009005719	binding surface
429009005720	Tetratricopeptide repeat; Region: TPR_12; pfam13424
429009005721	flagellar motor switch protein; Validated; Region: PRK08119
429009005722	CheC-like family; Region: CheC; pfam04509
429009005723	CheC-like family; Region: CheC; pfam04509
429009005724	Surface presentation of antigens (SPOA); Region: SpoA; cl00819
429009005725	flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666
429009005726	Surface presentation of antigens (SPOA); Region: SpoA; cl00819
429009005727	Response regulator receiver domain; Region: Response_reg; pfam00072
429009005728	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
429009005729	active site
429009005730	phosphorylation site [posttranslational modification]
429009005731	intermolecular recognition site; other site
429009005732	dimerization interface [polypeptide binding]; other site
429009005733	Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776
429009005734	CheC-like family; Region: CheC; pfam04509
429009005735	CheC-like family; Region: CheC; pfam04509
429009005736	Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352
429009005737	CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705
429009005738	CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739
429009005739	chemoreceptor glutamine deamidase CheD; Provisional; Region: PRK13488
429009005740	Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786
429009005741	Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460
429009005742	flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490
429009005743	(dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14326
429009005744	RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479
429009005745	Sigma-70 region 2; Region: Sigma70_r2; pfam04542
429009005746	Sigma-70 region 3; Region: Sigma70_r3; pfam04539
429009005747	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
429009005748	DNA binding residues [nucleotide binding]
429009005749	Flagellar protein YcgR; Region: YcgR_2; pfam12945
429009005750	PilZ domain; Region: PilZ; pfam07238
429009005751	Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455
429009005752	FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038
429009005753	P-loop; other site
429009005754	Flagellar GTP-binding protein [Cell motility and secretion]; Region: FlhF; COG1419
429009005755	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
429009005756	flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012
429009005757	FHIPEP family; Region: FHIPEP; pfam00771
429009005758	flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702
429009005759	Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257
429009005760	Bacterial export proteins, family 1; Region: Bac_export_1; cl00734
429009005761	Bacterial export proteins, family 3; Region: Bac_export_3; cl00867
429009005762	flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699
429009005763	Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347
429009005764	Flagellar motor switch/type III secretory pathway protein [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliN; COG1886
429009005765	Flagellar basal body-associated protein FliL; Region: FliL; pfam03748
429009005766	flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12636
429009005767	Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429
429009005768	Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963
429009005769	FlgD Tudor-like domain; Region: FLgD_tudor; cl17881
429009005770	Flagellar hook-length control protein FliK; Region: Flg_hook; cl17777
429009005771	flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496
429009005772	ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874
429009005773	Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136
429009005774	Walker A motif/ATP binding site; other site
429009005775	Walker B motif; other site
429009005776	Flagellar assembly protein FliH; Region: FliH; pfam02108
429009005777	flagellar motor switch protein G; Validated; Region: fliG; PRK05686
429009005778	FliG C-terminal domain; Region: FliG_C; pfam01706
429009005779	flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007
429009005780	Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907
429009005781	Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345
429009005782	Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049
429009005783	flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681
429009005784	Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460
429009005785	Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429
429009005786	flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12623
429009005787	Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460
429009005788	Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197
429009005789	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
429009005790	DNA binding residues [nucleotide binding]
429009005791	Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399
429009005792	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
429009005793	inhibitor-cofactor binding pocket; inhibition site
429009005794	pyridoxal 5'-phosphate binding site [chemical binding]; other site
429009005795	catalytic residue [active]
429009005796	c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal    transduction mechanisms]; Region: COG2199
429009005797	Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949
429009005798	metal binding site [ion binding]; metal-binding site
429009005799	active site
429009005800	I-site; other site
429009005801	FIST N domain; Region: FIST; pfam08495
429009005802	Uncharacterized conserved protein [Function unknown]; Region: COG3287
429009005803	FIST C domain; Region: FIST_C; pfam10442
429009005804	Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497
429009005805	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
429009005806	substrate binding pocket [chemical binding]; other site
429009005807	membrane-bound complex binding site; other site
429009005808	hinge residues; other site
429009005809	ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215
429009005810	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
429009005811	dimer interface [polypeptide binding]; other site
429009005812	conserved gate region; other site
429009005813	putative PBP binding loops; other site
429009005814	ABC-ATPase subunit interface; other site
429009005815	ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126
429009005816	ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262
429009005817	Walker A/P-loop; other site
429009005818	ATP binding site [chemical binding]; other site
429009005819	Q-loop/lid; other site
429009005820	ABC transporter signature motif; other site
429009005821	Walker B; other site
429009005822	D-loop; other site
429009005823	H-loop/switch region; other site
429009005824	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
429009005825	Radical SAM superfamily; Region: Radical_SAM; pfam04055
429009005826	FeS/SAM binding site; other site
429009005827	Domain of unknown function (DUF4008); Region: DUF4008; pfam13186
429009005828	formate--tetrahydrofolate ligase; Provisional; Region: PRK13505
429009005829	Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477
429009005830	Potassium binding sites [ion binding]; other site
429009005831	Cesium cation binding sites [ion binding]; other site
429009005832	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
429009005833	active site
429009005834	multimer interface [polypeptide binding]; other site
429009005835	FtsH Extracellular; Region: FtsH_ext; pfam06480
429009005836	ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241
429009005837	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
429009005838	Walker A motif; other site
429009005839	ATP binding site [chemical binding]; other site
429009005840	Walker B motif; other site
429009005841	arginine finger; other site
429009005842	Peptidase family M41; Region: Peptidase_M41; pfam01434
429009005843	tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037
429009005844	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
429009005845	TilS substrate C-terminal domain; Region: TilS_C; smart00977
429009005846	stage II sporulation protein E; Region: spore_II_E; TIGR02865
429009005847	Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228
429009005848	Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541
429009005849	ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489
429009005850	ATP phosphoribosyltransferase; Region: hisG; TIGR00070
429009005851	ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455
429009005852	Septum formation initiator; Region: DivIC; pfam04977
429009005853	Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919
429009005854	RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937
429009005855	Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281
429009005856	YabP family; Region: YabP; cl06766
429009005857	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
429009005858	RNA binding surface [nucleotide binding]; other site
429009005859	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
429009005860	IHF dimer interface [polypeptide binding]; other site
429009005861	IHF - DNA interface [nucleotide binding]; other site
429009005862	Protein containing tetrapyrrole methyltransferase domain and MazG-like (predicted pyrophosphatase) domain [General function prediction only]; Region: COG3956
429009005863	N-terminal S-AdoMet dependent methylase domain of Bacillus subtilis YabN and related proteins; Region: YabN_N; cd11723
429009005864	putative SAM binding site [chemical binding]; other site
429009005865	putative homodimer interface [polypeptide binding]; other site
429009005866	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
429009005867	homodimer interface [polypeptide binding]; other site
429009005868	metal binding site [ion binding]; metal-binding site
429009005869	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
429009005870	homodimer interface [polypeptide binding]; other site
429009005871	active site
429009005872	putative chemical substrate binding site [chemical binding]; other site
429009005873	metal binding site [ion binding]; metal-binding site
429009005874	stage V sporulation protein T; Region: spore_V_T; TIGR02851
429009005875	looped-hinge helix DNA binding domain, AbrB family; Region: lp_hng_hel_AbrB; TIGR01439
429009005876	GAF domain; Region: GAF; cl17456
429009005877	transcription-repair coupling factor (mfd); Region: mfd; TIGR00580
429009005878	CarD-like/TRCF domain; Region: CarD_TRCF; smart01058
429009005879	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
429009005880	ATP binding site [chemical binding]; other site
429009005881	putative Mg++ binding site [ion binding]; other site
429009005882	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
429009005883	nucleotide binding region [chemical binding]; other site
429009005884	ATP-binding site [chemical binding]; other site
429009005885	This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982
429009005886	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
429009005887	putative active site [active]
429009005888	catalytic residue [active]
429009005889	ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125
429009005890	ResB-like family; Region: ResB; pfam05140
429009005891	ResB-like family; Region: ResB; pfam05140
429009005892	ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125
429009005893	cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144
429009005894	putative heme d1 biosynthesis radical SAM protein NirJ1; Region: rSAM_NirJ1; TIGR04054
429009005895	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
429009005896	FeS/SAM binding site; other site
429009005897	radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085
429009005898	NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264
429009005899	ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259
429009005900	N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793
429009005901	Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223
429009005902	active site
429009005903	bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354
429009005904	N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540
429009005905	Substrate binding site; other site
429009005906	Mg++ binding site; other site
429009005907	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
429009005908	active site
429009005909	substrate binding site [chemical binding]; other site
429009005910	CoA binding site [chemical binding]; other site
429009005911	Transcriptional regulator [Transcription]; Region: LysR; COG0583
429009005912	Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126
429009005913	C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420
429009005914	putative dimerization interface [polypeptide binding]; other site
429009005915	putative selenium metabolism protein, YedE family; Region: seleno_YedE; TIGR04112
429009005916	SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain.  The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY,  and YhhP) belongs to a family of a two-component response...; Region: SirA_like_N; cd03421
429009005917	CPxP  motif; other site
429009005918	Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782
429009005919	Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452
429009005920	Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762
429009005921	DNA binding residues [nucleotide binding]
429009005922	transposase, putative, N-terminal domain; Region: tspaseT_teng_N; TIGR01765
429009005923	Zinc ribbon domain; Region: CxxC_CxxC_SSSS; pfam09723
429009005924	TPR repeat; Region: TPR_11; pfam13414
429009005925	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
429009005926	binding surface
429009005927	TPR motif; other site
429009005928	TPR repeat; Region: TPR_11; pfam13414
429009005929	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
429009005930	binding surface
429009005931	TPR motif; other site
429009005932	TPR repeat; Region: TPR_11; pfam13414
429009005933	Dissimilatory sulfite reductase D (DsrD); Region: DsrD; pfam08679
429009005934	sulfite reductase, dissimilatory-type beta subunit; Region: dsrB; TIGR02066
429009005935	Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460
429009005936	sulfite reductase, dissimilatory-type alpha subunit; Region: dsrA; TIGR02064
429009005937	Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460
429009005938	MobA-like NTP transferase domain; Region: NTP_transf_3; pfam12804
429009005939	active site
429009005940	Transcriptional regulators [Transcription]; Region: GntR; COG1802
429009005941	Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377
429009005942	DNA-binding site [nucleotide binding]; DNA binding site
429009005943	FCD domain; Region: FCD; pfam07729
429009005944	4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128
429009005945	GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544
429009005946	Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437
429009005947	YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; pfam02575
429009005948	Domain of unknown function (DUF3794); Region: DUF3794; pfam12673
429009005949	Domain of unknown function (DUF3794); Region: DUF3794; pfam12673
429009005950	FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388
429009005951	Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118
429009005952	YabG peptidase U57; Region: Peptidase_U57; cl05250
429009005953	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
429009005954	Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463
429009005955	active site
429009005956	Protein of unknown function (DUF458); Region: DUF458; pfam04308
429009005957	16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274
429009005958	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
429009005959	S-adenosylmethionine binding site [chemical binding]; other site
429009005960	Domain of unknown function (DUF348); Region: DUF348; pfam03990
429009005961	Domain of unknown function (DUF348); Region: DUF348; pfam03990
429009005962	G5 domain; Region: G5; pfam07501
429009005963	Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584
429009005964	ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109
429009005965	ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561
429009005966	homodimer interface [polypeptide binding]; other site
429009005967	Walker A motif; other site
429009005968	ATP binding site [chemical binding]; other site
429009005969	hydroxycobalamin binding site [chemical binding]; other site
429009005970	Walker B motif; other site
429009005971	TatD like proteins;  E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310
429009005972	active site
429009005973	methionyl-tRNA synthetase; Reviewed; Region: PRK11893
429009005974	catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814
429009005975	active site
429009005976	HIGH motif; other site
429009005977	KMSKS motif; other site
429009005978	Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957
429009005979	tRNA binding surface [nucleotide binding]; other site
429009005980	anticodon binding site; other site
429009005981	SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966
429009005982	Predicted methyltransferases [General function prediction only]; Region: COG0313
429009005983	Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648
429009005984	putative SAM binding site [chemical binding]; other site
429009005985	putative homodimer interface [polypeptide binding]; other site
429009005986	Uncharacterized homolog of PSP1 [Function unknown]; Region: COG1774
429009005987	DNA polymerase III, delta' subunit; Region: holB; TIGR00678
429009005988	DNA polymerase III subunit delta'; Validated; Region: PRK08485
429009005989	ATPase involved in DNA replication [DNA replication, recombination, and repair]; Region: HolB; COG0470
429009005990	thymidylate kinase; Validated; Region: tmk; PRK00698
429009005991	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
429009005992	TMP-binding site; other site
429009005993	ATP-binding site [chemical binding]; other site
429009005994	Orn/Lys/Arg decarboxylase, major domain; Region: OKR_DC_1; pfam01276
429009005995	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
429009005996	pyridoxal 5'-phosphate binding pocket [chemical binding]; other site
429009005997	catalytic residue [active]
429009005998	RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409
429009005999	4Fe-4S dicluster domain; Region: Fer4_7; pfam12838
429009006000	Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558
429009006001	Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375
429009006002	TPP-binding site [chemical binding]; other site
429009006003	2-oxoglutarate ferredoxin oxidoreductase subunit alpha; Validated; Region: PRK08659
429009006004	Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034
429009006005	dimer interface [polypeptide binding]; other site
429009006006	PYR/PP interface [polypeptide binding]; other site
429009006007	TPP binding site [chemical binding]; other site
429009006008	substrate binding site [chemical binding]; other site
429009006009	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
429009006010	recombination protein RecR; Reviewed; Region: recR; PRK00076
429009006011	RecR protein; Region: RecR; pfam02132
429009006012	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
429009006013	putative active site [active]
429009006014	putative metal-binding site [ion binding]; other site
429009006015	tetramer interface [polypeptide binding]; other site
429009006016	hypothetical protein; Validated; Region: PRK00153
429009006017	DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397
429009006018	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
429009006019	Walker A motif; other site
429009006020	ATP binding site [chemical binding]; other site
429009006021	Walker B motif; other site
429009006022	arginine finger; other site
429009006023	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
429009006024	nucleoside/Zn binding site; other site
429009006025	dimer interface [polypeptide binding]; other site
429009006026	catalytic motif [active]
429009006027	Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788
429009006028	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
429009006029	GDP-binding site [chemical binding]; other site
429009006030	ACT binding site; other site
429009006031	IMP binding site; other site
429009006032	Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509
429009006033	replicative DNA helicase; Region: DnaB; TIGR00665
429009006034	DnaB-like helicase N terminal domain; Region: DnaB; pfam00772
429009006035	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
429009006036	Walker A motif; other site
429009006037	ATP binding site [chemical binding]; other site
429009006038	Walker B motif; other site
429009006039	DNA binding loops [nucleotide binding]
429009006040	50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137
429009006041	Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281
429009006042	Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948
429009006043	30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391
429009006044	Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629
429009006045	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
429009006046	dimer interface [polypeptide binding]; other site
429009006047	ssDNA binding site [nucleotide binding]; other site
429009006048	tetramer (dimer of dimers) interface [polypeptide binding]; other site
429009006049	30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453
429009006050	Bacterial protein of unknown function (DUF951); Region: DUF951; pfam06107
429009006051	Colicin V production protein; Region: Colicin_V; pfam02674
429009006052	Protein of unknown function (DUF1256); Region: DUF1256; cl06087
429009006053	Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223
429009006054	active site
429009006055	ParB-like nuclease domain; Region: ParB; smart00470
429009006056	Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200
429009006057	non-specific DNA binding site [nucleotide binding]; other site
429009006058	salt bridge; other site
429009006059	sequence-specific DNA binding site [nucleotide binding]; other site
429009006060	ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192
429009006061	ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042
429009006062	P-loop; other site
429009006063	Magnesium ion binding site [ion binding]; other site
429009006064	ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042
429009006065	Magnesium ion binding site [ion binding]; other site
429009006066	Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357
429009006067	16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107
429009006068	Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847
429009006069	jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation.  The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414
429009006070	G-X-X-G motif; other site
429009006071	R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644
429009006072	RxxxH motif; other site
429009006073	membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592
429009006074	Haemolytic domain; Region: Haemolytic; pfam01809
429009006075	Ribonuclease P; Region: Ribonuclease_P; pfam00825
429009006076	Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833
429009006077	Clostripain family; Region: Peptidase_C11; pfam03415
429009006078	Bacterial Ig-like domain; Region: Big_5; pfam13205
429009006079	Bacterial Ig-like domain; Region: Big_5; pfam13205
429009006080	Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833
429009006081	Putative zinc-finger; Region: zf-HC2; pfam13490
429009006082	Domain of unknown function (DUF4349); Region: DUF4349; pfam14257
429009006083	SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966
429009006084	Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762
429009006085	DNA binding residues [nucleotide binding]
429009006086	Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600
429009006087	MerR HTH family regulatory protein; Region: MerR_1; pfam13411
429009006088	DNA binding residues [nucleotide binding]
429009006089	RRXRR protein; Region: RRXRR; pfam14239
429009006090	HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085
429009006091	active site
429009006092	transposase, putative, N-terminal domain; Region: tspaseT_teng_N; TIGR01765
429009006093	Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002
429009006094	SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966
429009006095	Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200
429009006096	Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402
429009006097	Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569
429009006098	DNA-binding interface [nucleotide binding]; DNA binding site
429009006099	Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5304
429009006100	Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452
429009006101	Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762
429009006102	DNA binding residues [nucleotide binding]
429009006103	Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843
429009006104	Domain of unknown function (DUF4095); Region: DUF4095; pfam13338
429009006105	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
429009006106	tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225
429009006107	active site
429009006108	DNA binding site [nucleotide binding]
429009006109	Int/Topo IB signature motif; other site
429009006110	PIN domain; Region: PIN_3; cl17397
429009006111	Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153