Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	Y	W	I	I	N	D	N	I	E	F	W	P	E	H	R	K	L	I	S	V	H	N	A	D	L	N	V	V	L	T	T	P	A	S	R	C	L	S	L	L	L	E	A	F	P	D	V	V	A	Q	Q	D	F	F	T	R	V	W	E
Secondary structure
SS confidence
Disorder		?	?																						?	?	?																								?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		E	E	G	M	R	V	P	T	N	T	L	Y	Q	N	I	S	I	I	R	R	G	F	R	A	V	G	D	T	T	H	S	L	I	A	T	V	P	R	R	G	F	K	I	H	N	D	I	N	I	Q	N	H	V	I	N	S	S	T	D	A
Secondary structure
SS confidence
Disorder																									?			?																					?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		H	T	H	N	A	P	P	A	I	K	V	N	A	G	Y	K	E	S	I	G	G	A	K	N	F	N	N	K	I	L	K	H	I	K	S	H	L	I	M	L	S	A	F	V	I	G	A	Y	S	A	Y	W	L	W	N	N	N	Q	P	K
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?																									?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		P	F	F	K	D	Y	K	T	V	A	E	I	N	G	C	H	F	N	V	T	E	D	T	I	D	G	L	K	E	F	D	K	Y	K	T	R	I	L	D	S	G	I	N	C	K	K	H	P	W	L	Y	F	P	L	A	K	S	S	P	G
Secondary structure
SS confidence
Disorder		?	?																				?	?	?	?	?	?																														?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.
Sequence		M	I	V	M	A	C	N	K	N	Y	N	Q	H	E	V	A	N	C	L	T	L	S	Y	R	E	V	N	R	D
Secondary structure
SS confidence
Disorder									?	?	?	?	?	?	?	?										?	?	?	?	?
Disorder confidence

Confidence Key
High(9)											Low (0)

?	Disordered
	Alpha helix
	Beta strand

Domain analysis

Hover over an aligned region to see model and summary info

Please note, only up to the top 20 hits are modelled to reduce computer load

Rank Aligned region

PDB 2zxj chain B Region: 4 - 106 Aligned: 98 Modelled: 100 Confidence: 99.9% Identity: 15% PDB header:transcription Chain: B: PDB Molecule:transcriptional regulatory protein walr; PDBTitle: crystal structure of yycf dna-binding domain from staphylococcus2 aureus Phyre2 PDB 1opc chain A Region: 4 - 106 Aligned: 98 Modelled: 100 Confidence: 99.9% Identity: 16% Fold: DNA/RNA-binding 3-helical bundle Superfamily: C-terminal effector domain of the bipartite response regulators Family: PhoB-like Phyre2 PDB 2hwv chain A Region: 4 - 106 Aligned: 98 Modelled: 103 Confidence: 99.9% Identity: 13% PDB header:transcription Chain: A: PDB Molecule:dna-binding response regulator vicr; PDBTitle: crystal structure of an essential response regulator dna binding2 domain, vicrc in enterococcus faecalis, a member of the yycf3 subfamily. Phyre2 PDB 2pmu chain D Region: 1 - 106 Aligned: 96 Modelled: 102 Confidence: 99.8% Identity: 19% PDB header:transcription regulation Chain: D: PDB Molecule:response regulator phop; PDBTitle: crystal structure of the dna-binding domain of phop Phyre2 PDB 3q9v chain B Region: 4 - 105 Aligned: 96 Modelled: 99 Confidence: 99.8% Identity: 17% PDB header:dna binding protein Chain: B: PDB Molecule:dna-binding response regulator; PDBTitle: crystal structure of rra c-terminal domain(123-221) from deinococcus2 radiodurans Phyre2 PDB 1p2f chain A domain 1 Region: 3 - 105 Aligned: 95 Modelled: 99 Confidence: 99.8% Identity: 17% Fold: DNA/RNA-binding 3-helical bundle Superfamily: C-terminal effector domain of the bipartite response regulators Family: PhoB-like Phyre2 PDB 1gxq chain A Region: 4 - 105 Aligned: 96 Modelled: 102 Confidence: 99.8% Identity: 15% Fold: DNA/RNA-binding 3-helical bundle Superfamily: C-terminal effector domain of the bipartite response regulators Family: PhoB-like Phyre2 PDB 2jzy chain A Region: 4 - 108 Aligned: 99 Modelled: 102 Confidence: 99.8% Identity: 19% PDB header:transcription Chain: A: PDB Molecule:transcriptional regulatory protein pcor; PDBTitle: solution structure of c-terminal effector domain of2 putative two-component-system response regulator involved3 in copper resistance from klebsiella pneumoniae Phyre2 PDB 2hqn chain A Region: 4 - 112 Aligned: 103 Modelled: 109 Confidence: 99.8% Identity: 21% PDB header:signaling protein Chain: A: PDB Molecule:putative transcriptional regulator; PDBTitle: structure of a atypical orphan response regulator protein revealed a2 new phosphorylation-independent regulatory mechanism Phyre2 PDB 2k4j chain A Region: 7 - 104 Aligned: 93 Modelled: 98 Confidence: 99.8% Identity: 15% PDB header:transcription Chain: A: PDB Molecule:putative transcriptional regulator; PDBTitle: arsr dna binding domain Phyre2 PDB 1kgs chain A domain 1 Region: 4 - 106 Aligned: 92 Modelled: 100 Confidence: 99.8% Identity: 17% Fold: DNA/RNA-binding 3-helical bundle Superfamily: C-terminal effector domain of the bipartite response regulators Family: PhoB-like Phyre2 PDB 1ys7 chain A domain 1 Region: 4 - 106 Aligned: 94 Modelled: 100 Confidence: 99.8% Identity: 26% Fold: DNA/RNA-binding 3-helical bundle Superfamily: C-terminal effector domain of the bipartite response regulators Family: PhoB-like Phyre2 PDB 2oqr chain A Region: 3 - 104 Aligned: 97 Modelled: 102 Confidence: 99.7% Identity: 19% PDB header:transcription,signaling protein Chain: A: PDB Molecule:sensory transduction protein regx3; PDBTitle: the structure of the response regulator regx3 from mycobacterium2 tuberculosis Phyre2 PDB 1ys7 chain B Region: 4 - 106 Aligned: 96 Modelled: 100 Confidence: 99.7% Identity: 26% PDB header:transcription regulator Chain: B: PDB Molecule:transcriptional regulatory protein prra; PDBTitle: crystal structure of the response regulator protein prra comlexed with2 mg2+ Phyre2 PDB 2ff4 chain A domain 1 Region: 24 - 104 Aligned: 80 Modelled: 81 Confidence: 99.6% Identity: 16% Fold: DNA/RNA-binding 3-helical bundle Superfamily: C-terminal effector domain of the bipartite response regulators Family: PhoB-like Phyre2 PDB 2hqr chain A Region: 4 - 106 Aligned: 97 Modelled: 103 Confidence: 99.6% Identity: 23% PDB header:signaling protein Chain: A: PDB Molecule:putative transcriptional regulator; PDBTitle: structure of a atypical orphan response regulator protein revealed a2 new phosphorylation-independent regulatory mechanism Phyre2 PDB 2gwr chain A Region: 7 - 106 Aligned: 93 Modelled: 97 Confidence: 99.5% Identity: 18% PDB header:signaling protein Chain: A: PDB Molecule:dna-binding response regulator mtra; PDBTitle: crystal structure of the response regulator protein mtra from2 mycobacterium tuberculosis Phyre2 PDB 1p2f chain A Region: 7 - 105 Aligned: 92 Modelled: 96 Confidence: 99.4% Identity: 16% PDB header:transcription Chain: A: PDB Molecule:response regulator; PDBTitle: crystal structure analysis of response regulator drrb, a2 thermotoga maritima ompr/phob homolog Phyre2 PDB 3r0j chain A Region: 4 - 106 Aligned: 96 Modelled: 103 Confidence: 99.4% Identity: 18% PDB header:dna binding protein Chain: A: PDB Molecule:possible two component system response transcriptional PDBTitle: structure of phop from mycobacterium tuberculosis Phyre2 PDB 1kgs chain A Region: 3 - 106 Aligned: 93 Modelled: 101 Confidence: 99.1% Identity: 17% PDB header:dna binding protein Chain: A: PDB Molecule:dna binding response regulator d; PDBTitle: crystal structure at 1.50 a of an ompr/phob homolog from thermotoga2 maritima Phyre2 1 c2zxjB_ 2 d1opca_ 3 c2hwvA_ 4 c2pmuD_ 5 c3q9vB_ 6 d1p2fa1 7 d1gxqa_ 8 c2jzyA_ 9 c2hqnA_ 10 c2k4jA_ 11 d1kgsa1 12 d1ys7a1 13 c2oqrA_ 14 c1ys7B_ 15 d2ff4a1 16 c2hqrA_ 17 c2gwrA_ 18 c1p2fA_ 19 c3r0jA_ 20 c1kgsA_ 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99

Detailed template information

# Template Alignment Coverage 3D Model Confidence % i.d. Template Information

1 c2zxjB_ 99.9 15 PDB header:transcription Chain: B: PDB Molecule:transcriptional regulatory protein walr; PDBTitle: crystal structure of yycf dna-binding domain from staphylococcus2 aureus 2 d1opca_ 99.9 16 Fold:DNA/RNA-binding 3-helical bundle Superfamily:C-terminal effector domain of the bipartite response regulators Family:PhoB-like 3 c2hwvA_ 99.9 13 PDB header:transcription Chain: A: PDB Molecule:dna-binding response regulator vicr; PDBTitle: crystal structure of an essential response regulator dna binding2 domain, vicrc in enterococcus faecalis, a member of the yycf3 subfamily. 4 c2pmuD_ 99.8 19 PDB header:transcription regulation Chain: D: PDB Molecule:response regulator phop; PDBTitle: crystal structure of the dna-binding domain of phop 5 c3q9vB_ 99.8 17 PDB header:dna binding protein Chain: B: PDB Molecule:dna-binding response regulator; PDBTitle: crystal structure of rra c-terminal domain(123-221) from deinococcus2 radiodurans 6 d1p2fa1 99.8 17 Fold:DNA/RNA-binding 3-helical bundle Superfamily:C-terminal effector domain of the bipartite response regulators Family:PhoB-like 7 d1gxqa_ 99.8 15 Fold:DNA/RNA-binding 3-helical bundle Superfamily:C-terminal effector domain of the bipartite response regulators Family:PhoB-like 8 c2jzyA_ 99.8 19 PDB header:transcription Chain: A: PDB Molecule:transcriptional regulatory protein pcor; PDBTitle: solution structure of c-terminal effector domain of2 putative two-component-system response regulator involved3 in copper resistance from klebsiella pneumoniae 9 c2hqnA_ 99.8 21 PDB header:signaling protein Chain: A: PDB Molecule:putative transcriptional regulator; PDBTitle: structure of a atypical orphan response regulator protein revealed a2 new phosphorylation-independent regulatory mechanism 10 c2k4jA_ 99.8 15 PDB header:transcription Chain: A: PDB Molecule:putative transcriptional regulator; PDBTitle: arsr dna binding domain 11 d1kgsa1 99.8 17 Fold:DNA/RNA-binding 3-helical bundle Superfamily:C-terminal effector domain of the bipartite response regulators Family:PhoB-like 12 d1ys7a1 99.8 26 Fold:DNA/RNA-binding 3-helical bundle Superfamily:C-terminal effector domain of the bipartite response regulators Family:PhoB-like 13 c2oqrA_ 99.7 19 PDB header:transcription,signaling protein Chain: A: PDB Molecule:sensory transduction protein regx3; PDBTitle: the structure of the response regulator regx3 from mycobacterium2 tuberculosis 14 c1ys7B_ 99.7 26 PDB header:transcription regulator Chain: B: PDB Molecule:transcriptional regulatory protein prra; PDBTitle: crystal structure of the response regulator protein prra comlexed with2 mg2+ 15 d2ff4a1 99.6 16 Fold:DNA/RNA-binding 3-helical bundle Superfamily:C-terminal effector domain of the bipartite response regulators Family:PhoB-like 16 c2hqrA_ 99.6 23 PDB header:signaling protein Chain: A: PDB Molecule:putative transcriptional regulator; PDBTitle: structure of a atypical orphan response regulator protein revealed a2 new phosphorylation-independent regulatory mechanism 17 c2gwrA_ 99.5 18 PDB header:signaling protein Chain: A: PDB Molecule:dna-binding response regulator mtra; PDBTitle: crystal structure of the response regulator protein mtra from2 mycobacterium tuberculosis 18 c1p2fA_ 99.4 16 PDB header:transcription Chain: A: PDB Molecule:response regulator; PDBTitle: crystal structure analysis of response regulator drrb, a2 thermotoga maritima ompr/phob homolog 19 c3r0jA_ 99.4 18 PDB header:dna binding protein Chain: A: PDB Molecule:possible two component system response transcriptional PDBTitle: structure of phop from mycobacterium tuberculosis 20 c1kgsA_ 99.1 17 PDB header:dna binding protein Chain: A: PDB Molecule:dna binding response regulator d; PDBTitle: crystal structure at 1.50 a of an ompr/phob homolog from thermotoga2 maritima 21 c2ff4B_ not modelled 99.1 18 PDB header:transcription Chain: B: PDB Molecule:probable regulatory protein embr; PDBTitle: mycobacterium tuberculosis embr in complex with low affinity2 phosphopeptide 22 c3q9sA_ not modelled 98.7 18 PDB header:dna binding protein Chain: A: PDB Molecule:dna-binding response regulator; PDBTitle: crystal structure of rra(1-215) from deinococcus radiodurans 23 d1biaa1 not modelled 96.0 24 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Biotin repressor-like 24 c2ewnA_ not modelled 95.6 21 PDB header:ligase, transcription Chain: A: PDB Molecule:bira bifunctional protein; PDBTitle: ecoli biotin repressor with co-repressor analog 25 d1j5ya1 not modelled 91.3 22 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Biotin repressor-like 26 d1o57a1 not modelled 88.9 20 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:N-terminal domain of Bacillus PurR 27 c3k69A_ not modelled 86.6 10 PDB header:transcription Chain: A: PDB Molecule:putative transcription regulator; PDBTitle: crystal structure of a putative transcriptional regulator (lp_0360)2 from lactobacillus plantarum at 1.95 a resolution 28 c1j5yA_ not modelled 86.6 24 PDB header:transcription Chain: A: PDB Molecule:transcriptional regulator, biotin repressor family; PDBTitle: crystal structure of transcriptional regulator (tm1602) from2 thermotoga maritima at 2.3 a resolution 29 c2fu4B_ not modelled 83.5 22 PDB header:dna binding protein Chain: B: PDB Molecule:ferric uptake regulation protein; PDBTitle: crystal structure of the dna binding domain of e.coli fur (ferric2 uptake regulator) 30 c2w57A_ not modelled 82.9 14 PDB header:metal transport Chain: A: PDB Molecule:ferric uptake regulation protein; PDBTitle: crystal structure of the vibrio cholerae ferric uptake2 regulator (fur) reveals structural rearrangement of the3 dna-binding domains 31 c3r0aB_ not modelled 82.8 9 PDB header:transcription regulator Chain: B: PDB Molecule:putative transcriptional regulator; PDBTitle: possible transcriptional regulator from methanosarcina mazei go1 (gi2 21227196) 32 c3klnC_ not modelled 82.6 16 PDB header:transcription Chain: C: PDB Molecule:transcriptional regulator, luxr family; PDBTitle: vibrio cholerae vpst 33 d1mzba_ not modelled 82.0 21 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:FUR-like 34 c2fe3B_ not modelled 75.4 18 PDB header:dna binding protein Chain: B: PDB Molecule:peroxide operon regulator; PDBTitle: the crystal structure of bacillus subtilis perr-zn reveals a novel2 zn(cys)4 structural redox switch 35 c2xigA_ not modelled 71.6 6 PDB header:transcription Chain: A: PDB Molecule:ferric uptake regulation protein; PDBTitle: the structure of the helicobacter pylori ferric uptake2 regulator fur reveals three functional metal binding sites 36 c3mwmA_ not modelled 70.7 17 PDB header:transcription Chain: A: PDB Molecule:putative metal uptake regulation protein; PDBTitle: graded expression of zinc-responsive genes through two regulatory2 zinc-binding sites in zur 37 d1ylfa1 not modelled 70.0 16 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Transcriptional regulator Rrf2 38 c2o03A_ not modelled 69.3 17 PDB header:gene regulation Chain: A: PDB Molecule:probable zinc uptake regulation protein furb; PDBTitle: crystal structure of furb from m. tuberculosis- a zinc uptake2 regulator 39 c3qp5C_ not modelled 67.6 9 PDB header:transcription Chain: C: PDB Molecule:cvir transcriptional regulator; PDBTitle: crystal structure of cvir bound to antagonist chlorolactone (cl) 40 c3sqnB_ not modelled 63.5 21 PDB header:transcription regulator Chain: B: PDB Molecule:conserved domain protein; PDBTitle: putative mga family transcriptional regulator from enterococcus2 faecalis 41 c2q0oA_ not modelled 58.7 14 PDB header:transcription Chain: A: PDB Molecule:probable transcriptional activator protein trar; PDBTitle: crystal structure of an anti-activation complex in bacterial quorum2 sensing 42 c1p4xA_ not modelled 56.3 9 PDB header:transcription Chain: A: PDB Molecule:staphylococcal accessory regulator a homologue; PDBTitle: crystal structure of sars protein from staphylococcus aureus 43 c1h0mD_ not modelled 54.9 14 PDB header:transcription/dna Chain: D: PDB Molecule:transcriptional activator protein trar; PDBTitle: three-dimensional structure of the quorum sensing protein2 trar bound to its autoinducer and to its target dna 44 c3by6C_ not modelled 54.5 15 PDB header:transcription regulator Chain: C: PDB Molecule:predicted transcriptional regulator; PDBTitle: crystal structure of a transcriptional regulator from oenococcus oeni 45 c3sztB_ not modelled 54.4 14 PDB header:transcription Chain: B: PDB Molecule:quorum-sensing control repressor; PDBTitle: quorum sensing control repressor, qscr, bound to n-3-oxo-dodecanoyl-l-2 homoserine lactone 46 d1l3la1 not modelled 53.9 14 Fold:DNA/RNA-binding 3-helical bundle Superfamily:C-terminal effector domain of the bipartite response regulators Family:GerE-like (LuxR/UhpA family of transcriptional regulators) 47 c1zn2A_ not modelled 51.9 18 PDB header:transcription regulator Chain: A: PDB Molecule:response regulatory protein; PDBTitle: low resolution structure of response regulator styr 48 c2is9A_ not modelled 51.3 20 PDB header:transcription Chain: A: PDB Molecule:defective in cullin neddylation protein 1; PDBTitle: structure of yeast dcn-1 49 d1hw1a1 not modelled 51.1 4 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:GntR-like transcriptional regulators 50 d1okra_ not modelled 49.1 4 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Penicillinase repressor 51 c3kevA_ not modelled 48.2 16 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:galieria sulfuraria dcun1 domain-containing protein; PDBTitle: x-ray crystal structure of a dcun1 domain-containing protein from2 galdieria sulfuraria 52 c3c3wB_ not modelled 48.2 20 PDB header:transcription Chain: B: PDB Molecule:two component transcriptional regulatory protein devr; PDBTitle: crystal structure of the mycobacterium tuberculosis hypoxic response2 regulator dosr 53 c3c7jA_ not modelled 47.0 13 PDB header:transcription regulator Chain: A: PDB Molecule:transcriptional regulator, gntr family; PDBTitle: crystal structure of transcriptional regulator (gntr family member)2 from pseudomonas syringae pv. tomato str. dc3000 54 c1o57A_ not modelled 46.2 19 PDB header:dna binding protein Chain: A: PDB Molecule:pur operon repressor; PDBTitle: crystal structure of the purine operon repressor of2 bacillus subtilis 55 c3neuA_ not modelled 45.0 17 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:lin1836 protein; PDBTitle: the crystal structure of a functionally-unknown protein lin1836 from2 listeria innocua clip11262 56 c3eyyA_ not modelled 45.0 14 PDB header:transport Chain: A: PDB Molecule:putative iron uptake regulatory protein; PDBTitle: structural basis for the specialization of nur, a nickel-2 specific fur homologue, in metal sensing and dna3 recognition 57 c1rnlA_ not modelled 44.9 14 PDB header:signal transduction protein Chain: A: PDB Molecule:nitrate/nitrite response regulator protein narl; PDBTitle: the nitrate/nitrite response regulator protein narl from narl 58 d1hsja1 not modelled 44.8 9 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MarR-like transcriptional regulators 59 c3ecoB_ not modelled 44.6 17 PDB header:transcription Chain: B: PDB Molecule:mepr; PDBTitle: crystal structure of mepr, a transcription regulator of the2 staphylococcus aureus multidrug efflux pump mepa 60 d1a04a1 not modelled 43.8 14 Fold:DNA/RNA-binding 3-helical bundle Superfamily:C-terminal effector domain of the bipartite response regulators Family:GerE-like (LuxR/UhpA family of transcriptional regulators) 61 d3broa1 not modelled 43.5 16 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MarR-like transcriptional regulators 62 d1p4xa2 not modelled 43.2 9 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MarR-like transcriptional regulators 63 c3bwgA_ not modelled 40.4 13 PDB header:transcription regulator Chain: A: PDB Molecule:uncharacterized hth-type transcriptional regulator yydk; PDBTitle: the crystal structure of possible transcriptional regulator yydk from2 bacillus subtilis subsp. subtilis str. 168 64 d3bwga1 not modelled 40.3 13 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:GntR-like transcriptional regulators 65 c3ihuA_ not modelled 38.7 13 PDB header:transcription regulator Chain: A: PDB Molecule:transcriptional regulator, gntr family; PDBTitle: crystal structure of dna binding protein (yp_298823.1) from ralstonia2 eutropha jmp134 at 1.92 a resolution 66 d2hs5a1 not modelled 38.5 16 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:GntR-like transcriptional regulators 67 c3edpB_ not modelled 38.3 17 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:lin2111 protein; PDBTitle: the crystal structure of the protein lin2111 (functionally unknown)2 from listeria innocua clip11262 68 d2frha1 not modelled 38.0 9 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MarR-like transcriptional regulators 69 c1zljE_ not modelled 35.7 20 PDB header:transcription Chain: E: PDB Molecule:dormancy survival regulator; PDBTitle: crystal structure of the mycobacterium tuberculosis hypoxic2 response regulator dosr c-terminal domain 70 d2d1ha1 not modelled 35.6 9 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:TrmB-like 71 d1yioa1 not modelled 34.8 16 Fold:DNA/RNA-binding 3-helical bundle Superfamily:C-terminal effector domain of the bipartite response regulators Family:GerE-like (LuxR/UhpA family of transcriptional regulators) 72 d1fsea_ not modelled 33.8 16 Fold:DNA/RNA-binding 3-helical bundle Superfamily:C-terminal effector domain of the bipartite response regulators Family:GerE-like (LuxR/UhpA family of transcriptional regulators) 73 c2y75F_ not modelled 33.8 12 PDB header:transcription Chain: F: PDB Molecule:hth-type transcriptional regulator cymr; PDBTitle: the structure of cymr (yrzc) the global cysteine regulator2 of b. subtilis 74 d1p4xa1 not modelled 33.6 14 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MarR-like transcriptional regulators 75 d1p4wa_ not modelled 33.4 14 Fold:DNA/RNA-binding 3-helical bundle Superfamily:C-terminal effector domain of the bipartite response regulators Family:GerE-like (LuxR/UhpA family of transcriptional regulators) 76 d1stza1 not modelled 33.0 15 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Heat-inducible transcription repressor HrcA, N-terminal domain 77 c2di3A_ not modelled 32.0 17 PDB header:transcription Chain: A: PDB Molecule:bacterial regulatory proteins, gntr family; PDBTitle: crystal structure of the transcriptional factor cgl29152 from corynebacterium glutamicum 78 c3ic7A_ not modelled 29.4 14 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:putative transcriptional regulator; PDBTitle: crystal structure of putative transcriptional regulator of gntr family2 from bacteroides thetaiotaomicron 79 c1e2xA_ not modelled 29.3 6 PDB header:transcriptional regulation Chain: A: PDB Molecule:fatty acid metabolism regulator protein; PDBTitle: fadr, fatty acid responsive transcription factor from e.2 coli 80 c2rnjA_ not modelled 29.3 18 PDB header:transcription Chain: A: PDB Molecule:response regulator protein vrar; PDBTitle: nmr structure of the s. aureus vrar dna binding domain 81 c1x3uA_ not modelled 24.1 11 PDB header:transcription Chain: A: PDB Molecule:transcriptional regulatory protein fixj; PDBTitle: solution structure of the c-terminal transcriptional2 activator domain of fixj from sinorhizobium melilot 82 c2k4bA_ not modelled 22.3 4 PDB header:dna binding protein Chain: A: PDB Molecule:transcriptional regulator; PDBTitle: copr repressor structure 83 c3ctzA_ not modelled 22.3 11 PDB header:hydrolase Chain: A: PDB Molecule:xaa-pro aminopeptidase 1; PDBTitle: structure of human cytosolic x-prolyl aminopeptidase 84 d1v4ra1 not modelled 21.6 12 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:GntR-like transcriptional regulators 85 c2wv0H_ not modelled 21.3 4 PDB header:transcription Chain: H: PDB Molecule:hth-type transcriptional repressor yvoa; PDBTitle: crystal structure of the gntr-hutc family member yvoa from2 bacillus subtilis 86 c3cloC_ not modelled 21.1 11 PDB header:transcription regulator Chain: C: PDB Molecule:transcriptional regulator; PDBTitle: crystal structure of putative transcriptional regulator containing a2 luxr dna binding domain (np_811094.1) from bacteroides3 thetaiotaomicron vpi-5482 at 2.04 a resolution 87 d1sfxa_ not modelled 21.0 14 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:TrmB-like 88 c2hs5A_ not modelled 20.3 15 PDB header:transcription regulator Chain: A: PDB Molecule:putative transcriptional regulator gntr; PDBTitle: structural genomics, the crystal structure of a putative2 transcriptional regulator gntr from rhodococcus sp. rha1 89 c2krfB_ not modelled 19.5 12 PDB header:transcription Chain: B: PDB Molecule:transcriptional regulatory protein coma; PDBTitle: nmr solution structure of the dna binding domain of competence protein2 a 90 d1b4aa1 not modelled 19.5 20 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Arginine repressor (ArgR), N-terminal DNA-binding domain 91 c3bddD_ not modelled 19.3 14 PDB header:transcription Chain: D: PDB Molecule:regulatory protein marr; PDBTitle: crystal structure of a putative multiple antibiotic-resistance2 repressor (ssu05_1136) from streptococcus suis 89/1591 at 2.20 a3 resolution 92 c3fmsA_ not modelled 19.0 20 PDB header:transcription regulator Chain: A: PDB Molecule:transcriptional regulator, gntr family; PDBTitle: crystal structure of tm0439, a gntr transcriptional2 regulator 93 d2p5ka1 not modelled 18.8 12 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Arginine repressor (ArgR), N-terminal DNA-binding domain 94 c2wteB_ not modelled 18.1 14 PDB header:antiviral protein Chain: B: PDB Molecule:csa3; PDBTitle: the structure of the crispr-associated protein, csa3, from2 sulfolobus solfataricus at 1.8 angstrom resolution. 95 c3lwfD_ not modelled 18.1 12 PDB header:transcription regulator Chain: D: PDB Molecule:putative transcriptional regulator; PDBTitle: crystal structure of putative transcriptional regulator (np_470886.1)2 from listeria innocua at 2.06 a resolution 96 c3nqoB_ not modelled 18.1 9 PDB header:transcription Chain: B: PDB Molecule:marr-family transcriptional regulator; PDBTitle: crystal structure of a marr family transcriptional regulator (cd1569)2 from clostridium difficile 630 at 2.20 a resolution 97 c3ketA_ not modelled 18.0 14 PDB header:transcription/dna Chain: A: PDB Molecule:redox-sensing transcriptional repressor rex; PDBTitle: crystal structure of a rex-family transcriptional regulatory protein2 from streptococcus agalactiae bound to a palindromic operator 98 d1lj9a_ not modelled 16.6 19 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MarR-like transcriptional regulators 99 c2nnnB_ not modelled 16.6 19 PDB header:transcription Chain: B: PDB Molecule:probable transcriptional regulator; PDBTitle: crystal structure of probable transcriptional regulator from2 pseudomonas aeruginosa

Binding site prediction

Due to computational demand, binding site predictions are not run for batch jobs

If you want to predict binding sites, please manually submit your model of choice to 3DLigandSite

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Phyre is for academic use only

Please cite: Protein structure prediction on the web: a case study using the Phyre server
Kelley LA and Sternberg MJE. Nature Protocols 4, 363 - 371 (2009) [pdf] [Import into BibTeX]
If you use the binding site predictions from 3DLigandSite, please also cite:
3DLigandSite: predicting ligand-binding sites using similar structures.
Wass MN, Kelley LA and Sternberg MJ Nucleic Acids Research 38, W469-73 (2010) [PubMed]
© Structural Bioinformatics Group Imperial College London Lawrence Kelley, Benjamin Jefferys Disclaimer Terms and Conditions	Component software Template detection: HHpred 1.51 Secondary structure prediction: Psi-pred 2.5 Disorder prediction: Disopred 2.4 Transmembrane prediction: Memsat_SVM Multi-template modelling and ab initio: Poing 1.0