Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	T	V	P	T	Y	D	K	F	I	E	P	V	L	R	Y	L	A	T	K	P	E	G	A	A	A	R	D	V	H	E	A	A	A	D	A	L	G	L	D	D	S	Q	R	A	K	V	I	T	S	G	Q	L	V	Y	K	N	R	A	G
Secondary structure
SS confidence
Disorder		?	?	?	?	?														?	?	?	?	?	?	?																						?			?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		W	A	H	D	R	L	K	R	A	G	L	S	Q	S	L	S	R	G	K	W	C	L	T	P	A	G	F	D	W	V	A	S	H	P	Q	P	M	T	E	Q	E	T	N	H	L	A	F	A	F	V	N	V	K	L	K	S	R	P	D	A
Secondary structure
SS confidence
Disorder																																			?																			?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		V	D	L	D	P	K	A	D	S	P	D	H	E	E	L	A	K	S	S	P	D	D	R	L	D	Q	A	L	K	E	L	R	D	A	V	A	D	E	V	L	E	N	L	L	Q	V	S	P	S	R	F	E	V	I	V	L	D	V	L	H
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		R	L	G	Y	G	G	H	R	D	D	L	Q	R	V	G	G	T	G	D	G	G	I	D	G	V	I	S	L	D	K	L	G	L	E	K	V	Y	V	Q	A	K	R	W	Q	N	T	V	G	R	P	E	L	Q	A	F	Y	G	A	L	A
Secondary structure
SS confidence
Disorder																		?																										?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		G	Q	K	A	K	R	G	V	F	I	T	T	S	G	F	T	S	Q	A	R	D	F	A	Q	S	V	E	G	M	V	L	V	D	G	E	R	L	V	H	L	M	I	E	N	E	V	G	V	S	S	R	L	L	K	V	P	K	L	D	M
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.
Sequence		D	Y	F	E
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 1y88 chain A domain 2 Region: 167 - 286 Aligned: 115 Modelled: 120 Confidence: 99.9% Identity: 19% Fold: Restriction endonuclease-like Superfamily: Restriction endonuclease-like Family: MRR-like Phyre2 PDB 1y88 chain A Region: 167 - 287 Aligned: 116 Modelled: 121 Confidence: 99.9% Identity: 19% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein af1548; PDBTitle: crystal structure of protein of unknown function af1548 Phyre2 PDB 1xmx chain A Region: 171 - 280 Aligned: 106 Modelled: 110 Confidence: 96.6% Identity: 13% Fold: Restriction endonuclease-like Superfamily: Restriction endonuclease-like Family: Hypothetical protein VC1899 Phyre2 PDB 3fov chain A Region: 172 - 242 Aligned: 64 Modelled: 71 Confidence: 95.9% Identity: 23% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:upf0102 protein rpa0323; PDBTitle: crystal structure of protein rpa0323 of unknown function from2 rhodopseudomonas palustris Phyre2 PDB 3b73 chain A Region: 29 - 91 Aligned: 59 Modelled: 63 Confidence: 95.9% Identity: 15% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:phih1 repressor-like protein; PDBTitle: crystal structure of the phih1 repressor-like protein from2 haloarcula marismortui Phyre2 PDB 1gef chain A Region: 168 - 250 Aligned: 73 Modelled: 83 Confidence: 95.5% Identity: 15% Fold: Restriction endonuclease-like Superfamily: Restriction endonuclease-like Family: Hjc-like Phyre2 PDB 1ob8 chain A Region: 169 - 250 Aligned: 72 Modelled: 82 Confidence: 94.9% Identity: 15% Fold: Restriction endonuclease-like Superfamily: Restriction endonuclease-like Family: Hjc-like Phyre2 PDB 1r7j chain A Region: 8 - 92 Aligned: 62 Modelled: 64 Confidence: 94.8% Identity: 15% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: Archaeal DNA-binding protein Phyre2 PDB 3l7w chain A Region: 9 - 92 Aligned: 67 Modelled: 69 Confidence: 93.8% Identity: 18% PDB header:transcription Chain: A: PDB Molecule:putative uncharacterized protein smu.1704; PDBTitle: the crystal structure of smu.1704 from streptococcus mutans ua159 Phyre2 PDB 3f8f chain A Region: 8 - 92 Aligned: 68 Modelled: 70 Confidence: 93.5% Identity: 21% PDB header:transcription regulator Chain: A: PDB Molecule:transcriptional regulator, padr-like family; PDBTitle: crystal structure of multidrug binding transcriptional regulator lmrr2 complexed with daunomycin Phyre2 PDB 1uhm chain A Region: 4 - 85 Aligned: 72 Modelled: 73 Confidence: 93.0% Identity: 15% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: Linker histone H1/H5 Phyre2 PDB 1g3w chain A Region: 4 - 89 Aligned: 66 Modelled: 71 Confidence: 92.7% Identity: 20% PDB header:gene regulation Chain: A: PDB Molecule:diphtheria toxin repressor; PDBTitle: cd-cys102ser dtxr Phyre2 PDB 2dql chain A Region: 2 - 92 Aligned: 74 Modelled: 76 Confidence: 92.6% Identity: 18% PDB header:circadian clock protein Chain: A: PDB Molecule:pex protein; PDBTitle: crytal structure of the circadian clock associated protein2 pex from anabaena Phyre2 PDB 1fx7 chain C Region: 4 - 89 Aligned: 66 Modelled: 71 Confidence: 92.4% Identity: 18% PDB header:signaling protein Chain: C: PDB Molecule:iron-dependent repressor ider; PDBTitle: crystal structure of the iron-dependent regulator (ider)2 from mycobacterium tuberculosis Phyre2 PDB 2it0 chain A Region: 4 - 92 Aligned: 69 Modelled: 74 Confidence: 92.3% Identity: 16% PDB header:transcription/dna Chain: A: PDB Molecule:iron-dependent repressor ider; PDBTitle: crystal structure of a two-domain ider-dna complex crystal2 form ii Phyre2 PDB 3l09 chain B Region: 4 - 97 Aligned: 78 Modelled: 79 Confidence: 92.2% Identity: 19% PDB header:transcription regulator Chain: B: PDB Molecule:putative transcriptional regulator; PDBTitle: crystal structure of putative transcriptional regulator2 (jann_22dec04_contig27_revised_gene3569) from jannaschia sp. ccs1 at3 2.81 a resolution Phyre2 PDB 1f5t chain A Region: 4 - 92 Aligned: 69 Modelled: 89 Confidence: 91.8% Identity: 16% PDB header:transcription/dna Chain: A: PDB Molecule:diphtheria toxin repressor; PDBTitle: diphtheria tox repressor (c102d mutant) complexed with2 nickel and dtxr consensus binding sequence Phyre2 PDB 1yg2 chain A Region: 11 - 92 Aligned: 64 Modelled: 67 Confidence: 91.0% Identity: 19% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: PadR-like Phyre2 PDB 2e1n chain A Region: 8 - 92 Aligned: 68 Modelled: 70 Confidence: 90.8% Identity: 18% PDB header:circadian clock protein Chain: A: PDB Molecule:pex; PDBTitle: crystal structure of the cyanobacterium circadian clock modifier pex Phyre2 PDB 3hhh chain A Region: 11 - 92 Aligned: 67 Modelled: 82 Confidence: 90.4% Identity: 18% PDB header:transcription regulator Chain: A: PDB Molecule:transcriptional regulator, padr family; PDBTitle: crystal structure of transcriptional regulator, a member of padr2 family, from enterococcus faecalis v583 Phyre2 PDB 2v7f chain A domain 1 Region: 59 - 106 Aligned: 48 Modelled: 48 Confidence: 81.2% Identity: 15% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: Rps19E-like Phyre2 PDB 1fok chain A Region: 153 - 234 Aligned: 75 Modelled: 75 Confidence: 52.8% Identity: 25% PDB header:hydrolase/dna Chain: A: PDB Molecule:protein (foki restriction endonucleas); PDBTitle: structure of restriction endonuclease foki bound to dna Phyre2 1 d1y88a2 2 c1y88A_ 3 d1xmxa_ 4 c3fovA_ 5 c3b73A_ 6 d1gefa_ 7 d1ob8a_ 8 d1r7ja_ 9 c3l7wA_ 10 c3f8fA_ 11 d1uhma_ 12 c1g3wA_ 13 c2dqlA_ 14 c1fx7C_ 15 c2it0A_ 16 c3l09B_ 17 c1f5tA_ 18 d1yg2a_ 19 c2e1nA_ 20 c3hhhA_ 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 d2v7fa1 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 c1fokA_ 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 99 100 101 102 103 104 105 106 107 108 109

Detailed template information

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

1 d1y88a2 99.9 19 Fold:Restriction endonuclease-like Superfamily:Restriction endonuclease-like Family:MRR-like 2 c1y88A_ 99.9 19 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein af1548; PDBTitle: crystal structure of protein of unknown function af1548 3 d1xmxa_ 96.6 13 Fold:Restriction endonuclease-like Superfamily:Restriction endonuclease-like Family:Hypothetical protein VC1899 4 c3fovA_ 95.9 23 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:upf0102 protein rpa0323; PDBTitle: crystal structure of protein rpa0323 of unknown function from2 rhodopseudomonas palustris 5 c3b73A_ 95.9 15 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:phih1 repressor-like protein; PDBTitle: crystal structure of the phih1 repressor-like protein from2 haloarcula marismortui 6 d1gefa_ 95.5 15 Fold:Restriction endonuclease-like Superfamily:Restriction endonuclease-like Family:Hjc-like 7 d1ob8a_ 94.9 15 Fold:Restriction endonuclease-like Superfamily:Restriction endonuclease-like Family:Hjc-like 8 d1r7ja_ 94.8 15 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Archaeal DNA-binding protein 9 c3l7wA_ 93.8 18 PDB header:transcription Chain: A: PDB Molecule:putative uncharacterized protein smu.1704; PDBTitle: the crystal structure of smu.1704 from streptococcus mutans ua159 10 c3f8fA_ 93.5 21 PDB header:transcription regulator Chain: A: PDB Molecule:transcriptional regulator, padr-like family; PDBTitle: crystal structure of multidrug binding transcriptional regulator lmrr2 complexed with daunomycin 11 d1uhma_ 93.0 15 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Linker histone H1/H5 12 c1g3wA_ 92.7 20 PDB header:gene regulation Chain: A: PDB Molecule:diphtheria toxin repressor; PDBTitle: cd-cys102ser dtxr 13 c2dqlA_ 92.6 18 PDB header:circadian clock protein Chain: A: PDB Molecule:pex protein; PDBTitle: crytal structure of the circadian clock associated protein2 pex from anabaena 14 c1fx7C_ 92.4 18 PDB header:signaling protein Chain: C: PDB Molecule:iron-dependent repressor ider; PDBTitle: crystal structure of the iron-dependent regulator (ider)2 from mycobacterium tuberculosis 15 c2it0A_ 92.3 16 PDB header:transcription/dna Chain: A: PDB Molecule:iron-dependent repressor ider; PDBTitle: crystal structure of a two-domain ider-dna complex crystal2 form ii 16 c3l09B_ 92.2 19 PDB header:transcription regulator Chain: B: PDB Molecule:putative transcriptional regulator; PDBTitle: crystal structure of putative transcriptional regulator2 (jann_22dec04_contig27_revised_gene3569) from jannaschia sp. ccs1 at3 2.81 a resolution 17 c1f5tA_ 91.8 16 PDB header:transcription/dna Chain: A: PDB Molecule:diphtheria toxin repressor; PDBTitle: diphtheria tox repressor (c102d mutant) complexed with2 nickel and dtxr consensus binding sequence 18 d1yg2a_ 91.0 19 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:PadR-like 19 c2e1nA_ 90.8 18 PDB header:circadian clock protein Chain: A: PDB Molecule:pex; PDBTitle: crystal structure of the cyanobacterium circadian clock modifier pex 20 c3hhhA_ 90.4 18 PDB header:transcription regulator Chain: A: PDB Molecule:transcriptional regulator, padr family; PDBTitle: crystal structure of transcriptional regulator, a member of padr2 family, from enterococcus faecalis v583 21 c1xmaA_ not modelled 90.4 19 PDB header:transcription Chain: A: PDB Molecule:predicted transcriptional regulator; PDBTitle: structure of a transcriptional regulator from clostridium thermocellum2 cth-833 22 d1xmaa_ not modelled 90.4 19 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:PadR-like 23 c2rqpA_ not modelled 89.9 15 PDB header:gene regulation Chain: A: PDB Molecule:heterochromatin protein 1-binding protein 3; PDBTitle: the solution structure of heterochromatin protein 1-binding2 protein 74 histone h1 like domain 24 d1ussa_ not modelled 89.7 13 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Linker histone H1/H5 25 d1hsta_ not modelled 89.4 18 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Linker histone H1/H5 26 c2h09A_ not modelled 89.2 26 PDB header:transcription Chain: A: PDB Molecule:transcriptional regulator mntr; PDBTitle: crystal structure of diphtheria toxin repressor like protein2 from e. coli 27 c3df8A_ not modelled 88.8 20 PDB header:transcription Chain: A: PDB Molecule:possible hxlr family transcriptional factor; PDBTitle: the crystal structure of a possible hxlr family transcriptional factor2 from thermoplasma volcanium gss1 28 c3kfwX_ not modelled 87.4 22 PDB header:structural genomics, unknown function Chain: X: PDB Molecule:uncharacterized protein; PDBTitle: uncharacterized protein rv0674 from mycobacterium tuberculosis 29 d1usta_ not modelled 87.1 16 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Linker histone H1/H5 30 d2esha1 not modelled 87.1 15 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:PadR-like 31 d1dzfa1 not modelled 87.0 17 Fold:Restriction endonuclease-like Superfamily:Eukaryotic RPB5 N-terminal domain Family:Eukaryotic RPB5 N-terminal domain 32 c3elkA_ not modelled 87.0 21 PDB header:transcription regulator Chain: A: PDB Molecule:putative transcriptional regulator ta0346; PDBTitle: crystal structure of putative transcriptional regulator ta0346 from2 thermoplasma acidophilum 33 c3l9fD_ not modelled 87.0 15 PDB header:transcription regulator Chain: D: PDB Molecule:putative uncharacterized protein smu.1604c; PDBTitle: the crystal structure of smu.1604c from streptococcus mutans ua159 34 d1yqaa1 not modelled 84.3 15 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Linker histone H1/H5 35 c2wj0B_ not modelled 83.2 23 PDB header:hydrolase/dna Chain: B: PDB Molecule:archaeal hjc; PDBTitle: crystal structures of holliday junction resolvases from2 archaeoglobus fulgidus bound to dna substrate 36 d1ub9a_ not modelled 82.8 21 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MarR-like transcriptional regulators 37 d2v7fa1 81.2 15 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Rps19E-like 38 d1in4a1 not modelled 80.9 13 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Helicase DNA-binding domain 39 c3hruA_ not modelled 79.7 16 PDB header:transcription Chain: A: PDB Molecule:metalloregulator scar; PDBTitle: crystal structure of scar with bound zn2+ 40 c3ri2B_ not modelled 79.4 25 PDB header:transcription regulator Chain: B: PDB Molecule:transcriptional regulator, padr-like family; PDBTitle: crystal structure of padr family transcriptional regulator from2 eggerthella lenta dsm 2243 41 d2fnaa1 not modelled 77.6 17 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Helicase DNA-binding domain 42 d2fswa1 not modelled 76.9 20 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:HxlR-like 43 d3ctaa1 not modelled 76.0 16 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MarR-like transcriptional regulators 44 c1y1yE_ not modelled 74.7 17 PDB header:transferase/transcription/dna-rna hybrid Chain: E: PDB Molecule:dna-directed rna polymerases i, ii, and iii 27 PDBTitle: rna polymerase ii-tfiis-dna/rna complex 45 c2ev5B_ not modelled 74.5 26 PDB header:transcription Chain: B: PDB Molecule:transcriptional regulator mntr; PDBTitle: bacillus subtilis manganese transport regulator (mntr)2 bound to calcium 46 d1ixsb1 not modelled 73.5 28 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Helicase DNA-binding domain 47 c3h0gE_ not modelled 73.3 22 PDB header:transcription Chain: E: PDB Molecule:dna-directed rna polymerases i, ii, and iii PDBTitle: rna polymerase ii from schizosaccharomyces pombe 48 d2hr3a1 not modelled 72.8 20 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MarR-like transcriptional regulators 49 d1hh1a_ not modelled 72.3 13 Fold:Restriction endonuclease-like Superfamily:Restriction endonuclease-like Family:Hjc-like 50 d1d5va_ not modelled 71.8 11 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Forkhead DNA-binding domain 51 c3jyvT_ not modelled 71.7 12 PDB header:ribosome Chain: T: PDB Molecule:s19e protein; PDBTitle: structure of the 40s rrna and proteins and p/e trna for eukaryotic2 ribosome based on cryo-em map of thermomyces lanuginosus ribosome at3 8.9a resolution 52 c3f6oB_ not modelled 70.5 16 PDB header:transcription regulator Chain: B: PDB Molecule:probable transcriptional regulator, arsr family PDBTitle: crystal structure of arsr family transcriptional regulator,2 rha00566 53 d2fbha1 not modelled 70.4 24 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MarR-like transcriptional regulators 54 c3iz6S_ not modelled 69.8 15 PDB header:ribosome Chain: S: PDB Molecule:40s ribosomal protein s19 (s19e); PDBTitle: localization of the small subunit ribosomal proteins into a 5.5 a2 cryo-em map of triticum aestivum translating 80s ribosome 55 c3lmmA_ not modelled 69.3 18 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of the dip2311 protein from2 corynebacterium diphtheriae, northeast structural genomics3 consortium target cdr35 56 d1z7ua1 not modelled 68.8 17 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:HxlR-like 57 c3f6vA_ not modelled 68.0 18 PDB header:transcription regulator Chain: A: PDB Molecule:possible transcriptional regulator, arsr family PDBTitle: crystal structure of possible transcriptional regulator for2 arsenical resistance 58 c2x4hA_ not modelled 67.9 20 PDB header:transcription Chain: A: PDB Molecule:hypothetical protein sso2273; PDBTitle: crystal structure of the hypothetical protein sso2273 from2 sulfolobus solfataricus 59 d1tw3a1 not modelled 67.8 22 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Plant O-methyltransferase, N-terminal domain 60 c3ctaA_ not modelled 65.3 20 PDB header:transferase Chain: A: PDB Molecule:riboflavin kinase; PDBTitle: crystal structure of riboflavin kinase from thermoplasma2 acidophilum 61 c3boqB_ not modelled 65.2 23 PDB header:transcription regulator Chain: B: PDB Molecule:transcriptional regulator, marr family; PDBTitle: crystal structure of marr family transcriptional regulator from2 silicibacter pomeroyi 62 d1ghca_ not modelled 61.6 15 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Linker histone H1/H5 63 d1ixrc1 not modelled 60.5 28 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Helicase DNA-binding domain 64 d2f2ea1 not modelled 60.2 21 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:HxlR-like 65 d2hfha_ not modelled 58.9 13 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Forkhead DNA-binding domain 66 d1j75a_ not modelled 56.9 20 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Z-DNA binding domain 67 c2krcA_ not modelled 56.8 17 PDB header:transcription Chain: A: PDB Molecule:dna-directed rna polymerase subunit delta; PDBTitle: solution structure of the n-terminal domain of bacillus2 subtilis delta subunit of rna polymerase 68 c3deuB_ not modelled 54.2 20 PDB header:transcription regulator Chain: B: PDB Molecule:transcriptional regulator slya; PDBTitle: crystal structure of transcription regulatory protein slya2 from salmonella typhimurium in complex with salicylate3 ligands 69 d2foka2 not modelled 54.0 15 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Restriction endonuclease FokI, N-terminal (recognition) domain 70 c1fokA_ 52.8 25 PDB header:hydrolase/dna Chain: A: PDB Molecule:protein (foki restriction endonucleas); PDBTitle: structure of restriction endonuclease foki bound to dna 71 c2du9A_ not modelled 49.7 13 PDB header:transcription Chain: A: PDB Molecule:predicted transcriptional regulators; PDBTitle: crystal structure of the transcriptional factor from c.glutamicum 72 c2xznT_ not modelled 49.2 12 PDB header:ribosome Chain: T: PDB Molecule:rps19e; PDBTitle: crystal structure of the eukaryotic 40s ribosomal2 subunit in complex with initiation factor 1. this file3 contains the 40s subunit and initiation factor for4 molecule 2 73 c3ff4A_ not modelled 47.3 17 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of uncharacterized protein chu_1412 74 c2fa5B_ not modelled 45.6 30 PDB header:transcription Chain: B: PDB Molecule:transcriptional regulator marr/emrr family; PDBTitle: the crystal structure of an unliganded multiple antibiotic-2 resistance repressor (marr) from xanthomonas campestris 75 c3jthA_ not modelled 45.4 11 PDB header:transcription Chain: A: PDB Molecule:transcription activator hlyu; PDBTitle: crystal structure of a transcriptional regulator hlyu from2 vibrio vulnificus cmcp6 76 d1xmka1 not modelled 45.0 22 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Z-DNA binding domain 77 d2a07f1 not modelled 44.9 9 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Forkhead DNA-binding domain 78 c3fm5D_ not modelled 44.7 24 PDB header:transcription regulator Chain: D: PDB Molecule:transcriptional regulator; PDBTitle: x-ray crystal structure of transcriptional regulator (marr family)2 from rhodococcus sp. rha1 79 d2fxaa1 not modelled 41.9 17 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MarR-like transcriptional regulators 80 c2zkzC_ not modelled 40.5 12 PDB header:transcription Chain: C: PDB Molecule:transcriptional repressor pagr; PDBTitle: crystal structure of the transcriptional repressor pagr of bacillus2 anthracis 81 c3mwmA_ not modelled 39.4 22 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 82 c1e17A_ not modelled 38.4 14 PDB header:dna binding domain Chain: A: PDB Molecule:afx; PDBTitle: solution structure of the dna binding domain of the human2 forkhead transcription factor afx (foxo4) 83 c3f3xA_ not modelled 37.0 20 PDB header:transcription Chain: A: PDB Molecule:transcriptional regulator, marr family, putative; PDBTitle: crystal structure of the transcriptional regulator bldr2 from sulfolobus solfataricus 84 c2kkoB_ not modelled 36.9 15 PDB header:dna binding protein Chain: B: PDB Molecule:possible transcriptional regulatory protein PDBTitle: solution nmr structure of the homodimeric winged helix-turn-2 helix dna-binding domain (fragment 1-100) mb0332 from3 mycobacterium bovis, a possible arsr-family transcriptional4 regulator. northeast structural genomics consortium target5 mbr242e. 85 d2etha1 not modelled 35.7 16 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MarR-like transcriptional regulators 86 d1yyva1 not modelled 35.0 25 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:HxlR-like 87 c2nnnB_ not modelled 33.5 21 PDB header:transcription Chain: B: PDB Molecule:probable transcriptional regulator; PDBTitle: crystal structure of probable transcriptional regulator from2 pseudomonas aeruginosa 88 c2qvoA_ not modelled 33.1 19 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein af_1382; PDBTitle: crystal structure of af1382 from archaeoglobus fulgidus 89 d1mkma1 not modelled 32.4 16 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Transcriptional regulator IclR, N-terminal domain 90 c3i53A_ not modelled 30.8 26 PDB header:transferase Chain: A: PDB Molecule:o-methyltransferase; PDBTitle: crystal structure of an o-methyltransferase (ncsb1) from2 neocarzinostatin biosynthesis in complex with s-adenosyl-l-3 homocysteine (sah) 91 d2d1ha1 not modelled 30.5 11 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:TrmB-like 92 c2vldA_ not modelled 30.2 18 PDB header:hydrolase Chain: A: PDB Molecule:upf0286 protein pyrab01260; PDBTitle: crystal structure of a repair endonuclease from pyrococcus2 abyssi 93 c2rkhA_ not modelled 29.7 20 PDB header:transcription Chain: A: PDB Molecule:putative apha-like transcription factor; PDBTitle: crystal structure of a putative apha-like transcription factor2 (zp_00208345.1) from magnetospirillum magnetotacticum ms-1 at 2.00 a3 resolution 94 c2oqgA_ not modelled 29.0 13 PDB header:transcription Chain: A: PDB Molecule:possible transcriptional regulator, arsr family protein; PDBTitle: arsr-like transcriptional regulator from rhodococcus sp. rha1 95 c2y75F_ not modelled 28.8 19 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 96 d2c6ya1 not modelled 28.4 11 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Forkhead DNA-binding domain 97 c3dnxA_ not modelled 28.3 26 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein spo1766; PDBTitle: spo1766 protein of unknown function from silicibacter pomeroyi. 98 c3bddD_ not modelled 27.0 11 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 99 d1xd7a_ not modelled 26.2 19 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Transcriptional regulator Rrf2 100 d2d59a1 not modelled 25.7 21 Fold:NAD(P)-binding Rossmann-fold domains Superfamily:NAD(P)-binding Rossmann-fold domains Family:CoA-binding domain 101 d1lj9a_ not modelled 25.5 13 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MarR-like transcriptional regulators 102 d2fbia1 not modelled 25.0 17 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MarR-like transcriptional regulators 103 d2axla1 not modelled 23.5 14 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:RecQ helicase DNA-binding domain-like 104 d1s3ja_ not modelled 22.4 18 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:MarR-like transcriptional regulators 105 c2jtvA_ not modelled 22.1 23 PDB header:structural genomics Chain: A: PDB Molecule:protein of unknown function; PDBTitle: solution structure of protein rpa3401, northeast structural genomics2 consortium target rpt7, ontario center for structural proteomics3 target rp3384 106 c2qm3A_ not modelled 21.7 21 PDB header:transferase Chain: A: PDB Molecule:predicted methyltransferase; PDBTitle: crystal structure of a predicted methyltransferase from pyrococcus2 furiosus 107 c1r22B_ not modelled 21.1 11 PDB header:transcription repressor Chain: B: PDB Molecule:transcriptional repressor smtb; PDBTitle: crystal structure of the cyanobacterial metallothionein2 repressor smtb (c14s/c61s/c121s mutant) in the zn2alpha5-3 form 108 c2fu4B_ not modelled 20.6 18 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) 109 d2p4wa1 not modelled 20.4 17 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:PF1790-like

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

---

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