Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	R	H	I	F	Q	R	L	L	P	R	R	L	W	L	A	G	L	P	C	L	A	L	L	G	C	V	Q	N	H	N	K	P	A	I	D	T	P	A	E	E	K	I	P	V	Y	Q	L	A	D	Y	L	S	T	E	C	S	D	I	W
Secondary structure
SS confidence
Disorder		?									?	?	?															?	?		?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		A	L	Q	G	K	S	T	E	T	N	P	L	Y	W	L	R	A	M	D	C	A	D	R	L	M	P	A	Q	S	R	Q	Q	A	R	Q	Y	D	D	G	S	W	Q	N	T	F	K	Q	G	I	L	L	A	D	A	K	I	T	P	Y	E
Secondary structure
SS confidence
Disorder								?																?	?	?										?	?			?												?	?		?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		R	R	Q	L	V	A	R	I	E	A	L	S	T	E	I	P	A	Q	V	R	P	L	Y	Q	L	W	R	D	G	Q	A	L	Q	L	Q	L	A	E	E	R	Q	R	Y	S	K	L	Q	Q	S	S	D	S	E	L	D	T	L	R	Q	Q
Secondary structure
SS confidence
Disorder												?	?		?																																			?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.
Sequence		H	H	V	L	Q	Q	Q	L	E	L	T	T	R	K	L	E	N	L	T	D	I	E	R	Q	L	S	T	R	K	P	A	G	N	F	S	P	D	T	P	H	E	S	E	K	P	A	P	S	T	H	E	V	T	P	D	E	P
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 1bgf chain A Region: 131 - 198 Aligned: 68 Modelled: 68 Confidence: 89.0% Identity: 16% Fold: Transcription factor STAT-4 N-domain Superfamily: Transcription factor STAT-4 N-domain Family: Transcription factor STAT-4 N-domain Phyre2 PDB 3e98 chain B Region: 171 - 207 Aligned: 37 Modelled: 37 Confidence: 43.6% Identity: 14% PDB header:unknown function Chain: B: PDB Molecule:gaf domain of unknown function; PDBTitle: crystal structure of a gaf domain containing protein that belongs to2 pfam duf484 family (pa5279) from pseudomonas aeruginosa at 2.43 a3 resolution Phyre2 PDB 1ci6 chain B Region: 160 - 205 Aligned: 46 Modelled: 46 Confidence: 39.1% Identity: 22% PDB header:transcription Chain: B: PDB Molecule:transcription factor c/ebp beta; PDBTitle: transcription factor atf4-c/ebp beta bzip heterodimer Phyre2 PDB 3m9b chain K Region: 168 - 207 Aligned: 40 Modelled: 40 Confidence: 25.5% Identity: 18% PDB header:chaperone Chain: K: PDB Molecule:proteasome-associated atpase; PDBTitle: crystal structure of the amino terminal coiled coil domain and the2 inter domain of the mycobacterium tuberculosis proteasomal atpase mpa Phyre2 PDB 3mov chain B Region: 148 - 206 Aligned: 59 Modelled: 59 Confidence: 19.3% Identity: 17% PDB header:structural protein Chain: B: PDB Molecule:lamin-b1; PDBTitle: crystal structure of human lamin-b1 coil 2 segment Phyre2 PDB 3dmq chain A Region: 147 - 198 Aligned: 52 Modelled: 52 Confidence: 18.7% Identity: 19% PDB header:hydrolase Chain: A: PDB Molecule:rna polymerase-associated protein rapa; PDBTitle: crystal structure of rapa, a swi2/snf2 protein that2 recycles rna polymerase during transcription Phyre2 PDB 3mud chain A Region: 158 - 198 Aligned: 41 Modelled: 41 Confidence: 18.2% Identity: 15% PDB header:contractile protein Chain: A: PDB Molecule:dna repair protein xrcc4, tropomyosin alpha-1 chain; PDBTitle: structure of the tropomyosin overlap complex from chicken smooth2 muscle Phyre2 PDB 1ivs chain A domain 1 Region: 169 - 197 Aligned: 29 Modelled: 29 Confidence: 16.9% Identity: 17% Fold: Long alpha-hairpin Superfamily: tRNA-binding arm Family: Valyl-tRNA synthetase (ValRS) C-terminal domain Phyre2 PDB 1deb chain A Region: 172 - 198 Aligned: 27 Modelled: 27 Confidence: 16.2% Identity: 26% PDB header:structural protein Chain: A: PDB Molecule:adenomatous polyposis coli protein; PDBTitle: crystal structure of the n-terminal coiled coil domain from2 apc Phyre2 PDB 3jrt chain A Region: 104 - 136 Aligned: 33 Modelled: 33 Confidence: 15.4% Identity: 24% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:integron cassette protein vpc_cass2; PDBTitle: structure from the mobile metagenome of v. paracholerae:2 integron cassette protein vpc_cass2 Phyre2 PDB 1yvl chain B Region: 131 - 210 Aligned: 74 Modelled: 80 Confidence: 15.4% Identity: 14% PDB header:signaling protein Chain: B: PDB Molecule:signal transducer and activator of transcription PDBTitle: structure of unphosphorylated stat1 Phyre2 PDB 3hnw chain B Region: 152 - 198 Aligned: 47 Modelled: 46 Confidence: 13.6% Identity: 17% PDB header:structural genomics, unknown function Chain: B: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of a basic coiled-coil protein of unknown function2 from eubacterium eligens atcc 27750 Phyre2 PDB 3dby chain N Region: 61 - 78 Aligned: 18 Modelled: 18 Confidence: 13.5% Identity: 17% PDB header:structural genomics, unknown function Chain: N: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of uncharacterized protein from bacillus cereus2 g9241 (csap target) Phyre2 PDB 1c8s chain A Region: 51 - 81 Aligned: 31 Modelled: 31 Confidence: 13.3% Identity: 32% Fold: Family A G protein-coupled receptor-like Superfamily: Family A G protein-coupled receptor-like Family: Bacteriorhodopsin-like Phyre2 PDB 3dby chain A domain 2 Region: 67 - 78 Aligned: 12 Modelled: 12 Confidence: 13.1% Identity: 25% Fold: Bromodomain-like Superfamily: Bacillus cereus metalloprotein-like Family: Bacillus cereus metalloprotein-like Phyre2 PDB 2gl7 chain C Region: 185 - 205 Aligned: 21 Modelled: 21 Confidence: 12.8% Identity: 52% PDB header:transcription Chain: C: PDB Molecule:b-cell lymphoma 9 protein; PDBTitle: crystal structure of a beta-catenin/bcl9/tcf4 complex Phyre2 PDB 3lph chain D Region: 146 - 158 Aligned: 13 Modelled: 13 Confidence: 11.5% Identity: 31% PDB header:viral protein Chain: D: PDB Molecule:protein rev; PDBTitle: crystal structure of the hiv-1 rev dimer Phyre2 PDB 2cx1 chain A domain 2 Region: 111 - 136 Aligned: 26 Modelled: 26 Confidence: 11.2% Identity: 35% Fold: Cystatin-like Superfamily: Pre-PUA domain Family: Hypothetical protein APE0525, N-terminal domain Phyre2 PDB 2xdj chain F Region: 172 - 205 Aligned: 34 Modelled: 34 Confidence: 11.1% Identity: 15% PDB header:unknown function Chain: F: PDB Molecule:uncharacterized protein ybgf; PDBTitle: crystal structure of the n-terminal domain of e.coli ybgf Phyre2 PDB 1rso chain A Region: 189 - 207 Aligned: 19 Modelled: 19 Confidence: 10.7% Identity: 32% Fold: L27 domain Superfamily: L27 domain Family: L27 domain Phyre2 1 d1bgfa_ 2 c3e98B_ 3 c1ci6B_ 4 c3m9bK_ 5 c3movB_ 6 c3dmqA_ 7 c3mudA_ 8 d1ivsa1 9 c1debA_ 10 c3jrtA_ 11 c1yvlB_ 12 c3hnwB_ 13 c3dbyN_ 14 d1c8sa_ 15 d3dbya2 16 c2gl7C_ 17 c3lphD_ 18 d2cx1a2 19 c2xdjF_ 20 d1rsoa_ 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

Detailed template information

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

1 d1bgfa_ 89.0 16 Fold:Transcription factor STAT-4 N-domain Superfamily:Transcription factor STAT-4 N-domain Family:Transcription factor STAT-4 N-domain 2 c3e98B_ 43.6 14 PDB header:unknown function Chain: B: PDB Molecule:gaf domain of unknown function; PDBTitle: crystal structure of a gaf domain containing protein that belongs to2 pfam duf484 family (pa5279) from pseudomonas aeruginosa at 2.43 a3 resolution 3 c1ci6B_ 39.1 22 PDB header:transcription Chain: B: PDB Molecule:transcription factor c/ebp beta; PDBTitle: transcription factor atf4-c/ebp beta bzip heterodimer 4 c3m9bK_ 25.5 18 PDB header:chaperone Chain: K: PDB Molecule:proteasome-associated atpase; PDBTitle: crystal structure of the amino terminal coiled coil domain and the2 inter domain of the mycobacterium tuberculosis proteasomal atpase mpa 5 c3movB_ 19.3 17 PDB header:structural protein Chain: B: PDB Molecule:lamin-b1; PDBTitle: crystal structure of human lamin-b1 coil 2 segment 6 c3dmqA_ 18.7 19 PDB header:hydrolase Chain: A: PDB Molecule:rna polymerase-associated protein rapa; PDBTitle: crystal structure of rapa, a swi2/snf2 protein that2 recycles rna polymerase during transcription 7 c3mudA_ 18.2 15 PDB header:contractile protein Chain: A: PDB Molecule:dna repair protein xrcc4, tropomyosin alpha-1 chain; PDBTitle: structure of the tropomyosin overlap complex from chicken smooth2 muscle 8 d1ivsa1 16.9 17 Fold:Long alpha-hairpin Superfamily:tRNA-binding arm Family:Valyl-tRNA synthetase (ValRS) C-terminal domain 9 c1debA_ 16.2 26 PDB header:structural protein Chain: A: PDB Molecule:adenomatous polyposis coli protein; PDBTitle: crystal structure of the n-terminal coiled coil domain from2 apc 10 c3jrtA_ 15.4 24 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:integron cassette protein vpc_cass2; PDBTitle: structure from the mobile metagenome of v. paracholerae:2 integron cassette protein vpc_cass2 11 c1yvlB_ 15.4 14 PDB header:signaling protein Chain: B: PDB Molecule:signal transducer and activator of transcription PDBTitle: structure of unphosphorylated stat1 12 c3hnwB_ 13.6 17 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of a basic coiled-coil protein of unknown function2 from eubacterium eligens atcc 27750 13 c3dbyN_ 13.5 17 PDB header:structural genomics, unknown function Chain: N: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of uncharacterized protein from bacillus cereus2 g9241 (csap target) 14 d1c8sa_ 13.3 32 Fold:Family A G protein-coupled receptor-like Superfamily:Family A G protein-coupled receptor-like Family:Bacteriorhodopsin-like 15 d3dbya2 13.1 25 Fold:Bromodomain-like Superfamily:Bacillus cereus metalloprotein-like Family:Bacillus cereus metalloprotein-like 16 c2gl7C_ 12.8 52 PDB header:transcription Chain: C: PDB Molecule:b-cell lymphoma 9 protein; PDBTitle: crystal structure of a beta-catenin/bcl9/tcf4 complex 17 c3lphD_ 11.5 31 PDB header:viral protein Chain: D: PDB Molecule:protein rev; PDBTitle: crystal structure of the hiv-1 rev dimer 18 d2cx1a2 11.2 35 Fold:Cystatin-like Superfamily:Pre-PUA domain Family:Hypothetical protein APE0525, N-terminal domain 19 c2xdjF_ 11.1 15 PDB header:unknown function Chain: F: PDB Molecule:uncharacterized protein ybgf; PDBTitle: crystal structure of the n-terminal domain of e.coli ybgf 20 d1rsoa_ 10.7 32 Fold:L27 domain Superfamily:L27 domain Family:L27 domain 21 d2i5nl1 not modelled 9.7 18 Fold:Bacterial photosystem II reaction centre, L and M subunits Superfamily:Bacterial photosystem II reaction centre, L and M subunits Family:Bacterial photosystem II reaction centre, L and M subunits 22 c2x7lP_ not modelled 9.5 31 PDB header:immune system Chain: P: PDB Molecule:hiv rev; PDBTitle: implications of the hiv-1 rev dimer structure at 3.2a2 resolution for multimeric binding to the rev response3 element 23 d2axta1 not modelled 8.8 21 Fold:Bacterial photosystem II reaction centre, L and M subunits Superfamily:Bacterial photosystem II reaction centre, L and M subunits Family:Bacterial photosystem II reaction centre, L and M subunits 24 c2odxA_ not modelled 8.8 24 PDB header:oxidoreductase Chain: A: PDB Molecule:cytochrome c oxidase polypeptide iv; PDBTitle: solution structure of zn(ii)cox4 25 d1jixa_ not modelled 8.4 55 Fold:UDP-Glycosyltransferase/glycogen phosphorylase Superfamily:UDP-Glycosyltransferase/glycogen phosphorylase Family:beta-Glucosyltransferase (DNA-modifying) 26 c1x8yA_ not modelled 8.3 15 PDB header:structural protein Chain: A: PDB Molecule:lamin a/c; PDBTitle: human lamin coil 2b 27 d3d19a2 not modelled 8.3 43 Fold:Bromodomain-like Superfamily:Bacillus cereus metalloprotein-like Family:Bacillus cereus metalloprotein-like 28 c1q68A_ not modelled 8.0 41 PDB header:membrane protein/transferase Chain: A: PDB Molecule:t-cell surface glycoprotein cd4; PDBTitle: solution structure of t-cell surface glycoprotein cd4 and2 proto-oncogene tyrosine-protein kinase lck fragments 29 c1gk4A_ not modelled 8.0 13 PDB header:vimentin Chain: A: PDB Molecule:vimentin; PDBTitle: human vimentin coil 2b fragment (cys2) 30 c2xusA_ not modelled 7.7 34 PDB header:protein binding Chain: A: PDB Molecule:breast cancer metastasis-suppressor 1; PDBTitle: crystal structure of the brms1 n-terminal region 31 d1e3oc2 not modelled 7.6 28 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:POU-specific domain 32 d3d19a1 not modelled 7.6 21 Fold:Bromodomain-like Superfamily:Bacillus cereus metalloprotein-like Family:Bacillus cereus metalloprotein-like 33 d1m0ka_ not modelled 7.5 32 Fold:Family A G protein-coupled receptor-like Superfamily:Family A G protein-coupled receptor-like Family:Bacteriorhodopsin-like 34 c1m0kA_ not modelled 7.5 32 PDB header:ion transport Chain: A: PDB Molecule:bacteriorhodopsin; PDBTitle: bacteriorhodopsin k intermediate at 1.43 a resolution 35 d2ef1a1 not modelled 6.8 17 Fold:Flavodoxin-like Superfamily:N-(deoxy)ribosyltransferase-like Family:ADP ribosyl cyclase-like 36 d2b3aa1 not modelled 6.8 17 Fold:beta-Grasp (ubiquitin-like) Superfamily:Ubiquitin-like Family:Ras-binding domain, RBD 37 d1au7a2 not modelled 6.7 16 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:POU-specific domain 38 c2jrrA_ not modelled 6.5 17 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: solution nmr structure of q5lls5 from silicibacter2 pomeroyi. northeast structural genomics consortium target3 sir90 39 c3t97A_ not modelled 6.4 19 PDB header:protein transport Chain: A: PDB Molecule:nuclear pore glycoprotein p62; PDBTitle: molecular architecture of the transport channel of the nuclear pore2 complex: nup62/nup54 40 d3dbya1 not modelled 6.2 17 Fold:Bromodomain-like Superfamily:Bacillus cereus metalloprotein-like Family:Bacillus cereus metalloprotein-like 41 d1s35a2 not modelled 6.0 15 Fold:Spectrin repeat-like Superfamily:Spectrin repeat Family:Spectrin repeat 42 c1zxaB_ not modelled 5.9 33 PDB header:transferase Chain: B: PDB Molecule:cgmp-dependent protein kinase 1, alpha isozyme; PDBTitle: solution structure of the coiled-coil domain of cgmp-2 dependent protein kinase ia 43 d1lfda_ not modelled 5.7 11 Fold:beta-Grasp (ubiquitin-like) Superfamily:Ubiquitin-like Family:Ras-binding domain, RBD 44 c3ectA_ not modelled 5.6 24 PDB header:transferase Chain: A: PDB Molecule:hexapeptide-repeat containing-acetyltransferase; PDBTitle: crystal structure of the hexapeptide-repeat containing-2 acetyltransferase vca0836 from vibrio cholerae 45 c2rmgA_ not modelled 5.6 26 PDB header:hormone Chain: A: PDB Molecule:urocortin-2; PDBTitle: human urocortin 2 46 c3f1iH_ not modelled 5.5 34 PDB header:protein binding Chain: H: PDB Molecule:hepatocyte growth factor-regulated tyrosine kinase PDBTitle: human escrt-0 core complex 47 d1uaza_ not modelled 5.5 23 Fold:Family A G protein-coupled receptor-like Superfamily:Family A G protein-coupled receptor-like Family:Bacteriorhodopsin-like 48 d1nxca_ not modelled 5.5 21 Fold:alpha/alpha toroid Superfamily:Seven-hairpin glycosidases Family:Class I alpha-1;2-mannosidase, catalytic domain 49 c2zdiC_ not modelled 5.4 9 PDB header:chaperone Chain: C: PDB Molecule:prefoldin subunit alpha; PDBTitle: crystal structure of prefoldin from pyrococcus horikoshii2 ot3

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