Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	K	H	K	Q	R	W	A	G	A	I	C	C	F	V	L	F	I	V	V	C	L	F	L	A	T	H	M	K	G	A	F	R	A	A	G	H	P	E	I	G	L	L	F	F	I	L	P	G	A	V	A	S	F	F	S	Q	R	R	E
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?																			?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		V	L	K	P	L	F	G	A	M	L	A	A	P	C	S	M	L	I	M	R	L	F	F	S	P	T	R	S	F	W	Q	E	L	A	W	L	L	S	A	V	F	W	C	A	L	G	A	L	C	F	L	F	I	S	S	L	F	K	P	Q
Secondary structure
SS confidence
Disorder																																																											?
Disorder confidence
		.	.	.	.	.
Sequence		H	R	K	N	Q
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 2zxx chain A Region: 84 - 94 Aligned: 11 Modelled: 11 Confidence: 31.0% Identity: 36% PDB header:cell cycle/replication Chain: A: PDB Molecule:geminin; PDBTitle: crystal structure of cdt1/geminin complex Phyre2 PDB 1i5p chain A domain 3 Region: 49 - 93 Aligned: 39 Modelled: 45 Confidence: 22.3% Identity: 21% Fold: Toxins' membrane translocation domains Superfamily: delta-Endotoxin (insectocide), N-terminal domain Family: delta-Endotoxin (insectocide), N-terminal domain Phyre2 PDB 2wvr chain B Region: 84 - 94 Aligned: 11 Modelled: 11 Confidence: 19.2% Identity: 36% PDB header:replication Chain: B: PDB Molecule:geminin; PDBTitle: human cdt1:geminin complex Phyre2 PDB 1fo8 chain A Region: 87 - 125 Aligned: 29 Modelled: 39 Confidence: 10.0% Identity: 28% Fold: Nucleotide-diphospho-sugar transferases Superfamily: Nucleotide-diphospho-sugar transferases Family: N-acetylglucosaminyltransferase I Phyre2 PDB 1iij chain A Region: 41 - 60 Aligned: 20 Modelled: 20 Confidence: 9.8% Identity: 30% PDB header:signaling protein Chain: A: PDB Molecule:erbb-2 receptor protein-tyrosine kinase; PDBTitle: solution structure of the neu/erbb-2 membrane spanning2 segment Phyre2 PDB 1z65 chain A Region: 7 - 18 Aligned: 12 Modelled: 12 Confidence: 9.6% Identity: 42% PDB header:unknown function Chain: A: PDB Molecule:prion-like protein doppel; PDBTitle: mouse doppel 1-30 peptide Phyre2 PDB 1x4l chain A domain 2 Region: 53 - 68 Aligned: 16 Modelled: 16 Confidence: 7.6% Identity: 31% Fold: Glucocorticoid receptor-like (DNA-binding domain) Superfamily: Glucocorticoid receptor-like (DNA-binding domain) Family: LIM domain Phyre2 PDB 1ffg chain B Region: 9 - 15 Aligned: 7 Modelled: 7 Confidence: 7.3% Identity: 57% Fold: Ferredoxin-like Superfamily: CheY-binding domain of CheA Family: CheY-binding domain of CheA Phyre2 PDB 1eys chain H domain 2 Region: 110 - 124 Aligned: 15 Modelled: 15 Confidence: 7.2% Identity: 20% Fold: Single transmembrane helix Superfamily: Photosystem II reaction centre subunit H, transmembrane region Family: Photosystem II reaction centre subunit H, transmembrane region Phyre2 PDB 1a0o chain H Region: 9 - 15 Aligned: 7 Modelled: 7 Confidence: 7.2% Identity: 57% PDB header:chemotaxis Chain: H: PDB Molecule:chea; PDBTitle: chey-binding domain of chea in complex with chey Phyre2 PDB 1q3j chain A Region: 48 - 58 Aligned: 11 Modelled: 11 Confidence: 5.8% Identity: 36% Fold: Knottins (small inhibitors, toxins, lectins) Superfamily: Gurmarin-like Family: Antifungal peptide Phyre2 PDB 1bhb chain A Region: 38 - 50 Aligned: 13 Modelled: 13 Confidence: 5.8% Identity: 31% PDB header:photoreceptor Chain: A: PDB Molecule:bacteriorhodopsin; PDBTitle: three-dimensional structure of (1-71) bacterioopsin2 solubilized in methanol-chloroform and sds micelles3 determined by 15n-1h heteronuclear nmr spectroscopy Phyre2 PDB 3t7h chain B Region: 86 - 94 Aligned: 9 Modelled: 9 Confidence: 5.7% Identity: 56% PDB header:ligase Chain: B: PDB Molecule:ubiquitin-like modifier-activating enzyme atg7; PDBTitle: atg8 transfer from atg7 to atg3: a distinctive e1-e2 architecture and2 mechanism in the autophagy pathway Phyre2 PDB 3hls chain E Region: 42 - 52 Aligned: 11 Modelled: 11 Confidence: 5.2% Identity: 55% PDB header:signaling protein Chain: E: PDB Molecule:guanylate cyclase soluble subunit beta-1; PDBTitle: crystal structure of the signaling helix coiled-coil doimain2 of the beta-1 subunit of the soluble guanylyl cyclase Phyre2 PDB 3n0a chain A Region: 1 - 18 Aligned: 18 Modelled: 18 Confidence: 5.2% Identity: 6% PDB header:hydrolase Chain: A: PDB Molecule:tyrosine-protein phosphatase auxilin; PDBTitle: crystal structure of auxilin (40-400) Phyre2 1 c2zxxA_ 2 d1i5pa3 3 c2wvrB_ 4 d1fo8a_ 5 c1iijA_ 6 c1z65A_ 7 d1x4la2 8 d1ffgb_ 9 d1eysh2 10 c1a0oH_ 11 d1q3ja_ 12 c1bhbA_ 13 c3t7hB_ 14 c3hlsE_ 15 c3n0aA_

Detailed template information

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

1 c2zxxA_ 31.0 36 PDB header:cell cycle/replication Chain: A: PDB Molecule:geminin; PDBTitle: crystal structure of cdt1/geminin complex 2 d1i5pa3 22.3 21 Fold:Toxins' membrane translocation domains Superfamily:delta-Endotoxin (insectocide), N-terminal domain Family:delta-Endotoxin (insectocide), N-terminal domain 3 c2wvrB_ 19.2 36 PDB header:replication Chain: B: PDB Molecule:geminin; PDBTitle: human cdt1:geminin complex 4 d1fo8a_ 10.0 28 Fold:Nucleotide-diphospho-sugar transferases Superfamily:Nucleotide-diphospho-sugar transferases Family:N-acetylglucosaminyltransferase I 5 c1iijA_ 9.8 30 PDB header:signaling protein Chain: A: PDB Molecule:erbb-2 receptor protein-tyrosine kinase; PDBTitle: solution structure of the neu/erbb-2 membrane spanning2 segment 6 c1z65A_ 9.6 42 PDB header:unknown function Chain: A: PDB Molecule:prion-like protein doppel; PDBTitle: mouse doppel 1-30 peptide 7 d1x4la2 7.6 31 Fold:Glucocorticoid receptor-like (DNA-binding domain) Superfamily:Glucocorticoid receptor-like (DNA-binding domain) Family:LIM domain 8 d1ffgb_ 7.3 57 Fold:Ferredoxin-like Superfamily:CheY-binding domain of CheA Family:CheY-binding domain of CheA 9 d1eysh2 7.2 20 Fold:Single transmembrane helix Superfamily:Photosystem II reaction centre subunit H, transmembrane region Family:Photosystem II reaction centre subunit H, transmembrane region 10 c1a0oH_ 7.2 57 PDB header:chemotaxis Chain: H: PDB Molecule:chea; PDBTitle: chey-binding domain of chea in complex with chey 11 d1q3ja_ 5.8 36 Fold:Knottins (small inhibitors, toxins, lectins) Superfamily:Gurmarin-like Family:Antifungal peptide 12 c1bhbA_ 5.8 31 PDB header:photoreceptor Chain: A: PDB Molecule:bacteriorhodopsin; PDBTitle: three-dimensional structure of (1-71) bacterioopsin2 solubilized in methanol-chloroform and sds micelles3 determined by 15n-1h heteronuclear nmr spectroscopy 13 c3t7hB_ 5.7 56 PDB header:ligase Chain: B: PDB Molecule:ubiquitin-like modifier-activating enzyme atg7; PDBTitle: atg8 transfer from atg7 to atg3: a distinctive e1-e2 architecture and2 mechanism in the autophagy pathway 14 c3hlsE_ 5.2 55 PDB header:signaling protein Chain: E: PDB Molecule:guanylate cyclase soluble subunit beta-1; PDBTitle: crystal structure of the signaling helix coiled-coil doimain2 of the beta-1 subunit of the soluble guanylyl cyclase 15 c3n0aA_ 5.2 6 PDB header:hydrolase Chain: A: PDB Molecule:tyrosine-protein phosphatase auxilin; PDBTitle: crystal structure of auxilin (40-400)

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