Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	D	T	R	F	V	Q	A	H	K	E	A	R	W	A	L	G	L	T	L	L	Y	L	A	V	W	L	V	A	A	Y	L	S	G	V	A	P	G	F	T	G	F	P	R	W	F	E	M	A	C	I	L	T	P	L	L	F	I	G	L
Secondary structure
SS confidence
Disorder		?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80
Sequence		C	W	A	M	V	K	F	I	Y	R	D	I	P	L	E	D	D	D	A	A
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 1bhb chain A Region: 39 - 66 Aligned: 27 Modelled: 28 Confidence: 18.9% Identity: 37% 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 2kv5 chain A Region: 50 - 80 Aligned: 26 Modelled: 31 Confidence: 18.0% Identity: 23% PDB header:toxin Chain: A: PDB Molecule:putative uncharacterized protein rnai; PDBTitle: solution structure of the par toxin fst in dpc micelles Phyre2 PDB 2knc chain B Region: 43 - 72 Aligned: 29 Modelled: 30 Confidence: 14.3% Identity: 17% PDB header:cell adhesion Chain: B: PDB Molecule:integrin beta-3; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex Phyre2 PDB 2rmz chain A Region: 46 - 72 Aligned: 26 Modelled: 27 Confidence: 10.9% Identity: 19% PDB header:cell adhesion Chain: A: PDB Molecule:integrin beta-3; PDBTitle: bicelle-embedded integrin beta3 transmembrane segment Phyre2 PDB 2k1a chain A Region: 41 - 65 Aligned: 25 Modelled: 25 Confidence: 10.5% Identity: 20% PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: bicelle-embedded integrin alpha(iib) transmembrane segment Phyre2 PDB 2knc chain A Region: 41 - 65 Aligned: 25 Modelled: 25 Confidence: 10.1% Identity: 20% PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex Phyre2 PDB 3c1i chain A Region: 4 - 47 Aligned: 44 Modelled: 44 Confidence: 8.7% Identity: 20% PDB header:transport protein Chain: A: PDB Molecule:ammonia channel; PDBTitle: substrate binding, deprotonation and selectivity at the2 periplasmic entrance of the e. coli ammonia channel amtb Phyre2 PDB 1h5o chain A Region: 5 - 11 Aligned: 7 Modelled: 7 Confidence: 5.9% Identity: 43% Fold: Defensin-like Superfamily: Defensin-like Family: Myotoxin Phyre2 PDB 2d46 chain A Region: 71 - 80 Aligned: 10 Modelled: 10 Confidence: 5.8% Identity: 50% PDB header:metal transport Chain: A: PDB Molecule:calcium channel, voltage-dependent, beta 4 PDBTitle: solution structure of the human beta4a-a domain Phyre2 PDB 1ehs chain A Region: 1 - 11 Aligned: 11 Modelled: 11 Confidence: 5.6% Identity: 27% Fold: Toxic hairpin Superfamily: Heat-stable enterotoxin B Family: Heat-stable enterotoxin B Phyre2 PDB 1ufi chain D Region: 62 - 76 Aligned: 15 Modelled: 15 Confidence: 5.5% Identity: 40% PDB header:dna binding protein Chain: D: PDB Molecule:major centromere autoantigen b; PDBTitle: crystal structure of the dimerization domain of human cenp-b Phyre2 PDB 1ufi chain A Region: 62 - 76 Aligned: 15 Modelled: 15 Confidence: 5.2% Identity: 40% Fold: ROP-like Superfamily: Dimerisation domain of CENP-B Family: Dimerisation domain of CENP-B Phyre2 1 c1bhbA_ 2 c2kv5A_ 3 c2kncB_ 4 c2rmzA_ 5 c2k1aA_ 6 c2kncA_ 7 c3c1iA_ 8 d1h5oa_ 9 c2d46A_ 10 d1ehsa_ 11 c1ufiD_ 12 d1ufia_

Detailed template information

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

1 c1bhbA_ 18.9 37 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 2 c2kv5A_ 18.0 23 PDB header:toxin Chain: A: PDB Molecule:putative uncharacterized protein rnai; PDBTitle: solution structure of the par toxin fst in dpc micelles 3 c2kncB_ 14.3 17 PDB header:cell adhesion Chain: B: PDB Molecule:integrin beta-3; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex 4 c2rmzA_ 10.9 19 PDB header:cell adhesion Chain: A: PDB Molecule:integrin beta-3; PDBTitle: bicelle-embedded integrin beta3 transmembrane segment 5 c2k1aA_ 10.5 20 PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: bicelle-embedded integrin alpha(iib) transmembrane segment 6 c2kncA_ 10.1 20 PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex 7 c3c1iA_ 8.7 20 PDB header:transport protein Chain: A: PDB Molecule:ammonia channel; PDBTitle: substrate binding, deprotonation and selectivity at the2 periplasmic entrance of the e. coli ammonia channel amtb 8 d1h5oa_ 5.9 43 Fold:Defensin-like Superfamily:Defensin-like Family:Myotoxin 9 c2d46A_ 5.8 50 PDB header:metal transport Chain: A: PDB Molecule:calcium channel, voltage-dependent, beta 4 PDBTitle: solution structure of the human beta4a-a domain 10 d1ehsa_ 5.6 27 Fold:Toxic hairpin Superfamily:Heat-stable enterotoxin B Family:Heat-stable enterotoxin B 11 c1ufiD_ 5.5 40 PDB header:dna binding protein Chain: D: PDB Molecule:major centromere autoantigen b; PDBTitle: crystal structure of the dimerization domain of human cenp-b 12 d1ufia_ 5.2 40 Fold:ROP-like Superfamily:Dimerisation domain of CENP-B Family:Dimerisation domain of CENP-B

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