Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	K	R	F	P	L	F	L	L	F	T	L	L	T	L	S	T	V	P	A	Q	A	D	I	I	D	D	T	I	G	N	I	Q	Q	A	I	N	D	A	Y	N	P	D	R	G	R	D	Y	E	D	S	R	D	D	G	W	Q	R	E	V
Secondary structure
SS confidence
Disorder		?	?	?	?												?	?	?	?	?	?															?	?	?	?	?	?	?	?	?	?	?	?	?												?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.
Sequence		S	D	D	R	R	R	Q	Y	D	D	R	R	R	Q	F	E	D	R	R	R	Q	L	D	D	R	Q	R	Q	L	D	Q	E	R	R	Q	L	E	D	E	E	R	R	M	E	D	E	Y	G	R
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 3u59 chain C Region: 20 - 105 Aligned: 82 Modelled: 86 Confidence: 68.4% Identity: 12% PDB header:contractile protein Chain: C: PDB Molecule:tropomyosin beta chain; PDBTitle: n-terminal 98-aa fragment of smooth muscle tropomyosin beta Phyre2 PDB 2gl2 chain B Region: 16 - 104 Aligned: 85 Modelled: 89 Confidence: 45.2% Identity: 12% PDB header:cell adhesion Chain: B: PDB Molecule:adhesion a; PDBTitle: crystal structure of the tetra muntant (t66g,r67g,f68g,2 y69g) of bacterial adhesin fada Phyre2 PDB 4a55 chain B Region: 44 - 105 Aligned: 60 Modelled: 62 Confidence: 34.6% Identity: 12% PDB header:transferase Chain: B: PDB Molecule:phosphatidylinositol 3-kinase regulatory subunit alpha; PDBTitle: crystal structure of p110alpha in complex with ish2 of p85alpha and2 the inhibitor pik-108 Phyre2 PDB 2ch7 chain A Region: 11 - 109 Aligned: 97 Modelled: 99 Confidence: 29.1% Identity: 6% PDB header:chemotaxis Chain: A: PDB Molecule:methyl-accepting chemotaxis protein; PDBTitle: crystal structure of the cytoplasmic domain of a bacterial2 chemoreceptor from thermotoga maritima Phyre2 PDB 1vp7 chain A Region: 59 - 104 Aligned: 46 Modelled: 46 Confidence: 24.0% Identity: 7% Fold: Spectrin repeat-like Superfamily: XseB-like Family: XseB-like Phyre2 PDB 2e7s chain M Region: 46 - 105 Aligned: 58 Modelled: 60 Confidence: 16.0% Identity: 12% PDB header:endocytosis/exocytosis Chain: M: PDB Molecule:rab guanine nucleotide exchange factor sec2; PDBTitle: crystal structure of the yeast sec2p gef domain Phyre2 PDB 3hnw chain B Region: 13 - 105 Aligned: 81 Modelled: 93 Confidence: 15.0% Identity: 11% 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 1vp7 chain B Region: 59 - 104 Aligned: 46 Modelled: 46 Confidence: 11.7% Identity: 7% Fold: Spectrin repeat-like Superfamily: XseB-like Family: XseB-like Phyre2 PDB 1ujw chain B Region: 58 - 103 Aligned: 46 Modelled: 46 Confidence: 8.4% Identity: 13% PDB header:transport protein/hydrolase Chain: B: PDB Molecule:colicin e3; PDBTitle: structure of the complex between btub and colicin e3 receptor binding2 domain Phyre2 PDB 2nps chain C Region: 22 - 84 Aligned: 59 Modelled: 63 Confidence: 7.7% Identity: 12% PDB header:transport protein Chain: C: PDB Molecule:vesicle transport through interaction with t- PDBTitle: crystal structure of the early endosomal snare complex Phyre2 PDB 3ajw chain A Region: 58 - 109 Aligned: 52 Modelled: 52 Confidence: 7.7% Identity: 17% PDB header:protein transport Chain: A: PDB Molecule:flagellar flij protein; PDBTitle: structure of flij, a soluble component of flagellar type iii export2 apparatus Phyre2 PDB 2voy chain K Region: 1 - 11 Aligned: 11 Modelled: 11 Confidence: 7.7% Identity: 36% PDB header:hydrolase Chain: K: PDB Molecule:sarcoplasmic/endoplasmic reticulum calcium PDBTitle: cryoem model of copa, the copper transporting atpase from2 archaeoglobus fulgidus Phyre2 PDB 3ol1 chain A Region: 23 - 104 Aligned: 78 Modelled: 82 Confidence: 6.3% Identity: 19% PDB header:structural protein Chain: A: PDB Molecule:vimentin; PDBTitle: crystal structure of vimentin (fragment 144-251) from homo sapiens,2 northeast structural genomics consortium target hr4796b Phyre2 PDB 1gl2 chain C Region: 22 - 83 Aligned: 58 Modelled: 62 Confidence: 6.0% Identity: 10% PDB header:membrane protein Chain: C: PDB Molecule:vesicle transport v-snare protein vti1-like 1; PDBTitle: crystal structure of an endosomal snare core complex Phyre2 1 c3u59C_ 2 c2gl2B_ 3 c4a55B_ 4 c2ch7A_ 5 d1vp7a_ 6 c2e7sM_ 7 c3hnwB_ 8 d1vp7b_ 9 c1ujwB_ 10 c2npsC_ 11 c3ajwA_ 12 c2voyK_ 13 c3ol1A_ 14 c1gl2C_

Detailed template information

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

1 c3u59C_ 68.4 12 PDB header:contractile protein Chain: C: PDB Molecule:tropomyosin beta chain; PDBTitle: n-terminal 98-aa fragment of smooth muscle tropomyosin beta 2 c2gl2B_ 45.2 12 PDB header:cell adhesion Chain: B: PDB Molecule:adhesion a; PDBTitle: crystal structure of the tetra muntant (t66g,r67g,f68g,2 y69g) of bacterial adhesin fada 3 c4a55B_ 34.6 12 PDB header:transferase Chain: B: PDB Molecule:phosphatidylinositol 3-kinase regulatory subunit alpha; PDBTitle: crystal structure of p110alpha in complex with ish2 of p85alpha and2 the inhibitor pik-108 4 c2ch7A_ 29.1 6 PDB header:chemotaxis Chain: A: PDB Molecule:methyl-accepting chemotaxis protein; PDBTitle: crystal structure of the cytoplasmic domain of a bacterial2 chemoreceptor from thermotoga maritima 5 d1vp7a_ 24.0 7 Fold:Spectrin repeat-like Superfamily:XseB-like Family:XseB-like 6 c2e7sM_ 16.0 12 PDB header:endocytosis/exocytosis Chain: M: PDB Molecule:rab guanine nucleotide exchange factor sec2; PDBTitle: crystal structure of the yeast sec2p gef domain 7 c3hnwB_ 15.0 11 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 8 d1vp7b_ 11.7 7 Fold:Spectrin repeat-like Superfamily:XseB-like Family:XseB-like 9 c1ujwB_ 8.4 13 PDB header:transport protein/hydrolase Chain: B: PDB Molecule:colicin e3; PDBTitle: structure of the complex between btub and colicin e3 receptor binding2 domain 10 c2npsC_ 7.7 12 PDB header:transport protein Chain: C: PDB Molecule:vesicle transport through interaction with t- PDBTitle: crystal structure of the early endosomal snare complex 11 c3ajwA_ 7.7 17 PDB header:protein transport Chain: A: PDB Molecule:flagellar flij protein; PDBTitle: structure of flij, a soluble component of flagellar type iii export2 apparatus 12 c2voyK_ 7.7 36 PDB header:hydrolase Chain: K: PDB Molecule:sarcoplasmic/endoplasmic reticulum calcium PDBTitle: cryoem model of copa, the copper transporting atpase from2 archaeoglobus fulgidus 13 c3ol1A_ 6.3 19 PDB header:structural protein Chain: A: PDB Molecule:vimentin; PDBTitle: crystal structure of vimentin (fragment 144-251) from homo sapiens,2 northeast structural genomics consortium target hr4796b 14 c1gl2C_ 6.0 10 PDB header:membrane protein Chain: C: PDB Molecule:vesicle transport v-snare protein vti1-like 1; PDBTitle: crystal structure of an endosomal snare core complex

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