Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	S	E	D	Y	L	K	M	F	T	G	V	V	L	L	I	F	V	I	I	A	G	Y	F	F	S	E	R	N	D	R	K	M	F	L	L	S	S	L	V	F	L	V	V	N	I	A	C	L	Y	V	L	T	A	S	L	W	F	L	C
Secondary structure
SS confidence
Disorder		?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.
Sequence		G	A	I	M	S	Q	G	A	A	L	V	V	S	I	V	A	A	A	L	P	D	V	T	S	F	D	R	F	R	R	I	F	I	C	I	M	L	S	S	V	W	S	G	V	M	W	F	F	I	R	G	L	M	T	G
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 2jxf chain A Region: 97 - 112 Aligned: 16 Modelled: 16 Confidence: 29.9% Identity: 44% PDB header:viral protein, membrane protein Chain: A: PDB Molecule:genome polyprotein; PDBTitle: the solution structure of hcv ns4b(40-69) Phyre2 PDB 2jb0 chain B domain 1 Region: 83 - 92 Aligned: 10 Modelled: 10 Confidence: 16.5% Identity: 60% Fold: His-Me finger endonucleases Superfamily: His-Me finger endonucleases Family: HNH-motif Phyre2 PDB 7cei chain B Region: 83 - 92 Aligned: 10 Modelled: 10 Confidence: 15.5% Identity: 60% PDB header:immune system Chain: B: PDB Molecule:protein (colicin e7 immunity protein); PDBTitle: the endonuclease domain of colicin e7 in complex with its inhibitor2 im7 protein Phyre2 PDB 2gyk chain B domain 1 Region: 83 - 92 Aligned: 10 Modelled: 10 Confidence: 11.2% Identity: 50% Fold: His-Me finger endonucleases Superfamily: His-Me finger endonucleases Family: HNH-motif Phyre2 PDB 1ukf chain A Region: 93 - 101 Aligned: 9 Modelled: 9 Confidence: 7.8% Identity: 56% Fold: Cysteine proteinases Superfamily: Cysteine proteinases Family: Avirulence protein Avrpph3 Phyre2 PDB 1s4n chain A Region: 67 - 89 Aligned: 23 Modelled: 23 Confidence: 7.7% Identity: 35% Fold: Nucleotide-diphospho-sugar transferases Superfamily: Nucleotide-diphospho-sugar transferases Family: Glycolipid 2-alpha-mannosyltransferase Phyre2 PDB 2i68 chain B Region: 99 - 104 Aligned: 6 Modelled: 6 Confidence: 6.1% Identity: 67% PDB header:transport protein Chain: B: PDB Molecule:protein emre; PDBTitle: cryo-em based theoretical model structure of transmembrane2 domain of the multidrug-resistance antiporter from e. coli3 emre Phyre2 PDB 2ju0 chain B Region: 57 - 68 Aligned: 12 Modelled: 12 Confidence: 6.1% Identity: 42% PDB header:metal binding protein/signaling protein Chain: B: PDB Molecule:phosphatidylinositol 4-kinase pik1; PDBTitle: structure of yeast frequenin bound to pdtins 4-kinase Phyre2 PDB 2hac chain A Region: 49 - 64 Aligned: 16 Modelled: 16 Confidence: 5.7% Identity: 31% PDB header:membrane protein Chain: A: PDB Molecule:t-cell surface glycoprotein cd3 zeta chain; PDBTitle: structure of zeta-zeta transmembrane dimer Phyre2 1 c2jxfA_ 2 d2jb0b1 3 c7ceiB_ 4 d2gykb1 5 d1ukfa_ 6 d1s4na_ 7 c2i68B_ 8 c2ju0B_ 9 c2hacA_

Detailed template information

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

1 c2jxfA_ 29.9 44 PDB header:viral protein, membrane protein Chain: A: PDB Molecule:genome polyprotein; PDBTitle: the solution structure of hcv ns4b(40-69) 2 d2jb0b1 16.5 60 Fold:His-Me finger endonucleases Superfamily:His-Me finger endonucleases Family:HNH-motif 3 c7ceiB_ 15.5 60 PDB header:immune system Chain: B: PDB Molecule:protein (colicin e7 immunity protein); PDBTitle: the endonuclease domain of colicin e7 in complex with its inhibitor2 im7 protein 4 d2gykb1 11.2 50 Fold:His-Me finger endonucleases Superfamily:His-Me finger endonucleases Family:HNH-motif 5 d1ukfa_ 7.8 56 Fold:Cysteine proteinases Superfamily:Cysteine proteinases Family:Avirulence protein Avrpph3 6 d1s4na_ 7.7 35 Fold:Nucleotide-diphospho-sugar transferases Superfamily:Nucleotide-diphospho-sugar transferases Family:Glycolipid 2-alpha-mannosyltransferase 7 c2i68B_ 6.1 67 PDB header:transport protein Chain: B: PDB Molecule:protein emre; PDBTitle: cryo-em based theoretical model structure of transmembrane2 domain of the multidrug-resistance antiporter from e. coli3 emre 8 c2ju0B_ 6.1 42 PDB header:metal binding protein/signaling protein Chain: B: PDB Molecule:phosphatidylinositol 4-kinase pik1; PDBTitle: structure of yeast frequenin bound to pdtins 4-kinase 9 c2hacA_ 5.7 31 PDB header:membrane protein Chain: A: PDB Molecule:t-cell surface glycoprotein cd3 zeta chain; PDBTitle: structure of zeta-zeta transmembrane dimer

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