Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	R	N	S	H	N	I	T	L	T	N	N	D	S	L	T	E	D	E	E	T	T	W	S	L	P	G	A	V	V	G	F	I	S	W	L	F	A	L	A	M	P	M	L	I	Y	G	S	N	T	L	F	F	F	I	Y	T	W	P	F
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?	?	?	?					?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.
Sequence		F	L	A	L	M	P	V	A	V	V	V	G	I	A	L	H	S	L	M	D	G	K	L	R	Y	S	I	V	F	T	L	V	T	V	G	I	M	F	G	A	L	F	M	W	L	L	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 2i68 chain B Region: 22 - 98 Aligned: 58 Modelled: 59 Confidence: 24.2% Identity: 19% 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 1xoo chain A Region: 24 - 33 Aligned: 10 Modelled: 10 Confidence: 11.9% Identity: 70% PDB header:viral protein Chain: A: PDB Molecule:hemagglutinin; PDBTitle: nmr structure of g1s mutant of influenza hemagglutinin2 fusion peptide in dpc micelles at ph 5 Phyre2 PDB 2y69 chain W Region: 72 - 102 Aligned: 31 Modelled: 31 Confidence: 10.5% Identity: 19% PDB header:electron transport Chain: W: PDB Molecule:cytochrome c oxidase polypeptide 7a1; PDBTitle: bovine heart cytochrome c oxidase re-refined with molecular2 oxygen Phyre2 PDB 1v54 chain J Region: 72 - 102 Aligned: 31 Modelled: 31 Confidence: 10.3% Identity: 19% Fold: Single transmembrane helix Superfamily: Mitochondrial cytochrome c oxidase subunit VIIa Family: Mitochondrial cytochrome c oxidase subunit VIIa Phyre2 PDB 1htj chain F Region: 11 - 57 Aligned: 41 Modelled: 47 Confidence: 10.2% Identity: 22% Fold: Regulator of G-protein signaling, RGS Superfamily: Regulator of G-protein signaling, RGS Family: Regulator of G-protein signaling, RGS Phyre2 PDB 1htj chain F Region: 11 - 57 Aligned: 41 Modelled: 47 Confidence: 10.2% Identity: 22% PDB header:signaling protein Chain: F: PDB Molecule:kiaa0380; PDBTitle: structure of the rgs-like domain from pdz-rhogef Phyre2 PDB 2kxa chain A Region: 27 - 33 Aligned: 7 Modelled: 7 Confidence: 7.5% Identity: 71% PDB header:viral protein, immune system Chain: A: PDB Molecule:haemagglutinin ha2 chain peptide; PDBTitle: the hemagglutinin fusion peptide (h1 subtype) at ph 7.4 Phyre2 PDB 1xop chain A Region: 27 - 33 Aligned: 7 Modelled: 7 Confidence: 6.7% Identity: 71% PDB header:viral protein Chain: A: PDB Molecule:hemagglutinin; PDBTitle: nmr structure of g1v mutant of influenza hemagglutinin2 fusion peptide in dpc micelles at ph 5 Phyre2 PDB 1ibo chain A Region: 27 - 33 Aligned: 7 Modelled: 7 Confidence: 6.7% Identity: 71% PDB header:viral protein Chain: A: PDB Molecule:hemagglutinin ha2 chain peptide; PDBTitle: nmr structure of hemagglutinin fusion peptide in dpc2 micelles at ph 7.4 Phyre2 PDB 1ibn chain A Region: 27 - 33 Aligned: 7 Modelled: 7 Confidence: 6.7% Identity: 71% PDB header:viral protein Chain: A: PDB Molecule:hemagglutinin ha2 chain peptide; PDBTitle: nmr structure of hemagglutinin fusion peptide in dpc2 micelles at ph 5 Phyre2 PDB 2kn8 chain A Region: 58 - 62 Aligned: 5 Modelled: 5 Confidence: 6.7% Identity: 60% PDB header:protein binding, dna binding protein Chain: A: PDB Molecule:dna cleavage and packaging protein large subunit, ul89; PDBTitle: nmr structure of the c-terminal domain of pul89 Phyre2 PDB 2l4g chain A Region: 25 - 33 Aligned: 9 Modelled: 9 Confidence: 6.5% Identity: 67% PDB header:viral protein Chain: A: PDB Molecule:haemagglutinin; PDBTitle: influenza haemagglutinin fusion peptide mutant g13a Phyre2 PDB 2dci chain A Region: 25 - 33 Aligned: 9 Modelled: 9 Confidence: 6.2% Identity: 67% PDB header:viral protein Chain: A: PDB Molecule:hemagglutinin; PDBTitle: nmr structure of influenza ha fusion peptide mutant w14a in2 dpc in ph5 Phyre2 PDB 3a0h chain X Region: 60 - 78 Aligned: 19 Modelled: 19 Confidence: 5.1% Identity: 42% PDB header:electron transport Chain: X: PDB Molecule:photosystem ii reaction center protein x; PDBTitle: crystal structure of i-substituted photosystem ii complex Phyre2 PDB 3a0b chain X Region: 60 - 78 Aligned: 19 Modelled: 19 Confidence: 5.1% Identity: 42% PDB header:electron transport Chain: X: PDB Molecule:photosystem ii reaction center protein x; PDBTitle: crystal structure of br-substituted photosystem ii complex Phyre2 PDB 3a0b chain X Region: 60 - 78 Aligned: 19 Modelled: 19 Confidence: 5.1% Identity: 42% PDB header:electron transport Chain: X: PDB Molecule:photosystem ii reaction center protein x; PDBTitle: crystal structure of br-substituted photosystem ii complex Phyre2 1 c2i68B_ 2 c1xooA_ 3 c2y69W_ 4 d1v54j_ 5 d1htjf_ 6 c1htjF_ 7 c2kxaA_ 8 c1xopA_ 9 c1iboA_ 10 c1ibnA_ 11 c2kn8A_ 12 c2l4gA_ 13 c2dciA_ 14 c3a0hx_ 15 c3a0bX_ 16 c3a0bx_

Detailed template information

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

1 c2i68B_ 24.2 19 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 2 c1xooA_ 11.9 70 PDB header:viral protein Chain: A: PDB Molecule:hemagglutinin; PDBTitle: nmr structure of g1s mutant of influenza hemagglutinin2 fusion peptide in dpc micelles at ph 5 3 c2y69W_ 10.5 19 PDB header:electron transport Chain: W: PDB Molecule:cytochrome c oxidase polypeptide 7a1; PDBTitle: bovine heart cytochrome c oxidase re-refined with molecular2 oxygen 4 d1v54j_ 10.3 19 Fold:Single transmembrane helix Superfamily:Mitochondrial cytochrome c oxidase subunit VIIa Family:Mitochondrial cytochrome c oxidase subunit VIIa 5 d1htjf_ 10.2 22 Fold:Regulator of G-protein signaling, RGS Superfamily:Regulator of G-protein signaling, RGS Family:Regulator of G-protein signaling, RGS 6 c1htjF_ 10.2 22 PDB header:signaling protein Chain: F: PDB Molecule:kiaa0380; PDBTitle: structure of the rgs-like domain from pdz-rhogef 7 c2kxaA_ 7.5 71 PDB header:viral protein, immune system Chain: A: PDB Molecule:haemagglutinin ha2 chain peptide; PDBTitle: the hemagglutinin fusion peptide (h1 subtype) at ph 7.4 8 c1xopA_ 6.7 71 PDB header:viral protein Chain: A: PDB Molecule:hemagglutinin; PDBTitle: nmr structure of g1v mutant of influenza hemagglutinin2 fusion peptide in dpc micelles at ph 5 9 c1iboA_ 6.7 71 PDB header:viral protein Chain: A: PDB Molecule:hemagglutinin ha2 chain peptide; PDBTitle: nmr structure of hemagglutinin fusion peptide in dpc2 micelles at ph 7.4 10 c1ibnA_ 6.7 71 PDB header:viral protein Chain: A: PDB Molecule:hemagglutinin ha2 chain peptide; PDBTitle: nmr structure of hemagglutinin fusion peptide in dpc2 micelles at ph 5 11 c2kn8A_ 6.7 60 PDB header:protein binding, dna binding protein Chain: A: PDB Molecule:dna cleavage and packaging protein large subunit, ul89; PDBTitle: nmr structure of the c-terminal domain of pul89 12 c2l4gA_ 6.5 67 PDB header:viral protein Chain: A: PDB Molecule:haemagglutinin; PDBTitle: influenza haemagglutinin fusion peptide mutant g13a 13 c2dciA_ 6.2 67 PDB header:viral protein Chain: A: PDB Molecule:hemagglutinin; PDBTitle: nmr structure of influenza ha fusion peptide mutant w14a in2 dpc in ph5 14 c3a0hx_ 5.1 42 PDB header:electron transport Chain: X: PDB Molecule:photosystem ii reaction center protein x; PDBTitle: crystal structure of i-substituted photosystem ii complex 15 c3a0bX_ 5.1 42 PDB header:electron transport Chain: X: PDB Molecule:photosystem ii reaction center protein x; PDBTitle: crystal structure of br-substituted photosystem ii complex 16 c3a0bx_ 5.1 42 PDB header:electron transport Chain: X: PDB Molecule:photosystem ii reaction center protein x; PDBTitle: crystal structure of br-substituted photosystem ii 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