Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	M	A	N	I	W	W	S	L	P	L	T	L	I	V	F	F	A	A	R	K	L	A	A	R	Y	K	F	P	L	L	N	P	L	L	V	A	M	V	V	I	I	P	F	L	M	L	T	G	I	S	Y	D	S	Y	F	K	G	S	E
Secondary structure
SS confidence
Disorder		?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		V	L	N	D	L	L	Q	P	A	V	V	A	L	A	Y	P	L	Y	E	Q	L	H	Q	I	R	A	R	W	K	S	I	I	T	I	C	F	I	G	S	V	V	A	M	V	T	G	T	S	V	A	L	L	M	G	A	S	P	E	I	A
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		A	S	I	L	P	K	S	V	T	T	P	I	A	M	A	V	G	G	S	I	G	G	I	P	A	I	S	A	V	C	V	I	F	V	G	I	L	G	A	V	F	G	H	T	L	L	N	A	M	R	I	R	T	K	A	A	R	G	L	A
Secondary structure
SS confidence
Disorder																					?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.
Sequence		M	G	T	A	S	H	A	L	G	T	A	R	C	A	E	L	D	Y	Q	E	G	A	F	S	S	L	A	L	V	L	C	G	I	I	T	S	L	I	A	P	F	L	F	P	I	I	L	A	V	M	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 2yvx chain D Region: 25 - 190 Aligned: 143 Modelled: 144 Confidence: 89.6% Identity: 17% PDB header:transport protein Chain: D: PDB Molecule:mg2+ transporter mgte; PDBTitle: crystal structure of magnesium transporter mgte Phyre2 PDB 2yvx chain A domain 3 Region: 25 - 190 Aligned: 143 Modelled: 144 Confidence: 44.9% Identity: 17% Fold: MgtE membrane domain-like Superfamily: MgtE membrane domain-like Family: MgtE membrane domain-like Phyre2 PDB 1l7v chain A Region: 20 - 200 Aligned: 162 Modelled: 162 Confidence: 16.2% Identity: 16% Fold: ABC transporter involved in vitamin B12 uptake, BtuC Superfamily: ABC transporter involved in vitamin B12 uptake, BtuC Family: ABC transporter involved in vitamin B12 uptake, BtuC Phyre2 PDB 1z0k chain B domain 1 Region: 76 - 89 Aligned: 14 Modelled: 14 Confidence: 13.7% Identity: 36% Fold: Long alpha-hairpin Superfamily: Rabenosyn-5 Rab-binding domain-like Family: Rabenosyn-5 Rab-binding domain-like Phyre2 PDB 3zv0 chain A Region: 72 - 113 Aligned: 42 Modelled: 42 Confidence: 13.3% Identity: 19% PDB header:cell cycle Chain: A: PDB Molecule:protein shq1; PDBTitle: structure of the shq1p-cbf5p complex Phyre2 PDB 3rfu chain C Region: 23 - 108 Aligned: 86 Modelled: 86 Confidence: 13.1% Identity: 17% PDB header:hydrolase, membrane protein Chain: C: PDB Molecule:copper efflux atpase; PDBTitle: crystal structure of a copper-transporting pib-type atpase Phyre2 PDB 1yzm chain A domain 1 Region: 76 - 89 Aligned: 14 Modelled: 14 Confidence: 12.8% Identity: 36% Fold: Long alpha-hairpin Superfamily: Rabenosyn-5 Rab-binding domain-like Family: Rabenosyn-5 Rab-binding domain-like Phyre2 PDB 1ckx chain A Region: 46 - 56 Aligned: 11 Modelled: 11 Confidence: 11.8% Identity: 45% PDB header:metal transport Chain: A: PDB Molecule:cystic fibrosis transmembrane conductance PDBTitle: cystic fibrosis transmembrane conductance regulator:2 solution structures of peptides based on the phe508 region,3 the most common site of disease-causing delta-f508 mutation Phyre2 PDB 1cii chain A Region: 122 - 167 Aligned: 46 Modelled: 46 Confidence: 9.6% Identity: 15% PDB header:transmembrane protein Chain: A: PDB Molecule:colicin ia; PDBTitle: colicin ia Phyre2 PDB 2ks1 chain B Region: 58 - 84 Aligned: 27 Modelled: 27 Confidence: 8.6% Identity: 30% PDB header:transferase Chain: B: PDB Molecule:epidermal growth factor receptor; PDBTitle: heterodimeric association of transmembrane domains of erbb1 and erbb22 receptors enabling kinase activation Phyre2 PDB 3p5n chain A Region: 5 - 87 Aligned: 83 Modelled: 83 Confidence: 8.1% Identity: 14% PDB header:transport protein Chain: A: PDB Molecule:riboflavin uptake protein; PDBTitle: structure and mechanism of the s component of a bacterial ecf2 transporter Phyre2 PDB 2akz chain A domain 2 Region: 72 - 87 Aligned: 16 Modelled: 16 Confidence: 8.0% Identity: 25% Fold: Enolase N-terminal domain-like Superfamily: Enolase N-terminal domain-like Family: Enolase N-terminal domain-like Phyre2 PDB 1ckw chain A Region: 47 - 56 Aligned: 10 Modelled: 10 Confidence: 7.2% Identity: 50% PDB header:metal transport Chain: A: PDB Molecule:protein (cystic fibrosis transmembrane PDBTitle: cystic fibrosis transmembrane conductance regulator:2 solution structures of peptides based on the phe508 region,3 the most common site of disease-causing delta-f508 mutation Phyre2 PDB 1uny chain A Region: 161 - 178 Aligned: 18 Modelled: 18 Confidence: 6.6% Identity: 28% PDB header:four helix bundle Chain: A: PDB Molecule:general control protein gcn4; PDBTitle: structure based engineering of internal molecular surfaces2 of four helix bundles Phyre2 PDB 2ju0 chain B Region: 15 - 33 Aligned: 19 Modelled: 19 Confidence: 5.3% Identity: 26% 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 1 c2yvxD_ 2 d2yvxa3 3 d1l7va_ 4 d1z0kb1 5 c3zv0A_ 6 c3rfuC_ 7 d1yzma1 8 c1ckxA_ 9 c1ciiA_ 10 c2ks1B_ 11 c3p5nA_ 12 d2akza2 13 c1ckwA_ 14 c1unyA_ 15 c2ju0B_

Detailed template information

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

1 c2yvxD_ 89.6 17 PDB header:transport protein Chain: D: PDB Molecule:mg2+ transporter mgte; PDBTitle: crystal structure of magnesium transporter mgte 2 d2yvxa3 44.9 17 Fold:MgtE membrane domain-like Superfamily:MgtE membrane domain-like Family:MgtE membrane domain-like 3 d1l7va_ 16.2 16 Fold:ABC transporter involved in vitamin B12 uptake, BtuC Superfamily:ABC transporter involved in vitamin B12 uptake, BtuC Family:ABC transporter involved in vitamin B12 uptake, BtuC 4 d1z0kb1 13.7 36 Fold:Long alpha-hairpin Superfamily:Rabenosyn-5 Rab-binding domain-like Family:Rabenosyn-5 Rab-binding domain-like 5 c3zv0A_ 13.3 19 PDB header:cell cycle Chain: A: PDB Molecule:protein shq1; PDBTitle: structure of the shq1p-cbf5p complex 6 c3rfuC_ 13.1 17 PDB header:hydrolase, membrane protein Chain: C: PDB Molecule:copper efflux atpase; PDBTitle: crystal structure of a copper-transporting pib-type atpase 7 d1yzma1 12.8 36 Fold:Long alpha-hairpin Superfamily:Rabenosyn-5 Rab-binding domain-like Family:Rabenosyn-5 Rab-binding domain-like 8 c1ckxA_ 11.8 45 PDB header:metal transport Chain: A: PDB Molecule:cystic fibrosis transmembrane conductance PDBTitle: cystic fibrosis transmembrane conductance regulator:2 solution structures of peptides based on the phe508 region,3 the most common site of disease-causing delta-f508 mutation 9 c1ciiA_ 9.6 15 PDB header:transmembrane protein Chain: A: PDB Molecule:colicin ia; PDBTitle: colicin ia 10 c2ks1B_ 8.6 30 PDB header:transferase Chain: B: PDB Molecule:epidermal growth factor receptor; PDBTitle: heterodimeric association of transmembrane domains of erbb1 and erbb22 receptors enabling kinase activation 11 c3p5nA_ 8.1 14 PDB header:transport protein Chain: A: PDB Molecule:riboflavin uptake protein; PDBTitle: structure and mechanism of the s component of a bacterial ecf2 transporter 12 d2akza2 8.0 25 Fold:Enolase N-terminal domain-like Superfamily:Enolase N-terminal domain-like Family:Enolase N-terminal domain-like 13 c1ckwA_ 7.2 50 PDB header:metal transport Chain: A: PDB Molecule:protein (cystic fibrosis transmembrane PDBTitle: cystic fibrosis transmembrane conductance regulator:2 solution structures of peptides based on the phe508 region,3 the most common site of disease-causing delta-f508 mutation 14 c1unyA_ 6.6 28 PDB header:four helix bundle Chain: A: PDB Molecule:general control protein gcn4; PDBTitle: structure based engineering of internal molecular surfaces2 of four helix bundles 15 c2ju0B_ 5.3 26 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

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