Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	E	L	L	T	Q	L	L	Q	A	L	W	A	Q	D	F	E	T	L	A	N	P	S	M	I	G	M	L	Y	F	V	L	F	V	I	L	F	L	E	N	G	L	L	P	A	A	F	L	P	G	D	S	L	L	V	L	V	G	V	L
Secondary structure
SS confidence
Disorder		?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		I	A	K	G	A	M	G	Y	P	Q	T	I	L	L	L	T	V	A	A	S	L	G	C	W	V	S	Y	I	Q	G	R	W	L	G	N	T	R	T	V	Q	N	W	L	S	H	L	P	A	H	Y	H	Q	R	A	H	H	L	F	H	K
Secondary structure
SS confidence
Disorder																																									?	?		?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		H	G	L	S	A	L	L	I	G	R	F	I	A	F	V	R	T	L	L	P	T	I	A	G	L	S	G	L	N	N	A	R	F	Q	F	F	N	W	M	S	G	L	L	W	V	L	I	L	T	T	L	G	Y	M	L	G	K	T	P	V
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220
Sequence		F	L	K	Y	E	D	Q	L	M	S	C	L	M	L	L	P	V	V	L	L	V	F	G	L	A	G	S	L	V	V	L	W	K	K	K	Y	G	N	R	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 2oso chain A domain 1 Region: 83 - 123 Aligned: 32 Modelled: 38 Confidence: 13.4% Identity: 19% Fold: Ligand-binding domain in the NO signalling and Golgi transport Superfamily: Ligand-binding domain in the NO signalling and Golgi transport Family: MJ1460-like Phyre2 PDB 2bbj chain B Region: 111 - 171 Aligned: 61 Modelled: 61 Confidence: 8.4% Identity: 13% PDB header:metal transport/membrane protein Chain: B: PDB Molecule:divalent cation transport-related protein; PDBTitle: crystal structure of the cora mg2+ transporter Phyre2 PDB 1fft chain B domain 2 Region: 176 - 219 Aligned: 44 Modelled: 44 Confidence: 7.5% Identity: 14% Fold: Transmembrane helix hairpin Superfamily: Cytochrome c oxidase subunit II-like, transmembrane region Family: Cytochrome c oxidase subunit II-like, transmembrane region Phyre2 PDB 2vv5 chain A domain 3 Region: 76 - 145 Aligned: 69 Modelled: 70 Confidence: 6.1% Identity: 19% Fold: Mechanosensitive channel protein MscS (YggB), transmembrane region Superfamily: Mechanosensitive channel protein MscS (YggB), transmembrane region Family: Mechanosensitive channel protein MscS (YggB), transmembrane region Phyre2 PDB 1iij chain A Region: 147 - 175 Aligned: 29 Modelled: 29 Confidence: 5.5% Identity: 14% PDB header:signaling protein Chain: A: PDB Molecule:erbb-2 receptor protein-tyrosine kinase; PDBTitle: solution structure of the neu/erbb-2 membrane spanning2 segment Phyre2 1 d2osoa1 2 c2bbjB_ 3 d1fftb2 4 d2vv5a3 5 c1iijA_

Detailed template information

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

1 d2osoa1 13.4 19 Fold:Ligand-binding domain in the NO signalling and Golgi transport Superfamily:Ligand-binding domain in the NO signalling and Golgi transport Family:MJ1460-like 2 c2bbjB_ 8.4 13 PDB header:metal transport/membrane protein Chain: B: PDB Molecule:divalent cation transport-related protein; PDBTitle: crystal structure of the cora mg2+ transporter 3 d1fftb2 7.5 14 Fold:Transmembrane helix hairpin Superfamily:Cytochrome c oxidase subunit II-like, transmembrane region Family:Cytochrome c oxidase subunit II-like, transmembrane region 4 d2vv5a3 6.1 19 Fold:Mechanosensitive channel protein MscS (YggB), transmembrane region Superfamily:Mechanosensitive channel protein MscS (YggB), transmembrane region Family:Mechanosensitive channel protein MscS (YggB), transmembrane region 5 c1iijA_ 5.5 14 PDB header:signaling protein Chain: A: PDB Molecule:erbb-2 receptor protein-tyrosine kinase; PDBTitle: solution structure of the neu/erbb-2 membrane spanning2 segment

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