Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	E	S	Y	S	Q	N	S	N	K	L	D	F	Q	H	E	A	R	I	L	N	G	I	W	L	I	T	A	L	G	L	V	A	T	A	G	L	A	W	G	A	K	Y	I	E	I	T	A	T	K	Y	D	S	P	P	M	Y	V	A	I
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		G	L	L	L	L	C	M	Y	G	L	S	K	D	I	N	K	I	N	A	A	I	A	G	V	I	Y	L	F	L	L	S	L	V	A	I	V	V	A	S	L	V	P	V	Y	A	I	I	I	V	F	S	T	A	G	A	M	F	L	I	S
Secondary structure
SS confidence
Disorder														?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		M	L	A	G	L	L	F	N	V	D	P	G	S	H	R	F	I	I	M	M	T	L	T	G	L	A	L	V	I	I	V	N	A	A	L	M	S	E	R	P	I	W	I	I	S	C	L	M	I	V	L	W	S	G	I	I	S	H	G	R
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.
Sequence		N	K	L	L	E	L	A	G	K	C	H	S	E	E	L	W	S	P	V	R	C	A	F	T	G	A	L	T	L	Y	Y	Y	F	I	G	F	F	G	I	L	A	A	I	A	I	T	L	V	W	Q	R	H	T	R	F	F	H
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 2h3o chain A Region: 115 - 130 Aligned: 16 Modelled: 16 Confidence: 15.0% Identity: 13% PDB header:membrane protein Chain: A: PDB Molecule:merf; PDBTitle: structure of merft, a membrane protein with two trans-2 membrane helices Phyre2 PDB 1waz chain A Region: 113 - 130 Aligned: 18 Modelled: 18 Confidence: 13.6% Identity: 17% PDB header:transport protein Chain: A: PDB Molecule:merf; PDBTitle: nmr structure determination of the bacterial mercury2 transporter, merf, in micelles Phyre2 PDB 2bbj chain B Region: 2 - 76 Aligned: 70 Modelled: 75 Confidence: 10.9% Identity: 7% 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 2r6g chain F domain 1 Region: 115 - 205 Aligned: 91 Modelled: 91 Confidence: 7.2% Identity: 8% Fold: MalF N-terminal region-like Superfamily: MalF N-terminal region-like Family: MalF N-terminal region-like Phyre2 PDB 3fbl chain A Region: 172 - 210 Aligned: 39 Modelled: 39 Confidence: 6.1% Identity: 13% PDB header:structural protein Chain: A: PDB Molecule:putative uncharacterized protein; PDBTitle: crystal structure of orf132 of the archaeal virus acidianus2 filamentous virus 1 (afv1) Phyre2 1 c2h3oA_ 2 c1wazA_ 3 c2bbjB_ 4 d2r6gf1 5 c3fblA_

Detailed template information

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

1 c2h3oA_ 15.0 13 PDB header:membrane protein Chain: A: PDB Molecule:merf; PDBTitle: structure of merft, a membrane protein with two trans-2 membrane helices 2 c1wazA_ 13.6 17 PDB header:transport protein Chain: A: PDB Molecule:merf; PDBTitle: nmr structure determination of the bacterial mercury2 transporter, merf, in micelles 3 c2bbjB_ 10.9 7 PDB header:metal transport/membrane protein Chain: B: PDB Molecule:divalent cation transport-related protein; PDBTitle: crystal structure of the cora mg2+ transporter 4 d2r6gf1 7.2 8 Fold:MalF N-terminal region-like Superfamily:MalF N-terminal region-like Family:MalF N-terminal region-like 5 c3fblA_ 6.1 13 PDB header:structural protein Chain: A: PDB Molecule:putative uncharacterized protein; PDBTitle: crystal structure of orf132 of the archaeal virus acidianus2 filamentous virus 1 (afv1)

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