Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	W	K	T	L	H	Q	L	A	I	P	P	R	L	Y	Q	I	C	G	W	F	I	P	W	L	A	I	A	S	V	V	V	L	T	V	G	W	I	W	G	F	G	F	A	P	A	D	Y	Q	Q	G	N	S	Y	R	I	I	Y	L	H
Secondary structure
SS confidence
Disorder		?	?																																												?		?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		V	P	A	A	I	W	S	M	G	I	Y	A	S	M	A	V	A	A	F	I	G	L	V	W	Q	M	K	M	A	N	L	A	V	A	A	M	A	P	I	G	A	V	F	T	F	I	A	L	V	T	G	S	A	W	G	K	P	M	W	G
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		T	W	W	V	W	D	A	R	L	T	S	E	L	V	L	L	F	L	Y	V	G	V	I	A	L	W	H	A	F	D	D	R	R	L	A	G	R	A	A	G	I	L	V	L	I	G	V	V	N	L	P	I	I	H	Y	S	V	E	W	W
Secondary structure
SS confidence
Disorder																															?		?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		N	T	L	H	Q	G	S	T	R	M	Q	Q	S	I	D	P	A	M	R	S	P	L	R	W	S	I	F	G	F	L	L	L	S	A	T	L	T	L	M	R	M	R	N	L	I	L	L	M	E	K	R	R	P	W	V	S	E	L	I	L
Secondary structure
SS confidence
Disorder						?	?	?	?	?	?	?	?																																				?	?	?
Disorder confidence
		.	.	.	.	.
Sequence		K	R	G	R	K
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 2oqm chain A domain 1 Region: 47 - 65 Aligned: 19 Modelled: 19 Confidence: 15.4% Identity: 16% Fold: DinB/YfiT-like putative metalloenzymes Superfamily: DinB/YfiT-like putative metalloenzymes Family: Sden0562-like Phyre2 PDB 1n7o chain A domain 1 Region: 116 - 137 Aligned: 22 Modelled: 22 Confidence: 13.0% Identity: 27% Fold: alpha/alpha toroid Superfamily: Chondroitin AC/alginate lyase Family: Hyaluronate lyase-like catalytic, N-terminal domain Phyre2 PDB 3qth chain A Region: 47 - 65 Aligned: 19 Modelled: 16 Confidence: 12.5% Identity: 11% PDB header:unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of a hypothetical dinb-like protein (cps_3021) from2 colwellia psychrerythraea 34h at 2.20 a resolution Phyre2 PDB 3mk7 chain K Region: 20 - 176 Aligned: 155 Modelled: 157 Confidence: 9.1% Identity: 15% PDB header:oxidoreductase Chain: K: PDB Molecule:cytochrome c oxidase, cbb3-type, subunit n; PDBTitle: the structure of cbb3 cytochrome oxidase Phyre2 PDB 1rwh chain A domain 1 Region: 116 - 137 Aligned: 22 Modelled: 22 Confidence: 7.5% Identity: 32% Fold: alpha/alpha toroid Superfamily: Chondroitin AC/alginate lyase Family: Hyaluronate lyase-like catalytic, N-terminal domain Phyre2 1 d2oqma1 2 d1n7oa1 3 c3qthA_ 4 c3mk7K_ 5 d1rwha1

Detailed template information

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

1 d2oqma1 15.4 16 Fold:DinB/YfiT-like putative metalloenzymes Superfamily:DinB/YfiT-like putative metalloenzymes Family:Sden0562-like 2 d1n7oa1 13.0 27 Fold:alpha/alpha toroid Superfamily:Chondroitin AC/alginate lyase Family:Hyaluronate lyase-like catalytic, N-terminal domain 3 c3qthA_ 12.5 11 PDB header:unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of a hypothetical dinb-like protein (cps_3021) from2 colwellia psychrerythraea 34h at 2.20 a resolution 4 c3mk7K_ 9.1 15 PDB header:oxidoreductase Chain: K: PDB Molecule:cytochrome c oxidase, cbb3-type, subunit n; PDBTitle: the structure of cbb3 cytochrome oxidase 5 d1rwha1 7.5 32 Fold:alpha/alpha toroid Superfamily:Chondroitin AC/alginate lyase Family:Hyaluronate lyase-like catalytic, N-terminal domain

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