Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	K	K	W	L	V	T	I	A	A	L	W	L	A	G	C	S	S	G	E	I	N	K	N	Y	Y	Q	L	P	V	V	Q	S	G	T	Q	S	T	A	S	Q	G	N	R	L	L	W	V	E	Q	V	T	V	P	D	Y	L	A	G	N
Secondary structure
SS confidence
Disorder		?	?														?	?												?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?					?				?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		G	V	V	Y	Q	T	S	D	V	K	Y	V	I	A	N	N	N	L	W	A	S	P	L	D	Q	Q	L	R	N	T	L	V	A	N	L	S	T	Q	L	P	G	W	V	V	A	S	Q	P	L	G	S	A	Q	D	T	L	N	V	T	V
Secondary structure
SS confidence
Disorder																	?	?	?	?																			?	?		?	?			?	?					?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		T	E	F	N	G	R	Y	D	G	K	V	I	V	S	G	E	W	L	L	N	H	Q	G	Q	L	I	K	R	P	F	R	L	E	G	V	Q	T	Q	D	G	Y	D	E	M	V	K	V	L	A	G	V	W	S	Q	E	A	A	S	I	A
Secondary structure
SS confidence
Disorder																					?	?	?	?	?				?							?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.
Sequence		Q	E	I	K	R	L	P
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 2iqi chain A domain 1 Region: 24 - 185 Aligned: 157 Modelled: 162 Confidence: 100.0% Identity: 15% Fold: Anticodon-binding domain-like Superfamily: XCC0632-like Family: XCC0632-like Phyre2 PDB 2hqs chain A domain 2 Region: 80 - 187 Aligned: 94 Modelled: 108 Confidence: 41.6% Identity: 13% Fold: Anticodon-binding domain-like Superfamily: TolB, N-terminal domain Family: TolB, N-terminal domain Phyre2 PDB 2ijr chain A domain 1 Region: 11 - 26 Aligned: 16 Modelled: 15 Confidence: 23.1% Identity: 38% Fold: Api92-like Superfamily: Api92-like Family: Api92-like Phyre2 PDB 3ls1 chain A Region: 13 - 25 Aligned: 13 Modelled: 13 Confidence: 17.9% Identity: 54% PDB header:photosynthesis Chain: A: PDB Molecule:sll1638 protein; PDBTitle: crystal structure of cyanobacterial psbq from synechocystis2 sp. pcc 6803 complexed with zn2+ Phyre2 PDB 2jxp chain A Region: 87 - 183 Aligned: 95 Modelled: 97 Confidence: 14.2% Identity: 18% PDB header:lipoprotein Chain: A: PDB Molecule:putative lipoprotein b; PDBTitle: solution nmr structure of uncharacterized lipoprotein b2 from nitrosomonas europaea. northeast structural genomics3 target ner45a Phyre2 1 d2iqia1 2 d2hqsa2 3 d2ijra1 4 c3ls1A_ 5 c2jxpA_

Detailed template information

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

1 d2iqia1 100.0 15 Fold:Anticodon-binding domain-like Superfamily:XCC0632-like Family:XCC0632-like 2 d2hqsa2 41.6 13 Fold:Anticodon-binding domain-like Superfamily:TolB, N-terminal domain Family:TolB, N-terminal domain 3 d2ijra1 23.1 38 Fold:Api92-like Superfamily:Api92-like Family:Api92-like 4 c3ls1A_ 17.9 54 PDB header:photosynthesis Chain: A: PDB Molecule:sll1638 protein; PDBTitle: crystal structure of cyanobacterial psbq from synechocystis2 sp. pcc 6803 complexed with zn2+ 5 c2jxpA_ 14.2 18 PDB header:lipoprotein Chain: A: PDB Molecule:putative lipoprotein b; PDBTitle: solution nmr structure of uncharacterized lipoprotein b2 from nitrosomonas europaea. northeast structural genomics3 target ner45a

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