Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	K	K	S	L	L	G	L	T	F	A	S	L	M	F	S	A	G	S	A	V	A	A	D	Y	K	I	D	K	E	G	Q	H	A	F	V	N	F	R	I	Q	H	L	G	Y	S	W	L	Y	G	T	F	K	D	F	D	G	T	F	T
Secondary structure
SS confidence
Disorder		?	?	?													?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		F	D	E	K	N	P	A	A	D	K	V	N	V	T	I	N	T	T	S	V	D	T	N	H	A	E	R	D	K	H	L	R	S	A	D	F	L	N	T	A	K	Y	P	Q	A	T	F	T	S	T	S	V	K	K	D	G	D	E	L	D
Secondary structure
SS confidence
Disorder							?	?	?	?																						?																								?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		I	T	G	D	L	T	L	N	G	V	T	K	P	V	T	L	E	A	K	L	I	G	Q	G	D	D	P	W	G	G	K	R	A	G	F	E	A	E	G	K	I	K	L	K	D	F	N	I	K	T	D	L	G	P	A	S	Q	E	V	D
Secondary structure
SS confidence
Disorder																										?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.
Sequence		L	I	I	S	V	E	G	V	Q	Q	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 1y0g chain A Region: 23 - 191 Aligned: 169 Modelled: 169 Confidence: 100.0% Identity: 100% Fold: Streptavidin-like Superfamily: YceI-like Family: YceI-like Phyre2 PDB 2fgs chain A Region: 24 - 191 Aligned: 166 Modelled: 168 Confidence: 100.0% Identity: 37% PDB header:lipid binding protein Chain: A: PDB Molecule:putative periplasmic protein; PDBTitle: crystal structure of campylobacter jejuni ycei protein,2 structural genomics Phyre2 PDB 1wub chain A Region: 24 - 190 Aligned: 164 Modelled: 167 Confidence: 100.0% Identity: 35% Fold: Streptavidin-like Superfamily: YceI-like Family: YceI-like Phyre2 PDB 3hpe chain B Region: 23 - 188 Aligned: 160 Modelled: 166 Confidence: 100.0% Identity: 36% PDB header:transport protein Chain: B: PDB Molecule:conserved hypothetical secreted protein; PDBTitle: crystal structure of ycei (hp1286) from helicobacter pylori Phyre2 PDB 3q34 chain A Region: 23 - 191 Aligned: 157 Modelled: 169 Confidence: 100.0% Identity: 17% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:ycei-like family protein; PDBTitle: the crystal structure of ycei-like family protein from pseudomonas2 syringae Phyre2 PDB 2x34 chain A Region: 24 - 190 Aligned: 155 Modelled: 167 Confidence: 100.0% Identity: 21% PDB header:carbohydrate-binding protein Chain: A: PDB Molecule:cellulose-binding protein, x158; PDBTitle: structure of a polyisoprenoid binding domain from2 saccharophagus degradans implicated in plant cell wall3 breakdown Phyre2 PDB 3uc0 chain B Region: 99 - 167 Aligned: 54 Modelled: 69 Confidence: 29.3% Identity: 20% PDB header:viral protein/immune system Chain: B: PDB Molecule:envelope protein; PDBTitle: crystal structure of domain i of the envelope glycoprotein ectodomain2 from dengue virus serotype 4 in complex with the fab fragment of the3 chimpanzee monoclonal antibody 5h2 Phyre2 PDB 2ich chain A domain 1 Region: 119 - 135 Aligned: 17 Modelled: 17 Confidence: 9.6% Identity: 35% Fold: AttH-like Superfamily: AttH-like Family: AttH-like Phyre2 PDB 2cg9 chain A Region: 165 - 182 Aligned: 18 Modelled: 18 Confidence: 8.7% Identity: 17% PDB header:chaperone Chain: A: PDB Molecule:atp-dependent molecular chaperone hsp82; PDBTitle: crystal structure of an hsp90-sba1 closed chaperone complex Phyre2 PDB 2o39 chain A domain 1 Region: 121 - 156 Aligned: 36 Modelled: 36 Confidence: 7.8% Identity: 11% Fold: Virus attachment protein globular domain Superfamily: Virus attachment protein globular domain Family: Adenovirus fiber protein "knob" domain Phyre2 PDB 2qlv chain B domain 1 Region: 35 - 78 Aligned: 44 Modelled: 44 Confidence: 5.6% Identity: 16% Fold: Immunoglobulin-like beta-sandwich Superfamily: E set domains Family: AMPK-beta glycogen binding domain-like Phyre2 1 d1y0ga_ 2 c2fgsA_ 3 d1wuba_ 4 c3hpeB_ 5 c3q34A_ 6 c2x34A_ 7 c3uc0B_ 8 d2icha1 9 c2cg9A_ 10 d2o39a1 11 d2qlvb1

Detailed template information

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

1 d1y0ga_ 100.0 100 Fold:Streptavidin-like Superfamily:YceI-like Family:YceI-like 2 c2fgsA_ 100.0 37 PDB header:lipid binding protein Chain: A: PDB Molecule:putative periplasmic protein; PDBTitle: crystal structure of campylobacter jejuni ycei protein,2 structural genomics 3 d1wuba_ 100.0 35 Fold:Streptavidin-like Superfamily:YceI-like Family:YceI-like 4 c3hpeB_ 100.0 36 PDB header:transport protein Chain: B: PDB Molecule:conserved hypothetical secreted protein; PDBTitle: crystal structure of ycei (hp1286) from helicobacter pylori 5 c3q34A_ 100.0 17 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:ycei-like family protein; PDBTitle: the crystal structure of ycei-like family protein from pseudomonas2 syringae 6 c2x34A_ 100.0 21 PDB header:carbohydrate-binding protein Chain: A: PDB Molecule:cellulose-binding protein, x158; PDBTitle: structure of a polyisoprenoid binding domain from2 saccharophagus degradans implicated in plant cell wall3 breakdown 7 c3uc0B_ 29.3 20 PDB header:viral protein/immune system Chain: B: PDB Molecule:envelope protein; PDBTitle: crystal structure of domain i of the envelope glycoprotein ectodomain2 from dengue virus serotype 4 in complex with the fab fragment of the3 chimpanzee monoclonal antibody 5h2 8 d2icha1 9.6 35 Fold:AttH-like Superfamily:AttH-like Family:AttH-like 9 c2cg9A_ 8.7 17 PDB header:chaperone Chain: A: PDB Molecule:atp-dependent molecular chaperone hsp82; PDBTitle: crystal structure of an hsp90-sba1 closed chaperone complex 10 d2o39a1 7.8 11 Fold:Virus attachment protein globular domain Superfamily:Virus attachment protein globular domain Family:Adenovirus fiber protein "knob" domain 11 d2qlvb1 5.6 16 Fold:Immunoglobulin-like beta-sandwich Superfamily:E set domains Family:AMPK-beta glycogen binding domain-like

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