Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	S	K	A	R	R	W	V	I	I	V	L	S	L	A	V	L	V	M	I	G	I	N	M	A	E	K	D	D	T	A	Q	V	V	V	N	N	N	D	P	T	Y	K	S	E	H	T	D	T	L	V	Y	N	P	E	G	A	L	S	Y
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?																	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?															?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		R	L	I	A	Q	H	V	E	Y	Y	S	D	Q	A	V	S	W	F	T	Q	P	V	L	T	T	F	D	K	D	K	I	P	T	W	S	V	K	A	D	K	A	K	L	T	N	D	R	M	L	Y	L	Y	G	H	V	E	V	N	A	L
Secondary structure
SS confidence
Disorder																																?													?																?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		V	P	D	S	Q	L	R	R	I	T	T	D	N	A	Q	I	N	L	V	T	Q	D	V	T	S	E	D	L	V	T	L	Y	G	T	T	F	N	S	S	G	L	K	M	R	G	N	L	R	S	K	N	A	E	L	I	E	K	V	R	T
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?																											?	?	?																						?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.
Sequence		S	Y	E	I	Q	N	K	Q	T	Q	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 3my2 chain A Region: 59 - 184 Aligned: 126 Modelled: 126 Confidence: 100.0% Identity: 98% PDB header:transport protein Chain: A: PDB Molecule:lipopolysaccharide export system protein lptc; PDBTitle: crystal structure of lptc Phyre2 PDB 2r1a chain D Region: 61 - 184 Aligned: 119 Modelled: 124 Confidence: 98.6% Identity: 17% PDB header:transport protein Chain: D: PDB Molecule:protein yhbn; PDBTitle: crystal structure of the periplasmic lipopolysaccharide transport2 protein lpta (yhbn), trigonal form Phyre2 PDB 2voy chain E Region: 8 - 31 Aligned: 24 Modelled: 24 Confidence: 8.2% Identity: 21% PDB header:hydrolase Chain: E: PDB Molecule:sarcoplasmic/endoplasmic reticulum calcium PDBTitle: cryoem model of copa, the copper transporting atpase from2 archaeoglobus fulgidus Phyre2 1 c3my2A_ 2 c2r1aD_ 3 c2voyE_

Detailed template information

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

1 c3my2A_ 100.0 98 PDB header:transport protein Chain: A: PDB Molecule:lipopolysaccharide export system protein lptc; PDBTitle: crystal structure of lptc 2 c2r1aD_ 98.6 17 PDB header:transport protein Chain: D: PDB Molecule:protein yhbn; PDBTitle: crystal structure of the periplasmic lipopolysaccharide transport2 protein lpta (yhbn), trigonal form 3 c2voyE_ 8.2 21 PDB header:hydrolase Chain: E: PDB Molecule:sarcoplasmic/endoplasmic reticulum calcium PDBTitle: cryoem model of copa, the copper transporting atpase from2 archaeoglobus fulgidus

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