Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	Q	P	K	I	Y	W	I	D	N	L	R	G	I	A	C	L	M	V	V	M	I	H	T	T	T	W	Y	V	T	N	A	H	S	V	S	P	V	T	W	D	I	A	N	V	L	N	S	A	S	R	V	S	V	P	L	F	F	M	I
Secondary structure
SS confidence
Disorder		?	?	?	?	?																									?	?			?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		S	G	Y	L	F	F	G	E	R	S	A	Q	P	R	H	F	L	R	I	G	L	C	L	I	F	Y	S	A	I	A	L	L	Y	I	A	L	F	T	S	I	N	M	E	L	A	L	K	N	L	L	Q	K	P	V	F	Y	H	L	W	F
Secondary structure
SS confidence
Disorder											?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		F	F	A	I	A	V	I	Y	L	V	S	P	L	I	Q	V	K	N	V	G	G	K	M	L	L	V	L	M	A	V	I	G	I	I	A	N	P	N	T	V	P	Q	K	I	D	G	F	E	W	L	P	I	N	L	Y	I	N	G	D	T
Secondary structure
SS confidence
Disorder																			?	?		?																							?	?	?	?	?	?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		F	Y	Y	I	L	Y	G	M	L	G	R	A	I	G	M	M	D	T	Q	H	K	A	L	S	W	V	S	A	A	L	F	A	T	G	V	F	I	I	S	R	G	T	L	Y	E	L	Q	W	R	G	N	F	A	D	T	W	Y	L	Y	C
Secondary structure
SS confidence
Disorder																			?	?	?																											?			?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		G	P	M	V	F	I	C	A	I	A	L	L	T	L	V	K	N	T	L	D	T	R	T	I	R	G	L	G	L	I	S	R	H	S	L	G	I	Y	G	F	H	A	L	I	I	H	A	L	R	T	R	G	I	E	L	K	N	W	P	I
Secondary structure
SS confidence
Disorder																			?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.
Sequence		L	D	I	I	W	I	F	C	A	T	L	A	A	S	L	L	L	S	M	L	V	Q	R	I	D	R	N	R	L	V	S
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 1ujl chain A Region: 1 - 11 Aligned: 11 Modelled: 11 Confidence: 10.6% Identity: 45% PDB header:membrane protein Chain: A: PDB Molecule:potassium voltage-gated channel subfamily h PDBTitle: solution structure of the herg k+ channel s5-p2 extracellular linker Phyre2 PDB 2wwb chain B Region: 267 - 284 Aligned: 18 Modelled: 18 Confidence: 10.4% Identity: 11% PDB header:ribosome Chain: B: PDB Molecule:protein transport protein sec61 subunit gamma; PDBTitle: cryo-em structure of the mammalian sec61 complex bound to the2 actively translating wheat germ 80s ribosome Phyre2 PDB 1rhz chain B Region: 267 - 288 Aligned: 22 Modelled: 22 Confidence: 7.5% Identity: 18% Fold: Single transmembrane helix Superfamily: Preprotein translocase SecE subunit Family: Preprotein translocase SecE subunit Phyre2 PDB 2adl chain B Region: 1 - 5 Aligned: 5 Modelled: 5 Confidence: 6.3% Identity: 40% PDB header:dna binding protein Chain: B: PDB Molecule:ccda; PDBTitle: solution structure of the bacterial antitoxin ccda:2 implications for dna and toxin binding Phyre2 PDB 2cpg chain A Region: 1 - 5 Aligned: 5 Modelled: 5 Confidence: 6.2% Identity: 20% Fold: Ribbon-helix-helix Superfamily: Ribbon-helix-helix Family: CopG-like Phyre2 1 c1ujlA_ 2 c2wwbB_ 3 d1rhzb_ 4 c2adlB_ 5 d2cpga_

Detailed template information

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

1 c1ujlA_ 10.6 45 PDB header:membrane protein Chain: A: PDB Molecule:potassium voltage-gated channel subfamily h PDBTitle: solution structure of the herg k+ channel s5-p2 extracellular linker 2 c2wwbB_ 10.4 11 PDB header:ribosome Chain: B: PDB Molecule:protein transport protein sec61 subunit gamma; PDBTitle: cryo-em structure of the mammalian sec61 complex bound to the2 actively translating wheat germ 80s ribosome 3 d1rhzb_ 7.5 18 Fold:Single transmembrane helix Superfamily:Preprotein translocase SecE subunit Family:Preprotein translocase SecE subunit 4 c2adlB_ 6.3 40 PDB header:dna binding protein Chain: B: PDB Molecule:ccda; PDBTitle: solution structure of the bacterial antitoxin ccda:2 implications for dna and toxin binding 5 d2cpga_ 6.2 20 Fold:Ribbon-helix-helix Superfamily:Ribbon-helix-helix Family:CopG-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