Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	L	T	F	F	I	G	D	L	L	P	I	I	V	I	M	L	L	G	Y	F	S	G	R	R	E	T	F	S	E	D	Q	A	R	A	F	N	K	L	V	L	N	Y	A	L	P	A	A	L	F	V	S	I	T	R	A	N	R	E	M
Secondary structure
SS confidence
Disorder		?																																																						?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		I	F	A	D	T	R	L	T	L	V	S	L	V	V	I	V	G	C	F	F	F	S	W	F	G	C	Y	K	F	F	K	R	T	H	A	E	A	A	V	C	A	L	I	A	G	S	P	T	I	G	F	L	G	F	A	V	L	D	P	I
Secondary structure
SS confidence
Disorder				?																												?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		Y	G	D	S	V	S	T	G	L	V	V	A	I	I	S	I	I	V	N	A	I	T	I	P	I	G	L	Y	L	L	N	P	S	S	G	A	D	G	K	K	N	S	N	L	S	A	L	I	S	A	A	K	E	P	V	V	W	A	P	V
Secondary structure
SS confidence
Disorder																																	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		L	A	T	I	L	V	L	V	G	V	K	I	P	A	A	W	D	P	T	F	N	L	I	A	K	A	N	S	G	V	A	V	F	A	A	G	L	T	L	A	A	H	K	F	E	F	S	A	E	I	A	Y	N	T	F	L	K	L	I	L
Secondary structure
SS confidence
Disorder																																								?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		M	P	L	A	L	L	L	V	G	M	A	C	H	L	N	S	E	H	L	Q	M	M	V	L	A	G	A	L	P	P	A	F	S	G	I	I	I	A	S	R	F	N	V	Y	T	R	T	G	T	A	S	L	A	V	S	V	L	G	F	V
Secondary structure
SS confidence
Disorder																													?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.
Sequence		V	T	A	P	L	W	I	Y	V	S	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 2knc chain A Region: 4 - 31 Aligned: 28 Modelled: 28 Confidence: 8.6% Identity: 14% PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex Phyre2 PDB 2k58 chain B Region: 39 - 54 Aligned: 16 Modelled: 16 Confidence: 8.6% Identity: 25% PDB header:transport protein Chain: B: PDB Molecule:neuronal acetylcholine receptor subunit beta-2; PDBTitle: nmr structures of the first transmembrane domain of the2 neuronal acetylcholine receptor beta 2 subunit Phyre2 1 c2kncA_ 2 c2k58B_

Detailed template information

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

1 c2kncA_ 8.6 14 PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex 2 c2k58B_ 8.6 25 PDB header:transport protein Chain: B: PDB Molecule:neuronal acetylcholine receptor subunit beta-2; PDBTitle: nmr structures of the first transmembrane domain of the2 neuronal acetylcholine receptor beta 2 subunit

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

Transmembrane helix prediction

Transmembrane helices have been predicted in your sequence to adopt the topology shown below

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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