Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	G	Q	S	S	Q	P	H	E	L	G	G	G	L	K	S	R	H	V	T	M	L	S	I	A	G	V	I	G	A	S	L	F	V	G	S	S	V	A	I	A	E	A	G	P	A	V	L	L	A	Y	L	F	A	G	L	L	V	V	M
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		I	M	R	M	L	A	E	M	A	V	A	T	P	D	T	G	S	F	S	T	Y	A	D	K	A	I	G	R	W	A	G	Y	T	I	G	W	L	Y	W	W	F	W	V	L	V	I	P	L	E	A	N	I	A	A	M	I	L	H	S	W
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		V	P	G	I	P	I	W	L	F	S	L	V	I	T	L	A	L	T	G	S	N	L	L	S	V	K	N	Y	G	E	F	E	F	W	L	A	L	C	K	V	I	A	I	L	A	F	I	F	L	G	A	V	A	I	S	G	F	Y	P	Y
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		A	E	V	S	G	I	S	R	L	W	D	S	G	G	F	M	P	N	G	F	G	A	V	L	S	A	M	L	I	T	M	F	S	F	M	G	A	E	I	V	T	I	A	A	A	E	S	D	T	P	E	K	H	I	V	R	A	T	N	S
Secondary structure
SS confidence
Disorder																																																			?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		V	I	W	R	I	S	I	F	Y	L	C	S	I	F	V	V	V	A	L	I	P	W	N	M	P	G	L	K	A	V	G	S	Y	R	S	V	L	E	L	L	N	I	P	H	A	K	L	I	M	D	C	V	I	L	L	S	V	T	S	C
Secondary structure
SS confidence
Disorder																										?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence		L	N	S	A	L	Y	T	A	S	R	M	L	Y	S	L	S	R	R	G	D	A	P	A	V	M	G	K	I	N	R	S	K	T	P	Y	V	A	V	L	L	S	T	G	A	A	F	L	T	V	V	V	N	Y	Y	A	P	A	K	V	F
Secondary structure
SS confidence
Disorder																																																					?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.	.	.	.	.	.	.	400	.	.	.	.	.	.	.	.	.	410	.	.	.	.	.	.	.	.	.	420
Sequence		K	F	L	I	D	S	S	G	A	I	A	L	L	V	Y	L	V	I	A	V	S	Q	L	R	M	R	K	I	L	R	A	E	G	S	E	I	R	L	R	M	W	L	Y	P	W	L	T	W	L	V	I	G	F	I	T	F	V	L	V	V
Secondary structure
SS confidence
Disorder																																	?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	430	.	.	.	.	.	.	.	.	.	440	.	.	.	.	.	.	.	.	.	450	.	.	.	.	.	.	.	.	.	460	.	.	.	.	.	.
Sequence		M	L	F	R	P	A	Q	Q	L	E	V	I	S	T	G	L	L	A	I	G	I	I	C	T	V	P	I	M	A	R	W	K	K	L	V	L	W	Q	K	T	P	V	H	N	T	R
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 3gia chain A Region: 11 - 464 Aligned: 430 Modelled: 430 Confidence: 100.0% Identity: 15% PDB header:transport protein Chain: A: PDB Molecule:uncharacterized protein mj0609; PDBTitle: crystal structure of apct transporter Phyre2 PDB 3lrc chain C Region: 11 - 457 Aligned: 408 Modelled: 408 Confidence: 100.0% Identity: 16% PDB header:transport protein Chain: C: PDB Molecule:arginine/agmatine antiporter; PDBTitle: structure of e. coli adic (p1) Phyre2 PDB 2jln chain A Region: 7 - 466 Aligned: 439 Modelled: 458 Confidence: 100.0% Identity: 8% PDB header:membrane protein Chain: A: PDB Molecule:mhp1; PDBTitle: structure of mhp1, a nucleobase-cation-symport-1 family2 transporter Phyre2 PDB 2xq2 chain A Region: 12 - 466 Aligned: 436 Modelled: 440 Confidence: 99.5% Identity: 10% PDB header:transport protein Chain: A: PDB Molecule:sodium/glucose cotransporter; PDBTitle: structure of the k294a mutant of vsglt Phyre2 PDB 3dh4 chain A Region: 11 - 466 Aligned: 438 Modelled: 438 Confidence: 99.4% Identity: 11% PDB header:transport protein Chain: A: PDB Molecule:sodium/glucose cotransporter; PDBTitle: crystal structure of sodium/sugar symporter with bound galactose from2 vibrio parahaemolyticus Phyre2 PDB 2w8a chain C Region: 1 - 400 Aligned: 384 Modelled: 396 Confidence: 98.5% Identity: 10% PDB header:membrane protein Chain: C: PDB Molecule:glycine betaine transporter betp; PDBTitle: crystal structure of the sodium-coupled glycine betaine2 symporter betp from corynebacterium glutamicum with bound3 substrate Phyre2 PDB 2a65 chain A domain 1 Region: 15 - 454 Aligned: 430 Modelled: 430 Confidence: 98.0% Identity: 12% Fold: SNF-like Superfamily: SNF-like Family: SNF-like Phyre2 PDB 3hfx chain A Region: 46 - 392 Aligned: 339 Modelled: 347 Confidence: 88.8% Identity: 10% PDB header:transport protein Chain: A: PDB Molecule:l-carnitine/gamma-butyrobetaine antiporter; PDBTitle: crystal structure of carnitine transporter Phyre2 PDB 1fft chain B domain 2 Region: 357 - 422 Aligned: 66 Modelled: 66 Confidence: 14.2% Identity: 5% Fold: Transmembrane helix hairpin Superfamily: Cytochrome c oxidase subunit II-like, transmembrane region Family: Cytochrome c oxidase subunit II-like, transmembrane region Phyre2 PDB 2k1a chain A Region: 428 - 461 Aligned: 34 Modelled: 34 Confidence: 8.4% Identity: 21% PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: bicelle-embedded integrin alpha(iib) transmembrane segment Phyre2 PDB 1m57 chain H Region: 357 - 422 Aligned: 66 Modelled: 66 Confidence: 8.3% Identity: 17% PDB header:oxidoreductase Chain: H: PDB Molecule:cytochrome c oxidase; PDBTitle: structure of cytochrome c oxidase from rhodobacter2 sphaeroides (eq(i-286) mutant)) Phyre2 PDB 2knc chain A Region: 428 - 461 Aligned: 34 Modelled: 34 Confidence: 6.9% Identity: 21% PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex Phyre2 PDB 2j01 chain 2 domain 1 Region: 1 - 11 Aligned: 11 Modelled: 11 Confidence: 6.2% Identity: 45% Fold: Long alpha-hairpin Superfamily: Ribosomal protein L29 (L29p) Family: Ribosomal protein L29 (L29p) Phyre2 1 c3giaA_ 2 c3lrcC_ 3 c2jlnA_ 4 c2xq2A_ 5 c3dh4A_ 6 c2w8aC_ 7 d2a65a1 8 c3hfxA_ 9 d1fftb2 10 c2k1aA_ 11 c1m57H_ 12 c2kncA_ 13 d2j0121

Detailed template information

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

1 c3giaA_ 100.0 15 PDB header:transport protein Chain: A: PDB Molecule:uncharacterized protein mj0609; PDBTitle: crystal structure of apct transporter 2 c3lrcC_ 100.0 16 PDB header:transport protein Chain: C: PDB Molecule:arginine/agmatine antiporter; PDBTitle: structure of e. coli adic (p1) 3 c2jlnA_ 100.0 8 PDB header:membrane protein Chain: A: PDB Molecule:mhp1; PDBTitle: structure of mhp1, a nucleobase-cation-symport-1 family2 transporter 4 c2xq2A_ 99.5 10 PDB header:transport protein Chain: A: PDB Molecule:sodium/glucose cotransporter; PDBTitle: structure of the k294a mutant of vsglt 5 c3dh4A_ 99.4 11 PDB header:transport protein Chain: A: PDB Molecule:sodium/glucose cotransporter; PDBTitle: crystal structure of sodium/sugar symporter with bound galactose from2 vibrio parahaemolyticus 6 c2w8aC_ 98.5 10 PDB header:membrane protein Chain: C: PDB Molecule:glycine betaine transporter betp; PDBTitle: crystal structure of the sodium-coupled glycine betaine2 symporter betp from corynebacterium glutamicum with bound3 substrate 7 d2a65a1 98.0 12 Fold:SNF-like Superfamily:SNF-like Family:SNF-like 8 c3hfxA_ 88.8 10 PDB header:transport protein Chain: A: PDB Molecule:l-carnitine/gamma-butyrobetaine antiporter; PDBTitle: crystal structure of carnitine transporter 9 d1fftb2 14.2 5 Fold:Transmembrane helix hairpin Superfamily:Cytochrome c oxidase subunit II-like, transmembrane region Family:Cytochrome c oxidase subunit II-like, transmembrane region 10 c2k1aA_ 8.4 21 PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: bicelle-embedded integrin alpha(iib) transmembrane segment 11 c1m57H_ 8.3 17 PDB header:oxidoreductase Chain: H: PDB Molecule:cytochrome c oxidase; PDBTitle: structure of cytochrome c oxidase from rhodobacter2 sphaeroides (eq(i-286) mutant)) 12 c2kncA_ 6.9 21 PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex 13 d2j0121 6.2 45 Fold:Long alpha-hairpin Superfamily:Ribosomal protein L29 (L29p) Family:Ribosomal protein L29 (L29p)

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