Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	E	S	K	N	K	L	K	R	G	L	S	T	R	H	I	R	F	M	A	L	G	S	A	I	G	T	G	L	F	Y	G	S	A	D	A	I	K	M	A	G	P	S	V	L	L	A	Y	I	I	G	G	I	A	A	Y	I	I	M	R
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		A	L	G	E	M	S	V	H	N	P	A	A	S	S	F	S	R	Y	A	Q	E	N	L	G	P	L	A	G	Y	I	T	G	W	T	Y	C	F	E	I	L	I	V	A	I	A	D	V	T	A	F	G	I	Y	M	G	V	W	F	P	T
Secondary structure
SS confidence
Disorder								?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		V	P	H	W	I	W	V	L	S	V	V	L	I	I	C	A	V	N	L	M	S	V	K	V	F	G	E	L	E	F	W	F	S	F	F	K	V	A	T	I	I	I	M	I	V	A	G	F	G	I	I	I	W	G	I	G	N	G	G	Q
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		P	T	G	I	H	N	L	W	S	N	G	G	F	F	S	N	G	W	L	G	M	V	M	S	L	Q	M	V	M	F	A	Y	G	G	I	E	I	I	G	I	T	A	G	E	A	K	D	P	E	K	S	I	P	R	A	I	N	S	V	P
Secondary structure
SS confidence
Disorder																																																	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		M	R	I	L	V	F	Y	V	G	T	L	F	V	I	M	S	I	Y	P	W	N	Q	V	G	T	A	G	S	P	F	V	L	T	F	Q	H	M	G	I	T	F	A	A	S	I	L	N	F	V	V	L	T	A	S	L	S	A	I	N	S
Secondary structure
SS confidence
Disorder																							?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence		D	V	F	G	V	G	R	M	L	H	G	M	A	E	Q	G	S	A	P	K	I	F	S	K	T	S	R	R	G	I	P	W	V	T	V	L	V	M	T	T	A	L	L	F	A	V	Y	L	N	Y	I	M	P	E	N	V	F	L	V	I
Secondary structure
SS confidence
Disorder																																																		?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.	.	.	.	.	.	.	400	.	.	.	.	.	.	.	.	.	410	.	.	.	.	.	.	.	.	.	420
Sequence		A	S	L	A	T	F	A	T	V	W	V	W	I	M	I	L	L	S	Q	I	A	F	R	R	R	L	P	P	E	E	V	K	A	L	K	F	K	V	P	G	G	V	A	T	T	I	G	G	L	I	F	L	L	F	I	I	G	L	I	G
Secondary structure
SS confidence
Disorder																												?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	430	.	.	.	.	.	.	.	.	.	440	.	.	.	.	.	.	.	.	.	450	.	.	.	.	.	.	.
Sequence		Y	H	P	D	T	R	I	S	L	Y	V	G	F	A	W	I	V	V	L	L	I	G	W	M	F	K	R	R	H	D	R	Q	L	A	E	N	Q
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: 8 - 457 Aligned: 428 Modelled: 428 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: 8 - 454 Aligned: 404 Modelled: 404 Confidence: 100.0% Identity: 18% PDB header:transport protein Chain: C: PDB Molecule:arginine/agmatine antiporter; PDBTitle: structure of e. coli adic (p1) Phyre2 PDB 2jln chain A Region: 1 - 456 Aligned: 441 Modelled: 441 Confidence: 100.0% Identity: 9% 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: 9 - 455 Aligned: 430 Modelled: 430 Confidence: 99.7% Identity: 11% 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: 9 - 457 Aligned: 433 Modelled: 433 Confidence: 99.6% Identity: 8% 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 2a65 chain A domain 1 Region: 12 - 455 Aligned: 436 Modelled: 436 Confidence: 98.5% Identity: 14% Fold: SNF-like Superfamily: SNF-like Family: SNF-like Phyre2 PDB 2w8a chain C Region: 4 - 397 Aligned: 385 Modelled: 379 Confidence: 97.7% Identity: 12% 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 3hfx chain A Region: 2 - 389 Aligned: 378 Modelled: 378 Confidence: 94.1% Identity: 11% PDB header:transport protein Chain: A: PDB Molecule:l-carnitine/gamma-butyrobetaine antiporter; PDBTitle: crystal structure of carnitine transporter Phyre2 PDB 2knc chain A Region: 423 - 457 Aligned: 35 Modelled: 35 Confidence: 75.2% Identity: 17% PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex Phyre2 PDB 2rdd chain B Region: 431 - 457 Aligned: 27 Modelled: 27 Confidence: 28.1% Identity: 15% PDB header:membrane protein/transport protein Chain: B: PDB Molecule:upf0092 membrane protein yajc; PDBTitle: x-ray crystal structure of acrb in complex with a novel2 transmembrane helix. Phyre2 PDB 3m7b chain A Region: 331 - 457 Aligned: 127 Modelled: 127 Confidence: 26.4% Identity: 10% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:tellurite resistance protein teha homolog; PDBTitle: crystal structure of plant slac1 homolog teha Phyre2 PDB 2klu chain A Region: 427 - 456 Aligned: 30 Modelled: 30 Confidence: 15.1% Identity: 27% PDB header:immune system, membrane protein Chain: A: PDB Molecule:t-cell surface glycoprotein cd4; PDBTitle: nmr structure of the transmembrane and cytoplasmic domains2 of human cd4 Phyre2 PDB 1fft chain B domain 2 Region: 354 - 421 Aligned: 68 Modelled: 68 Confidence: 9.5% Identity: 9% Fold: Transmembrane helix hairpin Superfamily: Cytochrome c oxidase subunit II-like, transmembrane region Family: Cytochrome c oxidase subunit II-like, transmembrane region Phyre2 PDB 2l1n chain A Region: 2 - 13 Aligned: 12 Modelled: 12 Confidence: 6.0% Identity: 33% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: solution nmr structure of the protein yp_399305.1 Phyre2 PDB 3cwb chain Q Region: 427 - 457 Aligned: 31 Modelled: 31 Confidence: 5.9% Identity: 13% PDB header:oxidoreductase Chain: Q: PDB Molecule:mitochondrial cytochrome c1, heme protein; PDBTitle: chicken cytochrome bc1 complex inhibited by an iodinated analogue of2 the polyketide crocacin-d Phyre2 PDB 1p84 chain D Region: 427 - 457 Aligned: 31 Modelled: 31 Confidence: 5.4% Identity: 10% PDB header:oxidoreductase Chain: D: PDB Molecule:cytochrome c1, heme protein; PDBTitle: hdbt inhibited yeast cytochrome bc1 complex Phyre2 PDB 1zrt chain D Region: 427 - 457 Aligned: 31 Modelled: 31 Confidence: 5.4% Identity: 6% PDB header:oxidoreductase/metal transport Chain: D: PDB Molecule:cytochrome c1; PDBTitle: rhodobacter capsulatus cytochrome bc1 complex with2 stigmatellin bound Phyre2 1 c3giaA_ 2 c3lrcC_ 3 c2jlnA_ 4 c2xq2A_ 5 c3dh4A_ 6 d2a65a1 7 c2w8aC_ 8 c3hfxA_ 9 c2kncA_ 10 c2rddB_ 11 c3m7bA_ 12 c2kluA_ 13 d1fftb2 14 c2l1nA_ 15 c3cwbQ_ 16 c1p84D_ 17 c1zrtD_

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 18 PDB header:transport protein Chain: C: PDB Molecule:arginine/agmatine antiporter; PDBTitle: structure of e. coli adic (p1) 3 c2jlnA_ 100.0 9 PDB header:membrane protein Chain: A: PDB Molecule:mhp1; PDBTitle: structure of mhp1, a nucleobase-cation-symport-1 family2 transporter 4 c2xq2A_ 99.7 11 PDB header:transport protein Chain: A: PDB Molecule:sodium/glucose cotransporter; PDBTitle: structure of the k294a mutant of vsglt 5 c3dh4A_ 99.6 8 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 d2a65a1 98.5 14 Fold:SNF-like Superfamily:SNF-like Family:SNF-like 7 c2w8aC_ 97.7 12 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 8 c3hfxA_ 94.1 11 PDB header:transport protein Chain: A: PDB Molecule:l-carnitine/gamma-butyrobetaine antiporter; PDBTitle: crystal structure of carnitine transporter 9 c2kncA_ 75.2 17 PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex 10 c2rddB_ 28.1 15 PDB header:membrane protein/transport protein Chain: B: PDB Molecule:upf0092 membrane protein yajc; PDBTitle: x-ray crystal structure of acrb in complex with a novel2 transmembrane helix. 11 c3m7bA_ 26.4 10 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:tellurite resistance protein teha homolog; PDBTitle: crystal structure of plant slac1 homolog teha 12 c2kluA_ 15.1 27 PDB header:immune system, membrane protein Chain: A: PDB Molecule:t-cell surface glycoprotein cd4; PDBTitle: nmr structure of the transmembrane and cytoplasmic domains2 of human cd4 13 d1fftb2 9.5 9 Fold:Transmembrane helix hairpin Superfamily:Cytochrome c oxidase subunit II-like, transmembrane region Family:Cytochrome c oxidase subunit II-like, transmembrane region 14 c2l1nA_ 6.0 33 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: solution nmr structure of the protein yp_399305.1 15 c3cwbQ_ 5.9 13 PDB header:oxidoreductase Chain: Q: PDB Molecule:mitochondrial cytochrome c1, heme protein; PDBTitle: chicken cytochrome bc1 complex inhibited by an iodinated analogue of2 the polyketide crocacin-d 16 c1p84D_ 5.4 10 PDB header:oxidoreductase Chain: D: PDB Molecule:cytochrome c1, heme protein; PDBTitle: hdbt inhibited yeast cytochrome bc1 complex 17 c1zrtD_ 5.4 6 PDB header:oxidoreductase/metal transport Chain: D: PDB Molecule:cytochrome c1; PDBTitle: rhodobacter capsulatus cytochrome bc1 complex with2 stigmatellin bound

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