Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	A	I	N	S	P	L	N	I	A	A	Q	P	G	K	T	R	L	R	K	S	L	K	L	W	Q	V	V	M	M	G	L	A	Y	L	T	P	M	T	V	F	D	T	F	G	I	V	S	G	I	S	D	G	H	V	P	A	S	Y	L
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		L	A	L	A	G	V	L	F	T	A	I	S	Y	G	K	L	V	R	Q	F	P	E	A	G	S	A	Y	T	Y	A	Q	K	S	I	N	P	H	V	G	F	M	V	G	W	S	S	L	L	D	Y	L	F	L	P	M	I	N	V	L	L
Secondary structure
SS confidence
Disorder																			?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		A	K	I	Y	L	S	A	L	F	P	E	V	P	P	W	V	W	V	V	T	F	V	A	I	L	T	A	A	N	L	K	S	V	N	L	V	A	N	F	N	T	L	F	V	L	V	Q	I	S	I	M	V	V	F	I	F	L	V	V	Q
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		G	L	H	K	G	E	G	V	G	T	V	W	S	L	Q	P	F	I	S	E	N	A	H	L	I	P	I	I	T	G	A	T	I	V	C	F	S	F	L	G	F	D	A	V	T	T	L	S	E	E	T	P	D	A	A	R	V	I	P	K
Secondary structure
SS confidence
Disorder							?	?	?	?					?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		A	I	F	L	T	A	V	Y	G	G	V	I	F	I	A	A	S	F	F	M	Q	L	F	F	P	D	I	S	R	F	K	D	P	D	A	A	L	P	E	I	A	L	Y	V	G	G	K	L	F	Q	S	I	F	L	C	T	T	F	V	N
Secondary structure
SS confidence
Disorder																													?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence		T	L	A	S	G	L	A	S	H	A	S	V	S	R	L	L	Y	V	M	G	R	D	N	V	F	P	E	R	V	F	G	Y	V	H	P	K	W	R	T	P	A	L	N	V	I	M	V	G	I	V	A	L	S	A	L	F	F	D	L	V
Secondary structure
SS confidence
Disorder												?																																														?
Disorder confidence
		.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.	.	.	.	.	.	.	400	.	.	.	.	.	.	.	.	.	410	.	.	.	.	.	.	.	.	.	420
Sequence		T	A	T	A	L	I	N	F	G	A	L	V	A	F	T	F	V	N	L	S	V	F	N	H	F	W	R	R	K	G	M	N	K	S	W	K	D	H	F	H	Y	L	L	M	P	L	V	G	A	L	T	V	G	V	L	W	V	N	L	E
Secondary structure
SS confidence
Disorder																															?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	430	.	.	.	.	.	.	.	.	.	440	.	.	.	.	.	.	.	.	.	450	.	.	.	.	.	.	.	.	.	460	.
Sequence		S	T	S	L	T	L	G	L	V	W	A	S	L	G	G	A	Y	L	W	Y	L	I	R	R	Y	R	K	V	P	L	Y	D	G	D	R	T	P	V	S	E	T
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: 19 - 457 Aligned: 425 Modelled: 425 Confidence: 100.0% Identity: 18% PDB header:transport protein Chain: A: PDB Molecule:uncharacterized protein mj0609; PDBTitle: crystal structure of apct transporter Phyre2 PDB 3lrc chain C Region: 19 - 449 Aligned: 397 Modelled: 397 Confidence: 100.0% Identity: 17% PDB header:transport protein Chain: C: PDB Molecule:arginine/agmatine antiporter; PDBTitle: structure of e. coli adic (p1) Phyre2 PDB 2jln chain A Region: 3 - 460 Aligned: 450 Modelled: 450 Confidence: 100.0% Identity: 10% 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: 20 - 461 Aligned: 425 Modelled: 435 Confidence: 99.3% 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: 20 - 461 Aligned: 425 Modelled: 441 Confidence: 99.2% Identity: 10% 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: 14 - 403 Aligned: 382 Modelled: 382 Confidence: 94.2% 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 3hfx chain A Region: 54 - 394 Aligned: 335 Modelled: 335 Confidence: 93.0% Identity: 9% PDB header:transport protein Chain: A: PDB Molecule:l-carnitine/gamma-butyrobetaine antiporter; PDBTitle: crystal structure of carnitine transporter Phyre2 PDB 2a65 chain A domain 1 Region: 23 - 448 Aligned: 418 Modelled: 418 Confidence: 90.9% Identity: 12% Fold: SNF-like Superfamily: SNF-like Family: SNF-like Phyre2 PDB 3qnq chain D Region: 409 - 460 Aligned: 52 Modelled: 52 Confidence: 63.9% Identity: 17% PDB header:membrane protein, transport protein Chain: D: PDB Molecule:pts system, cellobiose-specific iic component; PDBTitle: crystal structure of the transporter chbc, the iic component from the2 n,n'-diacetylchitobiose-specific phosphotransferase system Phyre2 PDB 1v54 chain G Region: 438 - 456 Aligned: 19 Modelled: 19 Confidence: 22.1% Identity: 26% Fold: Single transmembrane helix Superfamily: Mitochondrial cytochrome c oxidase subunit VIa Family: Mitochondrial cytochrome c oxidase subunit VIa Phyre2 PDB 1fft chain B domain 2 Region: 416 - 461 Aligned: 46 Modelled: 46 Confidence: 21.9% Identity: 15% Fold: Transmembrane helix hairpin Superfamily: Cytochrome c oxidase subunit II-like, transmembrane region Family: Cytochrome c oxidase subunit II-like, transmembrane region Phyre2 PDB 3mp7 chain A Region: 1 - 82 Aligned: 77 Modelled: 82 Confidence: 16.9% Identity: 10% PDB header:protein transport Chain: A: PDB Molecule:preprotein translocase subunit secy; PDBTitle: lateral opening of a translocon upon entry of protein suggests the2 mechanism of insertion into membranes Phyre2 PDB 2knc chain A Region: 416 - 458 Aligned: 43 Modelled: 43 Confidence: 15.3% Identity: 16% PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex Phyre2 PDB 2klu chain A Region: 427 - 451 Aligned: 25 Modelled: 25 Confidence: 13.6% Identity: 12% 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 2yvx chain A domain 3 Region: 303 - 415 Aligned: 113 Modelled: 113 Confidence: 11.7% Identity: 8% Fold: MgtE membrane domain-like Superfamily: MgtE membrane domain-like Family: MgtE membrane domain-like Phyre2 PDB 2hj1 chain A domain 1 Region: 440 - 458 Aligned: 19 Modelled: 19 Confidence: 11.1% Identity: 21% Fold: beta-Grasp (ubiquitin-like) Superfamily: MoaD/ThiS Family: HI0395-like Phyre2 PDB 2hj1 chain A Region: 440 - 458 Aligned: 19 Modelled: 19 Confidence: 11.1% Identity: 21% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein; PDBTitle: crystal structure of a 3d domain-swapped dimer of protein hi0395 from2 haemophilus influenzae Phyre2 PDB 1qhd chain A domain 2 Region: 2 - 23 Aligned: 22 Modelled: 22 Confidence: 9.4% Identity: 36% Fold: Viral protein domain Superfamily: Viral protein domain Family: Top domain of virus capsid protein Phyre2 PDB 1z9h chain A domain 1 Region: 416 - 460 Aligned: 45 Modelled: 45 Confidence: 8.6% Identity: 18% Fold: GST C-terminal domain-like Superfamily: GST C-terminal domain-like Family: Glutathione S-transferase (GST), C-terminal domain Phyre2 PDB 2y69 chain Z Region: 9 - 40 Aligned: 32 Modelled: 32 Confidence: 8.5% Identity: 25% PDB header:electron transport Chain: Z: PDB Molecule:cytochrome c oxidase polypeptide 8h; PDBTitle: bovine heart cytochrome c oxidase re-refined with molecular2 oxygen Phyre2 1 c3giaA_ 2 c3lrcC_ 3 c2jlnA_ 4 c2xq2A_ 5 c3dh4A_ 6 c2w8aC_ 7 c3hfxA_ 8 d2a65a1 9 c3qnqD_ 10 d1v54g_ 11 d1fftb2 12 c3mp7A_ 13 c2kncA_ 14 c2kluA_ 15 d2yvxa3 16 d2hj1a1 17 c2hj1A_ 18 d1qhda2 19 d1z9ha1 20 c2y69Z_ 21 22 23 24 25 26 27 28 29 30 31 32 33

Detailed template information

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

1 c3giaA_ 100.0 18 PDB header:transport protein Chain: A: PDB Molecule:uncharacterized protein mj0609; PDBTitle: crystal structure of apct transporter 2 c3lrcC_ 100.0 17 PDB header:transport protein Chain: C: PDB Molecule:arginine/agmatine antiporter; PDBTitle: structure of e. coli adic (p1) 3 c2jlnA_ 100.0 10 PDB header:membrane protein Chain: A: PDB Molecule:mhp1; PDBTitle: structure of mhp1, a nucleobase-cation-symport-1 family2 transporter 4 c2xq2A_ 99.3 10 PDB header:transport protein Chain: A: PDB Molecule:sodium/glucose cotransporter; PDBTitle: structure of the k294a mutant of vsglt 5 c3dh4A_ 99.2 10 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_ 94.2 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 c3hfxA_ 93.0 9 PDB header:transport protein Chain: A: PDB Molecule:l-carnitine/gamma-butyrobetaine antiporter; PDBTitle: crystal structure of carnitine transporter 8 d2a65a1 90.9 12 Fold:SNF-like Superfamily:SNF-like Family:SNF-like 9 c3qnqD_ 63.9 17 PDB header:membrane protein, transport protein Chain: D: PDB Molecule:pts system, cellobiose-specific iic component; PDBTitle: crystal structure of the transporter chbc, the iic component from the2 n,n'-diacetylchitobiose-specific phosphotransferase system 10 d1v54g_ 22.1 26 Fold:Single transmembrane helix Superfamily:Mitochondrial cytochrome c oxidase subunit VIa Family:Mitochondrial cytochrome c oxidase subunit VIa 11 d1fftb2 21.9 15 Fold:Transmembrane helix hairpin Superfamily:Cytochrome c oxidase subunit II-like, transmembrane region Family:Cytochrome c oxidase subunit II-like, transmembrane region 12 c3mp7A_ 16.9 10 PDB header:protein transport Chain: A: PDB Molecule:preprotein translocase subunit secy; PDBTitle: lateral opening of a translocon upon entry of protein suggests the2 mechanism of insertion into membranes 13 c2kncA_ 15.3 16 PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex 14 c2kluA_ 13.6 12 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 15 d2yvxa3 11.7 8 Fold:MgtE membrane domain-like Superfamily:MgtE membrane domain-like Family:MgtE membrane domain-like 16 d2hj1a1 11.1 21 Fold:beta-Grasp (ubiquitin-like) Superfamily:MoaD/ThiS Family:HI0395-like 17 c2hj1A_ 11.1 21 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein; PDBTitle: crystal structure of a 3d domain-swapped dimer of protein hi0395 from2 haemophilus influenzae 18 d1qhda2 9.4 36 Fold:Viral protein domain Superfamily:Viral protein domain Family:Top domain of virus capsid protein 19 d1z9ha1 8.6 18 Fold:GST C-terminal domain-like Superfamily:GST C-terminal domain-like Family:Glutathione S-transferase (GST), C-terminal domain 20 c2y69Z_ 8.5 25 PDB header:electron transport Chain: Z: PDB Molecule:cytochrome c oxidase polypeptide 8h; PDBTitle: bovine heart cytochrome c oxidase re-refined with molecular2 oxygen 21 c3rgbA_ not modelled 7.2 26 PDB header:oxidoreductase Chain: A: PDB Molecule:methane monooxygenase subunit b2; PDBTitle: crystal structure of particulate methane monooxygenase from2 methylococcus capsulatus (bath) 22 c1yewI_ not modelled 7.2 26 PDB header:oxidoreductase, membrane protein Chain: I: PDB Molecule:particulate methane monooxygenase, b subunit; PDBTitle: crystal structure of particulate methane monooxygenase 23 d1v54m_ not modelled 6.9 25 Fold:Single transmembrane helix Superfamily:Mitochondrial cytochrome c oxidase subunit VIIIb (aka IX) Family:Mitochondrial cytochrome c oxidase subunit VIIIb (aka IX) 24 d1rh5a_ not modelled 6.9 8 Fold:Preprotein translocase SecY subunit Superfamily:Preprotein translocase SecY subunit Family:Preprotein translocase SecY subunit 25 d1t98a2 not modelled 6.4 14 Fold:STAT-like Superfamily:MukF C-terminal domain-like Family:MukF C-terminal domain-like 26 c2yvxD_ not modelled 6.2 8 PDB header:transport protein Chain: D: PDB Molecule:mg2+ transporter mgte; PDBTitle: crystal structure of magnesium transporter mgte 27 d2r6gf1 not modelled 6.2 14 Fold:MalF N-terminal region-like Superfamily:MalF N-terminal region-like Family:MalF N-terminal region-like 28 c3chxG_ not modelled 6.0 21 PDB header:membrane protein Chain: G: PDB Molecule:pmoc; PDBTitle: crystal structure of methylosinus trichosporium ob3b2 particulate methane monooxygenase (pmmo) 29 c2rddB_ not modelled 5.9 22 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. 30 d2iuba2 not modelled 5.8 5 Fold:Transmembrane helix hairpin Superfamily:Magnesium transport protein CorA, transmembrane region Family:Magnesium transport protein CorA, transmembrane region 31 c3m7bA_ not modelled 5.5 14 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:tellurite resistance protein teha homolog; PDBTitle: crystal structure of plant slac1 homolog teha 32 d2bpa1_ not modelled 5.5 29 Fold:Nucleoplasmin-like/VP (viral coat and capsid proteins) Superfamily:ssDNA viruses Family:Microviridae-like VP 33 c1yewC_ not modelled 5.4 22 PDB header:oxidoreductase, membrane protein Chain: C: PDB Molecule:particulate methane monooxygenase subunit c2; PDBTitle: crystal structure of particulate methane monooxygenase

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