Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	S	D	H	N	P	L	T	L	K	L	N	L	R	E	K	I	A	Y	G	M	G	D	V	G	S	N	L	M	L	C	I	G	T	L	Y	L	L	K	F	Y	T	D	E	L	G	M	P	A	Y	Y	G	G	I	I	F	L	V	A	K
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		F	F	T	A	F	T	D	M	L	T	G	F	L	L	D	S	R	K	N	I	G	P	K	G	K	F	R	P	F	I	L	Y	A	A	V	P	A	A	L	I	A	T	L	Q	F	I	A	T	T	F	C	L	P	V	K	T	T	I	A	T
Secondary structure
SS confidence
Disorder																																																			?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		A	L	F	M	M	F	G	L	S	Y	S	L	M	N	C	S	Y	G	A	M	I	P	A	I	T	K	N	P	N	E	R	A	Q	L	A	A	Y	R	Q	G	G	A	T	I	G	L	L	I	C	T	V	A	F	I	P	L	Q	S	L	F
Secondary structure
SS confidence
Disorder																											?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		S	D	S	T	V	G	Y	A	C	A	A	L	M	F	S	I	G	G	F	I	F	M	M	L	C	Y	R	G	V	K	E	H	Y	V	D	T	T	P	T	G	H	K	A	S	I	L	K	S	F	C	A	I	F	R	N	P	P	L	L	V
Secondary structure
SS confidence
Disorder																																?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		L	C	I	A	N	L	C	T	L	A	A	F	N	I	K	L	A	I	Q	V	Y	Y	T	Q	Y	V	L	N	D	I	N	L	L	S	W	M	G	F	F	S	M	G	C	I	L	I	G	V	L	L	V	P	L	T	V	K	C	F	G	K
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence		K	Q	V	Y	L	A	G	M	V	L	W	A	V	G	D	I	L	N	Y	F	W	G	S	N	S	F	T	F	V	M	F	S	C	V	A	F	F	G	T	A	F	V	N	S	L	N	W	A	L	V	P	D	T	V	D	Y	G	E	W	K
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.	.	.	.	.	.	.	400	.	.	.	.	.	.	.	.	.	410	.	.	.	.	.	.	.	.	.	420
Sequence		T	G	I	R	A	E	G	S	V	Y	T	G	Y	T	F	F	R	K	I	S	A	A	L	A	G	F	L	P	G	I	M	L	T	Q	I	G	Y	V	P	N	I	A	Q	S	D	A	T	L	Q	G	L	R	Q	L	I	F	I	W	P	C
Secondary structure
SS confidence
Disorder																																										?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	430	.	.	.	.	.	.	.	.	.	440	.	.	.	.	.	.	.	.	.	450	.	.	.	.	.	.	.	.	.	460	.	.	.	.	.	.	.
Sequence		A	L	A	I	I	A	A	L	T	M	G	F	F	Y	T	L	N	E	K	R	F	A	L	I	I	E	E	I	N	Q	R	K	N	K	E	M	A	T	E	E	K	T	A	S	V	T	L
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 1pv7 chain A Region: 9 - 457 Aligned: 413 Modelled: 434 Confidence: 100.0% Identity: 14% Fold: MFS general substrate transporter Superfamily: MFS general substrate transporter Family: LacY-like proton/sugar symporter Phyre2 PDB 1pw4 chain A Region: 2 - 448 Aligned: 414 Modelled: 432 Confidence: 100.0% Identity: 14% Fold: MFS general substrate transporter Superfamily: MFS general substrate transporter Family: Glycerol-3-phosphate transporter Phyre2 PDB 3o7p chain A Region: 19 - 437 Aligned: 382 Modelled: 404 Confidence: 99.9% Identity: 13% PDB header:transport protein Chain: A: PDB Molecule:l-fucose-proton symporter; PDBTitle: crystal structure of the e.coli fucose:proton symporter, fucp (n162a) Phyre2 PDB 2gfp chain A Region: 16 - 436 Aligned: 372 Modelled: 394 Confidence: 99.9% Identity: 10% PDB header:membrane protein Chain: A: PDB Molecule:multidrug resistance protein d; PDBTitle: structure of the multidrug transporter emrd from2 escherichia coli Phyre2 PDB 2xut chain C Region: 21 - 425 Aligned: 387 Modelled: 405 Confidence: 99.9% Identity: 12% PDB header:transport protein Chain: C: PDB Molecule:proton/peptide symporter family protein; PDBTitle: crystal structure of a proton dependent oligopeptide (pot)2 family transporter. Phyre2 PDB 3qnq chain D Region: 375 - 453 Aligned: 79 Modelled: 79 Confidence: 76.6% Identity: 13% 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 3hd6 chain A Region: 220 - 460 Aligned: 220 Modelled: 241 Confidence: 54.3% Identity: 10% PDB header:membrane protein, transport protein Chain: A: PDB Molecule:ammonium transporter rh type c; PDBTitle: crystal structure of the human rhesus glycoprotein rhcg Phyre2 PDB 3d9s chain B Region: 413 - 454 Aligned: 42 Modelled: 42 Confidence: 20.9% Identity: 14% PDB header:membrane protein Chain: B: PDB Molecule:aquaporin-5; PDBTitle: human aquaporin 5 (aqp5) - high resolution x-ray structure Phyre2 PDB 3b9y chain A Region: 223 - 463 Aligned: 212 Modelled: 224 Confidence: 16.3% Identity: 9% PDB header:transport protein Chain: A: PDB Molecule:ammonium transporter family rh-like protein; PDBTitle: crystal structure of the nitrosomonas europaea rh protein Phyre2 PDB 2oar chain A domain 1 Region: 413 - 467 Aligned: 45 Modelled: 55 Confidence: 15.0% Identity: 18% Fold: Gated mechanosensitive channel Superfamily: Gated mechanosensitive channel Family: Gated mechanosensitive channel Phyre2 PDB 2w8a chain C Region: 313 - 461 Aligned: 130 Modelled: 149 Confidence: 10.5% Identity: 9% 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 1by0 chain A Region: 438 - 463 Aligned: 26 Modelled: 26 Confidence: 9.3% Identity: 19% PDB header:rna binding protein Chain: A: PDB Molecule:protein (hepatitis delta antigen); PDBTitle: n-terminal leucine-repeat region of hepatitis delta antigen Phyre2 PDB 1ymg chain A Region: 413 - 449 Aligned: 37 Modelled: 37 Confidence: 7.0% Identity: 14% PDB header:membrane protein Chain: A: PDB Molecule:lens fiber major intrinsic protein; PDBTitle: the channel architecture of aquaporin o at 2.2 angstrom resolution Phyre2 PDB 1ymg chain A domain 1 Region: 413 - 449 Aligned: 37 Modelled: 37 Confidence: 7.0% Identity: 14% Fold: Aquaporin-like Superfamily: Aquaporin-like Family: Aquaporin-like Phyre2 PDB 1j4n chain A Region: 413 - 447 Aligned: 35 Modelled: 35 Confidence: 6.5% Identity: 14% Fold: Aquaporin-like Superfamily: Aquaporin-like Family: Aquaporin-like Phyre2 PDB 2oar chain A Region: 413 - 467 Aligned: 45 Modelled: 55 Confidence: 6.3% Identity: 18% PDB header:membrane protein Chain: A: PDB Molecule:large-conductance mechanosensitive channel; PDBTitle: mechanosensitive channel of large conductance (mscl) Phyre2 PDB 1xao chain A Region: 434 - 467 Aligned: 34 Modelled: 34 Confidence: 5.7% Identity: 12% PDB header:chaperone Chain: A: PDB Molecule:mitochondrial protein import protein mas5; PDBTitle: hsp40-ydj1 dimerization domain Phyre2 1 d1pv7a_ 2 d1pw4a_ 3 c3o7pA_ 4 c2gfpA_ 5 c2xutC_ 6 c3qnqD_ 7 c3hd6A_ 8 c3d9sB_ 9 c3b9yA_ 10 d2oara1 11 c2w8aC_ 12 c1by0A_ 13 c1ymgA_ 14 d1ymga1 15 d1j4na_ 16 c2oarA_ 17 c1xaoA_

Detailed template information

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

1 d1pv7a_ 100.0 14 Fold:MFS general substrate transporter Superfamily:MFS general substrate transporter Family:LacY-like proton/sugar symporter 2 d1pw4a_ 100.0 14 Fold:MFS general substrate transporter Superfamily:MFS general substrate transporter Family:Glycerol-3-phosphate transporter 3 c3o7pA_ 99.9 13 PDB header:transport protein Chain: A: PDB Molecule:l-fucose-proton symporter; PDBTitle: crystal structure of the e.coli fucose:proton symporter, fucp (n162a) 4 c2gfpA_ 99.9 10 PDB header:membrane protein Chain: A: PDB Molecule:multidrug resistance protein d; PDBTitle: structure of the multidrug transporter emrd from2 escherichia coli 5 c2xutC_ 99.9 12 PDB header:transport protein Chain: C: PDB Molecule:proton/peptide symporter family protein; PDBTitle: crystal structure of a proton dependent oligopeptide (pot)2 family transporter. 6 c3qnqD_ 76.6 13 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 7 c3hd6A_ 54.3 10 PDB header:membrane protein, transport protein Chain: A: PDB Molecule:ammonium transporter rh type c; PDBTitle: crystal structure of the human rhesus glycoprotein rhcg 8 c3d9sB_ 20.9 14 PDB header:membrane protein Chain: B: PDB Molecule:aquaporin-5; PDBTitle: human aquaporin 5 (aqp5) - high resolution x-ray structure 9 c3b9yA_ 16.3 9 PDB header:transport protein Chain: A: PDB Molecule:ammonium transporter family rh-like protein; PDBTitle: crystal structure of the nitrosomonas europaea rh protein 10 d2oara1 15.0 18 Fold:Gated mechanosensitive channel Superfamily:Gated mechanosensitive channel Family:Gated mechanosensitive channel 11 c2w8aC_ 10.5 9 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 12 c1by0A_ 9.3 19 PDB header:rna binding protein Chain: A: PDB Molecule:protein (hepatitis delta antigen); PDBTitle: n-terminal leucine-repeat region of hepatitis delta antigen 13 c1ymgA_ 7.0 14 PDB header:membrane protein Chain: A: PDB Molecule:lens fiber major intrinsic protein; PDBTitle: the channel architecture of aquaporin o at 2.2 angstrom resolution 14 d1ymga1 7.0 14 Fold:Aquaporin-like Superfamily:Aquaporin-like Family:Aquaporin-like 15 d1j4na_ 6.5 14 Fold:Aquaporin-like Superfamily:Aquaporin-like Family:Aquaporin-like 16 c2oarA_ 6.3 18 PDB header:membrane protein Chain: A: PDB Molecule:large-conductance mechanosensitive channel; PDBTitle: mechanosensitive channel of large conductance (mscl) 17 c1xaoA_ 5.7 12 PDB header:chaperone Chain: A: PDB Molecule:mitochondrial protein import protein mas5; PDBTitle: hsp40-ydj1 dimerization domain

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