Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	N	L	S	L	R	R	S	T	S	A	L	L	A	S	S	L	L	L	T	I	G	R	G	A	T	L	P	F	M	T	I	Y	L	S	R	Q	Y	S	L	S	V	D	L	I	G	Y	A	M	T	I	A	L	T	I	G	V	V	F	S
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		L	G	F	G	I	L	A	D	K	F	D	K	K	R	Y	M	L	L	A	I	T	A	F	A	S	G	F	I	A	I	T	L	V	N	N	V	T	L	V	V	L	F	F	A	L	I	N	C	A	Y	S	V	F	A	T	V	L	K	A	W
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		F	A	D	N	L	S	S	T	S	K	T	K	I	F	S	I	N	Y	T	M	L	N	I	G	W	T	I	G	P	P	L	G	T	L	L	V	M	Q	S	I	N	L	P	F	W	L	A	A	I	C	S	A	F	P	M	L	F	I	Q	I
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		W	V	K	R	S	E	K	I	I	A	T	E	T	G	S	V	W	S	P	K	V	L	L	Q	D	K	A	L	L	W	F	T	C	S	G	F	L	A	S	F	V	S	G	A	F	A	S	C	I	S	Q	Y	V	M	V	I	A	D	G	D
Secondary structure
SS confidence
Disorder							?	?	?	?	?	?	?	?	?	?	?	?	?	?																																						?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		F	A	E	K	V	V	A	V	V	L	P	V	N	A	A	M	V	V	T	L	Q	Y	S	V	G	R	R	L	N	P	A	N	I	R	A	L	M	T	A	G	T	L	C	F	V	I	G	L	V	G	F	I	F	S	G	N	S	L	L	L
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence		W	G	M	S	A	A	V	F	T	V	G	E	I	I	Y	A	P	G	E	Y	M	L	I	D	H	I	A	P	P	E	M	K	A	S	Y	F	S	A	Q	S	L	G	W	L	G	A	A	I	N	P	L	V	S	G	V	V	L	T	S	L
Secondary structure
SS confidence
Disorder																											?
Disorder confidence
		.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.	.	.
Sequence		P	P	S	S	L	F	V	I	L	A	L	V	I	I	A	A	W	V	L	M	L	K	G	I	R	A	R	P	W	G	Q	P	A	L	C
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: 1 - 388 Aligned: 388 Modelled: 388 Confidence: 100.0% Identity: 13% Fold: MFS general substrate transporter Superfamily: MFS general substrate transporter Family: LacY-like proton/sugar symporter Phyre2 PDB 1pw4 chain A Region: 1 - 391 Aligned: 390 Modelled: 391 Confidence: 100.0% Identity: 11% Fold: MFS general substrate transporter Superfamily: MFS general substrate transporter Family: Glycerol-3-phosphate transporter Phyre2 PDB 2gfp chain A Region: 9 - 376 Aligned: 366 Modelled: 368 Confidence: 100.0% Identity: 13% PDB header:membrane protein Chain: A: PDB Molecule:multidrug resistance protein d; PDBTitle: structure of the multidrug transporter emrd from2 escherichia coli Phyre2 PDB 3o7p chain A Region: 7 - 386 Aligned: 378 Modelled: 380 Confidence: 100.0% 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 2xut chain C Region: 11 - 381 Aligned: 371 Modelled: 371 Confidence: 100.0% Identity: 16% 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 3b9y chain A Region: 2 - 210 Aligned: 200 Modelled: 209 Confidence: 17.4% Identity: 14% 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 3qnq chain D Region: 149 - 201 Aligned: 53 Modelled: 53 Confidence: 16.7% Identity: 11% 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 2g9p chain A Region: 62 - 75 Aligned: 14 Modelled: 14 Confidence: 12.5% Identity: 43% PDB header:antimicrobial protein Chain: A: PDB Molecule:antimicrobial peptide latarcin 2a; PDBTitle: nmr structure of a novel antimicrobial peptide, latarcin 2a,2 from spider (lachesana tarabaevi) venom Phyre2 PDB 1v54 chain L Region: 2 - 32 Aligned: 31 Modelled: 31 Confidence: 8.7% Identity: 23% Fold: Single transmembrane helix Superfamily: Mitochondrial cytochrome c oxidase subunit VIIc (aka VIIIa) Family: Mitochondrial cytochrome c oxidase subunit VIIc (aka VIIIa) Phyre2 PDB 2bbj chain B Region: 329 - 387 Aligned: 59 Modelled: 59 Confidence: 8.5% Identity: 8% PDB header:metal transport/membrane protein Chain: B: PDB Molecule:divalent cation transport-related protein; PDBTitle: crystal structure of the cora mg2+ transporter Phyre2 PDB 3hd6 chain A Region: 2 - 209 Aligned: 203 Modelled: 208 Confidence: 7.9% Identity: 11% 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 1z0x chain A domain 1 Region: 387 - 395 Aligned: 9 Modelled: 9 Confidence: 7.8% Identity: 44% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Homeodomain-like Family: Tetracyclin repressor-like, N-terminal domain Phyre2 1 d1pv7a_ 2 d1pw4a_ 3 c2gfpA_ 4 c3o7pA_ 5 c2xutC_ 6 c3b9yA_ 7 c3qnqD_ 8 c2g9pA_ 9 d1v54l_ 10 c2bbjB_ 11 c3hd6A_ 12 d1z0xa1

Detailed template information

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

1 d1pv7a_ 100.0 13 Fold:MFS general substrate transporter Superfamily:MFS general substrate transporter Family:LacY-like proton/sugar symporter 2 d1pw4a_ 100.0 11 Fold:MFS general substrate transporter Superfamily:MFS general substrate transporter Family:Glycerol-3-phosphate transporter 3 c2gfpA_ 100.0 13 PDB header:membrane protein Chain: A: PDB Molecule:multidrug resistance protein d; PDBTitle: structure of the multidrug transporter emrd from2 escherichia coli 4 c3o7pA_ 100.0 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) 5 c2xutC_ 100.0 16 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 c3b9yA_ 17.4 14 PDB header:transport protein Chain: A: PDB Molecule:ammonium transporter family rh-like protein; PDBTitle: crystal structure of the nitrosomonas europaea rh protein 7 c3qnqD_ 16.7 11 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 8 c2g9pA_ 12.5 43 PDB header:antimicrobial protein Chain: A: PDB Molecule:antimicrobial peptide latarcin 2a; PDBTitle: nmr structure of a novel antimicrobial peptide, latarcin 2a,2 from spider (lachesana tarabaevi) venom 9 d1v54l_ 8.7 23 Fold:Single transmembrane helix Superfamily:Mitochondrial cytochrome c oxidase subunit VIIc (aka VIIIa) Family:Mitochondrial cytochrome c oxidase subunit VIIc (aka VIIIa) 10 c2bbjB_ 8.5 8 PDB header:metal transport/membrane protein Chain: B: PDB Molecule:divalent cation transport-related protein; PDBTitle: crystal structure of the cora mg2+ transporter 11 c3hd6A_ 7.9 11 PDB header:membrane protein, transport protein Chain: A: PDB Molecule:ammonium transporter rh type c; PDBTitle: crystal structure of the human rhesus glycoprotein rhcg 12 d1z0xa1 7.8 44 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Tetracyclin repressor-like, N-terminal 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