Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	D	F	Q	L	Y	S	L	G	A	A	L	V	F	H	E	I	F	F	P	E	S	S	T	A	M	A	L	I	L	A	M	G	T	Y	G	A	G	Y	V	A	R	I	V	G	A	F	I	F	G	K	M	G	D	R	I	G	R	K	K
Secondary structure
SS confidence
Disorder		?	?	?												?									?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		V	L	F	I	T	I	T	M	M	G	I	C	T	T	L	I	G	V	L	P	T	Y	A	Q	I	G	V	F	A	P	I	L	L	V	T	L	R	I	I	Q	G	L	G	A	G	A	E	I	S	G	A	G	T	M	L	A	E	Y	A	P
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		K	G	K	R	G	I	I	S	S	F	V	A	M	G	T	N	C	G	T	L	S	A	T	A	I	W	A	F	M	F	F	I	L	S	K	E	E	L	L	A	W	G	W	R	I	P	F	L	A	S	V	V	V	M	V	F	A	I	W	L
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		R	M	N	L	K	E	S	P	V	F	E	K	V	N	D	S	N	Q	P	T	A	K	P	A	P	A	G	S	M	F	Q	S	K	S	F	W	L	A	T	G	L	R	F	G	Q	A	G	N	S	G	L	I	Q	T	F	L	A	G	Y	L
Secondary structure
SS confidence
Disorder																	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		V	Q	T	L	L	F	N	K	A	I	P	T	D	A	L	M	I	S	S	I	L	G	F	M	T	I	P	F	L	G	W	L	S	D	K	I	G	R	R	I	P	Y	I	I	M	N	T	S	A	I	V	L	A	W	P	M	L	S	I	I
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence		V	D	K	S	Y	A	P	S	T	I	M	V	A	L	I	V	I	H	N	C	A	V	L	G	L	F	A	L	E	N	I	T	M	A	E	M	F	G	C	K	N	R	F	T	R	M	A	I	S	K	E	I	G	G	L	I	A	S	G	F
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.	.	.	.	.	.	.	400	.	.	.	.	.	.	.	.	.	410	.	.	.	.	.	.	.	.	.	420
Sequence		G	P	I	L	A	G	I	F	C	T	M	T	E	S	W	Y	P	I	A	I	M	I	M	A	Y	S	V	I	G	L	I	S	A	L	K	M	P	E	V	K	D	R	D	L	S	A	L	E	D	A	A	E	D	Q	P	R	V	V	R	A
Secondary structure
SS confidence
Disorder																																													?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.
Sequence		A	Q	P	S	R	S	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 1pw4 chain A Region: 1 - 412 Aligned: 392 Modelled: 406 Confidence: 100.0% Identity: 17% Fold: MFS general substrate transporter Superfamily: MFS general substrate transporter Family: Glycerol-3-phosphate transporter Phyre2 PDB 3o7p chain A Region: 3 - 399 Aligned: 375 Modelled: 397 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 1pv7 chain A Region: 1 - 411 Aligned: 396 Modelled: 411 Confidence: 99.9% Identity: 11% Fold: MFS general substrate transporter Superfamily: MFS general substrate transporter Family: LacY-like proton/sugar symporter Phyre2 PDB 2gfp chain A Region: 1 - 388 Aligned: 356 Modelled: 385 Confidence: 99.9% Identity: 15% 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: 19 - 395 Aligned: 362 Modelled: 377 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: 362 - 414 Aligned: 53 Modelled: 53 Confidence: 75.1% Identity: 9% 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 2xq2 chain A Region: 48 - 415 Aligned: 363 Modelled: 368 Confidence: 26.8% Identity: 10% PDB header:transport protein Chain: A: PDB Molecule:sodium/glucose cotransporter; PDBTitle: structure of the k294a mutant of vsglt Phyre2 PDB 2g9p chain A Region: 48 - 61 Aligned: 14 Modelled: 14 Confidence: 18.6% 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 3ff5 chain B Region: 398 - 414 Aligned: 17 Modelled: 17 Confidence: 10.8% Identity: 12% PDB header:protein transport Chain: B: PDB Molecule:peroxisomal biogenesis factor 14; PDBTitle: crystal structure of the conserved n-terminal domain of the2 peroxisomal matrix-protein-import receptor, pex14p Phyre2 PDB 2wwa chain A Region: 373 - 425 Aligned: 53 Modelled: 53 Confidence: 10.4% Identity: 11% PDB header:ribosome Chain: A: PDB Molecule:sec sixty-one protein homolog; PDBTitle: cryo-em structure of idle yeast ssh1 complex bound to the2 yeast 80s ribosome Phyre2 PDB 2wwb chain A Region: 373 - 426 Aligned: 54 Modelled: 54 Confidence: 8.9% Identity: 13% PDB header:ribosome Chain: A: PDB Molecule:protein transport protein sec61 subunit alpha isoform 1; PDBTitle: cryo-em structure of the mammalian sec61 complex bound to the2 actively translating wheat germ 80s ribosome Phyre2 PDB 2w85 chain A Region: 398 - 419 Aligned: 22 Modelled: 22 Confidence: 7.7% Identity: 9% PDB header:protein transport Chain: A: PDB Molecule:peroxisomal membrane anchor protein pex14; PDBTitle: structure of pex14 in compex with pex19 Phyre2 PDB 2inp chain D Region: 49 - 60 Aligned: 12 Modelled: 12 Confidence: 6.3% Identity: 33% PDB header:oxidoreductase Chain: D: PDB Molecule:phenol hydroxylase component phl; PDBTitle: structure of the phenol hydroxylase-regulatory protein2 complex Phyre2 PDB 3hd6 chain A Region: 198 - 422 Aligned: 220 Modelled: 225 Confidence: 6.2% Identity: 9% 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 3mmy chain F Region: 395 - 408 Aligned: 14 Modelled: 14 Confidence: 5.9% Identity: 29% PDB header:nuclear protein Chain: F: PDB Molecule:nuclear pore complex protein nup98; PDBTitle: structural and functional analysis of the interaction between the2 nucleoporin nup98 and the mrna export factor rae1 Phyre2 PDB 1vtm chain P Region: 398 - 423 Aligned: 26 Modelled: 26 Confidence: 5.9% Identity: 19% Fold: Four-helical up-and-down bundle Superfamily: TMV-like viral coat proteins Family: TMV-like viral coat proteins Phyre2 PDB 3c9p chain A Region: 398 - 409 Aligned: 12 Modelled: 12 Confidence: 5.6% Identity: 17% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein sp1917; PDBTitle: crystal structure of uncharacterized protein sp1917 Phyre2 PDB 1r9p chain A Region: 385 - 425 Aligned: 41 Modelled: 41 Confidence: 5.2% Identity: 17% Fold: SufE/NifU Superfamily: SufE/NifU Family: NifU/IscU domain Phyre2 1 d1pw4a_ 2 c3o7pA_ 3 d1pv7a_ 4 c2gfpA_ 5 c2xutC_ 6 c3qnqD_ 7 c2xq2A_ 8 c2g9pA_ 9 c3ff5B_ 10 c2wwaA_ 11 c2wwbA_ 12 c2w85A_ 13 c2inpD_ 14 c3hd6A_ 15 c3mmyF_ 16 d1vtmp_ 17 c3c9pA_ 18 d1r9pa_

Detailed template information

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

1 d1pw4a_ 100.0 17 Fold:MFS general substrate transporter Superfamily:MFS general substrate transporter Family:Glycerol-3-phosphate transporter 2 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) 3 d1pv7a_ 99.9 11 Fold:MFS general substrate transporter Superfamily:MFS general substrate transporter Family:LacY-like proton/sugar symporter 4 c2gfpA_ 99.9 15 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_ 75.1 9 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 c2xq2A_ 26.8 10 PDB header:transport protein Chain: A: PDB Molecule:sodium/glucose cotransporter; PDBTitle: structure of the k294a mutant of vsglt 8 c2g9pA_ 18.6 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 c3ff5B_ 10.8 12 PDB header:protein transport Chain: B: PDB Molecule:peroxisomal biogenesis factor 14; PDBTitle: crystal structure of the conserved n-terminal domain of the2 peroxisomal matrix-protein-import receptor, pex14p 10 c2wwaA_ 10.4 11 PDB header:ribosome Chain: A: PDB Molecule:sec sixty-one protein homolog; PDBTitle: cryo-em structure of idle yeast ssh1 complex bound to the2 yeast 80s ribosome 11 c2wwbA_ 8.9 13 PDB header:ribosome Chain: A: PDB Molecule:protein transport protein sec61 subunit alpha isoform 1; PDBTitle: cryo-em structure of the mammalian sec61 complex bound to the2 actively translating wheat germ 80s ribosome 12 c2w85A_ 7.7 9 PDB header:protein transport Chain: A: PDB Molecule:peroxisomal membrane anchor protein pex14; PDBTitle: structure of pex14 in compex with pex19 13 c2inpD_ 6.3 33 PDB header:oxidoreductase Chain: D: PDB Molecule:phenol hydroxylase component phl; PDBTitle: structure of the phenol hydroxylase-regulatory protein2 complex 14 c3hd6A_ 6.2 9 PDB header:membrane protein, transport protein Chain: A: PDB Molecule:ammonium transporter rh type c; PDBTitle: crystal structure of the human rhesus glycoprotein rhcg 15 c3mmyF_ 5.9 29 PDB header:nuclear protein Chain: F: PDB Molecule:nuclear pore complex protein nup98; PDBTitle: structural and functional analysis of the interaction between the2 nucleoporin nup98 and the mrna export factor rae1 16 d1vtmp_ 5.9 19 Fold:Four-helical up-and-down bundle Superfamily:TMV-like viral coat proteins Family:TMV-like viral coat proteins 17 c3c9pA_ 5.6 17 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein sp1917; PDBTitle: crystal structure of uncharacterized protein sp1917 18 d1r9pa_ 5.2 17 Fold:SufE/NifU Superfamily:SufE/NifU Family:NifU/IscU 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