Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	R	K	I	V	A	M	A	V	I	C	L	T	A	A	S	G	L	T	S	A	Y	A	A	Q	L	A	D	D	E	A	G	L	R	I	R	L	K	N	E	L	R	R	A	D	K	P	S	A	G	A	G	R	D	I	Y	A	W	V	Q
Secondary structure
SS confidence
Disorder		?	?	?											?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?													?	?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		G	G	L	L	D	F	N	S	G	Y	Y	S	N	I	I	G	V	E	G	G	A	Y	Y	V	Y	K	L	G	A	R	A	D	M	S	T	R	W	Y	L	D	G	D	K	S	F	G	F	A	L	G	A	V	K	I	K	P	S	E	N	S
Secondary structure
SS confidence
Disorder																													?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		L	L	K	L	G	R	F	G	T	D	Y	S	Y	G	S	L	P	Y	R	I	P	L	M	A	G	S	S	Q	R	T	L	P	T	V	S	E	G	A	L	G	Y	W	A	L	T	P	N	I	D	L	W	G	M	W	R	S	R	V	F	L
Secondary structure
SS confidence
Disorder						?		?		?					?	?	?											?	?	?	?		?																							?		?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		W	T	D	S	T	T	G	I	R	D	E	G	V	Y	N	S	Q	T	G	K	Y	D	K	H	R	A	R	S	F	L	A	A	S	W	H	D	D	T	S	R	Y	S	L	G	A	S	V	Q	K	D	V	S	N	Q	I	Q	S	I	L	E
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?	?	?	?	?		?	?	?	?		?	?			?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		K	S	I	P	L	D	P	N	Y	T	L	K	G	E	L	L	G	F	Y	A	Q	L	E	G	L	S	R	N	T	S	Q	P	N	E	T	A	L	V	S	G	Q	L	T	W	N	A	P	W	G	S	V	F	G	S	G	G	Y	L	R	H
Secondary structure
SS confidence
Disorder								?	?														?	?	?	?	?	?	?	?	?	?	?	?				?	?	?																?	?	?			?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence		A	M	N	G	A	V	V	D	T	D	I	G	Y	P	F	S	L	S	L	D	R	N	R	E	G	M	Q	S	W	Q	L	G	V	N	Y	R	L	T	P	Q	F	T	L	T	F	A	P	I	V	T	R	G	Y	E	S	S	K	R	D	V
Secondary structure
SS confidence
Disorder		?	?	?	?	?															?	?	?	?	?																?	?	?	?		?									?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.	.	.	.	.	.	.	400	.	.	.	.	.	.	.	.	.	410	.	.	.	.	.	.	.	.	.	420
Sequence		R	I	E	G	T	G	I	L	G	G	M	N	Y	R	V	S	E	G	P	L	Q	G	M	N	F	F	L	A	A	D	K	G	R	E	K	R	D	G	S	T	L	G	D	R	L	N	Y	W	D	V	K	M	S	I	Q	Y	D	F	M	L
Secondary structure
SS confidence
Disorder		?	?	?		?																									?	?	?	?	?	?	?	?	?	?	?	?	?		?												?				?
Disorder confidence
		.
Sequence		K
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 2y0h chain A Region: 28 - 420 Aligned: 350 Modelled: 361 Confidence: 100.0% Identity: 18% PDB header:transport protein Chain: A: PDB Molecule:probable porin; PDBTitle: crystal structure of pseudomonas aeruginosa opdl Phyre2 PDB 2odj chain A Region: 17 - 420 Aligned: 351 Modelled: 367 Confidence: 100.0% Identity: 18% PDB header:membrane protein Chain: A: PDB Molecule:porin d; PDBTitle: crystal structure of the outer membrane protein oprd from pseudomonas2 aeruginosa Phyre2 PDB 2y0l chain A Region: 25 - 420 Aligned: 351 Modelled: 371 Confidence: 100.0% Identity: 17% PDB header:transport protein Chain: A: PDB Molecule:cis-aconitate porin opdh; PDBTitle: crystal structure of pseudomonas aeruginosa opdo Phyre2 PDB 2qtk chain B Region: 27 - 419 Aligned: 356 Modelled: 375 Confidence: 100.0% Identity: 19% PDB header:membrane protein Chain: B: PDB Molecule:probable porin; PDBTitle: crystal structure of the outer membrane protein opdk from2 pseudomonas aeruginosa Phyre2 PDB 3jty chain B Region: 26 - 420 Aligned: 371 Modelled: 395 Confidence: 100.0% Identity: 19% PDB header:transport protein Chain: B: PDB Molecule:benf-like porin; PDBTitle: crystal structure of a benf-like porin from pseudomonas fluorescens2 pf-5 Phyre2 PDB 2y0k chain A Region: 24 - 420 Aligned: 351 Modelled: 374 Confidence: 100.0% Identity: 19% PDB header:transport protein Chain: A: PDB Molecule:pyroglutatmate porin opdo; PDBTitle: crystal structure of pseudomonas aeruginosa opdo Phyre2 PDB 3rbh chain C Region: 119 - 419 Aligned: 280 Modelled: 296 Confidence: 96.9% Identity: 15% PDB header:transport protein Chain: C: PDB Molecule:alginate production protein alge; PDBTitle: structure of alginate export protein alge from pseudomonas aeruginosa Phyre2 PDB 2wjq chain A Region: 294 - 419 Aligned: 117 Modelled: 121 Confidence: 95.8% Identity: 12% PDB header:transport protein Chain: A: PDB Molecule:probable n-acetylneuraminic acid outer membrane channel PDBTitle: nanc porin structure in hexagonal crystal form. Phyre2 PDB 3nsg chain A Region: 32 - 418 Aligned: 311 Modelled: 333 Confidence: 90.3% Identity: 12% PDB header:membrane protein Chain: A: PDB Molecule:outer membrane protein f; PDBTitle: crystal structure of ompf, an outer membrane protein from salmonella2 typhi Phyre2 PDB 1g90 chain A Region: 188 - 379 Aligned: 144 Modelled: 144 Confidence: 87.5% Identity: 16% Fold: Transmembrane beta-barrels Superfamily: OMPA-like Family: Outer membrane protein Phyre2 PDB 3a2r chain X Region: 78 - 375 Aligned: 250 Modelled: 254 Confidence: 83.0% Identity: 11% PDB header:membrane protein Chain: X: PDB Molecule:outer membrane protein ii; PDBTitle: crystal structure of outer membrane protein porb from neisseria2 meningitidis Phyre2 PDB 1p4t chain A Region: 328 - 375 Aligned: 47 Modelled: 48 Confidence: 79.9% Identity: 15% Fold: Transmembrane beta-barrels Superfamily: OMPA-like Family: Outer membrane protein Phyre2 PDB 3qra chain A Region: 324 - 419 Aligned: 94 Modelled: 94 Confidence: 78.6% Identity: 10% PDB header:cell invasion Chain: A: PDB Molecule:attachment invasion locus protein; PDBTitle: the crystal structure of ail, the attachment invasion locus protein of2 yersinia pestis Phyre2 PDB 2f1t chain B Region: 230 - 375 Aligned: 146 Modelled: 146 Confidence: 64.4% Identity: 12% PDB header:membrane protein Chain: B: PDB Molecule:outer membrane protein w; PDBTitle: outer membrane protein ompw Phyre2 PDB 1osm chain A Region: 32 - 418 Aligned: 304 Modelled: 317 Confidence: 61.0% Identity: 10% Fold: Transmembrane beta-barrels Superfamily: Porins Family: Porin Phyre2 PDB 2por chain A Region: 30 - 375 Aligned: 273 Modelled: 299 Confidence: 50.5% Identity: 14% Fold: Transmembrane beta-barrels Superfamily: Porins Family: Porin Phyre2 PDB 2x27 chain X Region: 230 - 375 Aligned: 146 Modelled: 146 Confidence: 49.1% Identity: 14% PDB header:membrane protein Chain: X: PDB Molecule:outer membrane protein oprg; PDBTitle: crystal structure of the outer membrane protein oprg from2 pseudomonas aeruginosa Phyre2 PDB 2fgq chain X domain 1 Region: 158 - 375 Aligned: 170 Modelled: 176 Confidence: 48.8% Identity: 13% Fold: Transmembrane beta-barrels Superfamily: Porins Family: Porin Phyre2 PDB 3fhh chain A Region: 326 - 418 Aligned: 91 Modelled: 93 Confidence: 46.2% Identity: 13% PDB header:membrane protein Chain: A: PDB Molecule:outer membrane heme receptor shua; PDBTitle: crystal structure of the heme/hemoglobin outer membrane2 transporter shua from shigella dysenteriae Phyre2 PDB 2k0l chain A Region: 174 - 375 Aligned: 159 Modelled: 159 Confidence: 42.5% Identity: 15% PDB header:membrane protein Chain: A: PDB Molecule:outer membrane protein a; PDBTitle: nmr structure of the transmembrane domain of the outer2 membrane protein a from klebsiella pneumoniae in dhpc3 micelles. Phyre2 1 c2y0hA_ 2 c2odjA_ 3 c2y0lA_ 4 c2qtkB_ 5 c3jtyB_ 6 c2y0kA_ 7 c3rbhC_ 8 c2wjqA_ 9 c3nsgA_ 10 d1g90a_ 11 c3a2rX_ 12 d1p4ta_ 13 c3qraA_ 14 c2f1tB_ 15 d1osma_ 16 d2pora_ 17 c2x27X_ 18 d2fgqx1 19 c3fhhA_ 20 c2k0lA_ 21 22 23 24 25 26 27 28 29 30 31

Detailed template information

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

1 c2y0hA_ 100.0 18 PDB header:transport protein Chain: A: PDB Molecule:probable porin; PDBTitle: crystal structure of pseudomonas aeruginosa opdl 2 c2odjA_ 100.0 18 PDB header:membrane protein Chain: A: PDB Molecule:porin d; PDBTitle: crystal structure of the outer membrane protein oprd from pseudomonas2 aeruginosa 3 c2y0lA_ 100.0 17 PDB header:transport protein Chain: A: PDB Molecule:cis-aconitate porin opdh; PDBTitle: crystal structure of pseudomonas aeruginosa opdo 4 c2qtkB_ 100.0 19 PDB header:membrane protein Chain: B: PDB Molecule:probable porin; PDBTitle: crystal structure of the outer membrane protein opdk from2 pseudomonas aeruginosa 5 c3jtyB_ 100.0 19 PDB header:transport protein Chain: B: PDB Molecule:benf-like porin; PDBTitle: crystal structure of a benf-like porin from pseudomonas fluorescens2 pf-5 6 c2y0kA_ 100.0 19 PDB header:transport protein Chain: A: PDB Molecule:pyroglutatmate porin opdo; PDBTitle: crystal structure of pseudomonas aeruginosa opdo 7 c3rbhC_ 96.9 15 PDB header:transport protein Chain: C: PDB Molecule:alginate production protein alge; PDBTitle: structure of alginate export protein alge from pseudomonas aeruginosa 8 c2wjqA_ 95.8 12 PDB header:transport protein Chain: A: PDB Molecule:probable n-acetylneuraminic acid outer membrane channel PDBTitle: nanc porin structure in hexagonal crystal form. 9 c3nsgA_ 90.3 12 PDB header:membrane protein Chain: A: PDB Molecule:outer membrane protein f; PDBTitle: crystal structure of ompf, an outer membrane protein from salmonella2 typhi 10 d1g90a_ 87.5 16 Fold:Transmembrane beta-barrels Superfamily:OMPA-like Family:Outer membrane protein 11 c3a2rX_ 83.0 11 PDB header:membrane protein Chain: X: PDB Molecule:outer membrane protein ii; PDBTitle: crystal structure of outer membrane protein porb from neisseria2 meningitidis 12 d1p4ta_ 79.9 15 Fold:Transmembrane beta-barrels Superfamily:OMPA-like Family:Outer membrane protein 13 c3qraA_ 78.6 10 PDB header:cell invasion Chain: A: PDB Molecule:attachment invasion locus protein; PDBTitle: the crystal structure of ail, the attachment invasion locus protein of2 yersinia pestis 14 c2f1tB_ 64.4 12 PDB header:membrane protein Chain: B: PDB Molecule:outer membrane protein w; PDBTitle: outer membrane protein ompw 15 d1osma_ 61.0 10 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Porin 16 d2pora_ 50.5 14 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Porin 17 c2x27X_ 49.1 14 PDB header:membrane protein Chain: X: PDB Molecule:outer membrane protein oprg; PDBTitle: crystal structure of the outer membrane protein oprg from2 pseudomonas aeruginosa 18 d2fgqx1 48.8 13 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Porin 19 c3fhhA_ 46.2 13 PDB header:membrane protein Chain: A: PDB Molecule:outer membrane heme receptor shua; PDBTitle: crystal structure of the heme/hemoglobin outer membrane2 transporter shua from shigella dysenteriae 20 c2k0lA_ 42.5 15 PDB header:membrane protein Chain: A: PDB Molecule:outer membrane protein a; PDBTitle: nmr structure of the transmembrane domain of the outer2 membrane protein a from klebsiella pneumoniae in dhpc3 micelles. 21 c2grxB_ not modelled 38.3 12 PDB header:metal transport Chain: B: PDB Molecule:ferrichrome-iron receptor; PDBTitle: crystal structure of tonb in complex with fhua, e. coli2 outer membrane receptor for ferrichrome 22 d1by5a_ not modelled 30.7 12 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Ligand-gated protein channel 23 c2iwvD_ not modelled 27.7 13 PDB header:ion channel Chain: D: PDB Molecule:outer membrane protein g; PDBTitle: structure of the monomeric outer membrane porin ompg in the2 open and closed conformation 24 c3qlbA_ not modelled 26.9 18 PDB header:metal transport Chain: A: PDB Molecule:enantio-pyochelin receptor; PDBTitle: enantiopyochelin outer membrane tonb-dependent transporter from2 pseudomonas fluorescens bound to the ferri-enantiopyochelin 25 d2nwaa1 not modelled 20.4 17 Fold:PUA domain-like Superfamily:PUA domain-like Family:YtmB-like 26 c3nb3C_ not modelled 16.5 18 PDB header:virus Chain: C: PDB Molecule:outer membrane protein a; PDBTitle: the host outer membrane proteins ompa and ompc are packed at specific2 sites in the shigella phage sf6 virion as structural components 27 c2qomB_ not modelled 15.8 12 PDB header:hydrolase Chain: B: PDB Molecule:serine protease espp; PDBTitle: the crystal structure of the e.coli espp autotransporter beta-domain. 28 c3cslB_ not modelled 12.9 10 PDB header:membrane protein/heme binding protein Chain: B: PDB Molecule:hasr protein; PDBTitle: structure of the serratia marcescens hemophore receptor hasr in2 complex with its hemophore hasa and heme 29 d1qj8a_ not modelled 12.1 16 Fold:Transmembrane beta-barrels Superfamily:OMPA-like Family:Outer membrane protein 30 c3brzA_ not modelled 11.8 6 PDB header:transport protein Chain: A: PDB Molecule:todx; PDBTitle: crystal structure of the pseudomonas putida toluene2 transporter todx 31 d1phoa_ not modelled 9.9 9 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Porin

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