Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	K	K	I	A	L	A	G	L	A	G	M	L	L	V	S	A	S	V	N	A	M	S	I	S	G	Q	A	G	K	E	Y	T	N	I	G	V	G	F	G	T	E	T	T	G	L	A	L	S	G	N	W	T	H	N	D	D	D	G	D
Secondary structure
SS confidence
Disorder		?	?	?	?												?	?	?	?	?	?	?			?	?	?	?	?	?					?	?		?	?	?	?	?	?	?	?	?							?		?	?		?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		V	A	G	V	G	L	G	L	N	L	P	L	G	P	L	M	A	T	V	G	G	K	G	V	Y	T	N	P	N	Y	G	D	E	G	Y	A	A	A	V	G	G	G	L	Q	W	K	I	G	N	S	F	R	L	F	G	E	Y	Y	Y	S
Secondary structure
SS confidence
Disorder									?																		?			?		?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		P	D	S	L	S	S	G	I	Q	S	Y	E	E	A	N	A	G	A	R	Y	T	I	M	R	P	V	S	I	E	A	G	Y	R	Y	L	N	L	S	G	K	D	G	N	R	D	N	A	V	A	D	G	P	Y	V	G	V	N	A	S	F
Secondary structure
SS confidence
Disorder																									?	?															?	?	?	?	?	?														?	?
Disorder confidence
Sequence
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 1qj8 chain A Region: 46 - 180 Aligned: 128 Modelled: 135 Confidence: 99.4% Identity: 17% Fold: Transmembrane beta-barrels Superfamily: OMPA-like Family: Outer membrane protein Phyre2 PDB 3qra chain A Region: 29 - 180 Aligned: 138 Modelled: 152 Confidence: 99.4% Identity: 17% 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 1g90 chain A Region: 29 - 180 Aligned: 151 Modelled: 152 Confidence: 99.3% Identity: 13% Fold: Transmembrane beta-barrels Superfamily: OMPA-like Family: Outer membrane protein Phyre2 PDB 3nb3 chain C Region: 41 - 180 Aligned: 125 Modelled: 140 Confidence: 99.3% Identity: 14% 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 Phyre2 PDB 2k0l chain A Region: 14 - 180 Aligned: 166 Modelled: 167 Confidence: 99.3% 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 PDB 1qjp chain A Region: 41 - 180 Aligned: 125 Modelled: 140 Confidence: 99.2% Identity: 14% Fold: Transmembrane beta-barrels Superfamily: OMPA-like Family: Outer membrane protein Phyre2 PDB 1p4t chain A Region: 55 - 180 Aligned: 125 Modelled: 126 Confidence: 99.2% Identity: 13% Fold: Transmembrane beta-barrels Superfamily: OMPA-like Family: Outer membrane protein Phyre2 PDB 2f1t chain B Region: 27 - 180 Aligned: 147 Modelled: 154 Confidence: 98.9% Identity: 14% PDB header:membrane protein Chain: B: PDB Molecule:outer membrane protein w; PDBTitle: outer membrane protein ompw Phyre2 PDB 2x27 chain X Region: 16 - 180 Aligned: 164 Modelled: 165 Confidence: 98.9% Identity: 12% 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 2lhf chain A Region: 59 - 180 Aligned: 122 Modelled: 122 Confidence: 98.8% Identity: 21% PDB header:membrane protein Chain: A: PDB Molecule:outer membrane protein h1; PDBTitle: solution structure of outer membrane protein h (oprh) from p.2 aeruginosa in dhpc micelles Phyre2 PDB 2jmm chain A Region: 41 - 180 Aligned: 134 Modelled: 136 Confidence: 98.6% Identity: 13% PDB header:membrane protein Chain: A: PDB Molecule:outer membrane protein a; PDBTitle: nmr solution structure of a minimal transmembrane beta-2 barrel platform protein Phyre2 PDB 1osm chain A Region: 55 - 180 Aligned: 126 Modelled: 126 Confidence: 98.3% Identity: 15% Fold: Transmembrane beta-barrels Superfamily: Porins Family: Porin Phyre2 PDB 1pho chain A Region: 29 - 180 Aligned: 151 Modelled: 152 Confidence: 98.2% Identity: 16% Fold: Transmembrane beta-barrels Superfamily: Porins Family: Porin Phyre2 PDB 2fgq chain X domain 1 Region: 34 - 180 Aligned: 145 Modelled: 147 Confidence: 98.1% Identity: 14% Fold: Transmembrane beta-barrels Superfamily: Porins Family: Porin Phyre2 PDB 2zfg chain A domain 1 Region: 34 - 180 Aligned: 146 Modelled: 147 Confidence: 98.1% Identity: 17% Fold: Transmembrane beta-barrels Superfamily: Porins Family: Porin Phyre2 PDB 2x4m chain D Region: 45 - 180 Aligned: 134 Modelled: 136 Confidence: 97.7% Identity: 21% PDB header:hydrolase Chain: D: PDB Molecule:coagulase/fibrinolysin; PDBTitle: yersinia pestis plasminogen activator pla Phyre2 PDB 3dwo chain X Region: 23 - 180 Aligned: 157 Modelled: 158 Confidence: 97.5% Identity: 17% PDB header:membrane protein Chain: X: PDB Molecule:probable outer membrane protein; PDBTitle: crystal structure of a pseudomonas aeruginosa fadl homologue Phyre2 PDB 3nsg chain A Region: 34 - 180 Aligned: 147 Modelled: 146 Confidence: 97.4% Identity: 15% 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 3a2r chain X Region: 34 - 180 Aligned: 144 Modelled: 147 Confidence: 97.3% Identity: 15% 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 1i78 chain A Region: 46 - 180 Aligned: 133 Modelled: 135 Confidence: 97.2% Identity: 18% Fold: Transmembrane beta-barrels Superfamily: OMPT-like Family: Outer membrane protease OMPT Phyre2 1 d1qj8a_ 2 c3qraA_ 3 d1g90a_ 4 c3nb3C_ 5 c2k0lA_ 6 d1qjpa_ 7 d1p4ta_ 8 c2f1tB_ 9 c2x27X_ 10 c2lhfA_ 11 c2jmmA_ 12 d1osma_ 13 d1phoa_ 14 d2fgqx1 15 d2zfga1 16 c2x4mD_ 17 c3dwoX_ 18 c3nsgA_ 19 c3a2rX_ 20 d1i78a_ 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51

Detailed template information

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

1 d1qj8a_ 99.4 17 Fold:Transmembrane beta-barrels Superfamily:OMPA-like Family:Outer membrane protein 2 c3qraA_ 99.4 17 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 3 d1g90a_ 99.3 13 Fold:Transmembrane beta-barrels Superfamily:OMPA-like Family:Outer membrane protein 4 c3nb3C_ 99.3 14 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 5 c2k0lA_ 99.3 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. 6 d1qjpa_ 99.2 14 Fold:Transmembrane beta-barrels Superfamily:OMPA-like Family:Outer membrane protein 7 d1p4ta_ 99.2 13 Fold:Transmembrane beta-barrels Superfamily:OMPA-like Family:Outer membrane protein 8 c2f1tB_ 98.9 14 PDB header:membrane protein Chain: B: PDB Molecule:outer membrane protein w; PDBTitle: outer membrane protein ompw 9 c2x27X_ 98.9 12 PDB header:membrane protein Chain: X: PDB Molecule:outer membrane protein oprg; PDBTitle: crystal structure of the outer membrane protein oprg from2 pseudomonas aeruginosa 10 c2lhfA_ 98.8 21 PDB header:membrane protein Chain: A: PDB Molecule:outer membrane protein h1; PDBTitle: solution structure of outer membrane protein h (oprh) from p.2 aeruginosa in dhpc micelles 11 c2jmmA_ 98.6 13 PDB header:membrane protein Chain: A: PDB Molecule:outer membrane protein a; PDBTitle: nmr solution structure of a minimal transmembrane beta-2 barrel platform protein 12 d1osma_ 98.3 15 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Porin 13 d1phoa_ 98.2 16 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Porin 14 d2fgqx1 98.1 14 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Porin 15 d2zfga1 98.1 17 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Porin 16 c2x4mD_ 97.7 21 PDB header:hydrolase Chain: D: PDB Molecule:coagulase/fibrinolysin; PDBTitle: yersinia pestis plasminogen activator pla 17 c3dwoX_ 97.5 17 PDB header:membrane protein Chain: X: PDB Molecule:probable outer membrane protein; PDBTitle: crystal structure of a pseudomonas aeruginosa fadl homologue 18 c3nsgA_ 97.4 15 PDB header:membrane protein Chain: A: PDB Molecule:outer membrane protein f; PDBTitle: crystal structure of ompf, an outer membrane protein from salmonella2 typhi 19 c3a2rX_ 97.3 15 PDB header:membrane protein Chain: X: PDB Molecule:outer membrane protein ii; PDBTitle: crystal structure of outer membrane protein porb from neisseria2 meningitidis 20 d1i78a_ 97.2 18 Fold:Transmembrane beta-barrels Superfamily:OMPT-like Family:Outer membrane protease OMPT 21 d1t16a_ not modelled 97.2 16 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Outer membrane protein transport protein 22 c3aehB_ not modelled 96.7 11 PDB header:hydrolase Chain: B: PDB Molecule:hemoglobin-binding protease hbp autotransporter; PDBTitle: integral membrane domain of autotransporter hbp 23 c3bryB_ not modelled 96.5 18 PDB header:transport protein Chain: B: PDB Molecule:tbux; PDBTitle: crystal structure of the ralstonia pickettii toluene2 transporter tbux 24 d1uynx_ not modelled 96.2 20 Fold:Transmembrane beta-barrels Superfamily:Autotransporter Family:Autotransporter 25 c3brzA_ not modelled 95.7 12 PDB header:transport protein Chain: A: PDB Molecule:todx; PDBTitle: crystal structure of the pseudomonas putida toluene2 transporter todx 26 c3qq2C_ not modelled 95.4 14 PDB header:membrane protein/protein transport Chain: C: PDB Molecule:brka autotransporter; PDBTitle: crystal structure of the beta domain of the bordetella autotransporter2 brka 27 c3sljA_ not modelled 95.3 13 PDB header:protein transport Chain: A: PDB Molecule:serine protease espp; PDBTitle: pre-cleavage structure of the autotransporter espp - n1023a mutant 28 d3prna_ not modelled 94.9 20 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Porin 29 c2iwvD_ not modelled 93.2 16 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 30 c2wjqA_ not modelled 92.2 14 PDB header:transport protein Chain: A: PDB Molecule:probable n-acetylneuraminic acid outer membrane channel PDBTitle: nanc porin structure in hexagonal crystal form. 31 c2qomB_ not modelled 91.9 10 PDB header:hydrolase Chain: B: PDB Molecule:serine protease espp; PDBTitle: the crystal structure of the e.coli espp autotransporter beta-domain. 32 c2o4vA_ not modelled 90.8 16 PDB header:membrane protein Chain: A: PDB Molecule:porin p; PDBTitle: an arginine ladder in oprp mediates phosphate specific transfer across2 the outer membrane 33 c2odjA_ not modelled 88.5 12 PDB header:membrane protein Chain: A: PDB Molecule:porin d; PDBTitle: crystal structure of the outer membrane protein oprd from pseudomonas2 aeruginosa 34 d2pora_ not modelled 87.7 13 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Porin 35 c3kvnA_ not modelled 87.1 15 PDB header:hydrolase Chain: A: PDB Molecule:esterase esta; PDBTitle: crystal structure of the full-length autotransporter esta from2 pseudomonas aeruginosa 36 c2hdiA_ not modelled 83.7 20 PDB header:protein transport,antimicrobial protein Chain: A: PDB Molecule:colicin i receptor; PDBTitle: crystal structure of the colicin i receptor cir from e.coli in complex2 with receptor binding domain of colicin ia. 37 c3rbhC_ not modelled 57.7 13 PDB header:transport protein Chain: C: PDB Molecule:alginate production protein alge; PDBTitle: structure of alginate export protein alge from pseudomonas aeruginosa 38 c2y0hA_ not modelled 38.2 16 PDB header:transport protein Chain: A: PDB Molecule:probable porin; PDBTitle: crystal structure of pseudomonas aeruginosa opdl 39 c2iahA_ not modelled 34.8 13 PDB header:membrane protein Chain: A: PDB Molecule:ferripyoverdine receptor; PDBTitle: crystal structure of the ferripyoverdine receptor of the outer2 membrane of pseudomonas aeruginosa bound to ferripyoverdine. 40 c2ervA_ not modelled 32.5 16 PDB header:membrane protein Chain: A: PDB Molecule:hypothetical protein paer03002360; PDBTitle: crystal structure of the outer membrane enzyme pagl 41 c3efmA_ not modelled 31.6 18 PDB header:membrane protein Chain: A: PDB Molecule:ferric alcaligin siderophore receptor; PDBTitle: structure of the alcaligin outer membrane recepteur faua from2 bordetella pertussis 42 c1xkwA_ not modelled 28.5 20 PDB header:membrane protein Chain: A: PDB Molecule:fe(iii)-pyochelin receptor; PDBTitle: pyochelin outer membrane receptor fpta from pseudomonas2 aeruginosa 43 d2jnaa1 not modelled 28.3 33 Fold:Dodecin subunit-like Superfamily:YdgH-like Family:YdgH-like 44 c2k4tA_ not modelled 21.0 18 PDB header:membrane protein,apoptosis Chain: A: PDB Molecule:voltage-dependent anion-selective channel PDBTitle: solution structure of human vdac-1 in ldao micelles 45 c2vdaB_ not modelled 17.7 30 PDB header:protein transport Chain: B: PDB Molecule:maltoporin; PDBTitle: solution structure of the seca-signal peptide complex 46 c2nncB_ not modelled 15.9 13 PDB header:ligand binding protein Chain: B: PDB Molecule:sulfur covalently-binding protein; PDBTitle: structure of the sulfur carrier protein soxy from chlorobium limicola2 f thiosulfatophilum 47 d1of5b_ not modelled 14.2 29 Fold:Cystatin-like Superfamily:NTF2-like Family:NTF2-like 48 c3fhhA_ not modelled 13.6 11 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 49 c3jtyB_ not modelled 12.6 11 PDB header:transport protein Chain: B: PDB Molecule:benf-like porin; PDBTitle: crystal structure of a benf-like porin from pseudomonas fluorescens2 pf-5 50 c2y0lA_ not modelled 9.1 11 PDB header:transport protein Chain: A: PDB Molecule:cis-aconitate porin opdh; PDBTitle: crystal structure of pseudomonas aeruginosa opdo 51 d2gufa1 not modelled 7.8 21 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Ligand-gated protein channel

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