Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	K	R	K	V	L	A	M	L	V	P	A	L	L	V	A	G	A	A	N	A	A	E	V	Y	N	K	D	G	N	K	L	D	L	Y	G	K	V	V	G	L	H	Y	F	S	D	D	S	G	S	D	G	D	M	S	Y	A	R	I	G
Secondary structure
SS confidence
Disorder		?	?	?	?													?	?	?																										?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		F	K	G	E	T	Q	I	A	D	Q	F	T	G	Y	G	Q	W	E	F	N	I	G	A	N	G	P	E	S	D	K	G	N	T	A	T	R	L	A	F	A	G	L	G	F	G	Q	N	G	T	F	D	Y	G	R	N	Y	G	V	V	Y
Secondary structure
SS confidence
Disorder																								?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		D	V	E	A	W	T	D	M	L	P	E	F	G	G	D	T	Y	A	G	A	D	N	F	M	N	G	R	A	N	G	V	A	T	Y	R	N	N	G	F	F	G	L	V	D	G	L	N	F	A	L	Q	Y	Q	G	N	N	E	S	G	G
Secondary structure
SS confidence
Disorder																								?																?		?	?											?				?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		P	F	G	Q	E	G	S	G	S	G	D	G	R	S	L	S	K	E	N	G	D	G	F	G	M	S	T	S	Y	D	F	D	F	G	L	S	L	G	A	A	Y	X	N	S	D	R	S	D	R	Q	V	G	V	G	L	N	D	R	N	H
Secondary structure
SS confidence
Disorder		?	?		?	?	?	?		?	?	?	?	?	?			?																													?	?	?	?									?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		S	N	R	N	A	G	G	E	T	A	E	A	W	T	V	G	A	K	Y	D	A	N	N	V	Y	L	A	A	M	Y	A	E	T	R	N	M	T	P	Y	G	G	G	E	F	D	N	G	E	S	R	S	A	I	A	N	K	T	Q	N	F
Secondary structure
SS confidence
Disorder		?	?	?	?	?																														?	?													?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence		E	V	V	A	Q	Y	Q	F	D	F	G	L	R	P	S	I	A	Y	L	Q	S	K	G	K	D	L	G	G	W	A	H	D	G	N	G	D	P	R	Y	T	N	K	D	L	V	K	Y	V	D	I	G	A	T	Y	Y	F	N	K	N	M
Secondary structure
SS confidence
Disorder																									?	?	?									?		?		?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.	.	.	.	.
Sequence		S	T	Y	V	D	Y	K	I	N	L	L	D	N	D	D	D	F	Y	E	A	N	G	I	A	T	D	D	I	V	A	V	G	L	V	Y	Q	F
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 1osm chain A Region: 22 - 397 Aligned: 342 Modelled: 342 Confidence: 100.0% Identity: 66% Fold: Transmembrane beta-barrels Superfamily: Porins Family: Porin Phyre2 PDB 1pho chain A Region: 22 - 397 Aligned: 330 Modelled: 330 Confidence: 100.0% Identity: 61% Fold: Transmembrane beta-barrels Superfamily: Porins Family: Porin Phyre2 PDB 3nsg chain A Region: 23 - 397 Aligned: 336 Modelled: 341 Confidence: 100.0% Identity: 55% 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 2zfg chain A domain 1 Region: 22 - 397 Aligned: 333 Modelled: 333 Confidence: 100.0% Identity: 60% Fold: Transmembrane beta-barrels Superfamily: Porins Family: Porin Phyre2 PDB 2fgq chain X domain 1 Region: 31 - 397 Aligned: 305 Modelled: 305 Confidence: 100.0% Identity: 17% Fold: Transmembrane beta-barrels Superfamily: Porins Family: Porin Phyre2 PDB 3a2r chain X Region: 31 - 397 Aligned: 325 Modelled: 325 Confidence: 100.0% Identity: 19% 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 2por chain A Region: 32 - 397 Aligned: 293 Modelled: 293 Confidence: 100.0% Identity: 19% Fold: Transmembrane beta-barrels Superfamily: Porins Family: Porin Phyre2 PDB 3prn chain A Region: 32 - 397 Aligned: 274 Modelled: 274 Confidence: 100.0% Identity: 20% Fold: Transmembrane beta-barrels Superfamily: Porins Family: Porin Phyre2 PDB 2o4v chain A Region: 23 - 397 Aligned: 354 Modelled: 354 Confidence: 99.8% Identity: 13% PDB header:membrane protein Chain: A: PDB Molecule:porin p; PDBTitle: an arginine ladder in oprp mediates phosphate specific transfer across2 the outer membrane Phyre2 PDB 3qra chain A Region: 241 - 397 Aligned: 134 Modelled: 157 Confidence: 98.6% Identity: 16% 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 1p4t chain A Region: 238 - 397 Aligned: 142 Modelled: 148 Confidence: 98.6% Identity: 16% Fold: Transmembrane beta-barrels Superfamily: OMPA-like Family: Outer membrane protein Phyre2 PDB 1t16 chain A Region: 202 - 397 Aligned: 190 Modelled: 190 Confidence: 98.6% Identity: 13% Fold: Transmembrane beta-barrels Superfamily: Porins Family: Outer membrane protein transport protein Phyre2 PDB 2x27 chain X Region: 210 - 397 Aligned: 186 Modelled: 186 Confidence: 98.5% 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 2f1t chain B Region: 239 - 397 Aligned: 159 Modelled: 159 Confidence: 98.4% Identity: 11% PDB header:membrane protein Chain: B: PDB Molecule:outer membrane protein w; PDBTitle: outer membrane protein ompw Phyre2 PDB 1qj8 chain A Region: 241 - 397 Aligned: 135 Modelled: 157 Confidence: 98.4% Identity: 13% Fold: Transmembrane beta-barrels Superfamily: OMPA-like Family: Outer membrane protein Phyre2 PDB 3dwo chain X Region: 202 - 397 Aligned: 190 Modelled: 190 Confidence: 98.3% Identity: 14% PDB header:membrane protein Chain: X: PDB Molecule:probable outer membrane protein; PDBTitle: crystal structure of a pseudomonas aeruginosa fadl homologue Phyre2 PDB 2k0l chain A Region: 227 - 397 Aligned: 163 Modelled: 171 Confidence: 98.2% Identity: 12% 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: 246 - 397 Aligned: 119 Modelled: 121 Confidence: 98.2% Identity: 15% Fold: Transmembrane beta-barrels Superfamily: OMPA-like Family: Outer membrane protein Phyre2 PDB 2lhf chain A Region: 215 - 397 Aligned: 164 Modelled: 164 Confidence: 98.1% Identity: 17% 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 3brz chain A Region: 202 - 397 Aligned: 180 Modelled: 180 Confidence: 98.1% Identity: 14% PDB header:transport protein Chain: A: PDB Molecule:todx; PDBTitle: crystal structure of the pseudomonas putida toluene2 transporter todx Phyre2 1 d1osma_ 2 d1phoa_ 3 c3nsgA_ 4 d2zfga1 5 d2fgqx1 6 c3a2rX_ 7 d2pora_ 8 d3prna_ 9 c2o4vA_ 10 c3qraA_ 11 d1p4ta_ 12 d1t16a_ 13 c2x27X_ 14 c2f1tB_ 15 d1qj8a_ 16 c3dwoX_ 17 c2k0lA_ 18 d1qjpa_ 19 c2lhfA_ 20 c3brzA_ 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 52 53 54 55

Detailed template information

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

1 d1osma_ 100.0 66 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Porin 2 d1phoa_ 100.0 61 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Porin 3 c3nsgA_ 100.0 55 PDB header:membrane protein Chain: A: PDB Molecule:outer membrane protein f; PDBTitle: crystal structure of ompf, an outer membrane protein from salmonella2 typhi 4 d2zfga1 100.0 60 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Porin 5 d2fgqx1 100.0 17 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Porin 6 c3a2rX_ 100.0 19 PDB header:membrane protein Chain: X: PDB Molecule:outer membrane protein ii; PDBTitle: crystal structure of outer membrane protein porb from neisseria2 meningitidis 7 d2pora_ 100.0 19 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Porin 8 d3prna_ 100.0 20 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Porin 9 c2o4vA_ 99.8 13 PDB header:membrane protein Chain: A: PDB Molecule:porin p; PDBTitle: an arginine ladder in oprp mediates phosphate specific transfer across2 the outer membrane 10 c3qraA_ 98.6 16 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 11 d1p4ta_ 98.6 16 Fold:Transmembrane beta-barrels Superfamily:OMPA-like Family:Outer membrane protein 12 d1t16a_ 98.6 13 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Outer membrane protein transport protein 13 c2x27X_ 98.5 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 14 c2f1tB_ 98.4 11 PDB header:membrane protein Chain: B: PDB Molecule:outer membrane protein w; PDBTitle: outer membrane protein ompw 15 d1qj8a_ 98.4 13 Fold:Transmembrane beta-barrels Superfamily:OMPA-like Family:Outer membrane protein 16 c3dwoX_ 98.3 14 PDB header:membrane protein Chain: X: PDB Molecule:probable outer membrane protein; PDBTitle: crystal structure of a pseudomonas aeruginosa fadl homologue 17 c2k0lA_ 98.2 12 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. 18 d1qjpa_ 98.2 15 Fold:Transmembrane beta-barrels Superfamily:OMPA-like Family:Outer membrane protein 19 c2lhfA_ 98.1 17 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 20 c3brzA_ 98.1 14 PDB header:transport protein Chain: A: PDB Molecule:todx; PDBTitle: crystal structure of the pseudomonas putida toluene2 transporter todx 21 d1g90a_ not modelled 98.0 12 Fold:Transmembrane beta-barrels Superfamily:OMPA-like Family:Outer membrane protein 22 c3nb3C_ not modelled 97.9 15 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 23 c2y0kA_ not modelled 97.4 13 PDB header:transport protein Chain: A: PDB Molecule:pyroglutatmate porin opdo; PDBTitle: crystal structure of pseudomonas aeruginosa opdo 24 c3jtyB_ not modelled 97.2 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 25 c3bryB_ not modelled 97.2 15 PDB header:transport protein Chain: B: PDB Molecule:tbux; PDBTitle: crystal structure of the ralstonia pickettii toluene2 transporter tbux 26 c2y0lA_ not modelled 97.2 12 PDB header:transport protein Chain: A: PDB Molecule:cis-aconitate porin opdh; PDBTitle: crystal structure of pseudomonas aeruginosa opdo 27 c2iwvD_ not modelled 96.8 22 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 28 c2y0hA_ not modelled 96.7 12 PDB header:transport protein Chain: A: PDB Molecule:probable porin; PDBTitle: crystal structure of pseudomonas aeruginosa opdl 29 c2x4mD_ not modelled 96.6 15 PDB header:hydrolase Chain: D: PDB Molecule:coagulase/fibrinolysin; PDBTitle: yersinia pestis plasminogen activator pla 30 c3aehB_ not modelled 96.5 18 PDB header:hydrolase Chain: B: PDB Molecule:hemoglobin-binding protease hbp autotransporter; PDBTitle: integral membrane domain of autotransporter hbp 31 c2odjA_ not modelled 96.2 15 PDB header:membrane protein Chain: A: PDB Molecule:porin d; PDBTitle: crystal structure of the outer membrane protein oprd from pseudomonas2 aeruginosa 32 c2qtkB_ not modelled 96.0 13 PDB header:membrane protein Chain: B: PDB Molecule:probable porin; PDBTitle: crystal structure of the outer membrane protein opdk from2 pseudomonas aeruginosa 33 c2jmmA_ not modelled 95.9 16 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 34 d1i78a_ not modelled 95.4 14 Fold:Transmembrane beta-barrels Superfamily:OMPT-like Family:Outer membrane protease OMPT 35 c2qomB_ not modelled 95.3 12 PDB header:hydrolase Chain: B: PDB Molecule:serine protease espp; PDBTitle: the crystal structure of the e.coli espp autotransporter beta-domain. 36 c3sljA_ not modelled 95.2 11 PDB header:protein transport Chain: A: PDB Molecule:serine protease espp; PDBTitle: pre-cleavage structure of the autotransporter espp - n1023a mutant 37 d1uynx_ not modelled 92.5 9 Fold:Transmembrane beta-barrels Superfamily:Autotransporter Family:Autotransporter 38 c3kvnA_ not modelled 92.4 14 PDB header:hydrolase Chain: A: PDB Molecule:esterase esta; PDBTitle: crystal structure of the full-length autotransporter esta from2 pseudomonas aeruginosa 39 c3qq2C_ not modelled 88.7 15 PDB header:membrane protein/protein transport Chain: C: PDB Molecule:brka autotransporter; PDBTitle: crystal structure of the beta domain of the bordetella autotransporter2 brka 40 c2wjqA_ not modelled 87.3 11 PDB header:transport protein Chain: A: PDB Molecule:probable n-acetylneuraminic acid outer membrane channel PDBTitle: nanc porin structure in hexagonal crystal form. 41 c2grxB_ not modelled 84.4 9 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 42 d1by5a_ not modelled 71.4 9 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Ligand-gated protein channel 43 c2iahA_ not modelled 62.6 15 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. 44 c1xkwA_ not modelled 48.8 14 PDB header:membrane protein Chain: A: PDB Molecule:fe(iii)-pyochelin receptor; PDBTitle: pyochelin outer membrane receptor fpta from pseudomonas2 aeruginosa 45 d2jnaa1 not modelled 48.3 28 Fold:Dodecin subunit-like Superfamily:YdgH-like Family:YdgH-like 46 c3qlbA_ not modelled 44.7 12 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 47 c2hdiA_ not modelled 23.6 18 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. 48 c3rbhC_ not modelled 21.8 14 PDB header:transport protein Chain: C: PDB Molecule:alginate production protein alge; PDBTitle: structure of alginate export protein alge from pseudomonas aeruginosa 49 d2gufa1 not modelled 17.3 11 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Ligand-gated protein channel 50 d1a0tp_ not modelled 14.8 12 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Maltoporin-like 51 d2mpra_ not modelled 9.6 15 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Maltoporin-like 52 d1af6a_ not modelled 6.3 12 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Maltoporin-like 53 c2k4tA_ not modelled 5.3 16 PDB header:membrane protein,apoptosis Chain: A: PDB Molecule:voltage-dependent anion-selective channel PDBTitle: solution structure of human vdac-1 in ldao micelles 54 c3egbA_ not modelled 5.3 26 PDB header:protein binding Chain: A: PDB Molecule:protein pellino homolog 2; PDBTitle: structure of pellino2 fha domain at 3.3 angstroms2 resolution. 55 c2vdaB_ not modelled 5.2 30 PDB header:protein transport Chain: B: PDB Molecule:maltoporin; PDBTitle: solution structure of the seca-signal peptide complex

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