Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	K	K	L	T	V	A	I	S	A	V	A	A	S	V	L	M	A	M	S	A	Q	A	A	E	I	Y	N	K	D	S	N	K	L	D	L	Y	G	K	V	N	A	K	H	Y	F	S	S	N	D	A	D	D	G	D	T	T	Y	A	R
Secondary structure
SS confidence
Disorder		?	?	?															?	?	?	?																										?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		L	G	F	K	G	E	T	Q	I	N	D	Q	L	T	G	F	G	Q	W	E	Y	E	F	K	G	N	R	A	E	S	Q	G	S	S	K	D	K	T	R	L	A	F	A	G	L	K	F	G	D	Y	G	S	I	D	Y	G	R	N	Y	G
Secondary structure
SS confidence
Disorder																											?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		V	A	Y	D	I	G	A	W	T	D	V	L	P	E	F	G	G	D	T	W	T	Q	T	D	V	F	M	T	Q	R	A	T	G	V	A	T	Y	R	N	N	D	F	F	G	L	V	D	G	L	N	F	A	A	Q	Y	Q	G	K	N	D
Secondary structure
SS confidence
Disorder																											?																																?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		R	S	D	F	D	N	Y	T	E	G	N	G	D	G	F	G	F	S	A	T	Y	E	Y	E	G	F	G	I	G	A	T	Y	A	K	S	D	R	T	D	T	Q	V	N	A	G	K	V	L	P	E	V	F	A	S	G	K	N	A	E	V
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?	?	?	?																								?	?	?	?	?	?	?	?	?		?	?	?	?	?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		W	A	A	G	L	K	Y	D	A	N	N	I	Y	L	A	T	T	Y	S	E	T	Q	N	M	T	V	F	A	D	H	F	V	A	N	K	A	Q	N	F	E	A	V	A	Q	Y	Q	F	D	F	G	L	R	P	S	V	A	Y	L	Q	S
Secondary structure
SS confidence
Disorder																								?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence		K	G	K	D	L	G	V	W	G	D	Q	D	L	V	K	Y	V	D	V	G	A	T	Y	Y	F	N	K	N	M	S	T	F	V	D	Y	K	I	N	L	L	D	K	N	D	F	T	K	A	L	G	V	S	T	D	D	I	V	A	V	G
Secondary structure
SS confidence
Disorder				?	?	?	?	?	?	?																																?	?	?	?	?	?	?	?	?	?	?		?
Disorder confidence
		.	.	.	.	.
Sequence		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: 24 - 365 Aligned: 334 Modelled: 342 Confidence: 100.0% Identity: 68% Fold: Transmembrane beta-barrels Superfamily: Porins Family: Porin Phyre2 PDB 1pho chain A Region: 24 - 365 Aligned: 330 Modelled: 338 Confidence: 100.0% Identity: 65% Fold: Transmembrane beta-barrels Superfamily: Porins Family: Porin Phyre2 PDB 3nsg chain A Region: 25 - 365 Aligned: 331 Modelled: 339 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: 24 - 365 Aligned: 329 Modelled: 339 Confidence: 100.0% Identity: 64% Fold: Transmembrane beta-barrels Superfamily: Porins Family: Porin Phyre2 PDB 2fgq chain X domain 1 Region: 33 - 365 Aligned: 304 Modelled: 321 Confidence: 100.0% Identity: 17% Fold: Transmembrane beta-barrels Superfamily: Porins Family: Porin Phyre2 PDB 3a2r chain X Region: 33 - 365 Aligned: 321 Modelled: 331 Confidence: 100.0% Identity: 22% 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: 33 - 365 Aligned: 285 Modelled: 321 Confidence: 100.0% Identity: 16% Fold: Transmembrane beta-barrels Superfamily: Porins Family: Porin Phyre2 PDB 3prn chain A Region: 34 - 365 Aligned: 274 Modelled: 312 Confidence: 100.0% Identity: 12% Fold: Transmembrane beta-barrels Superfamily: Porins Family: Porin Phyre2 PDB 2o4v chain A Region: 23 - 365 Aligned: 332 Modelled: 343 Confidence: 99.8% Identity: 17% 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: 207 - 365 Aligned: 140 Modelled: 159 Confidence: 98.8% 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: 228 - 365 Aligned: 132 Modelled: 138 Confidence: 98.5% Identity: 16% Fold: Transmembrane beta-barrels Superfamily: OMPA-like Family: Outer membrane protein Phyre2 PDB 2y0k chain A Region: 35 - 365 Aligned: 305 Modelled: 316 Confidence: 98.5% Identity: 10% PDB header:transport protein Chain: A: PDB Molecule:pyroglutatmate porin opdo; PDBTitle: crystal structure of pseudomonas aeruginosa opdo Phyre2 PDB 1qj8 chain A Region: 229 - 365 Aligned: 128 Modelled: 137 Confidence: 98.5% Identity: 14% Fold: Transmembrane beta-barrels Superfamily: OMPA-like Family: Outer membrane protein Phyre2 PDB 1g90 chain A Region: 160 - 365 Aligned: 162 Modelled: 163 Confidence: 98.1% Identity: 14% Fold: Transmembrane beta-barrels Superfamily: OMPA-like Family: Outer membrane protein Phyre2 PDB 2k0l chain A Region: 202 - 365 Aligned: 163 Modelled: 164 Confidence: 98.1% 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 2y0h chain A Region: 35 - 365 Aligned: 304 Modelled: 316 Confidence: 97.9% Identity: 13% PDB header:transport protein Chain: A: PDB Molecule:probable porin; PDBTitle: crystal structure of pseudomonas aeruginosa opdl Phyre2 PDB 2odj chain A Region: 15 - 365 Aligned: 314 Modelled: 331 Confidence: 97.9% Identity: 13% PDB header:membrane protein Chain: A: PDB Molecule:porin d; PDBTitle: crystal structure of the outer membrane protein oprd from pseudomonas2 aeruginosa Phyre2 PDB 1qjp chain A Region: 236 - 365 Aligned: 111 Modelled: 115 Confidence: 97.8% Identity: 16% Fold: Transmembrane beta-barrels Superfamily: OMPA-like Family: Outer membrane protein Phyre2 PDB 2lhf chain A Region: 213 - 365 Aligned: 149 Modelled: 153 Confidence: 97.7% Identity: 13% 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 2f1t chain B Region: 202 - 365 Aligned: 154 Modelled: 164 Confidence: 97.6% Identity: 17% PDB header:membrane protein Chain: B: PDB Molecule:outer membrane protein w; PDBTitle: outer membrane protein ompw Phyre2 1 d1osma_ 2 d1phoa_ 3 c3nsgA_ 4 d2zfga1 5 d2fgqx1 6 c3a2rX_ 7 d2pora_ 8 d3prna_ 9 c2o4vA_ 10 c3qraA_ 11 d1p4ta_ 12 c2y0kA_ 13 d1qj8a_ 14 d1g90a_ 15 c2k0lA_ 16 c2y0hA_ 17 c2odjA_ 18 d1qjpa_ 19 c2lhfA_ 20 c2f1tB_ 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 68 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Porin 2 d1phoa_ 100.0 65 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 64 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 22 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 16 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Porin 8 d3prna_ 100.0 12 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Porin 9 c2o4vA_ 99.8 17 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_ 98.8 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_ 98.5 16 Fold:Transmembrane beta-barrels Superfamily:OMPA-like Family:Outer membrane protein 12 c2y0kA_ 98.5 10 PDB header:transport protein Chain: A: PDB Molecule:pyroglutatmate porin opdo; PDBTitle: crystal structure of pseudomonas aeruginosa opdo 13 d1qj8a_ 98.5 14 Fold:Transmembrane beta-barrels Superfamily:OMPA-like Family:Outer membrane protein 14 d1g90a_ 98.1 14 Fold:Transmembrane beta-barrels Superfamily:OMPA-like Family:Outer membrane protein 15 c2k0lA_ 98.1 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. 16 c2y0hA_ 97.9 13 PDB header:transport protein Chain: A: PDB Molecule:probable porin; PDBTitle: crystal structure of pseudomonas aeruginosa opdl 17 c2odjA_ 97.9 13 PDB header:membrane protein Chain: A: PDB Molecule:porin d; PDBTitle: crystal structure of the outer membrane protein oprd from pseudomonas2 aeruginosa 18 d1qjpa_ 97.8 16 Fold:Transmembrane beta-barrels Superfamily:OMPA-like Family:Outer membrane protein 19 c2lhfA_ 97.7 13 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 c2f1tB_ 97.6 17 PDB header:membrane protein Chain: B: PDB Molecule:outer membrane protein w; PDBTitle: outer membrane protein ompw 21 c2x27X_ not modelled 97.5 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 22 d1t16a_ not modelled 97.5 13 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Outer membrane protein transport protein 23 c3jtyB_ not modelled 97.5 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 24 c2y0lA_ not modelled 97.5 10 PDB header:transport protein Chain: A: PDB Molecule:cis-aconitate porin opdh; PDBTitle: crystal structure of pseudomonas aeruginosa opdo 25 c3brzA_ not modelled 97.4 16 PDB header:transport protein Chain: A: PDB Molecule:todx; PDBTitle: crystal structure of the pseudomonas putida toluene2 transporter todx 26 c3nb3C_ not modelled 97.4 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 27 c2qtkB_ not modelled 97.1 13 PDB header:membrane protein Chain: B: PDB Molecule:probable porin; PDBTitle: crystal structure of the outer membrane protein opdk from2 pseudomonas aeruginosa 28 c3dwoX_ not modelled 96.8 13 PDB header:membrane protein Chain: X: PDB Molecule:probable outer membrane protein; PDBTitle: crystal structure of a pseudomonas aeruginosa fadl homologue 29 d1a0tp_ not modelled 96.3 10 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Maltoporin-like 30 c3qq2C_ not modelled 95.1 11 PDB header:membrane protein/protein transport Chain: C: PDB Molecule:brka autotransporter; PDBTitle: crystal structure of the beta domain of the bordetella autotransporter2 brka 31 c3bryB_ not modelled 94.4 13 PDB header:transport protein Chain: B: PDB Molecule:tbux; PDBTitle: crystal structure of the ralstonia pickettii toluene2 transporter tbux 32 d1af6a_ not modelled 94.4 13 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Maltoporin-like 33 d2mpra_ not modelled 94.2 13 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Maltoporin-like 34 d1uynx_ not modelled 93.8 8 Fold:Transmembrane beta-barrels Superfamily:Autotransporter Family:Autotransporter 35 c3aehB_ not modelled 93.8 12 PDB header:hydrolase Chain: B: PDB Molecule:hemoglobin-binding protease hbp autotransporter; PDBTitle: integral membrane domain of autotransporter hbp 36 c2x4mD_ not modelled 93.2 20 PDB header:hydrolase Chain: D: PDB Molecule:coagulase/fibrinolysin; PDBTitle: yersinia pestis plasminogen activator pla 37 c2jmmA_ not modelled 92.9 17 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 38 c2wjqA_ not modelled 91.4 10 PDB header:transport protein Chain: A: PDB Molecule:probable n-acetylneuraminic acid outer membrane channel PDBTitle: nanc porin structure in hexagonal crystal form. 39 d2gufa1 not modelled 90.4 12 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Ligand-gated protein channel 40 c3sljA_ not modelled 89.5 13 PDB header:protein transport Chain: A: PDB Molecule:serine protease espp; PDBTitle: pre-cleavage structure of the autotransporter espp - n1023a mutant 41 d1i78a_ not modelled 86.8 22 Fold:Transmembrane beta-barrels Superfamily:OMPT-like Family:Outer membrane protease OMPT 42 c2iwvD_ not modelled 83.2 12 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 43 c2hdiA_ not modelled 83.0 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. 44 c2qomB_ not modelled 75.6 11 PDB header:hydrolase Chain: B: PDB Molecule:serine protease espp; PDBTitle: the crystal structure of the e.coli espp autotransporter beta-domain. 45 c2grxB_ not modelled 66.1 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 46 c3fhhA_ not modelled 58.3 14 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 47 c3qlbA_ not modelled 57.6 13 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 48 d2jnaa1 not modelled 49.9 19 Fold:Dodecin subunit-like Superfamily:YdgH-like Family:YdgH-like 49 d1by5a_ not modelled 42.7 14 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Ligand-gated protein channel 50 c3kvnA_ not modelled 34.5 14 PDB header:hydrolase Chain: A: PDB Molecule:esterase esta; PDBTitle: crystal structure of the full-length autotransporter esta from2 pseudomonas aeruginosa 51 c3rbhC_ not modelled 25.9 13 PDB header:transport protein Chain: C: PDB Molecule:alginate production protein alge; PDBTitle: structure of alginate export protein alge from pseudomonas aeruginosa 52 c2vdaB_ not modelled 20.0 23 PDB header:protein transport Chain: B: PDB Molecule:maltoporin; PDBTitle: solution structure of the seca-signal peptide complex 53 d1fepa_ not modelled 17.2 16 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Ligand-gated protein channel 54 c1xkwA_ not modelled 12.2 12 PDB header:membrane protein Chain: A: PDB Molecule:fe(iii)-pyochelin receptor; PDBTitle: pyochelin outer membrane receptor fpta from pseudomonas2 aeruginosa 55 c2pq4B_ not modelled 8.8 39 PDB header:chaperone/oxidoreductase Chain: B: PDB Molecule:periplasmic nitrate reductase precursor; PDBTitle: nmr solution structure of napd in complex with napa1-352 signal peptide

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