Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	L	I	N	R	N	I	V	A	L	F	A	L	P	F	M	A	S	A	T	A	S	E	L	S	I	G	A	G	A	A	Y	N	E	S	P	Y	R	G	Y	N	E	N	T	K	A	I	P	L	I	S	Y	E	G	D	T	F	Y	V	R
Secondary structure
SS confidence
Disorder		?	?	?	?	?							?	?	?	?	?		?	?	?	?														?	?		?	?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		Q	T	T	L	G	F	I	L	S	Q	S	E	K	N	E	L	S	L	T	A	S	W	M	P	L	E	F	D	P	T	D	N	D	D	Y	A	M	Q	Q	L	D	K	R	D	S	T	A	M	A	G	V	A	W	Y	H	H	E	R	W	G
Secondary structure
SS confidence
Disorder														?											?	?	?	?	?	?	?	?	?	?	?	?		?	?	?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		T	V	K	A	S	A	A	A	D	V	L	D	N	S	N	G	W	V	G	E	L	S	V	F	H	K	M	Q	I	G	R	L	S	L	T	P	A	L	G	V	L	Y	Y	D	E	N	F	S	D	Y	Y	Y	G	I	S	E	S	E	S	R
Secondary structure
SS confidence
Disorder																?																	?																												?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		R	S	G	L	A	S	Y	S	A	Q	D	A	W	V	P	Y	V	S	L	T	A	K	Y	P	I	G	E	H	V	V	L	M	A	S	A	G	Y	S	E	L	P	E	E	I	T	D	S	P	M	I	D	R	N	E	S	F	T	F	V	T
Secondary structure
SS confidence
Disorder		?	?			?	?			?																																												?	?
Disorder confidence
		.	.	.	.	.	.
Sequence		G	V	S	W	R	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 2k0l chain A Region: 70 - 246 Aligned: 166 Modelled: 177 Confidence: 98.7% Identity: 13% 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 2f1t chain B Region: 102 - 246 Aligned: 142 Modelled: 145 Confidence: 98.7% Identity: 16% PDB header:membrane protein Chain: B: PDB Molecule:outer membrane protein w; PDBTitle: outer membrane protein ompw Phyre2 PDB 2x27 chain X Region: 70 - 246 Aligned: 172 Modelled: 172 Confidence: 98.5% Identity: 17% 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 1g90 chain A Region: 70 - 246 Aligned: 157 Modelled: 172 Confidence: 98.5% Identity: 13% Fold: Transmembrane beta-barrels Superfamily: OMPA-like Family: Outer membrane protein Phyre2 PDB 1qjp chain A Region: 70 - 246 Aligned: 130 Modelled: 143 Confidence: 98.3% Identity: 16% Fold: Transmembrane beta-barrels Superfamily: OMPA-like Family: Outer membrane protein Phyre2 PDB 1p4t chain A Region: 102 - 246 Aligned: 128 Modelled: 132 Confidence: 98.3% Identity: 10% Fold: Transmembrane beta-barrels Superfamily: OMPA-like Family: Outer membrane protein Phyre2 PDB 3nb3 chain C Region: 102 - 246 Aligned: 116 Modelled: 129 Confidence: 98.2% Identity: 17% 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 3qra chain A Region: 98 - 246 Aligned: 125 Modelled: 135 Confidence: 98.0% Identity: 18% 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 2jmm chain A Region: 68 - 246 Aligned: 144 Modelled: 163 Confidence: 97.6% Identity: 15% 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 2lhf chain A Region: 101 - 246 Aligned: 135 Modelled: 146 Confidence: 97.6% 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 1qj8 chain A Region: 101 - 246 Aligned: 123 Modelled: 133 Confidence: 97.4% Identity: 15% Fold: Transmembrane beta-barrels Superfamily: OMPA-like Family: Outer membrane protein Phyre2 PDB 2x4m chain D Region: 63 - 246 Aligned: 161 Modelled: 184 Confidence: 97.3% Identity: 19% PDB header:hydrolase Chain: D: PDB Molecule:coagulase/fibrinolysin; PDBTitle: yersinia pestis plasminogen activator pla Phyre2 PDB 2iwv chain D Region: 20 - 246 Aligned: 208 Modelled: 216 Confidence: 96.4% Identity: 17% 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 Phyre2 PDB 1i78 chain A Region: 34 - 246 Aligned: 188 Modelled: 190 Confidence: 96.1% Identity: 17% Fold: Transmembrane beta-barrels Superfamily: OMPT-like Family: Outer membrane protease OMPT Phyre2 PDB 3slj chain A Region: 56 - 246 Aligned: 154 Modelled: 168 Confidence: 94.7% Identity: 12% PDB header:protein transport Chain: A: PDB Molecule:serine protease espp; PDBTitle: pre-cleavage structure of the autotransporter espp - n1023a mutant Phyre2 PDB 3kvn chain A Region: 61 - 246 Aligned: 176 Modelled: 186 Confidence: 94.5% Identity: 20% PDB header:hydrolase Chain: A: PDB Molecule:esterase esta; PDBTitle: crystal structure of the full-length autotransporter esta from2 pseudomonas aeruginosa Phyre2 PDB 3aeh chain B Region: 50 - 246 Aligned: 167 Modelled: 177 Confidence: 93.6% Identity: 16% PDB header:hydrolase Chain: B: PDB Molecule:hemoglobin-binding protease hbp autotransporter; PDBTitle: integral membrane domain of autotransporter hbp Phyre2 PDB 2wjq chain A Region: 97 - 246 Aligned: 121 Modelled: 124 Confidence: 93.6% Identity: 8% 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 3dwo chain X Region: 56 - 246 Aligned: 183 Modelled: 190 Confidence: 92.8% Identity: 15% PDB header:membrane protein Chain: X: PDB Molecule:probable outer membrane protein; PDBTitle: crystal structure of a pseudomonas aeruginosa fadl homologue Phyre2 PDB 3qq2 chain C Region: 61 - 246 Aligned: 169 Modelled: 186 Confidence: 92.6% Identity: 10% PDB header:membrane protein/protein transport Chain: C: PDB Molecule:brka autotransporter; PDBTitle: crystal structure of the beta domain of the bordetella autotransporter2 brka Phyre2 1 c2k0lA_ 2 c2f1tB_ 3 c2x27X_ 4 d1g90a_ 5 d1qjpa_ 6 d1p4ta_ 7 c3nb3C_ 8 c3qraA_ 9 c2jmmA_ 10 c2lhfA_ 11 d1qj8a_ 12 c2x4mD_ 13 c2iwvD_ 14 d1i78a_ 15 c3sljA_ 16 c3kvnA_ 17 c3aehB_ 18 c2wjqA_ 19 c3dwoX_ 20 c3qq2C_ 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

Detailed template information

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

1 c2k0lA_ 98.7 13 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. 2 c2f1tB_ 98.7 16 PDB header:membrane protein Chain: B: PDB Molecule:outer membrane protein w; PDBTitle: outer membrane protein ompw 3 c2x27X_ 98.5 17 PDB header:membrane protein Chain: X: PDB Molecule:outer membrane protein oprg; PDBTitle: crystal structure of the outer membrane protein oprg from2 pseudomonas aeruginosa 4 d1g90a_ 98.5 13 Fold:Transmembrane beta-barrels Superfamily:OMPA-like Family:Outer membrane protein 5 d1qjpa_ 98.3 16 Fold:Transmembrane beta-barrels Superfamily:OMPA-like Family:Outer membrane protein 6 d1p4ta_ 98.3 10 Fold:Transmembrane beta-barrels Superfamily:OMPA-like Family:Outer membrane protein 7 c3nb3C_ 98.2 17 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 8 c3qraA_ 98.0 18 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 9 c2jmmA_ 97.6 15 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 10 c2lhfA_ 97.6 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 11 d1qj8a_ 97.4 15 Fold:Transmembrane beta-barrels Superfamily:OMPA-like Family:Outer membrane protein 12 c2x4mD_ 97.3 19 PDB header:hydrolase Chain: D: PDB Molecule:coagulase/fibrinolysin; PDBTitle: yersinia pestis plasminogen activator pla 13 c2iwvD_ 96.4 17 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 14 d1i78a_ 96.1 17 Fold:Transmembrane beta-barrels Superfamily:OMPT-like Family:Outer membrane protease OMPT 15 c3sljA_ 94.7 12 PDB header:protein transport Chain: A: PDB Molecule:serine protease espp; PDBTitle: pre-cleavage structure of the autotransporter espp - n1023a mutant 16 c3kvnA_ 94.5 20 PDB header:hydrolase Chain: A: PDB Molecule:esterase esta; PDBTitle: crystal structure of the full-length autotransporter esta from2 pseudomonas aeruginosa 17 c3aehB_ 93.6 16 PDB header:hydrolase Chain: B: PDB Molecule:hemoglobin-binding protease hbp autotransporter; PDBTitle: integral membrane domain of autotransporter hbp 18 c2wjqA_ 93.6 8 PDB header:transport protein Chain: A: PDB Molecule:probable n-acetylneuraminic acid outer membrane channel PDBTitle: nanc porin structure in hexagonal crystal form. 19 c3dwoX_ 92.8 15 PDB header:membrane protein Chain: X: PDB Molecule:probable outer membrane protein; PDBTitle: crystal structure of a pseudomonas aeruginosa fadl homologue 20 c3qq2C_ 92.6 10 PDB header:membrane protein/protein transport Chain: C: PDB Molecule:brka autotransporter; PDBTitle: crystal structure of the beta domain of the bordetella autotransporter2 brka 21 c2qomB_ not modelled 92.0 9 PDB header:hydrolase Chain: B: PDB Molecule:serine protease espp; PDBTitle: the crystal structure of the e.coli espp autotransporter beta-domain. 22 d1uynx_ not modelled 80.9 19 Fold:Transmembrane beta-barrels Superfamily:Autotransporter Family:Autotransporter 23 c2iahA_ not modelled 80.5 11 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. 24 d1tlya_ not modelled 79.9 12 Fold:Transmembrane beta-barrels Superfamily:Tsx-like channel Family:Tsx-like channel 25 c3brzA_ not modelled 74.9 17 PDB header:transport protein Chain: A: PDB Molecule:todx; PDBTitle: crystal structure of the pseudomonas putida toluene2 transporter todx 26 c3a2rX_ not modelled 72.6 10 PDB header:membrane protein Chain: X: PDB Molecule:outer membrane protein ii; PDBTitle: crystal structure of outer membrane protein porb from neisseria2 meningitidis 27 c3dzmB_ not modelled 70.7 20 PDB header:unknown function Chain: B: PDB Molecule:hypothetical conserved protein; PDBTitle: crystal structure of a major outer membrane protein from thermus2 thermophilus hb27 28 d2fgqx1 not modelled 70.4 9 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Porin 29 c3bryB_ not modelled 62.6 11 PDB header:transport protein Chain: B: PDB Molecule:tbux; PDBTitle: crystal structure of the ralstonia pickettii toluene2 transporter tbux 30 d3prna_ not modelled 55.3 18 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Porin 31 d2zfga1 not modelled 54.6 11 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Porin 32 c1xkhC_ not modelled 47.2 11 PDB header:membrane protein Chain: C: PDB Molecule:ferripyoverdine receptor; PDBTitle: pyoverdine outer membrane receptor fpva from pseudomonas aeruginosa2 pao1 bound to pyoverdine 33 d1t16a_ not modelled 45.3 12 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Outer membrane protein transport protein 34 c3efmA_ not modelled 45.3 15 PDB header:membrane protein Chain: A: PDB Molecule:ferric alcaligin siderophore receptor; PDBTitle: structure of the alcaligin outer membrane recepteur faua from2 bordetella pertussis 35 c3cslB_ not modelled 43.0 15 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 36 d1osma_ not modelled 39.7 11 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Porin 37 d2gufa1 not modelled 39.1 11 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Ligand-gated protein channel 38 c2c4iA_ not modelled 28.6 35 PDB header:glycoprotein Chain: A: PDB Molecule:avidin; PDBTitle: crystal structure of engineered avidin 39 c3nsgA_ not modelled 25.0 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 40 c3qlbA_ not modelled 23.4 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 41 c3fhhA_ not modelled 17.8 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 42 d1a0tp_ not modelled 16.9 13 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Maltoporin-like 43 d2vdfa1 not modelled 16.6 12 Fold:Transmembrane beta-barrels Superfamily:OMPT-like Family:Outer membrane adhesin/invasin OpcA 44 c3oiqB_ not modelled 10.3 27 PDB header:protein binding Chain: B: PDB Molecule:dna polymerase alpha catalytic subunit a; PDBTitle: crystal structure of yeast telomere protein cdc13 ob1 and the2 catalytic subunit of dna polymerase alpha pol1 45 d2a6za1 not modelled 9.7 14 Fold:Concanavalin A-like lectins/glucanases Superfamily:Concanavalin A-like lectins/glucanases Family:Lectin leg-like 46 d1phoa_ not modelled 9.2 9 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Porin 47 c2grxB_ not modelled 8.5 13 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 48 d1thqa_ not modelled 8.0 16 Fold:Transmembrane beta-barrels Superfamily:OMPA-like Family:Outer membrane enzyme PagP 49 c2hdiA_ not modelled 7.5 15 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. 50 d1fepa_ not modelled 5.7 12 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