Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	R	N	R	W	F	S	V	M	V	G	P	S	V	R	V	N	E	W	F	S	A	Y	A	M	A	G	M	A	Y	S	R	V	S	T	F	S	G	D	Y	L	R	V	T	D	N	K	G	K	T	H	D	V	L	T	G	S	D	D	G
Secondary structure
SS confidence
Disorder		?	?	?	?																															?	?	?	?	?				?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		R	H	S	N	T	S	L	A	W	G	A	G	V	Q	F	N	P	T	E	S	V	A	I	D	I	A	Y	E	G	P	G	S	G	D	W	R	T	D	G	F	I	V	G	V	G	Y	K	F	M	L	T	G	S	D	D	G	R	H	S	N
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?																										?		?			?														?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.
Sequence		T	S	L	A	W	G	A	G	V	Q	F	N	P	T	E	S	V	A	I	D	I	A	Y	E	G	P	G	S	G	D	W	R	T	D	G	F	I	V	G	V	G	Y	K	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 1qj8 chain A Region: 1 - 108 Aligned: 91 Modelled: 91 Confidence: 99.8% Identity: 36% Fold: Transmembrane beta-barrels Superfamily: OMPA-like Family: Outer membrane protein Phyre2 PDB 3qra chain A Region: 1 - 108 Aligned: 90 Modelled: 90 Confidence: 99.7% Identity: 37% 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 3nb3 chain C Region: 1 - 108 Aligned: 85 Modelled: 91 Confidence: 99.3% Identity: 19% 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 1qjp chain A Region: 1 - 108 Aligned: 85 Modelled: 91 Confidence: 99.2% Identity: 19% Fold: Transmembrane beta-barrels Superfamily: OMPA-like Family: Outer membrane protein Phyre2 PDB 2k0l chain A Region: 1 - 108 Aligned: 96 Modelled: 108 Confidence: 99.1% Identity: 17% 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 1g90 chain A Region: 1 - 108 Aligned: 91 Modelled: 91 Confidence: 99.0% Identity: 19% Fold: Transmembrane beta-barrels Superfamily: OMPA-like Family: Outer membrane protein Phyre2 PDB 1p4t chain A Region: 1 - 108 Aligned: 91 Modelled: 91 Confidence: 98.9% Identity: 23% Fold: Transmembrane beta-barrels Superfamily: OMPA-like Family: Outer membrane protein Phyre2 PDB 2f1t chain B Region: 2 - 108 Aligned: 98 Modelled: 107 Confidence: 98.7% Identity: 17% PDB header:membrane protein Chain: B: PDB Molecule:outer membrane protein w; PDBTitle: outer membrane protein ompw Phyre2 PDB 2jmm chain A Region: 1 - 108 Aligned: 93 Modelled: 94 Confidence: 98.7% Identity: 18% 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 2x27 chain X Region: 1 - 108 Aligned: 99 Modelled: 108 Confidence: 98.6% Identity: 20% 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 1t16 chain A Region: 6 - 164 Aligned: 159 Modelled: 159 Confidence: 98.4% Identity: 14% Fold: Transmembrane beta-barrels Superfamily: Porins Family: Outer membrane protein transport protein Phyre2 PDB 2lhf chain A Region: 2 - 108 Aligned: 88 Modelled: 88 Confidence: 98.2% Identity: 18% 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: 2 - 164 Aligned: 163 Modelled: 163 Confidence: 98.0% Identity: 15% PDB header:transport protein Chain: A: PDB Molecule:todx; PDBTitle: crystal structure of the pseudomonas putida toluene2 transporter todx Phyre2 PDB 3bry chain B Region: 6 - 164 Aligned: 154 Modelled: 159 Confidence: 97.9% Identity: 15% PDB header:transport protein Chain: B: PDB Molecule:tbux; PDBTitle: crystal structure of the ralstonia pickettii toluene2 transporter tbux Phyre2 PDB 1uyn chain X Region: 2 - 164 Aligned: 152 Modelled: 163 Confidence: 97.9% Identity: 16% Fold: Transmembrane beta-barrels Superfamily: Autotransporter Family: Autotransporter Phyre2 PDB 3dwo chain X Region: 4 - 164 Aligned: 161 Modelled: 161 Confidence: 97.8% Identity: 19% PDB header:membrane protein Chain: X: PDB Molecule:probable outer membrane protein; PDBTitle: crystal structure of a pseudomonas aeruginosa fadl homologue Phyre2 PDB 3kvn chain A Region: 2 - 164 Aligned: 155 Modelled: 158 Confidence: 97.4% Identity: 9% PDB header:hydrolase Chain: A: PDB Molecule:esterase esta; PDBTitle: crystal structure of the full-length autotransporter esta from2 pseudomonas aeruginosa Phyre2 PDB 2zfg chain A domain 1 Region: 57 - 164 Aligned: 107 Modelled: 108 Confidence: 97.3% Identity: 14% Fold: Transmembrane beta-barrels Superfamily: Porins Family: Porin Phyre2 PDB 1osm chain A Region: 50 - 164 Aligned: 114 Modelled: 115 Confidence: 97.3% Identity: 11% Fold: Transmembrane beta-barrels Superfamily: Porins Family: Porin Phyre2 PDB 3slj chain A Region: 7 - 164 Aligned: 137 Modelled: 140 Confidence: 97.0% Identity: 15% PDB header:protein transport Chain: A: PDB Molecule:serine protease espp; PDBTitle: pre-cleavage structure of the autotransporter espp - n1023a mutant Phyre2 1 d1qj8a_ 2 c3qraA_ 3 c3nb3C_ 4 d1qjpa_ 5 c2k0lA_ 6 d1g90a_ 7 d1p4ta_ 8 c2f1tB_ 9 c2jmmA_ 10 c2x27X_ 11 d1t16a_ 12 c2lhfA_ 13 c3brzA_ 14 c3bryB_ 15 d1uynx_ 16 c3dwoX_ 17 c3kvnA_ 18 d2zfga1 19 d1osma_ 20 c3sljA_ 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 d1qj8a_ 99.8 36 Fold:Transmembrane beta-barrels Superfamily:OMPA-like Family:Outer membrane protein 2 c3qraA_ 99.7 37 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 c3nb3C_ 99.3 19 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 4 d1qjpa_ 99.2 19 Fold:Transmembrane beta-barrels Superfamily:OMPA-like Family:Outer membrane protein 5 c2k0lA_ 99.1 17 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 d1g90a_ 99.0 19 Fold:Transmembrane beta-barrels Superfamily:OMPA-like Family:Outer membrane protein 7 d1p4ta_ 98.9 23 Fold:Transmembrane beta-barrels Superfamily:OMPA-like Family:Outer membrane protein 8 c2f1tB_ 98.7 17 PDB header:membrane protein Chain: B: PDB Molecule:outer membrane protein w; PDBTitle: outer membrane protein ompw 9 c2jmmA_ 98.7 18 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 c2x27X_ 98.6 20 PDB header:membrane protein Chain: X: PDB Molecule:outer membrane protein oprg; PDBTitle: crystal structure of the outer membrane protein oprg from2 pseudomonas aeruginosa 11 d1t16a_ 98.4 14 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Outer membrane protein transport protein 12 c2lhfA_ 98.2 18 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 13 c3brzA_ 98.0 15 PDB header:transport protein Chain: A: PDB Molecule:todx; PDBTitle: crystal structure of the pseudomonas putida toluene2 transporter todx 14 c3bryB_ 97.9 15 PDB header:transport protein Chain: B: PDB Molecule:tbux; PDBTitle: crystal structure of the ralstonia pickettii toluene2 transporter tbux 15 d1uynx_ 97.9 16 Fold:Transmembrane beta-barrels Superfamily:Autotransporter Family:Autotransporter 16 c3dwoX_ 97.8 19 PDB header:membrane protein Chain: X: PDB Molecule:probable outer membrane protein; PDBTitle: crystal structure of a pseudomonas aeruginosa fadl homologue 17 c3kvnA_ 97.4 9 PDB header:hydrolase Chain: A: PDB Molecule:esterase esta; PDBTitle: crystal structure of the full-length autotransporter esta from2 pseudomonas aeruginosa 18 d2zfga1 97.3 14 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Porin 19 d1osma_ 97.3 11 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Porin 20 c3sljA_ 97.0 15 PDB header:protein transport Chain: A: PDB Molecule:serine protease espp; PDBTitle: pre-cleavage structure of the autotransporter espp - n1023a mutant 21 d1phoa_ not modelled 96.6 16 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Porin 22 c3aehB_ not modelled 96.5 14 PDB header:hydrolase Chain: B: PDB Molecule:hemoglobin-binding protease hbp autotransporter; PDBTitle: integral membrane domain of autotransporter hbp 23 d2fgqx1 not modelled 95.7 15 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Porin 24 d2vdfa1 not modelled 95.6 24 Fold:Transmembrane beta-barrels Superfamily:OMPT-like Family:Outer membrane adhesin/invasin OpcA 25 c3nsgA_ not modelled 95.2 17 PDB header:membrane protein Chain: A: PDB Molecule:outer membrane protein f; PDBTitle: crystal structure of ompf, an outer membrane protein from salmonella2 typhi 26 c2qomB_ not modelled 94.7 18 PDB header:hydrolase Chain: B: PDB Molecule:serine protease espp; PDBTitle: the crystal structure of the e.coli espp autotransporter beta-domain. 27 c3qq2C_ not modelled 93.6 16 PDB header:membrane protein/protein transport Chain: C: PDB Molecule:brka autotransporter; PDBTitle: crystal structure of the beta domain of the bordetella autotransporter2 brka 28 d1a0tp_ not modelled 92.9 12 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Maltoporin-like 29 c2x4mD_ not modelled 86.1 24 PDB header:hydrolase Chain: D: PDB Molecule:coagulase/fibrinolysin; PDBTitle: yersinia pestis plasminogen activator pla 30 d1af6a_ not modelled 85.4 18 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Maltoporin-like 31 d3prna_ not modelled 79.1 14 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Porin 32 d2mpra_ not modelled 78.4 20 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Maltoporin-like 33 d1i78a_ not modelled 78.1 20 Fold:Transmembrane beta-barrels Superfamily:OMPT-like Family:Outer membrane protease OMPT 34 d2gr7a1 not modelled 77.9 28 Fold:Pili subunits Superfamily:Pili subunits Family:YadA C-terminal domain-like 35 c2gr7C_ not modelled 77.9 28 PDB header:membrane protein Chain: C: PDB Molecule:adhesin; PDBTitle: hia 992-1098 36 c3a2rX_ not modelled 66.3 13 PDB header:membrane protein Chain: X: PDB Molecule:outer membrane protein ii; PDBTitle: crystal structure of outer membrane protein porb from neisseria2 meningitidis 37 d2gr8a1 not modelled 58.0 26 Fold:Pili subunits Superfamily:Pili subunits Family:YadA C-terminal domain-like 38 c2o4vA_ not modelled 55.2 24 PDB header:membrane protein Chain: A: PDB Molecule:porin p; PDBTitle: an arginine ladder in oprp mediates phosphate specific transfer across2 the outer membrane 39 c3emoA_ not modelled 53.3 24 PDB header:membrane protein/cell adhesion Chain: A: PDB Molecule:hia (adhesin); PDBTitle: crystal structure of transmembrane hia 973-1098 40 d2pora_ not modelled 49.2 12 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Porin 41 c3rbhC_ not modelled 21.3 14 PDB header:transport protein Chain: C: PDB Molecule:alginate production protein alge; PDBTitle: structure of alginate export protein alge from pseudomonas aeruginosa 42 d1rl6a2 not modelled 17.5 30 Fold:Ribosomal protein L6 Superfamily:Ribosomal protein L6 Family:Ribosomal protein L6 43 c2y0lA_ not modelled 11.0 9 PDB header:transport protein Chain: A: PDB Molecule:cis-aconitate porin opdh; PDBTitle: crystal structure of pseudomonas aeruginosa opdo 44 c2iahA_ not modelled 8.3 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. 45 d2j01h2 not modelled 7.9 27 Fold:Ribosomal protein L6 Superfamily:Ribosomal protein L6 Family:Ribosomal protein L6 46 c2zkre_ not modelled 7.1 12 PDB header:ribosomal protein/rna Chain: E: PDB Molecule:rna expansion segment es7 part ii; PDBTitle: structure of a mammalian ribosomal 60s subunit within an2 80s complex obtained by docking homology models of the rna3 and proteins into an 8.7 a cryo-em map 47 d2qamg2 not modelled 7.0 46 Fold:Ribosomal protein L6 Superfamily:Ribosomal protein L6 Family:Ribosomal protein L6 48 d2je6i2 not modelled 6.8 20 Fold:Barrel-sandwich hybrid Superfamily:Ribosomal L27 protein-like Family:ECR1 N-terminal domain-like 49 d1osya_ not modelled 6.1 30 Fold:Immunoglobulin-like beta-sandwich Superfamily:Fungal immunomodulatory protein, FIP Family:Fungal immunomodulatory protein, FIP 50 d1opca_ not modelled 6.0 57 Fold:DNA/RNA-binding 3-helical bundle Superfamily:C-terminal effector domain of the bipartite response regulators Family:PhoB-like 51 c1xkhC_ not modelled 5.8 13 PDB header:membrane protein Chain: C: PDB Molecule:ferripyoverdine receptor; PDBTitle: pyoverdine outer membrane receptor fpva from pseudomonas aeruginosa2 pao1 bound to pyoverdine 52 c2e7mA_ not modelled 5.6 27 PDB header:structural protein Chain: A: PDB Molecule:protein kiaa0319; PDBTitle: solution structure of the pkd domain (329-428) from human2 kiaa0319 53 d2zjre1 not modelled 5.6 55 Fold:Ribosomal protein L6 Superfamily:Ribosomal protein L6 Family:Ribosomal protein L6 54 c2hqnA_ not modelled 5.3 50 PDB header:signaling protein Chain: A: PDB Molecule:putative transcriptional regulator; PDBTitle: structure of a atypical orphan response regulator protein revealed a2 new phosphorylation-independent regulatory mechanism 55 d1c0ma1 not modelled 5.2 22 Fold:SH3-like barrel Superfamily:DNA-binding domain of retroviral integrase Family:DNA-binding domain of retroviral integrase

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