Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	Q	T	K	L	L	A	I	M	L	A	A	P	V	V	F	S	S	Q	E	A	S	A	S	D	F	F	G	P	E	K	I	S	T	E	I	N	L	G	T	L	S	G	K	T	K	E	R	V	Y	E	P	E	E	G	G	R	K	V	S
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?									?	?	?				?	?	?	?	?	?	?	?	?	?	?							?													?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		Q	L	D	W	K	Y	S	N	A	A	I	L	K	G	A	V	N	W	E	L	N	P	W	L	S	V	G	A	A	G	W	T	T	L	N	S	R	G	G	N	M	V	D	Q	D	W	M	D	S	G	T	P	G	T	W	T	D	E	S	R
Secondary structure
SS confidence
Disorder																															?	?	?	?	?	?	?	?	?	?		?								?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		H	P	D	T	R	L	N	Y	A	N	E	F	D	L	N	V	K	G	W	F	L	K	E	S	D	Y	R	L	A	I	M	A	G	Y	Q	E	S	R	Y	S	F	N	A	T	G	G	T	Y	I	Y	S	E	N	G	G	F	R	N	E	T
Secondary structure
SS confidence
Disorder			?																																																			?	?			?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		G	A	L	P	D	K	I	K	V	I	G	Y	K	Q	H	F	K	I	P	Y	V	G	L	T	G	N	Y	R	Y	D	N	F	E	F	G	G	A	F	K	Y	S	G	W	V	R	G	S	D	N	D	E	H	Y	V	R	Q	T	T	F	R
Secondary structure
SS confidence
Disorder			?	?	?	?																																																						?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		S	K	V	I	N	Q	N	Y	Y	S	V	A	V	N	A	G	Y	Y	I	T	P	E	A	K	V	Y	I	E	G	V	W	S	R	L	T	N	K	K	G	D	T	S	L	Y	D	R	S	D	N	T	S	E	H	N	N	N	G	A	G	I
Secondary structure
SS confidence
Disorder		?		?		?	?																																											?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.
Sequence		E	N	Y	N	F	I	T	T	A	G	L	K	Y	T	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 1i78 chain A Region: 21 - 315 Aligned: 295 Modelled: 295 Confidence: 100.0% Identity: 72% Fold: Transmembrane beta-barrels Superfamily: OMPT-like Family: Outer membrane protease OMPT Phyre2 PDB 2x4m chain D Region: 25 - 315 Aligned: 285 Modelled: 287 Confidence: 100.0% Identity: 49% PDB header:hydrolase Chain: D: PDB Molecule:coagulase/fibrinolysin; PDBTitle: yersinia pestis plasminogen activator pla Phyre2 PDB 2x27 chain X Region: 123 - 315 Aligned: 162 Modelled: 179 Confidence: 98.3% 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 1p4t chain A Region: 143 - 315 Aligned: 132 Modelled: 132 Confidence: 98.2% Identity: 17% Fold: Transmembrane beta-barrels Superfamily: OMPA-like Family: Outer membrane protein Phyre2 PDB 2f1t chain B Region: 142 - 315 Aligned: 155 Modelled: 165 Confidence: 97.9% Identity: 10% PDB header:membrane protein Chain: B: PDB Molecule:outer membrane protein w; PDBTitle: outer membrane protein ompw Phyre2 PDB 3slj chain A Region: 70 - 315 Aligned: 195 Modelled: 207 Confidence: 97.5% Identity: 13% PDB header:protein transport Chain: A: PDB Molecule:serine protease espp; PDBTitle: pre-cleavage structure of the autotransporter espp - n1023a mutant Phyre2 PDB 2qom chain B Region: 71 - 315 Aligned: 189 Modelled: 189 Confidence: 97.5% Identity: 11% PDB header:hydrolase Chain: B: PDB Molecule:serine protease espp; PDBTitle: the crystal structure of the e.coli espp autotransporter beta-domain. Phyre2 PDB 2k0l chain A Region: 142 - 315 Aligned: 144 Modelled: 157 Confidence: 97.4% Identity: 18% 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 3qq2 chain C Region: 70 - 315 Aligned: 182 Modelled: 190 Confidence: 97.4% Identity: 13% 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 PDB 3nb3 chain C Region: 139 - 315 Aligned: 122 Modelled: 124 Confidence: 97.3% Identity: 21% 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 1g90 chain A Region: 143 - 315 Aligned: 138 Modelled: 156 Confidence: 97.2% Identity: 18% Fold: Transmembrane beta-barrels Superfamily: OMPA-like Family: Outer membrane protein Phyre2 PDB 3dwo chain X Region: 21 - 315 Aligned: 279 Modelled: 287 Confidence: 97.2% Identity: 16% PDB header:membrane protein Chain: X: PDB Molecule:probable outer membrane protein; PDBTitle: crystal structure of a pseudomonas aeruginosa fadl homologue Phyre2 PDB 1t16 chain A Region: 34 - 315 Aligned: 275 Modelled: 282 Confidence: 97.1% Identity: 13% Fold: Transmembrane beta-barrels Superfamily: Porins Family: Outer membrane protein transport protein Phyre2 PDB 1qj8 chain A Region: 149 - 315 Aligned: 124 Modelled: 124 Confidence: 96.9% Identity: 15% Fold: Transmembrane beta-barrels Superfamily: OMPA-like Family: Outer membrane protein Phyre2 PDB 3qra chain A Region: 149 - 315 Aligned: 123 Modelled: 142 Confidence: 96.8% Identity: 15% 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 1qjp chain A Region: 65 - 315 Aligned: 120 Modelled: 121 Confidence: 96.7% Identity: 28% Fold: Transmembrane beta-barrels Superfamily: OMPA-like Family: Outer membrane protein Phyre2 PDB 3aeh chain B Region: 70 - 315 Aligned: 166 Modelled: 178 Confidence: 96.5% Identity: 9% PDB header:hydrolase Chain: B: PDB Molecule:hemoglobin-binding protease hbp autotransporter; PDBTitle: integral membrane domain of autotransporter hbp Phyre2 PDB 3a2r chain X Region: 148 - 315 Aligned: 122 Modelled: 147 Confidence: 95.2% Identity: 24% 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 2lhf chain A Region: 150 - 315 Aligned: 155 Modelled: 166 Confidence: 95.2% Identity: 11% 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 2iwv chain D Region: 72 - 315 Aligned: 166 Modelled: 186 Confidence: 95.0% Identity: 14% 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 1 d1i78a_ 2 c2x4mD_ 3 c2x27X_ 4 d1p4ta_ 5 c2f1tB_ 6 c3sljA_ 7 c2qomB_ 8 c2k0lA_ 9 c3qq2C_ 10 c3nb3C_ 11 d1g90a_ 12 c3dwoX_ 13 d1t16a_ 14 d1qj8a_ 15 c3qraA_ 16 d1qjpa_ 17 c3aehB_ 18 c3a2rX_ 19 c2lhfA_ 20 c2iwvD_ 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42

Detailed template information

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

1 d1i78a_ 100.0 72 Fold:Transmembrane beta-barrels Superfamily:OMPT-like Family:Outer membrane protease OMPT 2 c2x4mD_ 100.0 49 PDB header:hydrolase Chain: D: PDB Molecule:coagulase/fibrinolysin; PDBTitle: yersinia pestis plasminogen activator pla 3 c2x27X_ 98.3 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 4 d1p4ta_ 98.2 17 Fold:Transmembrane beta-barrels Superfamily:OMPA-like Family:Outer membrane protein 5 c2f1tB_ 97.9 10 PDB header:membrane protein Chain: B: PDB Molecule:outer membrane protein w; PDBTitle: outer membrane protein ompw 6 c3sljA_ 97.5 13 PDB header:protein transport Chain: A: PDB Molecule:serine protease espp; PDBTitle: pre-cleavage structure of the autotransporter espp - n1023a mutant 7 c2qomB_ 97.5 11 PDB header:hydrolase Chain: B: PDB Molecule:serine protease espp; PDBTitle: the crystal structure of the e.coli espp autotransporter beta-domain. 8 c2k0lA_ 97.4 18 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. 9 c3qq2C_ 97.4 13 PDB header:membrane protein/protein transport Chain: C: PDB Molecule:brka autotransporter; PDBTitle: crystal structure of the beta domain of the bordetella autotransporter2 brka 10 c3nb3C_ 97.3 21 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 11 d1g90a_ 97.2 18 Fold:Transmembrane beta-barrels Superfamily:OMPA-like Family:Outer membrane protein 12 c3dwoX_ 97.2 16 PDB header:membrane protein Chain: X: PDB Molecule:probable outer membrane protein; PDBTitle: crystal structure of a pseudomonas aeruginosa fadl homologue 13 d1t16a_ 97.1 13 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Outer membrane protein transport protein 14 d1qj8a_ 96.9 15 Fold:Transmembrane beta-barrels Superfamily:OMPA-like Family:Outer membrane protein 15 c3qraA_ 96.8 15 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 16 d1qjpa_ 96.7 28 Fold:Transmembrane beta-barrels Superfamily:OMPA-like Family:Outer membrane protein 17 c3aehB_ 96.5 9 PDB header:hydrolase Chain: B: PDB Molecule:hemoglobin-binding protease hbp autotransporter; PDBTitle: integral membrane domain of autotransporter hbp 18 c3a2rX_ 95.2 24 PDB header:membrane protein Chain: X: PDB Molecule:outer membrane protein ii; PDBTitle: crystal structure of outer membrane protein porb from neisseria2 meningitidis 19 c2lhfA_ 95.2 11 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 c2iwvD_ 95.0 14 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 21 d1uynx_ not modelled 94.4 11 Fold:Transmembrane beta-barrels Superfamily:Autotransporter Family:Autotransporter 22 c3kvnA_ not modelled 94.1 18 PDB header:hydrolase Chain: A: PDB Molecule:esterase esta; PDBTitle: crystal structure of the full-length autotransporter esta from2 pseudomonas aeruginosa 23 c2jmmA_ not modelled 93.9 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 24 c3brzA_ not modelled 93.5 9 PDB header:transport protein Chain: A: PDB Molecule:todx; PDBTitle: crystal structure of the pseudomonas putida toluene2 transporter todx 25 d2fgqx1 not modelled 88.2 10 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Porin 26 c3dzmB_ not modelled 87.3 17 PDB header:unknown function Chain: B: PDB Molecule:hypothetical conserved protein; PDBTitle: crystal structure of a major outer membrane protein from thermus2 thermophilus hb27 27 d2zfga1 not modelled 75.3 11 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Porin 28 d1phoa_ not modelled 73.6 14 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Porin 29 c3nsgA_ not modelled 72.7 14 PDB header:membrane protein Chain: A: PDB Molecule:outer membrane protein f; PDBTitle: crystal structure of ompf, an outer membrane protein from salmonella2 typhi 30 c3bryB_ not modelled 70.4 9 PDB header:transport protein Chain: B: PDB Molecule:tbux; PDBTitle: crystal structure of the ralstonia pickettii toluene2 transporter tbux 31 d1osma_ not modelled 59.9 19 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Porin 32 d1af6a_ not modelled 58.5 14 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Maltoporin-like 33 d1a0tp_ not modelled 40.8 11 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Maltoporin-like 34 d3prna_ not modelled 26.6 27 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Porin 35 d2mpra_ not modelled 18.1 14 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Maltoporin-like 36 d2pora_ not modelled 15.2 18 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Porin 37 c3cslB_ not modelled 13.0 17 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 38 c3ghnA_ not modelled 11.8 9 PDB header:hydrolase Chain: A: PDB Molecule:a disintegrin and metalloproteinase with thrombospondin PDBTitle: crystal structure of the exosite-containing fragment of human adamts132 (form-2) 39 d1fepa_ not modelled 9.9 9 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Ligand-gated protein channel 40 c3uajA_ not modelled 9.8 12 PDB header:viral protein/immune system Chain: A: PDB Molecule:envelope protein; PDBTitle: crystal structure of the envelope glycoprotein ectodomain from dengue2 virus serotype 4 in complex with the fab fragment of the chimpanzee3 monoclonal antibody 5h2 41 d1i8ta2 not modelled 7.9 8 Fold:FAD-linked reductases, C-terminal domain Superfamily:FAD-linked reductases, C-terminal domain Family:UDP-galactopyranose mutase 42 d1na6a1 not modelled 7.9 14 Fold:DNA-binding pseudobarrel domain Superfamily:DNA-binding pseudobarrel domain Family:Type II restriction endonuclease effector domain

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