Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	K	K	H	L	L	T	L	T	L	S	S	I	L	A	I	P	V	V	S	H	A	E	F	K	G	G	F	A	D	I	G	V	H	Y	L	D	W	T	S	R	T	T	E	K	S	S	T	K	S	H	K	D	D	F	G	Y	L	E	F
Secondary structure
SS confidence
Disorder		?	?	?	?	?		?							?	?	?	?	?				?																			?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		E	G	G	A	N	F	S	W	G	E	M	Y	G	F	F	D	W	E	N	F	Y	N	G	R	H	N	K	P	G	S	E	Q	R	Y	T	F	K	N	T	N	R	I	Y	L	G	D	T	G	F	N	L	Y	L	H	A	Y	G	T	Y	G
Secondary structure
SS confidence
Disorder																					?	?	?	?	?	?	?	?	?	?	?	?	?	?																									?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		S	A	N	R	V	N	F	H	D	D	M	F	L	Y	G	I	G	Y	N	F	T	G	S	G	W	W	F	K	P	F	F	A	K	R	Y	T	D	Q	T	Y	Y	T	G	D	N	G	Y	V	A	G	W	V	A	G	Y	N	F	M	L	G
Secondary structure
SS confidence
Disorder		?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		S	E	K	F	T	L	T	N	W	N	E	Y	E	F	D	R	D	A	T	Y	A	A	G	N	G	G	K	E	G	L	N	G	A	V	A	L	W	W	N	A	T	S	H	I	T	T	G	I	Q	Y	R	Y	A	D	D	K	L	G	E	D
Secondary structure
SS confidence
Disorder			?													?	?	?		?	?	?	?	?	?	?	?	?	?	?																													?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.
Sequence		F	Y	Q	D	A	I	I	Y	S	I	K	F	N	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 1tly chain A Region: 26 - 253 Aligned: 210 Modelled: 228 Confidence: 100.0% Identity: 14% Fold: Transmembrane beta-barrels Superfamily: Tsx-like channel Family: Tsx-like channel Phyre2 PDB 1qjp chain A Region: 128 - 254 Aligned: 118 Modelled: 127 Confidence: 95.9% Identity: 13% Fold: Transmembrane beta-barrels Superfamily: OMPA-like Family: Outer membrane protein Phyre2 PDB 3nb3 chain C Region: 128 - 254 Aligned: 114 Modelled: 127 Confidence: 95.7% Identity: 11% 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 1qj8 chain A Region: 134 - 254 Aligned: 113 Modelled: 118 Confidence: 94.8% Identity: 12% Fold: Transmembrane beta-barrels Superfamily: OMPA-like Family: Outer membrane protein Phyre2 PDB 3aeh chain B Region: 134 - 254 Aligned: 114 Modelled: 121 Confidence: 93.9% Identity: 18% PDB header:hydrolase Chain: B: PDB Molecule:hemoglobin-binding protease hbp autotransporter; PDBTitle: integral membrane domain of autotransporter hbp Phyre2 PDB 1uyn chain X Region: 134 - 254 Aligned: 118 Modelled: 121 Confidence: 92.7% Identity: 14% Fold: Transmembrane beta-barrels Superfamily: Autotransporter Family: Autotransporter Phyre2 PDB 3qra chain A Region: 134 - 254 Aligned: 117 Modelled: 121 Confidence: 92.2% Identity: 11% 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 2k0l chain A Region: 126 - 254 Aligned: 125 Modelled: 129 Confidence: 91.4% 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 1p4t chain A Region: 106 - 254 Aligned: 149 Modelled: 149 Confidence: 90.0% Identity: 13% Fold: Transmembrane beta-barrels Superfamily: OMPA-like Family: Outer membrane protein Phyre2 PDB 1g90 chain A Region: 112 - 254 Aligned: 143 Modelled: 143 Confidence: 83.8% Identity: 13% Fold: Transmembrane beta-barrels Superfamily: OMPA-like Family: Outer membrane protein Phyre2 PDB 2x27 chain X Region: 206 - 254 Aligned: 49 Modelled: 49 Confidence: 73.6% 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 3slj chain A Region: 134 - 254 Aligned: 118 Modelled: 121 Confidence: 62.2% Identity: 18% PDB header:protein transport Chain: A: PDB Molecule:serine protease espp; PDBTitle: pre-cleavage structure of the autotransporter espp - n1023a mutant Phyre2 PDB 2iwv chain D Region: 69 - 230 Aligned: 152 Modelled: 162 Confidence: 58.2% Identity: 9% 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 2f1t chain B Region: 206 - 254 Aligned: 49 Modelled: 49 Confidence: 58.1% Identity: 16% PDB header:membrane protein Chain: B: PDB Molecule:outer membrane protein w; PDBTitle: outer membrane protein ompw Phyre2 PDB 3brz chain A Region: 167 - 254 Aligned: 75 Modelled: 78 Confidence: 54.7% Identity: 12% PDB header:transport protein Chain: A: PDB Molecule:todx; PDBTitle: crystal structure of the pseudomonas putida toluene2 transporter todx Phyre2 PDB 2wjq chain A Region: 136 - 232 Aligned: 79 Modelled: 97 Confidence: 49.2% Identity: 20% 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 2lhf chain A Region: 100 - 254 Aligned: 152 Modelled: 155 Confidence: 36.7% Identity: 9% 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 3qq2 chain C Region: 134 - 254 Aligned: 110 Modelled: 121 Confidence: 23.9% Identity: 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 Phyre2 PDB 2eef chain A Region: 200 - 238 Aligned: 39 Modelled: 39 Confidence: 21.3% Identity: 15% PDB header:sugar binding protein Chain: A: PDB Molecule:protein phosphatase 1, regulatory (inhibitor) PDBTitle: solution structure of the cbm_21 domain from human protein2 phosphatase 1, regulatory (inhibitor) subunit 3b Phyre2 PDB 1pho chain A Region: 57 - 254 Aligned: 194 Modelled: 198 Confidence: 12.9% Identity: 8% Fold: Transmembrane beta-barrels Superfamily: Porins Family: Porin Phyre2 1 d1tlya_ 2 d1qjpa_ 3 c3nb3C_ 4 d1qj8a_ 5 c3aehB_ 6 d1uynx_ 7 c3qraA_ 8 c2k0lA_ 9 d1p4ta_ 10 d1g90a_ 11 c2x27X_ 12 c3sljA_ 13 c2iwvD_ 14 c2f1tB_ 15 c3brzA_ 16 c2wjqA_ 17 c2lhfA_ 18 c3qq2C_ 19 c2eefA_ 20 d1phoa_ 21 22 23 24 25 26 27

Detailed template information

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

1 d1tlya_ 100.0 14 Fold:Transmembrane beta-barrels Superfamily:Tsx-like channel Family:Tsx-like channel 2 d1qjpa_ 95.9 13 Fold:Transmembrane beta-barrels Superfamily:OMPA-like Family:Outer membrane protein 3 c3nb3C_ 95.7 11 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 d1qj8a_ 94.8 12 Fold:Transmembrane beta-barrels Superfamily:OMPA-like Family:Outer membrane protein 5 c3aehB_ 93.9 18 PDB header:hydrolase Chain: B: PDB Molecule:hemoglobin-binding protease hbp autotransporter; PDBTitle: integral membrane domain of autotransporter hbp 6 d1uynx_ 92.7 14 Fold:Transmembrane beta-barrels Superfamily:Autotransporter Family:Autotransporter 7 c3qraA_ 92.2 11 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 8 c2k0lA_ 91.4 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. 9 d1p4ta_ 90.0 13 Fold:Transmembrane beta-barrels Superfamily:OMPA-like Family:Outer membrane protein 10 d1g90a_ 83.8 13 Fold:Transmembrane beta-barrels Superfamily:OMPA-like Family:Outer membrane protein 11 c2x27X_ 73.6 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 12 c3sljA_ 62.2 18 PDB header:protein transport Chain: A: PDB Molecule:serine protease espp; PDBTitle: pre-cleavage structure of the autotransporter espp - n1023a mutant 13 c2iwvD_ 58.2 9 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 c2f1tB_ 58.1 16 PDB header:membrane protein Chain: B: PDB Molecule:outer membrane protein w; PDBTitle: outer membrane protein ompw 15 c3brzA_ 54.7 12 PDB header:transport protein Chain: A: PDB Molecule:todx; PDBTitle: crystal structure of the pseudomonas putida toluene2 transporter todx 16 c2wjqA_ 49.2 20 PDB header:transport protein Chain: A: PDB Molecule:probable n-acetylneuraminic acid outer membrane channel PDBTitle: nanc porin structure in hexagonal crystal form. 17 c2lhfA_ 36.7 9 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 18 c3qq2C_ 23.9 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 19 c2eefA_ 21.3 15 PDB header:sugar binding protein Chain: A: PDB Molecule:protein phosphatase 1, regulatory (inhibitor) PDBTitle: solution structure of the cbm_21 domain from human protein2 phosphatase 1, regulatory (inhibitor) subunit 3b 20 d1phoa_ 12.9 8 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Porin 21 c2jmmA_ not modelled 10.7 12 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 22 d1u4ga_ not modelled 10.0 11 Fold:Zincin-like Superfamily:Metalloproteases ("zincins"), catalytic domain Family:Thermolysin-like 23 c2qomB_ not modelled 8.7 12 PDB header:hydrolase Chain: B: PDB Molecule:serine protease espp; PDBTitle: the crystal structure of the e.coli espp autotransporter beta-domain. 24 c2vqxA_ not modelled 7.1 11 PDB header:hydrolase Chain: A: PDB Molecule:metalloproteinase; PDBTitle: precursor of protealysin, metalloproteinase from serratia2 proteamaculans. 25 d1osma_ not modelled 6.1 9 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Porin 26 c3dwoX_ not modelled 6.0 11 PDB header:membrane protein Chain: X: PDB Molecule:probable outer membrane protein; PDBTitle: crystal structure of a pseudomonas aeruginosa fadl homologue 27 d1tdja3 not modelled 5.5 15 Fold:Ferredoxin-like Superfamily:ACT-like Family:Allosteric threonine deaminase C-terminal 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