Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	M	K	R	N	I	L	A	V	I	V	P	A	L	L	V	A	G	T	A	N	A	A	E	I	Y	N	K	D	G	N	K	V	D	L	Y	G	K	A	V	G	L	H	Y	F	S	K	G	N	G	E	N	S	Y	G	G	N	G	D	M
Secondary structure
SS confidence
Disorder		?	?	?																	?	?				?																						?	?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		T	Y	A	R	L	G	F	K	G	E	T	Q	I	N	S	D	L	T	G	Y	G	Q	W	E	Y	N	F	Q	G	N	N	S	E	G	A	D	A	Q	T	G	N	K	T	R	L	A	F	A	G	L	K	Y	A	D	V	G	S	F	D	Y
Secondary structure
SS confidence
Disorder																															?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		G	R	N	Y	G	V	V	Y	D	A	L	G	Y	T	D	M	L	P	E	F	G	G	D	T	A	Y	S	D	D	F	F	V	G	R	V	G	G	V	A	T	Y	R	N	S	N	F	F	G	L	V	D	G	L	N	F	A	V	Q	Y	L
Secondary structure
SS confidence
Disorder																																																													?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		G	K	N	E	R	D	T	A	R	R	S	N	G	D	G	V	G	G	S	I	S	Y	E	Y	E	G	F	G	I	V	G	A	Y	G	A	A	D	R	T	N	L	Q	E	A	Q	P	L	G	N	G	K	K	A	E	Q	W	A	T	G	L
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?	?	?	?	?																								?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		K	Y	D	A	N	N	I	Y	L	A	A	N	Y	G	E	T	R	N	A	T	P	I	T	N	K	F	T	N	T	S	G	F	A	N	K	T	Q	D	V	L	L	V	A	Q	Y	Q	F	D	F	G	L	R	P	S	I	A	Y	T	K	S
Secondary structure
SS confidence
Disorder																			?	?	?	?							?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence		K	A	K	D	V	E	G	I	G	D	V	D	L	V	N	Y	F	E	V	G	A	T	Y	Y	F	N	K	N	M	S	T	Y	V	D	Y	I	I	N	Q	I	D	S	D	N	K	L	G	V	G	S	D	D	T	V	A	V	G	I	V	Y
Secondary structure
SS confidence
Disorder				?	?	?	?	?	?	?	?																														?	?	?	?	?	?	?	?	?		?
Disorder confidence
		.	.
Sequence		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 2zfg chain A domain 1 Region: 23 - 362 Aligned: 339 Modelled: 340 Confidence: 100.0% Identity: 99% Fold: Transmembrane beta-barrels Superfamily: Porins Family: Porin Phyre2 PDB 1pho chain A Region: 23 - 362 Aligned: 327 Modelled: 340 Confidence: 100.0% Identity: 63% Fold: Transmembrane beta-barrels Superfamily: Porins Family: Porin Phyre2 PDB 1osm chain A Region: 23 - 362 Aligned: 328 Modelled: 334 Confidence: 100.0% Identity: 62% Fold: Transmembrane beta-barrels Superfamily: Porins Family: Porin Phyre2 PDB 3nsg chain A Region: 24 - 362 Aligned: 333 Modelled: 338 Confidence: 100.0% Identity: 56% 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 2fgq chain X domain 1 Region: 32 - 362 Aligned: 304 Modelled: 325 Confidence: 100.0% Identity: 20% Fold: Transmembrane beta-barrels Superfamily: Porins Family: Porin Phyre2 PDB 3a2r chain X Region: 32 - 362 Aligned: 320 Modelled: 331 Confidence: 100.0% Identity: 19% 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: 32 - 362 Aligned: 289 Modelled: 331 Confidence: 100.0% Identity: 15% Fold: Transmembrane beta-barrels Superfamily: Porins Family: Porin Phyre2 PDB 3prn chain A Region: 33 - 362 Aligned: 277 Modelled: 317 Confidence: 100.0% Identity: 14% Fold: Transmembrane beta-barrels Superfamily: Porins Family: Porin Phyre2 PDB 2o4v chain A Region: 27 - 362 Aligned: 320 Modelled: 336 Confidence: 99.9% Identity: 14% 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: 205 - 362 Aligned: 144 Modelled: 158 Confidence: 99.0% Identity: 14% 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: 206 - 362 Aligned: 143 Modelled: 157 Confidence: 99.0% Identity: 19% Fold: Transmembrane beta-barrels Superfamily: OMPA-like Family: Outer membrane protein Phyre2 PDB 1qj8 chain A Region: 208 - 362 Aligned: 139 Modelled: 154 Confidence: 98.9% Identity: 14% Fold: Transmembrane beta-barrels Superfamily: OMPA-like Family: Outer membrane protein Phyre2 PDB 1g90 chain A Region: 203 - 362 Aligned: 159 Modelled: 160 Confidence: 98.6% Identity: 11% Fold: Transmembrane beta-barrels Superfamily: OMPA-like Family: Outer membrane protein Phyre2 PDB 2x27 chain X Region: 201 - 362 Aligned: 162 Modelled: 162 Confidence: 98.6% 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 3jty chain B Region: 34 - 362 Aligned: 321 Modelled: 325 Confidence: 98.5% Identity: 10% PDB header:transport protein Chain: B: PDB Molecule:benf-like porin; PDBTitle: crystal structure of a benf-like porin from pseudomonas fluorescens2 pf-5 Phyre2 PDB 2f1t chain B Region: 203 - 362 Aligned: 156 Modelled: 156 Confidence: 98.5% Identity: 16% PDB header:membrane protein Chain: B: PDB Molecule:outer membrane protein w; PDBTitle: outer membrane protein ompw Phyre2 PDB 2k0l chain A Region: 203 - 362 Aligned: 159 Modelled: 160 Confidence: 98.4% 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 2odj chain A Region: 14 - 361 Aligned: 310 Modelled: 323 Confidence: 98.3% 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: 205 - 362 Aligned: 125 Modelled: 149 Confidence: 98.2% Identity: 13% Fold: Transmembrane beta-barrels Superfamily: OMPA-like Family: Outer membrane protein Phyre2 PDB 2lhf chain A Region: 218 - 362 Aligned: 136 Modelled: 136 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 2jna chain A domain 1 Region: 2 - 83 Aligned: 82 Modelled: 82 Confidence: 74.7% Identity: 13% Fold: Dodecin subunit-like Superfamily: YdgH-like Family: YdgH-like Phyre2 1 d2zfga1 2 d1phoa_ 3 d1osma_ 4 c3nsgA_ 5 d2fgqx1 6 c3a2rX_ 7 d2pora_ 8 d3prna_ 9 c2o4vA_ 10 c3qraA_ 11 d1p4ta_ 12 d1qj8a_ 13 d1g90a_ 14 c2x27X_ 15 c3jtyB_ 16 c2f1tB_ 17 c2k0lA_ 18 c2odjA_ 19 d1qjpa_ 20 c2lhfA_ 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 d2jnaa1 46 47 48 49 50 51 52 53 54 55 56 57 58

Detailed template information

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

1 d2zfga1 100.0 99 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Porin 2 d1phoa_ 100.0 63 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Porin 3 d1osma_ 100.0 62 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Porin 4 c3nsgA_ 100.0 56 PDB header:membrane protein Chain: A: PDB Molecule:outer membrane protein f; PDBTitle: crystal structure of ompf, an outer membrane protein from salmonella2 typhi 5 d2fgqx1 100.0 20 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Porin 6 c3a2rX_ 100.0 19 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 15 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Porin 8 d3prna_ 100.0 14 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Porin 9 c2o4vA_ 99.9 14 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_ 99.0 14 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_ 99.0 19 Fold:Transmembrane beta-barrels Superfamily:OMPA-like Family:Outer membrane protein 12 d1qj8a_ 98.9 14 Fold:Transmembrane beta-barrels Superfamily:OMPA-like Family:Outer membrane protein 13 d1g90a_ 98.6 11 Fold:Transmembrane beta-barrels Superfamily:OMPA-like Family:Outer membrane protein 14 c2x27X_ 98.6 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 15 c3jtyB_ 98.5 10 PDB header:transport protein Chain: B: PDB Molecule:benf-like porin; PDBTitle: crystal structure of a benf-like porin from pseudomonas fluorescens2 pf-5 16 c2f1tB_ 98.5 16 PDB header:membrane protein Chain: B: PDB Molecule:outer membrane protein w; PDBTitle: outer membrane protein ompw 17 c2k0lA_ 98.4 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. 18 c2odjA_ 98.3 13 PDB header:membrane protein Chain: A: PDB Molecule:porin d; PDBTitle: crystal structure of the outer membrane protein oprd from pseudomonas2 aeruginosa 19 d1qjpa_ 98.2 13 Fold:Transmembrane beta-barrels Superfamily:OMPA-like Family:Outer membrane protein 20 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 21 c2y0lA_ not modelled 98.2 13 PDB header:transport protein Chain: A: PDB Molecule:cis-aconitate porin opdh; PDBTitle: crystal structure of pseudomonas aeruginosa opdo 22 c2y0kA_ not modelled 98.1 12 PDB header:transport protein Chain: A: PDB Molecule:pyroglutatmate porin opdo; PDBTitle: crystal structure of pseudomonas aeruginosa opdo 23 c3nb3C_ not modelled 98.1 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 24 c2y0hA_ not modelled 98.0 12 PDB header:transport protein Chain: A: PDB Molecule:probable porin; PDBTitle: crystal structure of pseudomonas aeruginosa opdl 25 c2qtkB_ not modelled 98.0 12 PDB header:membrane protein Chain: B: PDB Molecule:probable porin; PDBTitle: crystal structure of the outer membrane protein opdk from2 pseudomonas aeruginosa 26 c3brzA_ not modelled 97.9 10 PDB header:transport protein Chain: A: PDB Molecule:todx; PDBTitle: crystal structure of the pseudomonas putida toluene2 transporter todx 27 c3bryB_ not modelled 97.6 16 PDB header:transport protein Chain: B: PDB Molecule:tbux; PDBTitle: crystal structure of the ralstonia pickettii toluene2 transporter tbux 28 d1a0tp_ not modelled 97.2 11 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Maltoporin-like 29 c3aehB_ not modelled 96.8 13 PDB header:hydrolase Chain: B: PDB Molecule:hemoglobin-binding protease hbp autotransporter; PDBTitle: integral membrane domain of autotransporter hbp 30 c2jmmA_ not modelled 96.8 10 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 31 d2mpra_ not modelled 96.7 14 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Maltoporin-like 32 d1af6a_ not modelled 96.3 14 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Maltoporin-like 33 d1uynx_ not modelled 95.6 9 Fold:Transmembrane beta-barrels Superfamily:Autotransporter Family:Autotransporter 34 c2wjqA_ not modelled 95.6 12 PDB header:transport protein Chain: A: PDB Molecule:probable n-acetylneuraminic acid outer membrane channel PDBTitle: nanc porin structure in hexagonal crystal form. 35 c3dwoX_ not modelled 95.0 15 PDB header:membrane protein Chain: X: PDB Molecule:probable outer membrane protein; PDBTitle: crystal structure of a pseudomonas aeruginosa fadl homologue 36 c2x4mD_ not modelled 94.8 15 PDB header:hydrolase Chain: D: PDB Molecule:coagulase/fibrinolysin; PDBTitle: yersinia pestis plasminogen activator pla 37 d1t16a_ not modelled 94.7 13 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Outer membrane protein transport protein 38 c2iwvD_ not modelled 94.5 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 39 c2qomB_ not modelled 94.4 13 PDB header:hydrolase Chain: B: PDB Molecule:serine protease espp; PDBTitle: the crystal structure of the e.coli espp autotransporter beta-domain. 40 c3kvnA_ not modelled 90.2 16 PDB header:hydrolase Chain: A: PDB Molecule:esterase esta; PDBTitle: crystal structure of the full-length autotransporter esta from2 pseudomonas aeruginosa 41 c3sljA_ not modelled 90.0 15 PDB header:protein transport Chain: A: PDB Molecule:serine protease espp; PDBTitle: pre-cleavage structure of the autotransporter espp - n1023a mutant 42 c3qq2C_ not modelled 86.2 14 PDB header:membrane protein/protein transport Chain: C: PDB Molecule:brka autotransporter; PDBTitle: crystal structure of the beta domain of the bordetella autotransporter2 brka 43 d1i78a_ not modelled 84.5 16 Fold:Transmembrane beta-barrels Superfamily:OMPT-like Family:Outer membrane protease OMPT 44 c3rbhC_ not modelled 80.2 9 PDB header:transport protein Chain: C: PDB Molecule:alginate production protein alge; PDBTitle: structure of alginate export protein alge from pseudomonas aeruginosa 45 d2jnaa1 74.7 13 Fold:Dodecin subunit-like Superfamily:YdgH-like Family:YdgH-like 46 c1xkwA_ not modelled 55.7 14 PDB header:membrane protein Chain: A: PDB Molecule:fe(iii)-pyochelin receptor; PDBTitle: pyochelin outer membrane receptor fpta from pseudomonas2 aeruginosa 47 c3ay3C_ not modelled 21.9 29 PDB header:oxidoreductase Chain: C: PDB Molecule:nad-dependent epimerase/dehydratase; PDBTitle: crystal structure of glucuronic acid dehydrogeanse from2 chromohalobacter salexigens 48 c2iahA_ not modelled 20.2 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. 49 c2hdiA_ not modelled 18.0 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. 50 d1fepa_ not modelled 16.4 15 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Ligand-gated protein channel 51 d1by5a_ not modelled 15.3 17 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Ligand-gated protein channel 52 d2gufa1 not modelled 14.8 13 Fold:Transmembrane beta-barrels Superfamily:Porins Family:Ligand-gated protein channel 53 c2vdaB_ not modelled 11.8 35 PDB header:protein transport Chain: B: PDB Molecule:maltoporin; PDBTitle: solution structure of the seca-signal peptide complex 54 c2k3aA_ not modelled 7.5 26 PDB header:hydrolase Chain: A: PDB Molecule:chap domain protein; PDBTitle: nmr solution structure of staphylococcus saprophyticus chap2 (cysteine, histidine-dependent amidohydrolases/peptidases)3 domain protein. northeast structural genomics consortium4 target syr11 55 c3g8cB_ not modelled 6.8 25 PDB header:ligase Chain: B: PDB Molecule:biotin carboxylase; PDBTitle: crystal stucture of biotin carboxylase in complex with2 biotin, bicarbonate, adp and mg ion 56 c1ulzA_ not modelled 5.8 25 PDB header:ligase Chain: A: PDB Molecule:pyruvate carboxylase n-terminal domain; PDBTitle: crystal structure of the biotin carboxylase subunit of pyruvate2 carboxylase 57 c2grxB_ not modelled 5.8 14 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 58 c3kipU_ not modelled 5.6 29 PDB header:lyase Chain: U: PDB Molecule:3-dehydroquinase, type ii; PDBTitle: crystal structure of type-ii 3-dehydroquinase from c. albicans

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

---

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