Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP06129
DateThu Jan 5 10:59:02 GMT 2012
Unique Job ID59219864e9561c86

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template d2gufa1
Top template information
Fold:Transmembrane beta-barrels
Superfamily:Porins
Family:Ligand-gated protein channel
Confidence and coverage
Confidence:100.0% Coverage: 89%
548 residues ( 89% of your sequence) have been modelled with 100.0% confidence by the single highest scoring template.
3D viewing
Interactive 3D view in Jmol

Sequence analysis 

Secondary structure and disorder prediction 

   1........10.........20.........30.........40.........50.........60
Sequence  MIKKASLLTACSVTAFSAWAQDTSPDTLVVTANRFEQPRSTVLAPTTVVTRQDIDRWQST
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   .........70.........80.........90.........100.........110.........120
Sequence  SVNDVLRRLPGVDITQNGGSGQLSSIFIRGTNASHVLVLIDGVRLNLAGVSGSADLSQFP
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   .........130.........140.........150.........160.........170.........180
Sequence  IALVQRVEYIRGPRSAVYGSDAIGGVVNIITTRDEPGTEISAGWGSNSYQNYDVSTQQQL
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   .........190.........200.........210.........220.........230.........240
Sequence  GDKTRVTLLGDYAHTHGYDVVAYGNTGTQAQTDNDGFLSKTLYGALEHNFTDAWSGFVRG
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   .........250.........260.........270.........280.........290.........300
Sequence  YGYDNRTNYDAYYSPGSPLLDTRKLYSQSWDAGLRYNGELIKSQLITSYSHSKDYNYDPH
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?????
???
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   .........310.........320.........330.........340.........350.........360
Sequence  YGRYDSSATLDEMKQYTVQWANNVIVGHGSIGAGVDWQKQTTTPGTGYVEDGYDQRNTGI
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   .........370.........380.........390.........400.........410.........420
Sequence  YLTGLQQVGDFTFEGAARSDDNSQFGRHGTWQTSAGWEFIEGYRFIASYGTSYKAPNLGQ
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   .........430.........440.........450.........460.........470.........480
Sequence  LYGFYGNPNLDPEKSKQWEGAFEGLTAGVNWRISGYRNDVSDLIDYDDHTLKYYNEGKAR
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   .........490.........500.........510.........520.........530.........540
Sequence  IKGVEATANFDTGPLTHTVSYDYVDARNAITDTPLLRRAKQQVKYQLDWQLYDFDWGITY
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?

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   .........550.........560.........570.........580.........590.........600
Sequence  QYLGTRYDKDYSSYPYQTVKMGGVSLWDLAVAYPVTSHLTVRGKIANLFDKDYETVYGYQ
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???
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   .........610....
Sequence  TAGREYTLSGSYTF
Secondary structure 



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?
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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

RankAligned region

PDB 2guf chain A domain 1

3D model

Region: 24 - 614
Aligned: 548
Modelled: 562
Confidence: 100.0%
Identity: 95%
Fold: Transmembrane beta-barrels
Superfamily: Porins
Family: Ligand-gated protein channel

Phyre2

PDB 3fhh chain A

3D model

Region: 26 - 614
Aligned: 578
Modelled: 589
Confidence: 100.0%
Identity: 19%
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

Phyre2

PDB 2iah chain A

3D model

Region: 14 - 614
Aligned: 595
Modelled: 599
Confidence: 100.0%
Identity: 17%
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.

Phyre2

PDB 3qlb chain A

3D model

Region: 17 - 614
Aligned: 583
Modelled: 588
Confidence: 100.0%
Identity: 17%
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

Phyre2

PDB 1xkh chain C

3D model

Region: 14 - 614
Aligned: 595
Modelled: 599
Confidence: 100.0%
Identity: 17%
PDB header:membrane protein
Chain: C: PDB Molecule:ferripyoverdine receptor;
PDBTitle: pyoverdine outer membrane receptor fpva from pseudomonas aeruginosa2 pao1 bound to pyoverdine

Phyre2

PDB 1kmo chain A

3D model

Region: 27 - 614
Aligned: 588
Modelled: 588
Confidence: 100.0%
Identity: 17%
Fold: Transmembrane beta-barrels
Superfamily: Porins
Family: Ligand-gated protein channel

Phyre2

PDB 1by5 chain A

3D model

Region: 17 - 614
Aligned: 585
Modelled: 593
Confidence: 100.0%
Identity: 17%
Fold: Transmembrane beta-barrels
Superfamily: Porins
Family: Ligand-gated protein channel

Phyre2

PDB 2grx chain B

3D model

Region: 25 - 614
Aligned: 577
Modelled: 577
Confidence: 100.0%
Identity: 17%
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

Phyre2

PDB 1xkw chain A

3D model

Region: 19 - 614
Aligned: 579
Modelled: 589
Confidence: 100.0%
Identity: 15%
PDB header:membrane protein
Chain: A: PDB Molecule:fe(iii)-pyochelin receptor;
PDBTitle: pyochelin outer membrane receptor fpta from pseudomonas2 aeruginosa

Phyre2

PDB 2hdi chain A

3D model

Region: 26 - 614
Aligned: 568
Modelled: 574
Confidence: 100.0%
Identity: 19%
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.

Phyre2

PDB 1po3 chain A

3D model

Region: 37 - 614
Aligned: 578
Modelled: 578
Confidence: 100.0%
Identity: 19%
PDB header:membrane protein
Chain: A: PDB Molecule:iron(iii) dicitrate transport protein feca
PDBTitle: crystal structure of ferric citrate transporter feca in2 complex with ferric citrate

Phyre2

PDB 1fep chain A

3D model

Region: 26 - 614
Aligned: 585
Modelled: 583
Confidence: 100.0%
Identity: 21%
Fold: Transmembrane beta-barrels
Superfamily: Porins
Family: Ligand-gated protein channel

Phyre2

PDB 3efm chain A

3D model

Region: 14 - 599
Aligned: 558
Modelled: 585
Confidence: 100.0%
Identity: 13%
PDB header:membrane protein
Chain: A: PDB Molecule:ferric alcaligin siderophore receptor;
PDBTitle: structure of the alcaligin outer membrane recepteur faua from2 bordetella pertussis

Phyre2

PDB 3csl chain B

3D model

Region: 37 - 614
Aligned: 577
Modelled: 578
Confidence: 100.0%
Identity: 18%
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

Phyre2

PDB 1t16 chain A

3D model

Region: 333 - 614
Aligned: 253
Modelled: 256
Confidence: 99.0%
Identity: 10%
Fold: Transmembrane beta-barrels
Superfamily: Porins
Family: Outer membrane protein transport protein

Phyre2

PDB 3dwo chain X

3D model

Region: 482 - 614
Aligned: 130
Modelled: 130
Confidence: 96.6%
Identity: 17%
PDB header:membrane protein
Chain: X: PDB Molecule:probable outer membrane protein;
PDBTitle: crystal structure of a pseudomonas aeruginosa fadl homologue

Phyre2

PDB 2k0l chain A

3D model

Region: 475 - 614
Aligned: 140
Modelled: 140
Confidence: 93.7%
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 3qra chain A

3D model

Region: 477 - 614
Aligned: 129
Modelled: 138
Confidence: 91.9%
Identity: 8%
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 1g90 chain A

3D model

Region: 476 - 614
Aligned: 138
Modelled: 139
Confidence: 91.6%
Identity: 13%
Fold: Transmembrane beta-barrels
Superfamily: OMPA-like
Family: Outer membrane protein

Phyre2

PDB 3brz chain A

3D model

Region: 430 - 614
Aligned: 174
Modelled: 185
Confidence: 86.1%
Identity: 7%
PDB header:transport protein
Chain: A: PDB Molecule:todx;
PDBTitle: crystal structure of the pseudomonas putida toluene2 transporter todx

Phyre2
1

d2gufa1
2

c3fhhA_
3

c2iahA_
4

c3qlbA_
5

c1xkhC_
6

d1kmoa_
7

d1by5a_
8

c2grxB_
9

c1xkwA_
10

c2hdiA_
11

c1po3A_
12

d1fepa_
13

c3efmA_
14

c3cslB_
15

d1t16a_
16

c3dwoX_
17

c2k0lA_
18

c3qraA_
19

d1g90a_
20

c3brzA_
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






Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1d2gufa1



100.0 95 Fold:Transmembrane beta-barrels
Superfamily:Porins
Family:Ligand-gated protein channel
2c3fhhA_



100.0 19 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
3c2iahA_



100.0 17 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.
4c3qlbA_



100.0 17 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
5c1xkhC_



100.0 17 PDB header:membrane protein
Chain: C: PDB Molecule:ferripyoverdine receptor;
PDBTitle: pyoverdine outer membrane receptor fpva from pseudomonas aeruginosa2 pao1 bound to pyoverdine
6d1kmoa_



100.0 17 Fold:Transmembrane beta-barrels
Superfamily:Porins
Family:Ligand-gated protein channel
7d1by5a_



100.0 17 Fold:Transmembrane beta-barrels
Superfamily:Porins
Family:Ligand-gated protein channel
8c2grxB_



100.0 17 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
9c1xkwA_



100.0 15 PDB header:membrane protein
Chain: A: PDB Molecule:fe(iii)-pyochelin receptor;
PDBTitle: pyochelin outer membrane receptor fpta from pseudomonas2 aeruginosa
10c2hdiA_



100.0 19 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.
11c1po3A_



100.0 19 PDB header:membrane protein
Chain: A: PDB Molecule:iron(iii) dicitrate transport protein feca
PDBTitle: crystal structure of ferric citrate transporter feca in2 complex with ferric citrate
12d1fepa_



100.0 21 Fold:Transmembrane beta-barrels
Superfamily:Porins
Family:Ligand-gated protein channel
13c3efmA_



100.0 13 PDB header:membrane protein
Chain: A: PDB Molecule:ferric alcaligin siderophore receptor;
PDBTitle: structure of the alcaligin outer membrane recepteur faua from2 bordetella pertussis
14c3cslB_



100.0 18 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
15d1t16a_



99.0 10 Fold:Transmembrane beta-barrels
Superfamily:Porins
Family:Outer membrane protein transport protein
16c3dwoX_



96.6 17 PDB header:membrane protein
Chain: X: PDB Molecule:probable outer membrane protein;
PDBTitle: crystal structure of a pseudomonas aeruginosa fadl homologue
17c2k0lA_



93.7 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.
18c3qraA_



91.9 8 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
19d1g90a_



91.6 13 Fold:Transmembrane beta-barrels
Superfamily:OMPA-like
Family:Outer membrane protein
20c3brzA_



86.1 7 PDB header:transport protein
Chain: A: PDB Molecule:todx;
PDBTitle: crystal structure of the pseudomonas putida toluene2 transporter todx
21d1i78a_



not modelled 78.5 22 Fold:Transmembrane beta-barrels
Superfamily:OMPT-like
Family:Outer membrane protease OMPT
22c3bryB_



not modelled 77.6 12 PDB header:transport protein
Chain: B: PDB Molecule:tbux;
PDBTitle: crystal structure of the ralstonia pickettii toluene2 transporter tbux
23c2x4mD_



not modelled 74.7 14 PDB header:hydrolase
Chain: D: PDB Molecule:coagulase/fibrinolysin;
PDBTitle: yersinia pestis plasminogen activator pla
24c2lhfA_



not modelled 72.9 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
25c2iwvD_



not modelled 69.1 12 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
26d1phoa_



not modelled 68.9 11 Fold:Transmembrane beta-barrels
Superfamily:Porins
Family:Porin
27d2fgqx1



not modelled 68.7 10 Fold:Transmembrane beta-barrels
Superfamily:Porins
Family:Porin
28d1osma_



not modelled 68.0 11 Fold:Transmembrane beta-barrels
Superfamily:Porins
Family:Porin
29c2x27X_



not modelled 65.7 16 PDB header:membrane protein
Chain: X: PDB Molecule:outer membrane protein oprg;
PDBTitle: crystal structure of the outer membrane protein oprg from2 pseudomonas aeruginosa
30d1qjpa_



not modelled 60.5 20 Fold:Transmembrane beta-barrels
Superfamily:OMPA-like
Family:Outer membrane protein
31d1qj8a_



not modelled 59.4 8 Fold:Transmembrane beta-barrels
Superfamily:OMPA-like
Family:Outer membrane protein
32c2f1tB_



not modelled 58.3 9 PDB header:membrane protein
Chain: B: PDB Molecule:outer membrane protein w;
PDBTitle: outer membrane protein ompw
33c3a2rX_



not modelled 55.6 11 PDB header:membrane protein
Chain: X: PDB Molecule:outer membrane protein ii;
PDBTitle: crystal structure of outer membrane protein porb from neisseria2 meningitidis
34c2wjqA_



not modelled 54.3 11 PDB header:transport protein
Chain: A: PDB Molecule:probable n-acetylneuraminic acid outer membrane channel
PDBTitle: nanc porin structure in hexagonal crystal form.
35d1p4ta_



not modelled 41.6 13 Fold:Transmembrane beta-barrels
Superfamily:OMPA-like
Family:Outer membrane protein
36c1wx4B_



not modelled 27.1 27 PDB header:oxidoreductase/metal transport
Chain: B: PDB Molecule:melc;
PDBTitle: crystal structure of the oxy-form of the copper-bound streptomyces2 castaneoglobisporus tyrosinase complexed with a caddie protein3 prepared by the addition of dithiothreitol
37c3nb3C_



not modelled 24.6 15 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
38c3nsgA_



not modelled 23.2 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
39c3sljA_



not modelled 21.4 6 PDB header:protein transport
Chain: A: PDB Molecule:serine protease espp;
PDBTitle: pre-cleavage structure of the autotransporter espp - n1023a mutant
40d1w0na_



not modelled 18.4 18 Fold:Galactose-binding domain-like
Superfamily:Galactose-binding domain-like
Family:Family 36 carbohydrate binding module, CBM36
41c2jmmA_



not modelled 18.2 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
42d3prna_



not modelled 15.4 13 Fold:Transmembrane beta-barrels
Superfamily:Porins
Family:Porin
43d2a1ja1



not modelled 14.5 50 Fold:SAM domain-like
Superfamily:RuvA domain 2-like
Family:Hef domain-like
44d2zfga1



not modelled 10.9 13 Fold:Transmembrane beta-barrels
Superfamily:Porins
Family:Porin
45c1oy8A_



not modelled 9.4 27 PDB header:membrane protein
Chain: A: PDB Molecule:acriflavine resistance protein b;
PDBTitle: structural basis of multiple drug binding capacity of the acrb2 multidrug efflux pump
46d2jnaa1



not modelled 6.6 26 Fold:Dodecin subunit-like
Superfamily:YdgH-like
Family:YdgH-like
47d2i4sa1



not modelled 6.0 11 Fold:PDZ domain-like
Superfamily:PDZ domain-like
Family:EpsC C-terminal domain-like
48c3k07A_



not modelled 5.6 22 PDB header:transport protein
Chain: A: PDB Molecule:cation efflux system protein cusa;
PDBTitle: crystal structure of cusa

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