Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP39276
DateThu Jan 5 11:58:45 GMT 2012
Unique Job ID4b96d7f1abb954c0

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template c2xutC_
Top template information
PDB header:transport protein
Chain: C: PDB Molecule:proton/peptide symporter family protein;
PDBTitle: crystal structure of a proton dependent oligopeptide (pot)2 family transporter.
Confidence and coverage
Confidence:100.0% Coverage: 92%
445 residues ( 92% 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  MKTPSQPRAIYYIVAIQIWEYFSFYGMRALLILYLTHQLGFDDNHAISLFSAYASLVYVT
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Disorder  ??????





















































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   .........70.........80.........90.........100.........110.........120
Sequence  PILGGWLADRLLGNRTAVIAGALLMTLGHVVLGIDTNSTFSLYLALAIIICGYGLFKSNI
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??




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   .........130.........140.........150.........160.........170.........180
Sequence  SCLLGELYDENDHRRDGGFSLLYAAGNIGSIAAPIACGLAAQWYGWHVGFALAGGGMFIG
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?
???
















































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   .........190.........200.........210.........220.........230.........240
Sequence  LLIFLSGHRHFQSTRSMDKKALTSVKFALPVWSWLVVMLCLAPVFFTLLLENDWSGYLLA
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??
???
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?





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   .........250.........260.........270.........280.........290.........300
Sequence  IVCLIAAQIIARMMIKFPEHRRALWQIVLLMFVGTLFWVLAQQGGSTISLFIDRFVNRQA
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?


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   .........310.........320.........330.........340.........350.........360
Sequence  FNIEVPTALFQSVNAIAVMLAGVVLAWLASPESRGNSTLRVWLKFAFGLLLMACGFMLLA
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   .........370.........380.........390.........400.........410.........420
Sequence  FDARHAAADGQASMGVMISGLALMGFAELFIDPVAIAQITRLKMSGVLTGIYMLATGAVA
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??
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   .........430.........440.........450.........460.........470.........480
Sequence  NWLAGVVAQQTTESQISGMAIAAYQRFFSQMGEWTLACVAIIVVLAFATRFLFSTPTNMI
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??????????



































???????
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   .....
Sequence  QESND
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

RankAligned region

PDB 2xut chain C

3D model

Region: 9 - 465
Aligned: 445
Modelled: 457
Confidence: 100.0%
Identity: 20%
PDB header:transport protein
Chain: C: PDB Molecule:proton/peptide symporter family protein;
PDBTitle: crystal structure of a proton dependent oligopeptide (pot)2 family transporter.

Phyre2

PDB 1pw4 chain A

3D model

Region: 2 - 480
Aligned: 411
Modelled: 430
Confidence: 100.0%
Identity: 14%
Fold: MFS general substrate transporter
Superfamily: MFS general substrate transporter
Family: Glycerol-3-phosphate transporter

Phyre2

PDB 1pv7 chain A

3D model

Region: 8 - 483
Aligned: 411
Modelled: 420
Confidence: 100.0%
Identity: 12%
Fold: MFS general substrate transporter
Superfamily: MFS general substrate transporter
Family: LacY-like proton/sugar symporter

Phyre2

PDB 3o7p chain A

3D model

Region: 11 - 469
Aligned: 406
Modelled: 416
Confidence: 100.0%
Identity: 15%
PDB header:transport protein
Chain: A: PDB Molecule:l-fucose-proton symporter;
PDBTitle: crystal structure of the e.coli fucose:proton symporter, fucp (n162a)

Phyre2

PDB 2gfp chain A

3D model

Region: 10 - 460
Aligned: 367
Modelled: 381
Confidence: 100.0%
Identity: 14%
PDB header:membrane protein
Chain: A: PDB Molecule:multidrug resistance protein d;
PDBTitle: structure of the multidrug transporter emrd from2 escherichia coli

Phyre2

PDB 3qnq chain D

3D model

Region: 432 - 485
Aligned: 54
Modelled: 54
Confidence: 68.7%
Identity: 2%
PDB header:membrane protein, transport protein
Chain: D: PDB Molecule:pts system, cellobiose-specific iic component;
PDBTitle: crystal structure of the transporter chbc, the iic component from the2 n,n'-diacetylchitobiose-specific phosphotransferase system

Phyre2

PDB 3b9y chain A

3D model

Region: 2 - 239
Aligned: 226
Modelled: 238
Confidence: 10.3%
Identity: 7%
PDB header:transport protein
Chain: A: PDB Molecule:ammonium transporter family rh-like protein;
PDBTitle: crystal structure of the nitrosomonas europaea rh protein

Phyre2

PDB 3pro chain C domain 1

3D model

Region: 29 - 73
Aligned: 45
Modelled: 45
Confidence: 8.0%
Identity: 9%
Fold: Alpha-lytic protease prodomain-like
Superfamily: Alpha-lytic protease prodomain
Family: Alpha-lytic protease prodomain

Phyre2

PDB 2oar chain A domain 1

3D model

Region: 407 - 485
Aligned: 79
Modelled: 79
Confidence: 6.1%
Identity: 13%
Fold: Gated mechanosensitive channel
Superfamily: Gated mechanosensitive channel
Family: Gated mechanosensitive channel

Phyre2
1

c2xutC_
2

d1pw4a_
3

d1pv7a_
4

c3o7pA_
5

c2gfpA_
6

c3qnqD_
7

c3b9yA_
8

d3proc1
9

d2oara1



Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c2xutC_



100.0 20 PDB header:transport protein
Chain: C: PDB Molecule:proton/peptide symporter family protein;
PDBTitle: crystal structure of a proton dependent oligopeptide (pot)2 family transporter.
2d1pw4a_



100.0 14 Fold:MFS general substrate transporter
Superfamily:MFS general substrate transporter
Family:Glycerol-3-phosphate transporter
3d1pv7a_



100.0 12 Fold:MFS general substrate transporter
Superfamily:MFS general substrate transporter
Family:LacY-like proton/sugar symporter
4c3o7pA_



100.0 15 PDB header:transport protein
Chain: A: PDB Molecule:l-fucose-proton symporter;
PDBTitle: crystal structure of the e.coli fucose:proton symporter, fucp (n162a)
5c2gfpA_



100.0 14 PDB header:membrane protein
Chain: A: PDB Molecule:multidrug resistance protein d;
PDBTitle: structure of the multidrug transporter emrd from2 escherichia coli
6c3qnqD_



68.7 2 PDB header:membrane protein, transport protein
Chain: D: PDB Molecule:pts system, cellobiose-specific iic component;
PDBTitle: crystal structure of the transporter chbc, the iic component from the2 n,n'-diacetylchitobiose-specific phosphotransferase system
7c3b9yA_



10.3 7 PDB header:transport protein
Chain: A: PDB Molecule:ammonium transporter family rh-like protein;
PDBTitle: crystal structure of the nitrosomonas europaea rh protein
8d3proc1



8.0 9 Fold:Alpha-lytic protease prodomain-like
Superfamily:Alpha-lytic protease prodomain
Family:Alpha-lytic protease prodomain
9d2oara1



6.1 13 Fold:Gated mechanosensitive channel
Superfamily:Gated mechanosensitive channel
Family:Gated mechanosensitive channel

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