Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP39344
DateThu Jan 5 11:59:34 GMT 2012
Unique Job ID440d01ecd4bd6caa

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template d2a65a1
Top template information
Fold:SNF-like
Superfamily:SNF-like
Family:SNF-like
Confidence and coverage
Confidence: 20.0% Coverage: 45%
199 residues ( 45% of your sequence) have been modelled with 20.0% confidence by the single highest scoring template.
You may wish to submit your sequence to Phyrealarm. This will automatically scan your sequence every week for new potential templates as they appear in the Phyre2 library.
Please note: You must be registered and logged in to use Phyrealarm.
3D viewing
Interactive 3D view in Jmol

Sequence analysis 

Secondary structure and disorder prediction 

   1........10.........20.........30.........40.........50.........60
Sequence  MPLIIIAAGVALLLILMIGFKVNGFIALVLVAAVVGFAEGMDAQAVLHSIQNGIGSTLGG
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Disorder  ??

























































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   .........70.........80.........90.........100.........110.........120
Sequence  LAMILGFGAMLGKLISDTGAAQRIATTLIATFGKKRVQWALVITGLVVGLAMFFEVGFVL
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   .........130.........140.........150.........160.........170.........180
Sequence  LLPLVFTIVASSGLPLLYVGVPMVAALSVTHCFLPPHPGPTAIATIFEANLGTTLLYGFI
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   .........190.........200.........210.........220.........230.........240
Sequence  ITIPTVIVAGPLFSKLLTRFEKAPPEGLFNPHLFSEEEMPSFWNSIFAAVIPVILMAIAA
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?
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   .........250.........260.........270.........280.........290.........300
Sequence  VCEITLPKTNTVRLFFEFVGNPAVALFIAIVIAIFTLGRRNGRTIEQIMDIIGDSIGAIA
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   .........310.........320.........330.........340.........350.........360
Sequence  MIVFIIAGGGAFKQVLVDSGVGHYISHLMTGTTLSPLLMCWTVAALLRIALGSATVAAIT
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   .........370.........380.........390.........400.........410.........420
Sequence  TAGVVLPIINVTHADPALMVLATGAGSVIASHVNDPGFWLFKGYFNLTVGETLRTWTVME
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   .........430.........
Sequence  TLISIMGLLGVLAINAVLH
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 2a65 chain A domain 1

3D model

Region: 75 - 287
Aligned: 199
Modelled: 213
Confidence: 20.0%
Identity: 9%
Fold: SNF-like
Superfamily: SNF-like
Family: SNF-like

Phyre2

PDB 1fft chain B domain 2

3D model

Region: 171 - 239
Aligned: 69
Modelled: 69
Confidence: 18.7%
Identity: 10%
Fold: Transmembrane helix hairpin
Superfamily: Cytochrome c oxidase subunit II-like, transmembrane region
Family: Cytochrome c oxidase subunit II-like, transmembrane region

Phyre2

PDB 2b2h chain A

3D model

Region: 78 - 225
Aligned: 148
Modelled: 148
Confidence: 10.0%
Identity: 11%
PDB header:transport protein
Chain: A: PDB Molecule:ammonium transporter;
PDBTitle: ammonium transporter amt-1 from a. fulgidus (as)

Phyre2

PDB 2bbj chain B

3D model

Region: 159 - 201
Aligned: 40
Modelled: 43
Confidence: 6.3%
Identity: 18%
PDB header:metal transport/membrane protein
Chain: B: PDB Molecule:divalent cation transport-related protein;
PDBTitle: crystal structure of the cora mg2+ transporter

Phyre2

PDB 2jln chain A

3D model

Region: 177 - 217
Aligned: 41
Modelled: 41
Confidence: 5.2%
Identity: 5%
PDB header:membrane protein
Chain: A: PDB Molecule:mhp1;
PDBTitle: structure of mhp1, a nucleobase-cation-symport-1 family2 transporter

Phyre2
1

d2a65a1
2

d1fftb2
3

c2b2hA_
4

c2bbjB_
5

c2jlnA_



Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1d2a65a1



20.0 9 Fold:SNF-like
Superfamily:SNF-like
Family:SNF-like
2d1fftb2



18.7 10 Fold:Transmembrane helix hairpin
Superfamily:Cytochrome c oxidase subunit II-like, transmembrane region
Family:Cytochrome c oxidase subunit II-like, transmembrane region
3c2b2hA_



10.0 11 PDB header:transport protein
Chain: A: PDB Molecule:ammonium transporter;
PDBTitle: ammonium transporter amt-1 from a. fulgidus (as)
4c2bbjB_



6.3 18 PDB header:metal transport/membrane protein
Chain: B: PDB Molecule:divalent cation transport-related protein;
PDBTitle: crystal structure of the cora mg2+ transporter
5c2jlnA_



5.2 5 PDB header:membrane protein
Chain: A: PDB Molecule:mhp1;
PDBTitle: structure of mhp1, a nucleobase-cation-symport-1 family2 transporter

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