Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP0AFA9
DateThu Jan 5 11:25:47 GMT 2012
Unique Job ID04a1f556539860a8

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template c3fh6F_
Top template information
PDB header:transport protein
Chain: F: PDB Molecule:maltose transport system permease protein malf;
PDBTitle: crystal structure of the resting state maltose transporter from e.2 coli
Confidence and coverage
Confidence: 99.9% Coverage: 97%
268 residues ( 97% of your sequence) have been modelled with 99.9% 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  MNFFLSSRWSVRLALIIIALLALIALTSQWWLPYDPQAIDLPSRLLSPDAQHWLGTDHLG
Secondary structure 
























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Disorder  ??

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   .........70.........80.........90.........100.........110.........120
Sequence  RDIFSRLMAATRVSLGSVMACLLLVLTLGLVIGGSAGLIGGRVDQATMRVADMFMTFPTS
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   .........130.........140.........150.........160.........170.........180
Sequence  ILSFFMVGVLGTGLTNVIIAIALSHWAWYARMVRSLVISLRQREFVLASRLSGAGHVRVF
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   .........190.........200.........210.........220.........230.........240
Sequence  VDHLAGAVIPSLLVLATLDIGHMMLHVAGMSFLGLGVTAPTAEWGVMINDARQYIWTQPL
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   .........250.........260.........270.......
Sequence  QMFWPGLALFISVMAFNLVGDALRDHLDPHLVTEHAH
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 3fh6 chain F

3D model

Region: 1 - 275
Aligned: 268
Modelled: 275
Confidence: 99.9%
Identity: 13%
PDB header:transport protein
Chain: F: PDB Molecule:maltose transport system permease protein malf;
PDBTitle: crystal structure of the resting state maltose transporter from e.2 coli

Phyre2

PDB 2onk chain C domain 1

3D model

Region: 8 - 263
Aligned: 235
Modelled: 241
Confidence: 99.9%
Identity: 11%
Fold: MetI-like
Superfamily: MetI-like
Family: MetI-like

Phyre2

PDB 2onk chain C

3D model

Region: 8 - 263
Aligned: 235
Modelled: 241
Confidence: 99.9%
Identity: 11%
PDB header:membrane protein
Chain: C: PDB Molecule:molybdate/tungstate abc transporter, permease
PDBTitle: abc transporter modbc in complex with its binding protein2 moda

Phyre2

PDB 3d31 chain D

3D model

Region: 9 - 259
Aligned: 228
Modelled: 234
Confidence: 99.9%
Identity: 14%
PDB header:transport protein
Chain: D: PDB Molecule:sulfate/molybdate abc transporter, permease
PDBTitle: modbc from methanosarcina acetivorans

Phyre2

PDB 3d31 chain C domain 1

3D model

Region: 9 - 259
Aligned: 228
Modelled: 234
Confidence: 99.9%
Identity: 14%
Fold: MetI-like
Superfamily: MetI-like
Family: MetI-like

Phyre2

PDB 2r6g chain F domain 2

3D model

Region: 58 - 258
Aligned: 201
Modelled: 201
Confidence: 99.9%
Identity: 15%
Fold: MetI-like
Superfamily: MetI-like
Family: MetI-like

Phyre2

PDB 3dhw chain A domain 1

3D model

Region: 67 - 261
Aligned: 188
Modelled: 195
Confidence: 99.9%
Identity: 18%
Fold: MetI-like
Superfamily: MetI-like
Family: MetI-like

Phyre2

PDB 2r6g chain G domain 1

3D model

Region: 5 - 261
Aligned: 255
Modelled: 257
Confidence: 99.9%
Identity: 11%
Fold: MetI-like
Superfamily: MetI-like
Family: MetI-like

Phyre2

PDB 2r6g chain F

3D model

Region: 40 - 259
Aligned: 220
Modelled: 220
Confidence: 99.9%
Identity: 16%
PDB header:hydrolase/transport protein
Chain: F: PDB Molecule:maltose transport system permease protein malf;
PDBTitle: the crystal structure of the e. coli maltose transporter

Phyre2

PDB 2jwa chain A

3D model

Region: 72 - 105
Aligned: 34
Modelled: 34
Confidence: 29.6%
Identity: 26%
PDB header:transferase
Chain: A: PDB Molecule:receptor tyrosine-protein kinase erbb-2;
PDBTitle: erbb2 transmembrane segment dimer spatial structure

Phyre2

PDB 1ntc chain A

3D model

Region: 151 - 183
Aligned: 33
Modelled: 33
Confidence: 17.8%
Identity: 21%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: Homeodomain-like
Family: FIS-like

Phyre2

PDB 1umq chain A

3D model

Region: 151 - 183
Aligned: 33
Modelled: 33
Confidence: 15.2%
Identity: 6%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: Homeodomain-like
Family: FIS-like

Phyre2

PDB 1umq chain A

3D model

Region: 151 - 183
Aligned: 33
Modelled: 33
Confidence: 15.2%
Identity: 6%
PDB header:dna-binding protein
Chain: A: PDB Molecule:photosynthetic apparatus regulatory protein;
PDBTitle: solution structure and dna binding of the effector domain2 from the global regulator prra(rega) from r. sphaeroides:3 insights into dna binding specificity

Phyre2

PDB 1fip chain A

3D model

Region: 151 - 183
Aligned: 33
Modelled: 33
Confidence: 9.5%
Identity: 9%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: Homeodomain-like
Family: FIS-like

Phyre2

PDB 2kb1 chain A

3D model

Region: 243 - 277
Aligned: 35
Modelled: 35
Confidence: 9.5%
Identity: 17%
PDB header:membrane protein
Chain: A: PDB Molecule:wsk3;
PDBTitle: nmr studies of a channel protein without membrane:2 structure and dynamics of water-solubilized kcsa

Phyre2

PDB 1eto chain B

3D model

Region: 151 - 183
Aligned: 33
Modelled: 33
Confidence: 8.3%
Identity: 9%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: Homeodomain-like
Family: FIS-like

Phyre2

PDB 2b9s chain B

3D model

Region: 259 - 271
Aligned: 13
Modelled: 13
Confidence: 7.9%
Identity: 23%
PDB header:isomerase/dna
Chain: B: PDB Molecule:dna topoisomerase i-like protein;
PDBTitle: crystal structure of heterodimeric l. donovani2 topoisomerase i-vanadate-dna complex

Phyre2

PDB 1wz4 chain A

3D model

Region: 267 - 272
Aligned: 6
Modelled: 6
Confidence: 7.0%
Identity: 50%
PDB header:gene regulation
Chain: A: PDB Molecule:major surface antigen;
PDBTitle: solution conformation of adr subtype hbv pre-s2 epitope

Phyre2

PDB 1etx chain A

3D model

Region: 151 - 183
Aligned: 33
Modelled: 33
Confidence: 7.0%
Identity: 9%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: Homeodomain-like
Family: FIS-like

Phyre2
1

c3fh6F_
2

d2onkc1
3

c2onkC_
4

c3d31D_
5

d3d31c1
6

d2r6gf2
7

d3dhwa1
8

d2r6gg1
9

c2r6gF_
10

c2jwaA_
11

d1ntca_
12

d1umqa_
13

c1umqA_
14

d1fipa_
15

c2kb1A_
16

d1etob_
17

c2b9sB_
18

c1wz4A_
19

d1etxa_



Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c3fh6F_



99.9 13 PDB header:transport protein
Chain: F: PDB Molecule:maltose transport system permease protein malf;
PDBTitle: crystal structure of the resting state maltose transporter from e.2 coli
2d2onkc1



99.9 11 Fold:MetI-like
Superfamily:MetI-like
Family:MetI-like
3c2onkC_



99.9 11 PDB header:membrane protein
Chain: C: PDB Molecule:molybdate/tungstate abc transporter, permease
PDBTitle: abc transporter modbc in complex with its binding protein2 moda
4c3d31D_



99.9 14 PDB header:transport protein
Chain: D: PDB Molecule:sulfate/molybdate abc transporter, permease
PDBTitle: modbc from methanosarcina acetivorans
5d3d31c1



99.9 14 Fold:MetI-like
Superfamily:MetI-like
Family:MetI-like
6d2r6gf2



99.9 15 Fold:MetI-like
Superfamily:MetI-like
Family:MetI-like
7d3dhwa1



99.9 18 Fold:MetI-like
Superfamily:MetI-like
Family:MetI-like
8d2r6gg1



99.9 11 Fold:MetI-like
Superfamily:MetI-like
Family:MetI-like
9c2r6gF_



99.9 16 PDB header:hydrolase/transport protein
Chain: F: PDB Molecule:maltose transport system permease protein malf;
PDBTitle: the crystal structure of the e. coli maltose transporter
10c2jwaA_



29.6 26 PDB header:transferase
Chain: A: PDB Molecule:receptor tyrosine-protein kinase erbb-2;
PDBTitle: erbb2 transmembrane segment dimer spatial structure
11d1ntca_



17.8 21 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:FIS-like
12d1umqa_



15.2 6 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:FIS-like
13c1umqA_



15.2 6 PDB header:dna-binding protein
Chain: A: PDB Molecule:photosynthetic apparatus regulatory protein;
PDBTitle: solution structure and dna binding of the effector domain2 from the global regulator prra(rega) from r. sphaeroides:3 insights into dna binding specificity
14d1fipa_



9.5 9 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:FIS-like
15c2kb1A_



9.5 17 PDB header:membrane protein
Chain: A: PDB Molecule:wsk3;
PDBTitle: nmr studies of a channel protein without membrane:2 structure and dynamics of water-solubilized kcsa
16d1etob_



8.3 9 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:FIS-like
17c2b9sB_



7.9 23 PDB header:isomerase/dna
Chain: B: PDB Molecule:dna topoisomerase i-like protein;
PDBTitle: crystal structure of heterodimeric l. donovani2 topoisomerase i-vanadate-dna complex
18c1wz4A_



7.0 50 PDB header:gene regulation
Chain: A: PDB Molecule:major surface antigen;
PDBTitle: solution conformation of adr subtype hbv pre-s2 epitope
19d1etxa_



7.0 9 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:FIS-like

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