Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP76230
DateThu Jan 5 12:20:56 GMT 2012
Unique Job ID79c44b016a11e66c

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template d1pw4a_
Top template information
Fold:MFS general substrate transporter
Superfamily:MFS general substrate transporter
Family:Glycerol-3-phosphate transporter
Confidence and coverage
Confidence:100.0% Coverage: 92%
422 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  MEQITKPHCGARLDRLPDCRWHSSMFAIVAFGLLVCWSNAVGGLILAQLKALGWTDNSTT
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?
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   .........70.........80.........90.........100.........110.........120
Sequence  ATFSAITTAGMFLGALVGGIIGDKTGRRNAFILYEAIHIASMVVGAFSPNMDFLIACRFV
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   .........130.........140.........150.........160.........170.........180
Sequence  MGVGLGALLVTLFAGFTEYMPGRNRGTWSSRVSFIGNWSYPLCSLIAMGLTPLISAEWNW
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   .........190.........200.........210.........220.........230.........240
Sequence  RVQLLIPAILSLIATALAWRYFPESPRWLESRGRYQEAEKVMRSIEEGVIRQTGKPLPPV
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?????????????
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   .........250.........260.........270.........280.........290.........300
Sequence  VIADDGKAPQAVPYSALLTGVLLKRVILGSCVLIAMNVVQYTLINWLPTIFMTQGINLKD
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   .........310.........320.........330.........340.........350.........360
Sequence  SIVLNTMSMFGAPFGIFIAMLVMDKIPRKTMGVGLLILIAVLGYIYSLQTSMLLITLIGF
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   .........370.........380.........390.........400.........410.........420
Sequence  FLITFVYMYVCYASAVYVPEIWPTEAKLRGSGLANAVGRISGIAAPYAVAVLLSSYGVTG
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   .........430.........440.........450.........
Sequence  VFILLGAVSIIVAIAIATIGIETKGVSVESLSIDAVANK
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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 1pw4 chain A

3D model

Region: 4 - 453
Aligned: 422
Modelled: 422
Confidence: 100.0%
Identity: 13%
Fold: MFS general substrate transporter
Superfamily: MFS general substrate transporter
Family: Glycerol-3-phosphate transporter

Phyre2

PDB 1pv7 chain A

3D model

Region: 21 - 457
Aligned: 411
Modelled: 411
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: 26 - 443
Aligned: 404
Modelled: 406
Confidence: 100.0%
Identity: 11%
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: 25 - 432
Aligned: 368
Modelled: 373
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 2xut chain C

3D model

Region: 27 - 439
Aligned: 412
Modelled: 413
Confidence: 100.0%
Identity: 12%
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 3qnq chain D

3D model

Region: 406 - 458
Aligned: 53
Modelled: 53
Confidence: 43.6%
Identity: 15%
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 1mv4 chain B

3D model

Region: 445 - 459
Aligned: 15
Modelled: 15
Confidence: 25.6%
Identity: 33%
PDB header:de novo protein
Chain: B: PDB Molecule:tropomyosin 1 alpha chain;
PDBTitle: tm9a251-284: a peptide model of the c-terminus of a rat2 striated alpha tropomyosin

Phyre2

PDB 2g9p chain A

3D model

Region: 77 - 90
Aligned: 14
Modelled: 14
Confidence: 13.6%
Identity: 29%
PDB header:antimicrobial protein
Chain: A: PDB Molecule:antimicrobial peptide latarcin 2a;
PDBTitle: nmr structure of a novel antimicrobial peptide, latarcin 2a,2 from spider (lachesana tarabaevi) venom

Phyre2

PDB 1cwp chain A

3D model

Region: 439 - 456
Aligned: 18
Modelled: 18
Confidence: 12.7%
Identity: 33%
Fold: Nucleoplasmin-like/VP (viral coat and capsid proteins)
Superfamily: Positive stranded ssRNA viruses
Family: Bromoviridae-like VP

Phyre2

PDB 1cwp chain B

3D model

Region: 439 - 456
Aligned: 18
Modelled: 18
Confidence: 11.3%
Identity: 33%
PDB header:virus/rna
Chain: B: PDB Molecule:coat protein;
PDBTitle: structures of the native and swollen forms of cowpea2 chlorotic mottle virus determined by x-ray crystallography3 and cryo-electron microscopy

Phyre2

PDB 1yew chain C

3D model

Region: 418 - 456
Aligned: 39
Modelled: 39
Confidence: 8.3%
Identity: 10%
PDB header:oxidoreductase, membrane protein
Chain: C: PDB Molecule:particulate methane monooxygenase subunit c2;
PDBTitle: crystal structure of particulate methane monooxygenase

Phyre2

PDB 2qfa chain C

3D model

Region: 448 - 457
Aligned: 10
Modelled: 10
Confidence: 8.0%
Identity: 20%
PDB header:cell cycle/cell cycle/cell cycle
Chain: C: PDB Molecule:inner centromere protein;
PDBTitle: crystal structure of a survivin-borealin-incenp core complex

Phyre2

PDB 1by0 chain A

3D model

Region: 445 - 455
Aligned: 11
Modelled: 11
Confidence: 7.9%
Identity: 27%
PDB header:rna binding protein
Chain: A: PDB Molecule:protein (hepatitis delta antigen);
PDBTitle: n-terminal leucine-repeat region of hepatitis delta antigen

Phyre2

PDB 1ofc chain X domain 1

3D model

Region: 442 - 453
Aligned: 12
Modelled: 12
Confidence: 7.6%
Identity: 17%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: Homeodomain-like
Family: Myb/SANT domain

Phyre2

PDB 3mmy chain F

3D model

Region: 439 - 454
Aligned: 16
Modelled: 16
Confidence: 6.6%
Identity: 25%
PDB header:nuclear protein
Chain: F: PDB Molecule:nuclear pore complex protein nup98;
PDBTitle: structural and functional analysis of the interaction between the2 nucleoporin nup98 and the mrna export factor rae1

Phyre2

PDB 3chx chain G

3D model

Region: 427 - 456
Aligned: 30
Modelled: 30
Confidence: 6.0%
Identity: 13%
PDB header:membrane protein
Chain: G: PDB Molecule:pmoc;
PDBTitle: crystal structure of methylosinus trichosporium ob3b2 particulate methane monooxygenase (pmmo)

Phyre2

PDB 1ymg chain A

3D model

Region: 401 - 450
Aligned: 47
Modelled: 50
Confidence: 5.3%
Identity: 11%
PDB header:membrane protein
Chain: A: PDB Molecule:lens fiber major intrinsic protein;
PDBTitle: the channel architecture of aquaporin o at 2.2 angstrom resolution

Phyre2

PDB 1ymg chain A domain 1

3D model

Region: 401 - 450
Aligned: 47
Modelled: 50
Confidence: 5.3%
Identity: 11%
Fold: Aquaporin-like
Superfamily: Aquaporin-like
Family: Aquaporin-like

Phyre2
1

d1pw4a_
2

d1pv7a_
3

c3o7pA_
4

c2gfpA_
5

c2xutC_
6

c3qnqD_
7

c1mv4B_
8

c2g9pA_
9

d1cwpa_
10

c1cwpB_
11

c1yewC_
12

c2qfaC_
13

c1by0A_
14

d1ofcx1
15

c3mmyF_
16

c3chxG_
17

c1ymgA_
18

d1ymga1



Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1d1pw4a_



100.0 13 Fold:MFS general substrate transporter
Superfamily:MFS general substrate transporter
Family:Glycerol-3-phosphate transporter
2d1pv7a_



100.0 12 Fold:MFS general substrate transporter
Superfamily:MFS general substrate transporter
Family:LacY-like proton/sugar symporter
3c3o7pA_



100.0 11 PDB header:transport protein
Chain: A: PDB Molecule:l-fucose-proton symporter;
PDBTitle: crystal structure of the e.coli fucose:proton symporter, fucp (n162a)
4c2gfpA_



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
5c2xutC_



100.0 12 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.
6c3qnqD_



43.6 15 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
7c1mv4B_



25.6 33 PDB header:de novo protein
Chain: B: PDB Molecule:tropomyosin 1 alpha chain;
PDBTitle: tm9a251-284: a peptide model of the c-terminus of a rat2 striated alpha tropomyosin
8c2g9pA_



13.6 29 PDB header:antimicrobial protein
Chain: A: PDB Molecule:antimicrobial peptide latarcin 2a;
PDBTitle: nmr structure of a novel antimicrobial peptide, latarcin 2a,2 from spider (lachesana tarabaevi) venom
9d1cwpa_



12.7 33 Fold:Nucleoplasmin-like/VP (viral coat and capsid proteins)
Superfamily:Positive stranded ssRNA viruses
Family:Bromoviridae-like VP
10c1cwpB_



11.3 33 PDB header:virus/rna
Chain: B: PDB Molecule:coat protein;
PDBTitle: structures of the native and swollen forms of cowpea2 chlorotic mottle virus determined by x-ray crystallography3 and cryo-electron microscopy
11c1yewC_



8.3 10 PDB header:oxidoreductase, membrane protein
Chain: C: PDB Molecule:particulate methane monooxygenase subunit c2;
PDBTitle: crystal structure of particulate methane monooxygenase
12c2qfaC_



8.0 20 PDB header:cell cycle/cell cycle/cell cycle
Chain: C: PDB Molecule:inner centromere protein;
PDBTitle: crystal structure of a survivin-borealin-incenp core complex
13c1by0A_



7.9 27 PDB header:rna binding protein
Chain: A: PDB Molecule:protein (hepatitis delta antigen);
PDBTitle: n-terminal leucine-repeat region of hepatitis delta antigen
14d1ofcx1



7.6 17 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Myb/SANT domain
15c3mmyF_



6.6 25 PDB header:nuclear protein
Chain: F: PDB Molecule:nuclear pore complex protein nup98;
PDBTitle: structural and functional analysis of the interaction between the2 nucleoporin nup98 and the mrna export factor rae1
16c3chxG_



6.0 13 PDB header:membrane protein
Chain: G: PDB Molecule:pmoc;
PDBTitle: crystal structure of methylosinus trichosporium ob3b2 particulate methane monooxygenase (pmmo)
17c1ymgA_



5.3 11 PDB header:membrane protein
Chain: A: PDB Molecule:lens fiber major intrinsic protein;
PDBTitle: the channel architecture of aquaporin o at 2.2 angstrom resolution
18d1ymga1



5.3 11 Fold:Aquaporin-like
Superfamily:Aquaporin-like
Family:Aquaporin-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