Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP33015
DateThu Jan 5 11:50:53 GMT 2012
Unique Job IDca3dc9df8ba4fca4

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template d1jb0l_
Top template information
Fold:Photosystem I reaction center subunit XI, PsaL
Superfamily:Photosystem I reaction center subunit XI, PsaL
Family:Photosystem I reaction center subunit XI, PsaL
Confidence and coverage
Confidence: 30.8% Coverage: 22%
76 residues ( 22% of your sequence) have been modelled with 30.8% 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  MFSMILSGLICGALLGFVMQRGRFCLTGGFRDMYIVKNNRMFYALLIAISVQSVGVFALI
Secondary structure 







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Disorder  ??

























































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   .........70.........80.........90.........100.........110.........120
Sequence  QAGLLTYEAGAFPWLGTVIGGYIFGLGIVLAGGCATGTWYRAGEGLIGSWIALFTYMVMS
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Disorder 


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   .........130.........140.........150.........160.........170.........180
Sequence  AVMRSPHASGLNQTLQHYSTEHNSIAETFNLSVWPLVAVLLVITLWVVMKELKKPKLKVA
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Disorder 






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   .........190.........200.........210.........220.........230.........240
Sequence  TLPPRRTGIAHILFEKRWHPFVTAVLIGLIALLAWPLSEATGRMFGLGITSPTANILQFL
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   .........250.........260.........270.........280.........290.........300
Sequence  VAGDMKYINWGVFLVLGIFVGSFIAAKASREFRVRAADAQTTLRSGLGGVLMGFGASIAG
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   .........310.........320.........330.........340.........350..
Sequence  GCSIGNGLVMTAMMTWQGWIGLVFMILGVWTASWLVYVRPQRKARLATAAAN
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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 1jb0 chain L

3D model

Region: 5 - 85
Aligned: 76
Modelled: 81
Confidence: 30.8%
Identity: 21%
Fold: Photosystem I reaction center subunit XI, PsaL
Superfamily: Photosystem I reaction center subunit XI, PsaL
Family: Photosystem I reaction center subunit XI, PsaL

Phyre2

PDB 2wvm chain A

3D model

Region: 257 - 292
Aligned: 36
Modelled: 36
Confidence: 18.7%
Identity: 25%
PDB header:transferase
Chain: A: PDB Molecule:mannosyl-3-phosphoglycerate synthase;
PDBTitle: h309a mutant of mannosyl-3-phosphoglycerate synthase from2 thermus thermophilus hb27 in complex with3 gdp-alpha-d-mannose and mg(ii)

Phyre2

PDB 2zu8 chain A

3D model

Region: 257 - 292
Aligned: 36
Modelled: 33
Confidence: 13.0%
Identity: 22%
PDB header:transferase
Chain: A: PDB Molecule:mannosyl-3-phosphoglycerate synthase;
PDBTitle: crystal structure of mannosyl-3-phosphoglycerate synthase2 from pyrococcus horikoshii

Phyre2

PDB 2rdd chain B

3D model

Region: 318 - 343
Aligned: 26
Modelled: 26
Confidence: 10.3%
Identity: 23%
PDB header:membrane protein/transport protein
Chain: B: PDB Molecule:upf0092 membrane protein yajc;
PDBTitle: x-ray crystal structure of acrb in complex with a novel2 transmembrane helix.

Phyre2

PDB 3j00 chain Z

3D model

Region: 315 - 347
Aligned: 33
Modelled: 33
Confidence: 6.0%
Identity: 21%
PDB header:ribosome/ribosomal protein
Chain: Z: PDB Molecule:cell division protein ftsq;
PDBTitle: structure of the ribosome-secye complex in the membrane environment

Phyre2
1

d1jb0l_
2

c2wvmA_
3

c2zu8A_
4

c2rddB_
5

c3j00Z_



Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1d1jb0l_



30.8 21 Fold:Photosystem I reaction center subunit XI, PsaL
Superfamily:Photosystem I reaction center subunit XI, PsaL
Family:Photosystem I reaction center subunit XI, PsaL
2c2wvmA_



18.7 25 PDB header:transferase
Chain: A: PDB Molecule:mannosyl-3-phosphoglycerate synthase;
PDBTitle: h309a mutant of mannosyl-3-phosphoglycerate synthase from2 thermus thermophilus hb27 in complex with3 gdp-alpha-d-mannose and mg(ii)
3c2zu8A_



13.0 22 PDB header:transferase
Chain: A: PDB Molecule:mannosyl-3-phosphoglycerate synthase;
PDBTitle: crystal structure of mannosyl-3-phosphoglycerate synthase2 from pyrococcus horikoshii
4c2rddB_



10.3 23 PDB header:membrane protein/transport protein
Chain: B: PDB Molecule:upf0092 membrane protein yajc;
PDBTitle: x-ray crystal structure of acrb in complex with a novel2 transmembrane helix.
5c3j00Z_



6.0 21 PDB header:ribosome/ribosomal protein
Chain: Z: PDB Molecule:cell division protein ftsq;
PDBTitle: structure of the ribosome-secye complex in the membrane environment

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