Email l.a.kelley@imperial.ac.uk Description O94742 Date Mon Jul 2 19:10:25 BST 2012 Unique Job ID 340681f75216abd1

Summary

Top model

Image coloured by rainbow N → C terminus Close Jmol

Model (left) based on template c3t5vC_ Top template information PDB header:transcription Chain: C: PDB Molecule:26s proteasome complex subunit sem1; PDBTitle: sac3:thp1:sem1 complex Confidence and coverage Confidence: 99.9% Coverage: 63% 56 residues ( 63% of your sequence) have been modelled with 99.9% 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. Warning: 56% of your sequence is predicted disordered. Disordered regions cannot be meaningfully predicted. 3D viewing Interactive 3D view in Jmol

Sequence analysis

Secondary structure and disorder prediction

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

Rank Aligned region

PDB 3t5v chain C Region: 23 - 89 Aligned: 56 Modelled: 67 Confidence: 99.9% Identity: 100% PDB header:transcription Chain: C: PDB Molecule:26s proteasome complex subunit sem1; PDBTitle: sac3:thp1:sem1 complex Phyre2 PDB 1iyj chain C Region: 29 - 84 Aligned: 38 Modelled: 38 Confidence: 99.6% Identity: 66% PDB header:gene regulation/antitumor protein Chain: C: PDB Molecule:deleted in split hand/split foot protein 1; PDBTitle: structure of a brca2-dss1 complex Phyre2 PDB 2xl4 chain A Region: 58 - 87 Aligned: 30 Modelled: 30 Confidence: 53.3% Identity: 33% PDB header:immune system Chain: A: PDB Molecule:lmo0438 protein; PDBTitle: lnta, a virulence factor from listeria monocytogenes Phyre2 PDB 1sv1 chain A Region: 71 - 80 Aligned: 10 Modelled: 10 Confidence: 38.3% Identity: 50% Fold: KaiA/RbsU domain Superfamily: KaiA/RbsU domain Family: Circadian clock protein KaiA, C-terminal domain Phyre2 PDB 1dpq chain A Region: 25 - 34 Aligned: 10 Modelled: 10 Confidence: 37.3% Identity: 70% PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib subunit; PDBTitle: solution structure of the constitutively active mutant of2 the integrin alpha iib cytoplasmic domain. Phyre2 PDB 1f3u chain B Region: 32 - 43 Aligned: 12 Modelled: 12 Confidence: 35.4% Identity: 50% Fold: triple barrel Superfamily: Rap30/74 interaction domains Family: Rap30/74 interaction domains Phyre2 PDB 2kk9 chain A Region: 66 - 89 Aligned: 24 Modelled: 24 Confidence: 35.2% Identity: 21% PDB header:antimicrobial protein Chain: A: PDB Molecule:m protein, serotype 5; PDBTitle: anti-group a streptococcal vaccine epitope: structure, stability and2 its ability to interact with hla class ii molecules Phyre2 PDB 1r8j chain A domain 1 Region: 71 - 80 Aligned: 10 Modelled: 10 Confidence: 30.3% Identity: 40% Fold: KaiA/RbsU domain Superfamily: KaiA/RbsU domain Family: Circadian clock protein KaiA, C-terminal domain Phyre2 PDB 1p4u chain A Region: 24 - 45 Aligned: 22 Modelled: 22 Confidence: 22.6% Identity: 32% Fold: Immunoglobulin-like beta-sandwich Superfamily: Clathrin adaptor appendage domain Family: gamma-adaptin C-terminal appendage domain-like Phyre2 PDB 1gyv chain A Region: 24 - 43 Aligned: 20 Modelled: 20 Confidence: 18.4% Identity: 20% Fold: Immunoglobulin-like beta-sandwich Superfamily: Clathrin adaptor appendage domain Family: gamma-adaptin C-terminal appendage domain-like Phyre2 PDB 1r8j chain B Region: 71 - 80 Aligned: 10 Modelled: 10 Confidence: 18.3% Identity: 40% PDB header:circadian clock protein Chain: B: PDB Molecule:kaia; PDBTitle: crystal structure of circadian clock protein kaia from2 synechococcus elongatus Phyre2 PDB 1v2z chain A Region: 71 - 78 Aligned: 8 Modelled: 8 Confidence: 17.8% Identity: 50% Fold: KaiA/RbsU domain Superfamily: KaiA/RbsU domain Family: Circadian clock protein KaiA, C-terminal domain Phyre2 PDB 1r5q chain A Region: 71 - 78 Aligned: 8 Modelled: 8 Confidence: 17.7% Identity: 38% Fold: KaiA/RbsU domain Superfamily: KaiA/RbsU domain Family: Circadian clock protein KaiA, C-terminal domain Phyre2 PDB 2e9g chain A Region: 24 - 43 Aligned: 20 Modelled: 20 Confidence: 17.0% Identity: 25% PDB header:protein binding Chain: A: PDB Molecule:ap-1 complex subunit gamma-2; PDBTitle: solution structure of the alpha adaptinc2 domain from human2 adapter-related protein complex 1 gamma 2 subunit Phyre2 PDB 1gyw chain B Region: 24 - 43 Aligned: 20 Modelled: 20 Confidence: 16.7% Identity: 20% Fold: Immunoglobulin-like beta-sandwich Superfamily: Clathrin adaptor appendage domain Family: gamma-adaptin C-terminal appendage domain-like Phyre2 PDB 2dwy chain A domain 1 Region: 24 - 45 Aligned: 22 Modelled: 22 Confidence: 15.7% Identity: 27% Fold: Immunoglobulin-like beta-sandwich Superfamily: Clathrin adaptor appendage domain Family: gamma-adaptin C-terminal appendage domain-like Phyre2 PDB 3nmd chain A Region: 66 - 85 Aligned: 20 Modelled: 20 Confidence: 11.1% Identity: 30% PDB header:transferase Chain: A: PDB Molecule:cgmp dependent protein kinase; PDBTitle: crystal structure of the leucine zipper domain of cgmp dependent2 protein kinase i beta Phyre2 PDB 3etj chain A domain 2 Region: 28 - 45 Aligned: 18 Modelled: 18 Confidence: 10.7% Identity: 28% Fold: PreATP-grasp domain Superfamily: PreATP-grasp domain Family: BC N-terminal domain-like Phyre2 PDB 2nsf chain A domain 1 Region: 35 - 43 Aligned: 9 Modelled: 9 Confidence: 9.5% Identity: 33% Fold: DinB/YfiT-like putative metalloenzymes Superfamily: DinB/YfiT-like putative metalloenzymes Family: Maleylpyruvate isomerase-like Phyre2 PDB 1na8 chain A Region: 24 - 45 Aligned: 22 Modelled: 22 Confidence: 9.3% Identity: 27% Fold: Immunoglobulin-like beta-sandwich Superfamily: Clathrin adaptor appendage domain Family: gamma-adaptin C-terminal appendage domain-like Phyre2 1 c3t5vC_ 2 c1iyjC_ 3 c2xl4A_ 4 d1sv1a_ 5 c1dpqA_ 6 d1f3ub_ 7 c2kk9A_ 8 d1r8ja1 9 d1p4ua_ 10 d1gyva_ 11 c1r8jB_ 12 d1v2za_ 13 d1r5qa_ 14 c2e9gA_ 15 d1gywb_ 16 d2dwya1 17 c3nmdA_ 18 d3etja2 19 d2nsfa1 20 d1na8a_ 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41

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