Email l.a.kelley@imperial.ac.uk Description O43137 Date Mon Jul 2 19:10:22 BST 2012 Unique Job ID 55229c1cee4c76ea

Summary

Top model

Image coloured by rainbow N → C terminus Close Jmol

Model (left) based on template c2imuA_ Top template information PDB header:viral protein Chain: A: PDB Molecule:structural polyprotein (pp) p1; PDBTitle: nmr structure of pep46 from the infectious bursal disease2 virus (ibdv) in dodecylphosphocholin (dpc). Confidence and coverage Confidence: 12.0% Coverage: 22% 19 residues ( 22% of your sequence) have been modelled with 12.0% 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

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 2imu chain A Region: 67 - 85 Aligned: 19 Modelled: 19 Confidence: 12.0% Identity: 53% PDB header:viral protein Chain: A: PDB Molecule:structural polyprotein (pp) p1; PDBTitle: nmr structure of pep46 from the infectious bursal disease2 virus (ibdv) in dodecylphosphocholin (dpc). Phyre2 PDB 2uzq chain E Region: 32 - 65 Aligned: 23 Modelled: 34 Confidence: 10.5% Identity: 35% PDB header:hydrolase Chain: E: PDB Molecule:m-phase inducer phosphatase 2; PDBTitle: protein phosphatase, new crystal form Phyre2 PDB 1qas chain A domain 3 Region: 51 - 62 Aligned: 12 Modelled: 12 Confidence: 9.7% Identity: 42% Fold: TIM beta/alpha-barrel Superfamily: PLC-like phosphodiesterases Family: Mammalian PLC Phyre2 PDB 2zkm chain X domain 4 Region: 51 - 62 Aligned: 12 Modelled: 12 Confidence: 7.9% Identity: 33% Fold: TIM beta/alpha-barrel Superfamily: PLC-like phosphodiesterases Family: Mammalian PLC Phyre2 PDB 1w0b chain A Region: 33 - 41 Aligned: 9 Modelled: 9 Confidence: 7.8% Identity: 56% Fold: Spectrin repeat-like Superfamily: Alpha-hemoglobin stabilizing protein AHSP Family: Alpha-hemoglobin stabilizing protein AHSP Phyre2 PDB 2w0g chain A Region: 33 - 79 Aligned: 44 Modelled: 47 Confidence: 6.5% Identity: 23% PDB header:chaperone Chain: A: PDB Molecule:hsp90 co-chaperone cdc37; PDBTitle: hsp90 co-chaperone cdc37 Phyre2 PDB 1noh chain B Region: 30 - 51 Aligned: 22 Modelled: 22 Confidence: 6.4% Identity: 32% PDB header:viral protein Chain: B: PDB Molecule:head morphogenesis protein; PDBTitle: the structure of bacteriophage phi29 scaffolding protein2 gp7 after prohead assembly Phyre2 PDB 1us7 chain B Region: 33 - 79 Aligned: 44 Modelled: 47 Confidence: 6.1% Identity: 23% Fold: Hsp90 co-chaperone CDC37 Superfamily: Hsp90 co-chaperone CDC37 Family: Hsp90 co-chaperone CDC37 Phyre2 PDB 1us7 chain B Region: 33 - 79 Aligned: 44 Modelled: 47 Confidence: 6.1% Identity: 23% PDB header:chaperone Chain: B: PDB Molecule:hsp90 co-chaperone cdc37; PDBTitle: complex of hsp90 and p50 Phyre2 PDB 1r4q chain A Region: 25 - 39 Aligned: 15 Modelled: 15 Confidence: 6.0% Identity: 20% Fold: Ribosome inactivating proteins (RIP) Superfamily: Ribosome inactivating proteins (RIP) Family: Shiga toxin, A-chain Phyre2 PDB 3iz5 chain W Region: 22 - 42 Aligned: 21 Modelled: 21 Confidence: 5.7% Identity: 33% PDB header:ribosome Chain: W: PDB Molecule:60s ribosomal protein l22 (l22e); PDBTitle: localization of the large subunit ribosomal proteins into a 5.5 a2 cryo-em map of triticum aestivum translating 80s ribosome Phyre2 PDB 3izc chain W Region: 22 - 44 Aligned: 23 Modelled: 23 Confidence: 5.7% Identity: 26% PDB header:ribosome Chain: W: PDB Molecule:60s ribosomal protein rpl22 (l22e); PDBTitle: localization of the large subunit ribosomal proteins into a 6.1 a2 cryo-em map of saccharomyces cerevisiae translating 80s ribosome Phyre2 PDB 4ebg chain A Region: 51 - 67 Aligned: 17 Modelled: 17 Confidence: 5.7% Identity: 41% PDB header:unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of a hypothetical protein (sav0303) from2 staphylococcus aureus subsp. aureus mu50 at 1.35 a resolution Phyre2 PDB 3bux chain B domain 3 Region: 58 - 70 Aligned: 13 Modelled: 13 Confidence: 5.3% Identity: 46% Fold: SH2-like Superfamily: SH2 domain Family: SH2 domain Phyre2 PDB 1r4p chain A Region: 25 - 39 Aligned: 15 Modelled: 15 Confidence: 5.3% Identity: 20% Fold: Ribosome inactivating proteins (RIP) Superfamily: Ribosome inactivating proteins (RIP) Family: Shiga toxin, A-chain Phyre2 PDB 2xr1 chain A Region: 22 - 76 Aligned: 55 Modelled: 55 Confidence: 5.1% Identity: 24% PDB header:hydrolase Chain: A: PDB Molecule:cleavage and polyadenylation specificity factor 100 kd PDBTitle: dimeric archaeal cleavage and polyadenylation specificity2 factor with n-terminal kh domains (kh-cpsf) from methanosarcina3 mazei Phyre2 1 c2imuA_ 2 c2uzqE_ 3 d1qasa3 4 d2zkmx4 5 d1w0ba_ 6 c2w0gA_ 7 c1nohB_ 8 d1us7b_ 9 c1us7B_ 10 d1r4qa_ 11 c3iz5W_ 12 c3izcW_ 13 c4ebgA_ 14 d3buxb3 15 d1r4pa_ 16 c2xr1A_

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