Email l.a.kelley@imperial.ac.uk Description A6X978 Date Sun Jul 8 11:45:02 BST 2012 Unique Job ID 0587453f9bf606b7

Summary

Top model

Image coloured by rainbow N → C terminus Close Jmol

Model (left) based on template c2kcaA_ Top template information PDB header:virus Chain: A: PDB Molecule:bacteriophage spp1 complete nucleotide sequence; PDBTitle: gp16 Confidence and coverage Confidence: 18.3% Coverage: 30% 29 residues ( 30% of your sequence) have been modelled with 18.3% 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 2kca chain A Region: 22 - 50 Aligned: 29 Modelled: 29 Confidence: 18.3% Identity: 3% PDB header:virus Chain: A: PDB Molecule:bacteriophage spp1 complete nucleotide sequence; PDBTitle: gp16 Phyre2 PDB 1zwg chain A Region: 60 - 67 Aligned: 8 Modelled: 8 Confidence: 13.8% Identity: 63% PDB header:hormone Chain: A: PDB Molecule:parathyroid hormone; PDBTitle: succinyl human parathyroid hormone 4-37, nmr, 10 structures Phyre2 PDB 3mko chain A Region: 39 - 82 Aligned: 40 Modelled: 43 Confidence: 12.7% Identity: 33% PDB header:viral protein Chain: A: PDB Molecule:glycoprotein c; PDBTitle: crystal structure of the lymphocytic choriomeningitis virus membrane2 fusion glycoprotein gp2 in its postfusion conformation Phyre2 PDB 3c4m chain D Region: 60 - 65 Aligned: 6 Modelled: 6 Confidence: 12.0% Identity: 83% PDB header:membrane protein Chain: D: PDB Molecule:parathyroid hormone; PDBTitle: structure of human parathyroid hormone in complex with the2 extracellular domain of its g-protein-coupled receptor (pth1r) Phyre2 PDB 3c4m chain C Region: 60 - 65 Aligned: 6 Modelled: 6 Confidence: 12.0% Identity: 83% PDB header:membrane protein Chain: C: PDB Molecule:parathyroid hormone; PDBTitle: structure of human parathyroid hormone in complex with the2 extracellular domain of its g-protein-coupled receptor (pth1r) Phyre2 PDB 2l1x chain A Region: 60 - 67 Aligned: 8 Modelled: 8 Confidence: 11.2% Identity: 63% PDB header:hormone Chain: A: PDB Molecule:parathyroid hormone; PDBTitle: the solution structure of human parathyroid hormone-related protein Phyre2 PDB 1fvy chain A Region: 60 - 67 Aligned: 8 Modelled: 8 Confidence: 8.5% Identity: 63% PDB header:hormone/growth factor Chain: A: PDB Molecule:parathyroid hormone; PDBTitle: solution structure of the osteogenic 1-31 fragment of the2 human parathyroid hormone Phyre2 PDB 2fgc chain A domain 2 Region: 37 - 53 Aligned: 17 Modelled: 17 Confidence: 8.1% Identity: 29% Fold: Ferredoxin-like Superfamily: ACT-like Family: IlvH-like Phyre2 PDB 1zvc chain A domain 1 Region: 35 - 43 Aligned: 9 Modelled: 9 Confidence: 8.0% Identity: 56% Fold: AOC barrel-like Superfamily: Allene oxide cyclase-like Family: Allene oxide cyclase-like Phyre2 PDB 2jsn chain A Region: 17 - 27 Aligned: 11 Modelled: 11 Confidence: 6.8% Identity: 36% PDB header:protein transport Chain: A: PDB Molecule:trafficking protein particle complex subunit 4; PDBTitle: solution structure of the atypical pdz-like domain of2 synbindin Phyre2 PDB 2f2f chain C Region: 33 - 52 Aligned: 20 Modelled: 20 Confidence: 6.3% Identity: 25% PDB header:toxin Chain: C: PDB Molecule:cytolethal distending toxin c; PDBTitle: crystal structure of cytolethal distending toxin (cdt) from2 actinobacillus actinomycetemcomitans Phyre2 PDB 2f2f chain C domain 1 Region: 33 - 52 Aligned: 20 Modelled: 20 Confidence: 6.3% Identity: 25% Fold: beta-Trefoil Superfamily: Ricin B-like lectins Family: Ricin B-like Phyre2 PDB 1sr4 chain C Region: 33 - 52 Aligned: 20 Modelled: 20 Confidence: 5.8% Identity: 25% Fold: beta-Trefoil Superfamily: Ricin B-like lectins Family: Ricin B-like Phyre2 PDB 1xk5 chain A Region: 46 - 90 Aligned: 45 Modelled: 45 Confidence: 5.7% Identity: 16% PDB header:transport protein Chain: A: PDB Molecule:snurportin-1; PDBTitle: crystal structure of the m3g-cap-binding domain of2 snurportin1 in complex with a m3gpppg-cap dinucleotide Phyre2 PDB 2pc6 chain A domain 2 Region: 37 - 53 Aligned: 17 Modelled: 17 Confidence: 5.5% Identity: 41% Fold: Ferredoxin-like Superfamily: ACT-like Family: IlvH-like Phyre2 PDB 2cx1 chain A domain 2 Region: 42 - 57 Aligned: 16 Modelled: 16 Confidence: 5.2% Identity: 50% Fold: Cystatin-like Superfamily: Pre-PUA domain Family: Hypothetical protein APE0525, N-terminal domain Phyre2 PDB 2qj2 chain A domain 1 Region: 63 - 90 Aligned: 28 Modelled: 28 Confidence: 5.2% Identity: 18% Fold: Hairpin loop containing domain-like Superfamily: Hairpin loop containing domain-like Family: Hairpin loop containing domain Phyre2 PDB 2xvo chain B Region: 45 - 54 Aligned: 10 Modelled: 10 Confidence: 5.2% Identity: 50% PDB header:structural genomics Chain: B: PDB Molecule:sso1725; PDBTitle: sso1725, a protein involved in the crispr/cas pathway Phyre2 1 c2kcaA_ 2 c1zwgA_ 3 c3mkoA_ 4 c3c4mD_ 5 c3c4mC_ 6 c2l1xA_ 7 c1fvyA_ 8 d2fgca2 9 d1zvca1 10 c2jsnA_ 11 c2f2fC_ 12 d2f2fc1 13 d1sr4c_ 14 c1xk5A_ 15 d2pc6a2 16 d2cx1a2 17 d2qj2a1 18 c2xvoB_

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