Email l.a.kelley@imperial.ac.uk Description O13587 Date Mon Jul 2 19:10:21 BST 2012 Unique Job ID 1d0b4dc35cbdb780

Summary

Top model

Image coloured by rainbow N → C terminus Close Jmol

Model (left) based on template d1axib1 Top template information Fold:Immunoglobulin-like beta-sandwich Superfamily:Fibronectin type III Family:Fibronectin type III Confidence and coverage Confidence: 28.3% Coverage: 16% 16 residues ( 16% of your sequence) have been modelled with 28.3% 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 1axi chain B domain 1 Region: 18 - 55 Aligned: 16 Modelled: 16 Confidence: 28.3% Identity: 44% Fold: Immunoglobulin-like beta-sandwich Superfamily: Fibronectin type III Family: Fibronectin type III Phyre2 PDB 1hm6 chain A Region: 8 - 41 Aligned: 34 Modelled: 34 Confidence: 14.9% Identity: 32% Fold: Annexin Superfamily: Annexin Family: Annexin Phyre2 PDB 1f6f chain B domain 1 Region: 18 - 55 Aligned: 22 Modelled: 22 Confidence: 10.2% Identity: 32% Fold: Immunoglobulin-like beta-sandwich Superfamily: Fibronectin type III Family: Fibronectin type III Phyre2 PDB 2cte chain A domain 1 Region: 1 - 32 Aligned: 32 Modelled: 32 Confidence: 9.7% Identity: 31% Fold: Eukaryotic type KH-domain (KH-domain type I) Superfamily: Eukaryotic type KH-domain (KH-domain type I) Family: Eukaryotic type KH-domain (KH-domain type I) Phyre2 PDB 1ern chain A domain 1 Region: 18 - 32 Aligned: 15 Modelled: 15 Confidence: 9.6% Identity: 20% Fold: Immunoglobulin-like beta-sandwich Superfamily: Fibronectin type III Family: Fibronectin type III Phyre2 PDB 1vig chain A Region: 4 - 32 Aligned: 29 Modelled: 29 Confidence: 8.9% Identity: 21% Fold: Eukaryotic type KH-domain (KH-domain type I) Superfamily: Eukaryotic type KH-domain (KH-domain type I) Family: Eukaryotic type KH-domain (KH-domain type I) Phyre2 PDB 3hag chain A Region: 12 - 27 Aligned: 15 Modelled: 16 Confidence: 8.1% Identity: 67% PDB header:virus Chain: A: PDB Molecule:capsid protein; PDBTitle: crystal structure of the hepatitis e virus-like particle Phyre2 PDB 1oe4 chain A Region: 68 - 84 Aligned: 17 Modelled: 17 Confidence: 7.5% Identity: 47% Fold: Uracil-DNA glycosylase-like Superfamily: Uracil-DNA glycosylase-like Family: Single-strand selective monofunctional uracil-DNA glycosylase SMUG1 Phyre2 PDB 2ztn chain A Region: 12 - 27 Aligned: 15 Modelled: 16 Confidence: 7.3% Identity: 67% PDB header:virus Chain: A: PDB Molecule:capsid protein; PDBTitle: hepatitis e virus orf2 (genotype 3) Phyre2 PDB 2k8f chain B Region: 8 - 30 Aligned: 23 Modelled: 23 Confidence: 7.1% Identity: 26% PDB header:transferase/transcription Chain: B: PDB Molecule:cellular tumor antigen p53; PDBTitle: structural basis for the regulation of p53 function by p300 Phyre2 PDB 2zzq chain A Region: 12 - 27 Aligned: 15 Modelled: 16 Confidence: 6.4% Identity: 67% PDB header:virus Chain: A: PDB Molecule:protein orf3, capsid protein; PDBTitle: crystal structure analysis of the hev capsid protein, porf2 Phyre2 PDB 1gp8 chain A Region: 24 - 32 Aligned: 9 Modelled: 9 Confidence: 6.4% Identity: 78% PDB header:viral protein Chain: A: PDB Molecule:protein (scaffolding protein); PDBTitle: nmr solution structure of the coat protein-binding domain2 of bacteriophage p22 scaffolding protein Phyre2 PDB 1rh1 chain A domain 1 Region: 12 - 49 Aligned: 31 Modelled: 38 Confidence: 6.3% Identity: 45% Fold: Cloacin translocation domain Superfamily: Cloacin translocation domain Family: Cloacin translocation domain Phyre2 PDB 1rh1 chain A Region: 12 - 49 Aligned: 31 Modelled: 38 Confidence: 5.7% Identity: 45% PDB header:antibiotic Chain: A: PDB Molecule:colicin b; PDBTitle: crystal structure of the cytotoxic bacterial protein2 colicin b at 2.5 a resolution Phyre2 PDB 1f35 chain A Region: 17 - 30 Aligned: 14 Modelled: 13 Confidence: 5.6% Identity: 43% Fold: Olfactory marker protein Superfamily: Olfactory marker protein Family: Olfactory marker protein Phyre2 1 d1axib1 2 d1hm6a_ 3 d1f6fb1 4 d2ctea1 5 d1erna1 6 d1viga_ 7 c3hagA_ 8 d1oe4a_ 9 c2ztnA_ 10 c2k8fB_ 11 c2zzqA_ 12 c1gp8A_ 13 d1rh1a1 14 c1rh1A_ 15 d1f35a_

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