Email l.a.kelley@imperial.ac.uk Description P0C948 Date Tue Jul 17 17:05:09 BST 2012 Unique Job ID ffe9a7f68ff86912

Summary

Top model

Image coloured by rainbow N → C terminus Close Jmol

Model (left) based on template d1oqwa_ Top template information Fold:Pili subunits Superfamily:Pili subunits Family:Pilin Confidence and coverage Confidence: 19.3% Coverage: 25% 25 residues ( 25% of your sequence) have been modelled with 19.3% 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 1oqw chain A Region: 63 - 87 Aligned: 25 Modelled: 25 Confidence: 19.3% Identity: 16% Fold: Pili subunits Superfamily: Pili subunits Family: Pilin Phyre2 PDB 2lf2 chain A Region: 82 - 99 Aligned: 18 Modelled: 18 Confidence: 15.6% Identity: 6% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: solution nmr structure of the ahsa1-like protein chu_1110 from2 cytophaga hutchinsonii, northeast structural genomics consortium3 target chr152 Phyre2 PDB 1kqf chain B domain 2 Region: 66 - 99 Aligned: 34 Modelled: 34 Confidence: 15.2% Identity: 18% Fold: Single transmembrane helix Superfamily: Iron-sulfur subunit of formate dehydrogenase N, transmembrane anchor Family: Iron-sulfur subunit of formate dehydrogenase N, transmembrane anchor Phyre2 PDB 3sok chain B Region: 63 - 87 Aligned: 25 Modelled: 25 Confidence: 9.9% Identity: 16% PDB header:cell adhesion Chain: B: PDB Molecule:fimbrial protein; PDBTitle: dichelobacter nodosus pilin fima Phyre2 PDB 1jvr chain A Region: 18 - 36 Aligned: 19 Modelled: 19 Confidence: 8.7% Identity: 26% Fold: Retroviral matrix proteins Superfamily: Retroviral matrix proteins Family: HTLV-II matrix protein Phyre2 PDB 2woc chain A Region: 31 - 40 Aligned: 10 Modelled: 10 Confidence: 7.7% Identity: 40% PDB header:hydrolase Chain: A: PDB Molecule:adp-ribosyl-[dinitrogen reductase] glycohydrolase; PDBTitle: crystal structure of the dinitrogenase reductase-activating2 glycohydrolase (drag) from rhodospirillum rubrum Phyre2 PDB 3rko chain K Region: 10 - 98 Aligned: 89 Modelled: 89 Confidence: 7.3% Identity: 12% PDB header:oxidoreductase Chain: K: PDB Molecule:nadh-quinone oxidoreductase subunit k; PDBTitle: crystal structure of the membrane domain of respiratory complex i from2 e. coli at 3.0 angstrom resolution Phyre2 PDB 3zqp chain B Region: 32 - 45 Aligned: 14 Modelled: 14 Confidence: 7.2% Identity: 14% PDB header:dna-binding protein Chain: B: PDB Molecule:terminase small subunit; PDBTitle: crystal structure of the small terminase oligomerization2 domain from a spp1-like bacteriophage Phyre2 PDB 1a0p chain A domain 1 Region: 81 - 100 Aligned: 20 Modelled: 20 Confidence: 6.8% Identity: 5% Fold: SAM domain-like Superfamily: lambda integrase-like, N-terminal domain Family: lambda integrase-like, N-terminal domain Phyre2 PDB 2pil chain A Region: 63 - 87 Aligned: 25 Modelled: 25 Confidence: 6.7% Identity: 16% Fold: Pili subunits Superfamily: Pili subunits Family: Pilin Phyre2 PDB 1jb3 chain A Region: 26 - 42 Aligned: 17 Modelled: 17 Confidence: 6.6% Identity: 24% Fold: OB-fold Superfamily: TIMP-like Family: The laminin-binding domain of agrin Phyre2 PDB 1w5c chain L Region: 68 - 88 Aligned: 21 Modelled: 21 Confidence: 5.9% Identity: 19% PDB header:photosynthesis Chain: L: PDB Molecule:cytochrome b559 beta subunit; PDBTitle: photosystem ii from thermosynechococcus elongatus Phyre2 PDB 2axt chain F domain 1 Region: 68 - 88 Aligned: 21 Modelled: 21 Confidence: 5.8% Identity: 19% Fold: Single transmembrane helix Superfamily: Cytochrome b559 subunits Family: Cytochrome b559 subunits Phyre2 PDB 2kxa chain A Region: 81 - 89 Aligned: 9 Modelled: 9 Confidence: 5.0% Identity: 56% PDB header:viral protein, immune system Chain: A: PDB Molecule:haemagglutinin ha2 chain peptide; PDBTitle: the hemagglutinin fusion peptide (h1 subtype) at ph 7.4 Phyre2 1 d1oqwa_ 2 c2lf2A_ 3 d1kqfb2 4 c3sokB_ 5 d1jvra_ 6 c2wocA_ 7 c3rkoK_ 8 c3zqpB_ 9 d1a0pa1 10 d2pila_ 11 d1jb3a_ 12 c1w5cL_ 13 d2axtf1 14 c2kxaA_

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