Email l.a.kelley@imperial.ac.uk Description C6Y4C3 Date Sun Jul 8 11:45:09 BST 2012 Unique Job ID 28118c1bf84d9174

Summary

Top model

Image coloured by rainbow N → C terminus Close Jmol

Model (left) based on template d1jt6a2 Top template information Fold:Tetracyclin repressor-like, C-terminal domain Superfamily:Tetracyclin repressor-like, C-terminal domain Family:Tetracyclin repressor-like, C-terminal domain Confidence and coverage Confidence: 33.6% Coverage: 35% 31 residues ( 35% of your sequence) have been modelled with 33.6% 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 1jt6 chain A domain 2 Region: 29 - 59 Aligned: 31 Modelled: 31 Confidence: 33.6% Identity: 29% Fold: Tetracyclin repressor-like, C-terminal domain Superfamily: Tetracyclin repressor-like, C-terminal domain Family: Tetracyclin repressor-like, C-terminal domain Phyre2 PDB 2ida chain A domain 1 Region: 1 - 11 Aligned: 11 Modelled: 11 Confidence: 9.4% Identity: 36% Fold: RING/U-box Superfamily: RING/U-box Family: Zf-UBP Phyre2 PDB 1ra0 chain A domain 1 Region: 5 - 17 Aligned: 13 Modelled: 13 Confidence: 7.4% Identity: 38% Fold: Composite domain of metallo-dependent hydrolases Superfamily: Composite domain of metallo-dependent hydrolases Family: Cytosine deaminase Phyre2 PDB 2c1w chain A domain 1 Region: 29 - 68 Aligned: 40 Modelled: 40 Confidence: 7.3% Identity: 28% Fold: EndoU-like Superfamily: EndoU-like Family: Eukaryotic EndoU ribonuclease Phyre2 PDB 1eit chain A Region: 16 - 21 Aligned: 6 Modelled: 6 Confidence: 6.5% Identity: 83% Fold: Knottins (small inhibitors, toxins, lectins) Superfamily: omega toxin-like Family: Spider toxins Phyre2 PDB 2rig chain A Region: 22 - 36 Aligned: 15 Modelled: 15 Confidence: 6.2% Identity: 33% Fold: 4-helical cytokines Superfamily: 4-helical cytokines Family: Interferons/interleukin-10 (IL-10) Phyre2 PDB 2rig chain A Region: 22 - 36 Aligned: 15 Modelled: 15 Confidence: 6.2% Identity: 33% PDB header:cytokine Chain: A: PDB Molecule:interferon-gamma; PDBTitle: crystal structure of recombinant rabbit interferon-gamma at2 2.7-angstroms resolution Phyre2 PDB 1v91 chain A Region: 16 - 21 Aligned: 6 Modelled: 6 Confidence: 6.2% Identity: 67% PDB header:toxin Chain: A: PDB Molecule:delta-palutoxin it2; PDBTitle: solution structure of insectidal toxin delta-paluit2-nh2 Phyre2 PDB 1dx5 chain I domain 3 Region: 17 - 25 Aligned: 9 Modelled: 9 Confidence: 6.0% Identity: 44% Fold: Knottins (small inhibitors, toxins, lectins) Superfamily: EGF/Laminin Family: EGF-type module Phyre2 PDB 2owo chain A Region: 6 - 48 Aligned: 43 Modelled: 43 Confidence: 5.9% Identity: 26% PDB header:ligase/dna Chain: A: PDB Molecule:dna ligase; PDBTitle: last stop on the road to repair: structure of e.coli dna ligase bound2 to nicked dna-adenylate Phyre2 PDB 1dgs chain A domain 1 Region: 6 - 48 Aligned: 43 Modelled: 43 Confidence: 5.7% Identity: 26% Fold: SAM domain-like Superfamily: RuvA domain 2-like Family: NAD+-dependent DNA ligase, domain 3 Phyre2 PDB 1g1p chain A Region: 8 - 24 Aligned: 17 Modelled: 17 Confidence: 5.6% Identity: 41% Fold: Knottins (small inhibitors, toxins, lectins) Superfamily: omega toxin-like Family: Conotoxin Phyre2 PDB 2dj8 chain A Region: 19 - 28 Aligned: 10 Modelled: 10 Confidence: 5.1% Identity: 40% PDB header:metal binding protein Chain: A: PDB Molecule:protein cbfa2t1; PDBTitle: solution structure of zf-mynd domain of protein cbfa2ti2 (protein mtg8) Phyre2 PDB 3vem chain C Region: 34 - 40 Aligned: 7 Modelled: 7 Confidence: 5.0% Identity: 43% PDB header:transcription Chain: C: PDB Molecule:helicase protein mom1; PDBTitle: structural basis of transcriptional gene silencing mediated by2 arabidopsis mom1 Phyre2 1 d1jt6a2 2 d2idaa1 3 d1ra0a1 4 d2c1wa1 5 d1eita_ 6 d2riga_ 7 c2rigA_ 8 c1v91A_ 9 d1dx5i3 10 c2owoA_ 11 d1dgsa1 12 d1g1pa_ 13 c2dj8A_ 14 c3vemC_

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