Email l.a.kelley@imperial.ac.uk Description O13536 Date Mon Jul 2 19:10:10 BST 2012 Unique Job ID 05ff7ec861a60fe3

Summary

Top model

Image coloured by rainbow N → C terminus Close Jmol

Model (left) based on template d1t1va_ Top template information Fold:Thioredoxin fold Superfamily:Thioredoxin-like Family:SH3BGR (SH3-binding, glutamic acid-rich protein-like) Confidence and coverage Confidence: 43.7% Coverage: 33% 34 residues ( 33% of your sequence) have been modelled with 43.7% 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 1t1v chain A Region: 37 - 72 Aligned: 34 Modelled: 36 Confidence: 43.7% Identity: 26% Fold: Thioredoxin fold Superfamily: Thioredoxin-like Family: SH3BGR (SH3-binding, glutamic acid-rich protein-like) Phyre2 PDB 1prt chain D Region: 54 - 82 Aligned: 29 Modelled: 36 Confidence: 9.8% Identity: 34% Fold: OB-fold Superfamily: Bacterial enterotoxins Family: Bacterial AB5 toxins, B-subunits Phyre2 PDB 3grh chain A Region: 26 - 96 Aligned: 61 Modelled: 71 Confidence: 8.8% Identity: 20% PDB header:hydrolase Chain: A: PDB Molecule:acyl-coa thioester hydrolase ybgc; PDBTitle: crystal structure of escherichia coli ybhc Phyre2 PDB 1u6t chain A Region: 37 - 72 Aligned: 34 Modelled: 36 Confidence: 8.6% Identity: 21% PDB header:protein binding, signaling protein Chain: A: PDB Molecule:sh3 domain-binding glutamic acid-rich-like PDBTitle: crystal structure of the human sh3 binding glutamic-rich2 protein like Phyre2 PDB 2qal chain R domain 1 Region: 5 - 21 Aligned: 17 Modelled: 36 Confidence: 7.9% Identity: 29% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Ribosomal protein S18 Family: Ribosomal protein S18 Phyre2 PDB 1p4e chain A domain 2 Region: 47 - 92 Aligned: 43 Modelled: 46 Confidence: 7.7% Identity: 21% Fold: DNA breaking-rejoining enzymes Superfamily: DNA breaking-rejoining enzymes Family: Lambda integrase-like, catalytic core Phyre2 PDB 3df1 chain R Region: 5 - 21 Aligned: 17 Modelled: 17 Confidence: 7.4% Identity: 29% PDB header:ribosome Chain: R: PDB Molecule:30s ribosomal protein s18; PDBTitle: crystal structure of the bacterial ribosome from escherichia2 coli in complex with hygromycin b. this file contains the3 30s subunit of the first 70s ribosome, with hygromycin b4 bound. the entire crystal structure contains two 70s5 ribosomes. Phyre2 PDB 2uzq chain E Region: 10 - 60 Aligned: 51 Modelled: 51 Confidence: 6.9% Identity: 20% PDB header:hydrolase Chain: E: PDB Molecule:m-phase inducer phosphatase 2; PDBTitle: protein phosphatase, new crystal form Phyre2 PDB 1klr chain A Region: 1 - 23 Aligned: 21 Modelled: 23 Confidence: 6.3% Identity: 48% PDB header:transcription Chain: A: PDB Molecule:zinc finger y-chromosomal protein; PDBTitle: nmr structure of the zfy-6t[y10f] zinc finger Phyre2 PDB 1klr chain A Region: 1 - 23 Aligned: 21 Modelled: 23 Confidence: 6.3% Identity: 48% Fold: beta-beta-alpha zinc fingers Superfamily: beta-beta-alpha zinc fingers Family: Classic zinc finger, C2H2 Phyre2 PDB 1kls chain A Region: 1 - 23 Aligned: 21 Modelled: 23 Confidence: 6.3% Identity: 48% PDB header:transcription Chain: A: PDB Molecule:zinc finger y-chromosomal protein; PDBTitle: nmr structure of the zfy-6t[y10l] zinc finger Phyre2 PDB 3bbn chain R Region: 5 - 21 Aligned: 17 Modelled: 23 Confidence: 5.7% Identity: 29% PDB header:ribosome Chain: R: PDB Molecule:ribosomal protein s18; PDBTitle: homology model for the spinach chloroplast 30s subunit fitted to 9.4a2 cryo-em map of the 70s chlororibosome. Phyre2 PDB 1p4e chain B Region: 47 - 92 Aligned: 43 Modelled: 46 Confidence: 5.5% Identity: 21% PDB header:dna binding protein/recombination/dna Chain: B: PDB Molecule:recombinase flp protein; PDBTitle: flpe w330f mutant-dna holliday junction complex Phyre2 1 d1t1va_ 2 d1prtd_ 3 c3grhA_ 4 c1u6tA_ 5 d2qalr1 6 d1p4ea2 7 c3df1R_ 8 c2uzqE_ 9 c1klrA_ 10 d1klra_ 11 c1klsA_ 12 c3bbnR_ 13 c1p4eB_

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