Email l.a.kelley@imperial.ac.uk Description C6Y4B6 Date Sun Jul 8 11:45:07 BST 2012 Unique Job ID c51d1787447e73e8

Summary

Top model

Image coloured by rainbow N → C terminus Close Jmol

Model (left) based on template d1prtf_ Top template information Fold:OB-fold Superfamily:Bacterial enterotoxins Family:Bacterial AB5 toxins, B-subunits Confidence and coverage Confidence: 14.4% Coverage: 24% 14 residues ( 24% of your sequence) have been modelled with 14.4% 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 1prt chain F Region: 10 - 23 Aligned: 14 Modelled: 14 Confidence: 14.4% Identity: 29% Fold: OB-fold Superfamily: Bacterial enterotoxins Family: Bacterial AB5 toxins, B-subunits Phyre2 PDB 3kk4 chain B Region: 34 - 58 Aligned: 25 Modelled: 25 Confidence: 14.3% Identity: 16% PDB header:structural genomics, unknown function Chain: B: PDB Molecule:uncharacterized protein bp1543; PDBTitle: uncharacterized protein bp1543 from bordetella pertussis tohama i Phyre2 PDB 3d5b chain J Region: 26 - 44 Aligned: 19 Modelled: 19 Confidence: 10.4% Identity: 42% PDB header:ribosome Chain: J: PDB Molecule:50s ribosomal protein l10; PDBTitle: structural basis for translation termination on the 70s ribosome. this2 file contains the 50s subunit of one 70s ribosome. the entire crystal3 structure contains two 70s ribosomes as described in remark 400. Phyre2 PDB 2kb1 chain A Region: 13 - 36 Aligned: 24 Modelled: 24 Confidence: 10.1% Identity: 17% PDB header:membrane protein Chain: A: PDB Molecule:wsk3; PDBTitle: nmr studies of a channel protein without membrane:2 structure and dynamics of water-solubilized kcsa Phyre2 PDB 3ctw chain B Region: 37 - 56 Aligned: 20 Modelled: 20 Confidence: 9.1% Identity: 25% PDB header:protein binding Chain: B: PDB Molecule:rcda; PDBTitle: crystal structure of rcda from caulobacter crescentus cb15 Phyre2 PDB 1l5j chain B Region: 3 - 55 Aligned: 53 Modelled: 53 Confidence: 8.6% Identity: 13% PDB header:lyase Chain: B: PDB Molecule:aconitate hydratase 2; PDBTitle: crystal structure of e. coli aconitase b. Phyre2 PDB 3uin chain D Region: 24 - 37 Aligned: 14 Modelled: 14 Confidence: 7.8% Identity: 7% PDB header:ligase/isomerase/protein binding Chain: D: PDB Molecule:e3 sumo-protein ligase ranbp2; PDBTitle: complex between human rangap1-sumo2, ubc9 and the ir1 domain from2 ranbp2 Phyre2 PDB 2plx chain B Region: 34 - 47 Aligned: 14 Modelled: 14 Confidence: 6.9% Identity: 29% PDB header:hydrolase Chain: B: PDB Molecule:peptide inhibitor; PDBTitle: trypsin complexed to a synthetic peptide from veronica hederifolia Phyre2 PDB 1wxm chain A domain 1 Region: 34 - 52 Aligned: 19 Modelled: 19 Confidence: 6.8% Identity: 11% Fold: beta-Grasp (ubiquitin-like) Superfamily: Ubiquitin-like Family: Ras-binding domain, RBD Phyre2 PDB 2pma chain A domain 1 Region: 1 - 11 Aligned: 11 Modelled: 11 Confidence: 6.7% Identity: 18% Fold: Acid proteases Superfamily: Acid proteases Family: LPG0085-like Phyre2 PDB 1qcs chain A domain 1 Region: 33 - 53 Aligned: 21 Modelled: 21 Confidence: 6.2% Identity: 29% Fold: Double psi beta-barrel Superfamily: ADC-like Family: Cdc48 N-terminal domain-like Phyre2 PDB 2dyo chain B Region: 36 - 55 Aligned: 18 Modelled: 20 Confidence: 6.2% Identity: 17% PDB header:protein turnover/protein turnover Chain: B: PDB Molecule:autophagy protein 16; PDBTitle: the crystal structure of saccharomyces cerevisiae atg5-2 atg16(1-57) complex Phyre2 PDB 1pzq chain A Region: 35 - 50 Aligned: 16 Modelled: 16 Confidence: 6.0% Identity: 31% Fold: Dimerisation interlock Superfamily: Docking domain A of the erythromycin polyketide synthase (DEBS) Family: Docking domain A of the erythromycin polyketide synthase (DEBS) Phyre2 1 d1prtf_ 2 c3kk4B_ 3 c3d5bJ_ 4 c2kb1A_ 5 c3ctwB_ 6 c1l5jB_ 7 c3uinD_ 8 c2plxB_ 9 d1wxma1 10 d2pmaa1 11 d1qcsa1 12 c2dyoB_ 13 d1pzqa_

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