Email l.a.kelley@imperial.ac.uk Description A2A591 Date Tue Jul 30 13:08:00 BST 2013 Unique Job ID 6d0d9f779b2af184 Sequence MACCVARCCS ... Download FASTA

Summary

Top model

Image coloured by rainbow N → C terminus Model dimensions (Å): X:24.901 Y:14.877 Z:20.971 Close Jmol

Model (left) based on template c1aqsA_ Top template information PDB header:metallothionein Chain: A: PDB Molecule:cu-metallothionein; PDBTitle: cu-metallothionein from saccharomyces cerevisiae, nmr, 102 structures Confidence and coverage Confidence: 61.4% Coverage: 18% 18 residues ( 18% of your sequence) have been modelled with 61.4% 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 ( 15%) Alpha helix ( 7%) Beta strand ( 31%)

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 1aqs chain A Region: 7 - 29 Aligned: 18 Modelled: 23 Confidence: 61.4% Identity: 61% PDB header:metallothionein Chain: A: PDB Molecule:cu-metallothionein; PDBTitle: cu-metallothionein from saccharomyces cerevisiae, nmr, 102 structures Phyre2 PDB 1rju chain V Region: 7 - 29 Aligned: 18 Modelled: 23 Confidence: 58.2% Identity: 61% PDB header:metal binding protein Chain: V: PDB Molecule:metallothionein; PDBTitle: crystal structure of a truncated form of yeast copper2 thionein Phyre2 PDB 2nx7 chain A Region: 87 - 98 Aligned: 12 Modelled: 12 Confidence: 39.2% Identity: 67% PDB header:structural protein Chain: A: PDB Molecule:nematocyst outer wall antigen; PDBTitle: structure of nowa cysteine rich domain 8 Phyre2 PDB 1hcn chain B Region: 24 - 49 Aligned: 26 Modelled: 26 Confidence: 30.9% Identity: 35% Fold: Cystine-knot cytokines Superfamily: Cystine-knot cytokines Family: Gonadodropin/Follitropin Phyre2 PDB 2kk2 chain A Region: 33 - 50 Aligned: 18 Modelled: 18 Confidence: 27.8% Identity: 44% PDB header:signaling protein Chain: A: PDB Molecule:en-a1; PDBTitle: nmr solution structure of the pheromone en-a1 from euplotes nobilii Phyre2 PDB 1qfw chain B Region: 24 - 49 Aligned: 26 Modelled: 26 Confidence: 27.2% Identity: 35% PDB header:immune system Chain: B: PDB Molecule:gonadotrophin beta subunit; PDBTitle: ternary complex of human chorionic gonadotropin with fv anti alpha2 subunit and fv anti beta subunit Phyre2 PDB 1y7j chain A Region: 45 - 51 Aligned: 7 Modelled: 7 Confidence: 10.5% Identity: 86% PDB header:signaling protein Chain: A: PDB Molecule:agouti signaling protein; PDBTitle: nmr structure family of human agouti signalling protein (80-2 132: q115y, s124y) Phyre2 PDB 1xwd chain B domain 1 Region: 24 - 48 Aligned: 25 Modelled: 25 Confidence: 9.9% Identity: 28% Fold: Cystine-knot cytokines Superfamily: Cystine-knot cytokines Family: Gonadodropin/Follitropin Phyre2 PDB 2rp4 chain C Region: 32 - 46 Aligned: 15 Modelled: 15 Confidence: 9.5% Identity: 47% PDB header:transcription Chain: C: PDB Molecule:transcription factor p53; PDBTitle: solution structure of the oligomerization domain in dmp53 Phyre2 PDB 1sop chain A Region: 50 - 65 Aligned: 14 Modelled: 16 Confidence: 9.1% Identity: 64% PDB header:structural protein Chain: A: PDB Molecule:mini-collagen; PDBTitle: c-terminal cystine-rich domain of minicollagen-i from hydra Phyre2 PDB 1h34 chain A Region: 47 - 73 Aligned: 27 Modelled: 27 Confidence: 8.6% Identity: 37% Fold: Knottins (small inhibitors, toxins, lectins) Superfamily: Bowman-Birk inhibitor, BBI Family: Bowman-Birk inhibitor, BBI Phyre2 PDB 2hey chain R domain 3 Region: 35 - 53 Aligned: 19 Modelled: 19 Confidence: 7.5% Identity: 26% Fold: TNF receptor-like Superfamily: TNF receptor-like Family: TNF receptor-like Phyre2 PDB 3plc chain A Region: 35 - 49 Aligned: 15 Modelled: 15 Confidence: 7.2% Identity: 33% PDB header:toxin Chain: A: PDB Molecule:beta-cardiotoxin oh-27; PDBTitle: crystal structure of beta-cardiotoxin, a novel three-finger2 cardiotoxin from the venom of ophiophagus hannah Phyre2 PDB 1imt chain A Region: 17 - 31 Aligned: 15 Modelled: 15 Confidence: 6.9% Identity: 40% PDB header:toxin Chain: A: PDB Molecule:intestinal toxin 1; PDBTitle: mamba intestinal toxin 1, nmr, 39 structures Phyre2 PDB 1tab chain I Region: 47 - 72 Aligned: 26 Modelled: 26 Confidence: 6.7% Identity: 23% Fold: Knottins (small inhibitors, toxins, lectins) Superfamily: Bowman-Birk inhibitor, BBI Family: Bowman-Birk inhibitor, BBI Phyre2 PDB 1lsi chain A Region: 4 - 24 Aligned: 21 Modelled: 21 Confidence: 6.4% Identity: 52% Fold: Snake toxin-like Superfamily: Snake toxin-like Family: Snake venom toxins Phyre2 PDB 1bnb chain A Region: 29 - 37 Aligned: 9 Modelled: 9 Confidence: 6.2% Identity: 67% Fold: Defensin-like Superfamily: Defensin-like Family: Defensin Phyre2 PDB 2kra chain A Region: 17 - 31 Aligned: 15 Modelled: 15 Confidence: 6.2% Identity: 40% PDB header:contractile protein Chain: A: PDB Molecule:prokineticin bv8; PDBTitle: solution structure of bv8 Phyre2 1 c1aqsA_ 2 c1rjuV_ 3 c2nx7A_ 4 d1hcnb_ 5 c2kk2A_ 6 c1qfwB_ 7 c1y7jA_ 8 d1xwdb1 9 c2rp4C_ 10 c1sopA_ 11 d1h34a_ 12 d2heyr3 13 c3plcA_ 14 c1imtA_ 15 d1tabi_ 16 d1lsia_ 17 d1bnba_ 18 c2kraA_

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