Email l.a.kelley@imperial.ac.uk Description A6X969 Date Sun Jul 8 11:45:01 BST 2012 Unique Job ID f313f91cda9619d1

Summary

Top model

Image coloured by rainbow N → C terminus Close Jmol

Model (left) based on template c2l9zA_ Top template information PDB header:transcription Chain: A: PDB Molecule:pr domain zinc finger protein 4; PDBTitle: zinc knuckle in prdm4 Confidence and coverage Confidence: 56.6% Coverage: 15% 11 residues ( 15% of your sequence) have been modelled with 56.6% 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 2l9z chain A Region: 3 - 13 Aligned: 11 Modelled: 11 Confidence: 56.6% Identity: 64% PDB header:transcription Chain: A: PDB Molecule:pr domain zinc finger protein 4; PDBTitle: zinc knuckle in prdm4 Phyre2 PDB 3mko chain A Region: 44 - 67 Aligned: 24 Modelled: 24 Confidence: 13.6% Identity: 33% PDB header:viral protein Chain: A: PDB Molecule:glycoprotein c; PDBTitle: crystal structure of the lymphocytic choriomeningitis virus membrane2 fusion glycoprotein gp2 in its postfusion conformation Phyre2 PDB 3kev chain A Region: 38 - 47 Aligned: 10 Modelled: 9 Confidence: 11.4% Identity: 20% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:galieria sulfuraria dcun1 domain-containing protein; PDBTitle: x-ray crystal structure of a dcun1 domain-containing protein from2 galdieria sulfuraria Phyre2 PDB 2is9 chain A Region: 38 - 47 Aligned: 10 Modelled: 10 Confidence: 9.0% Identity: 60% PDB header:transcription Chain: A: PDB Molecule:defective in cullin neddylation protein 1; PDBTitle: structure of yeast dcn-1 Phyre2 PDB 1ych chain D Region: 1 - 21 Aligned: 20 Modelled: 21 Confidence: 7.1% Identity: 25% PDB header:oxidoreductase Chain: D: PDB Molecule:nitric oxide reductase; PDBTitle: x-ray crystal structures of moorella thermoacetica fpra.2 novel diiron site structure and mechanistic insights into3 a scavenging nitric oxide reductase Phyre2 PDB 1y6g chain B Region: 39 - 52 Aligned: 13 Modelled: 14 Confidence: 7.1% Identity: 69% PDB header:transferase/dna Chain: B: PDB Molecule:dna alpha-glucosyltransferase; PDBTitle: alpha-glucosyltransferase in complex with udp and a 13_mer2 dna containing a hmu base at 2.8 a resolution Phyre2 PDB 1vme chain B Region: 1 - 8 Aligned: 8 Modelled: 8 Confidence: 6.7% Identity: 50% PDB header:electron transport Chain: B: PDB Molecule:flavoprotein; PDBTitle: crystal structure of flavoprotein (tm0755) from thermotoga maritima at2 1.80 a resolution Phyre2 PDB 2voy chain B Region: 42 - 67 Aligned: 26 Modelled: 26 Confidence: 6.5% Identity: 27% PDB header:hydrolase Chain: B: PDB Molecule:sarcoplasmic/endoplasmic reticulum calcium PDBTitle: cryoem model of copa, the copper transporting atpase from2 archaeoglobus fulgidus Phyre2 PDB 2c5r chain A domain 1 Region: 37 - 44 Aligned: 8 Modelled: 8 Confidence: 6.4% Identity: 63% Fold: Phage replication organizer domain Superfamily: Phage replication organizer domain Family: Phage replication organizer domain Phyre2 PDB 3bq3 chain A Region: 38 - 47 Aligned: 10 Modelled: 10 Confidence: 6.2% Identity: 60% PDB header:cell cycle, ligase Chain: A: PDB Molecule:defective in cullin neddylation protein 1; PDBTitle: crystal structure of s. cerevisiae dcn1 Phyre2 PDB 2dmd chain A domain 2 Region: 13 - 22 Aligned: 10 Modelled: 10 Confidence: 5.4% Identity: 60% Fold: beta-beta-alpha zinc fingers Superfamily: beta-beta-alpha zinc fingers Family: Classic zinc finger, C2H2 Phyre2 PDB 3cue chain J Region: 33 - 47 Aligned: 15 Modelled: 15 Confidence: 5.4% Identity: 13% PDB header:protein transport Chain: J: PDB Molecule:transport protein particle 22 kda subunit; PDBTitle: crystal structure of a trapp subassembly activating the rab ypt1p Phyre2 1 c2l9zA_ 2 c3mkoA_ 3 c3kevA_ 4 c2is9A_ 5 c1ychD_ 6 c1y6gB_ 7 c1vmeB_ 8 c2voyB_ 9 d2c5ra1 10 c3bq3A_ 11 d2dmda2 12 c3cueJ_

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