Email l.a.kelley@imperial.ac.uk Description O13574 Date Mon Jul 2 19:10:18 BST 2012 Unique Job ID 5c1f6053afedd3eb

Summary

Top model

Image coloured by rainbow N → C terminus Close Jmol

Model (left) based on template d1sknp_ Top template information Fold:A DNA-binding domain in eukaryotic transcription factors Superfamily:A DNA-binding domain in eukaryotic transcription factors Family:A DNA-binding domain in eukaryotic transcription factors Confidence and coverage Confidence: 27.3% Coverage: 20% 23 residues ( 20% of your sequence) have been modelled with 27.3% 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 1skn chain P Region: 46 - 68 Aligned: 23 Modelled: 23 Confidence: 27.3% Identity: 43% Fold: A DNA-binding domain in eukaryotic transcription factors Superfamily: A DNA-binding domain in eukaryotic transcription factors Family: A DNA-binding domain in eukaryotic transcription factors Phyre2 PDB 3izc chain N Region: 48 - 81 Aligned: 34 Modelled: 34 Confidence: 24.1% Identity: 38% PDB header:ribosome Chain: N: PDB Molecule:60s ribosomal protein rpl14 (l14e); PDBTitle: localization of the large subunit ribosomal proteins into a 6.1 a2 cryo-em map of saccharomyces cerevisiae translating 80s ribosome Phyre2 PDB 2kd2 chain A Region: 85 - 98 Aligned: 14 Modelled: 14 Confidence: 19.1% Identity: 36% PDB header:apoptosis Chain: A: PDB Molecule:fas apoptotic inhibitory molecule 1; PDBTitle: nmr structure of faim-ctd Phyre2 PDB 4a18 chain P Region: 67 - 81 Aligned: 15 Modelled: 15 Confidence: 17.6% Identity: 53% PDB header:ribosome Chain: P: PDB Molecule:rpl38; PDBTitle: t.thermophila 60s ribosomal subunit in complex with initiation2 factor 6. this file contains 26s rrna and proteins of molecule 1 Phyre2 PDB 3iz5 chain N Region: 48 - 81 Aligned: 32 Modelled: 34 Confidence: 17.4% Identity: 31% PDB header:ribosome Chain: N: PDB Molecule:60s ribosomal protein l14 (l14e); PDBTitle: localization of the large subunit ribosomal proteins into a 5.5 a2 cryo-em map of triticum aestivum translating 80s ribosome Phyre2 PDB 2wfu chain A Region: 97 - 107 Aligned: 11 Modelled: 11 Confidence: 11.7% Identity: 55% PDB header:signaling protein Chain: A: PDB Molecule:probable insulin-like peptide 5 a chain; PDBTitle: crystal structure of dilp5 variant db Phyre2 PDB 2wfv chain A Region: 97 - 107 Aligned: 11 Modelled: 11 Confidence: 11.7% Identity: 55% PDB header:signaling protein Chain: A: PDB Molecule:probable insulin-like peptide 5 a chain; PDBTitle: crystal structure of dilp5 variant c4 Phyre2 PDB 2kz5 chain A Region: 31 - 57 Aligned: 27 Modelled: 27 Confidence: 11.1% Identity: 48% PDB header:transcription Chain: A: PDB Molecule:transcription factor nf-e2 45 kda subunit; PDBTitle: solution nmr structure of transcription factor nf-e2 subunit's dna2 binding domain from homo sapiens, northeast structural genomics3 consortium target hr4653b Phyre2 PDB 2v1l chain A Region: 8 - 18 Aligned: 11 Modelled: 11 Confidence: 8.4% Identity: 27% PDB header:unknown function Chain: A: PDB Molecule:hypothetical protein; PDBTitle: structure of the conserved hypothetical protein vc1805 from2 pathogenicity island vpi-2 of vibrio cholerae o1 biovar3 eltor str. n16961 shares structural homology with the4 human p32 protein Phyre2 PDB 1o7d chain D Region: 13 - 21 Aligned: 9 Modelled: 9 Confidence: 7.8% Identity: 56% PDB header:hydrolase Chain: D: PDB Molecule:lysosomal alpha-mannosidase; PDBTitle: the structure of the bovine lysosomal a-mannosidase2 suggests a novel mechanism for low ph activation Phyre2 PDB 1qz8 chain A Region: 79 - 86 Aligned: 8 Modelled: 8 Confidence: 7.6% Identity: 63% Fold: Replicase NSP9 Superfamily: Replicase NSP9 Family: Replicase NSP9 Phyre2 PDB 2w56 chain B Region: 8 - 18 Aligned: 11 Modelled: 11 Confidence: 7.6% Identity: 27% PDB header:unknown function Chain: B: PDB Molecule:vc0508; PDBTitle: structure of the hypothetical protein vc0508 from vibrio cholerae2 vsp-ii pathogenicity island Phyre2 PDB 2j98 chain A Region: 79 - 86 Aligned: 8 Modelled: 8 Confidence: 7.2% Identity: 50% PDB header:rna-binding protein Chain: A: PDB Molecule:replicase polyprotein 1ab; PDBTitle: human coronavirus 229e non structural protein 9 cys69ala2 mutant (nsp9) Phyre2 PDB 1uw7 chain A Region: 79 - 86 Aligned: 8 Modelled: 8 Confidence: 7.2% Identity: 63% PDB header:replicase protein Chain: A: PDB Molecule:nsp9; PDBTitle: nsp9 protein from sars-coronavirus. Phyre2 PDB 2j7j chain A domain 3 Region: 95 - 102 Aligned: 8 Modelled: 8 Confidence: 6.6% Identity: 63% Fold: beta-beta-alpha zinc fingers Superfamily: beta-beta-alpha zinc fingers Family: Classic zinc finger, C2H2 Phyre2 PDB 2dzq chain A Region: 9 - 17 Aligned: 9 Modelled: 9 Confidence: 6.3% Identity: 44% PDB header:transcription Chain: A: PDB Molecule:general transcription factor ii-i repeat domain- PDBTitle: solution structure of rsgi ruh-066, a gtf2i domain in human2 cdna Phyre2 PDB 3kz0 chain D Region: 45 - 54 Aligned: 10 Modelled: 10 Confidence: 6.2% Identity: 70% PDB header:apoptosis Chain: D: PDB Molecule:mcl-1 specific peptide mb7; PDBTitle: mcl-1 complex with mcl-1-specific selected peptide Phyre2 PDB 3kz0 chain C Region: 45 - 54 Aligned: 10 Modelled: 10 Confidence: 6.2% Identity: 70% PDB header:apoptosis Chain: C: PDB Molecule:mcl-1 specific peptide mb7; PDBTitle: mcl-1 complex with mcl-1-specific selected peptide Phyre2 PDB 2dn5 chain A Region: 9 - 17 Aligned: 9 Modelled: 9 Confidence: 6.1% Identity: 56% PDB header:transcription Chain: A: PDB Molecule:general transcription factor ii-i repeat domain- PDBTitle: solution structure of rsgi ruh-057, a gtf2i domain in human2 cdna Phyre2 PDB 4a18 chain A Region: 44 - 61 Aligned: 18 Modelled: 18 Confidence: 6.1% Identity: 39% PDB header:ribosome Chain: A: PDB Molecule:ribosomal protein l37; PDBTitle: t.thermophila 60s ribosomal subunit in complex with initiation2 factor 6. this file contains 26s rrna and proteins of molecule 1 Phyre2 1 d1sknp_ 2 c3izcn_ 3 c2kd2A_ 4 c4a18P_ 5 c3iz5n_ 6 c2wfuA_ 7 c2wfvA_ 8 c2kz5A_ 9 c2v1lA_ 10 c1o7dD_ 11 d1qz8a_ 12 c2w56B_ 13 c2j98A_ 14 c1uw7A_ 15 d2j7ja3 16 c2dzqA_ 17 c3kz0D_ 18 c3kz0C_ 19 c2dn5A_ 20 c4a18A_ 21 22 23 24

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