Secondary structure and disorder prediction

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10

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20

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Sequence

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S

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D

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F

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V

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I

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G

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V

A

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G

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A

A

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Secondary structure

SS confidence

Disorder

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Disorder confidence

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 3nfi chain B Region: 1 - 20 Aligned: 20 Modelled: 20 Confidence: 18.7% Identity: 5% PDB header:dna binding protein, transcription Chain: B: PDB Molecule:dna-directed rna polymerase i subunit rpa49; PDBTitle: crystal structure of tandem winged helix domain of rna polymerase i2 subunit a49 Phyre2 PDB 2l27 chain B Region: 1 - 16 Aligned: 16 Modelled: 16 Confidence: 10.8% Identity: 31% PDB header:membrane protein, peptide binding protei Chain: B: PDB Molecule:peptide agonist; PDBTitle: nmr structure of the ecd1 of crf-r1 in complex with a peptide agonist Phyre2 PDB 1q90 chain G Region: 14 - 19 Aligned: 6 Modelled: 6 Confidence: 8.4% Identity: 83% PDB header:photosynthesis Chain: G: PDB Molecule:cytochrome b6f complex subunit petg; PDBTitle: structure of the cytochrome b6f (plastohydroquinone : plastocyanin2 oxidoreductase) from chlamydomonas reinhardtii Phyre2 PDB 1q90 chain G Region: 14 - 19 Aligned: 6 Modelled: 6 Confidence: 8.4% Identity: 83% Fold: Single transmembrane helix Superfamily: PetG subunit of the cytochrome b6f complex Family: PetG subunit of the cytochrome b6f complex Phyre2 1 c3nfiB_ 2 c2l27B_ 3 c1q90G_ 4 d1q90g_

Detailed template information

# Template Alignment Coverage 3D Model Confidence % i.d. Template Information

1 c3nfiB_ 18.7 5 PDB header:dna binding protein, transcription Chain: B: PDB Molecule:dna-directed rna polymerase i subunit rpa49; PDBTitle: crystal structure of tandem winged helix domain of rna polymerase i2 subunit a49 2 c2l27B_ 10.8 31 PDB header:membrane protein, peptide binding protei Chain: B: PDB Molecule:peptide agonist; PDBTitle: nmr structure of the ecd1 of crf-r1 in complex with a peptide agonist 3 c1q90G_ 8.4 83 PDB header:photosynthesis Chain: G: PDB Molecule:cytochrome b6f complex subunit petg; PDBTitle: structure of the cytochrome b6f (plastohydroquinone : plastocyanin2 oxidoreductase) from chlamydomonas reinhardtii 4 d1q90g_ 8.4 83 Fold:Single transmembrane helix Superfamily:PetG subunit of the cytochrome b6f complex Family:PetG subunit of the cytochrome b6f complex

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

Transmembrane helix prediction

Transmembrane helices have been predicted in your sequence to adopt the topology shown below

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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