Secondary structure and disorder prediction

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Sequence		M	W	Y	L	L	W	F	V	G	I	L	L	M	C	S	L	S	T	L	V	L	V	W	L	D	P	R	L	K	S
Secondary structure
SS confidence
Disorder		?																								?			?	?	?
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 2e74 chain B domain 1 Region: 2 - 11 Aligned: 10 Modelled: 10 Confidence: 22.4% Identity: 50% Fold: a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) Superfamily: a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) Family: a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) Phyre2 PDB 1q90 chain D Region: 2 - 11 Aligned: 10 Modelled: 10 Confidence: 21.8% Identity: 40% Fold: a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) Superfamily: a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) Family: a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) Phyre2 PDB 1bcc chain C domain 2 Region: 2 - 11 Aligned: 10 Modelled: 10 Confidence: 18.6% Identity: 50% Fold: a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) Superfamily: a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) Family: a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) Phyre2 PDB 1ppj chain C domain 1 Region: 2 - 11 Aligned: 10 Modelled: 10 Confidence: 16.5% Identity: 50% Fold: a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) Superfamily: a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) Family: a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) Phyre2 PDB 3cx5 chain C domain 1 Region: 2 - 11 Aligned: 10 Modelled: 10 Confidence: 16.4% Identity: 70% Fold: a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) Superfamily: a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) Family: a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) Phyre2 PDB 2ys9 chain A Region: 20 - 28 Aligned: 9 Modelled: 9 Confidence: 16.2% Identity: 67% PDB header:transcription Chain: A: PDB Molecule:homeobox and leucine zipper protein homez; PDBTitle: structure of the third homeodomain from the human homeobox2 and leucine zipper protein, homez Phyre2 PDB 1vf5 chain B Region: 2 - 11 Aligned: 10 Modelled: 10 Confidence: 16.0% Identity: 50% Fold: a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) Superfamily: a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) Family: a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) Phyre2 PDB 1z65 chain A Region: 6 - 19 Aligned: 14 Modelled: 14 Confidence: 14.7% Identity: 50% PDB header:unknown function Chain: A: PDB Molecule:prion-like protein doppel; PDBTitle: mouse doppel 1-30 peptide Phyre2 PDB 1tj1 chain A domain 1 Region: 9 - 14 Aligned: 6 Modelled: 6 Confidence: 11.5% Identity: 67% Fold: N-terminal domain of bifunctional PutA protein Superfamily: N-terminal domain of bifunctional PutA protein Family: N-terminal domain of bifunctional PutA protein Phyre2 PDB 3cx5 chain N Region: 2 - 11 Aligned: 10 Modelled: 10 Confidence: 6.9% Identity: 70% PDB header:oxidoreductase Chain: N: PDB Molecule:cytochrome b; PDBTitle: structure of complex iii with bound cytochrome c in reduced2 state and definition of a minimal core interface for3 electron transfer. Phyre2 PDB 2qjk chain M Region: 2 - 11 Aligned: 10 Modelled: 10 Confidence: 6.8% Identity: 60% PDB header:electron transport Chain: M: PDB Molecule:cytochrome b; PDBTitle: crystal structure analysis of mutant rhodobacter2 sphaeroides bc1 with stigmatellin and antimycin Phyre2 PDB 3cwb chain C Region: 2 - 11 Aligned: 10 Modelled: 10 Confidence: 6.4% Identity: 50% PDB header:oxidoreductase Chain: C: PDB Molecule:cytochrome b; PDBTitle: chicken cytochrome bc1 complex inhibited by an iodinated analogue of2 the polyketide crocacin-d Phyre2 PDB 2kne chain B Region: 4 - 10 Aligned: 7 Modelled: 7 Confidence: 6.0% Identity: 57% PDB header:metal transport Chain: B: PDB Molecule:atpase, ca++ transporting, plasma membrane 4; PDBTitle: calmodulin wraps around its binding domain in the plasma2 membrane ca2+ pump anchored by a novel 18-1 motif Phyre2 PDB 2wfv chain A Region: 14 - 19 Aligned: 6 Modelled: 6 Confidence: 5.8% Identity: 83% PDB header:signaling protein Chain: A: PDB Molecule:probable insulin-like peptide 5 a chain; PDBTitle: crystal structure of dilp5 variant c4 Phyre2 PDB 2p7t chain C domain 1 Region: 6 - 9 Aligned: 4 Modelled: 4 Confidence: 5.8% Identity: 100% Fold: Voltage-gated potassium channels Superfamily: Voltage-gated potassium channels Family: Voltage-gated potassium channels Phyre2 PDB 2wfu chain A Region: 14 - 19 Aligned: 6 Modelled: 6 Confidence: 5.8% Identity: 83% PDB header:signaling protein Chain: A: PDB Molecule:probable insulin-like peptide 5 a chain; PDBTitle: crystal structure of dilp5 variant db Phyre2 1 d2e74b1 2 d1q90d_ 3 d1bccc2 4 d1ppjc1 5 d3cx5c1 6 c2ys9A_ 7 d1vf5b_ 8 c1z65A_ 9 d1tj1a1 10 c3cx5N_ 11 c2qjkM_ 12 c3cwbC_ 13 c2kneB_ 14 c2wfvA_ 15 d2p7tc1 16 c2wfuA_

Detailed template information

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

1 d2e74b1 22.4 50 Fold:a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) Superfamily:a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) Family:a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) 2 d1q90d_ 21.8 40 Fold:a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) Superfamily:a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) Family:a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) 3 d1bccc2 18.6 50 Fold:a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) Superfamily:a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) Family:a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) 4 d1ppjc1 16.5 50 Fold:a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) Superfamily:a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) Family:a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) 5 d3cx5c1 16.4 70 Fold:a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) Superfamily:a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) Family:a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) 6 c2ys9A_ 16.2 67 PDB header:transcription Chain: A: PDB Molecule:homeobox and leucine zipper protein homez; PDBTitle: structure of the third homeodomain from the human homeobox2 and leucine zipper protein, homez 7 d1vf5b_ 16.0 50 Fold:a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) Superfamily:a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) Family:a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) 8 c1z65A_ 14.7 50 PDB header:unknown function Chain: A: PDB Molecule:prion-like protein doppel; PDBTitle: mouse doppel 1-30 peptide 9 d1tj1a1 11.5 67 Fold:N-terminal domain of bifunctional PutA protein Superfamily:N-terminal domain of bifunctional PutA protein Family:N-terminal domain of bifunctional PutA protein 10 c3cx5N_ 6.9 70 PDB header:oxidoreductase Chain: N: PDB Molecule:cytochrome b; PDBTitle: structure of complex iii with bound cytochrome c in reduced2 state and definition of a minimal core interface for3 electron transfer. 11 c2qjkM_ 6.8 60 PDB header:electron transport Chain: M: PDB Molecule:cytochrome b; PDBTitle: crystal structure analysis of mutant rhodobacter2 sphaeroides bc1 with stigmatellin and antimycin 12 c3cwbC_ 6.4 50 PDB header:oxidoreductase Chain: C: PDB Molecule:cytochrome b; PDBTitle: chicken cytochrome bc1 complex inhibited by an iodinated analogue of2 the polyketide crocacin-d 13 c2kneB_ 6.0 57 PDB header:metal transport Chain: B: PDB Molecule:atpase, ca++ transporting, plasma membrane 4; PDBTitle: calmodulin wraps around its binding domain in the plasma2 membrane ca2+ pump anchored by a novel 18-1 motif 14 c2wfvA_ 5.8 83 PDB header:signaling protein Chain: A: PDB Molecule:probable insulin-like peptide 5 a chain; PDBTitle: crystal structure of dilp5 variant c4 15 d2p7tc1 5.8 100 Fold:Voltage-gated potassium channels Superfamily:Voltage-gated potassium channels Family:Voltage-gated potassium channels 16 c2wfuA_ 5.8 83 PDB header:signaling protein Chain: A: PDB Molecule:probable insulin-like peptide 5 a chain; PDBTitle: crystal structure of dilp5 variant db

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

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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