Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.
Sequence		M	N	F	L	M	R	A	I	F	S	L	L	L	L	F	T	L	S	I	P	V	I	S	D	C	V	A	M	A	I	E	S	R	F	K	Y	M	M	L	L	F
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 2zt9 chain H Region: 1 - 22 Aligned: 22 Modelled: 22 Confidence: 29.1% Identity: 41% PDB header:photosynthesis Chain: H: PDB Molecule:cytochrome b6-f complex subunit 8; PDBTitle: crystal structure of the cytochrome b6f complex from nostoc sp. pcc2 7120 Phyre2 PDB 2e74 chain H domain 1 Region: 10 - 22 Aligned: 13 Modelled: 13 Confidence: 8.2% Identity: 46% Fold: Single transmembrane helix Superfamily: PetN subunit of the cytochrome b6f complex Family: PetN subunit of the cytochrome b6f complex Phyre2 PDB 1vf5 chain U Region: 10 - 22 Aligned: 13 Modelled: 13 Confidence: 8.2% Identity: 46% PDB header:photosynthesis Chain: U: PDB Molecule:protein pet n; PDBTitle: crystal structure of cytochrome b6f complex from m.laminosus Phyre2 PDB 1vf5 chain H Region: 10 - 22 Aligned: 13 Modelled: 13 Confidence: 8.2% Identity: 46% PDB header:photosynthesis Chain: H: PDB Molecule:protein pet n; PDBTitle: crystal structure of cytochrome b6f complex from m.laminosus Phyre2 PDB 1d1d chain A domain 1 Region: 20 - 26 Aligned: 7 Modelled: 7 Confidence: 8.1% Identity: 71% Fold: Acyl carrier protein-like Superfamily: Retrovirus capsid dimerization domain-like Family: Retrovirus capsid protein C-terminal domain Phyre2 PDB 2d2c chain H Region: 11 - 22 Aligned: 12 Modelled: 12 Confidence: 6.5% Identity: 50% PDB header:photosynthesis Chain: H: PDB Molecule:cytochrome b6-f complex subunit viii; PDBTitle: crystal structure of cytochrome b6f complex with dbmib from2 m. laminosus Phyre2 PDB 2d2c chain U Region: 11 - 22 Aligned: 12 Modelled: 12 Confidence: 6.5% Identity: 50% PDB header:photosynthesis Chain: U: PDB Molecule:cytochrome b6-f complex subunit viii; PDBTitle: crystal structure of cytochrome b6f complex with dbmib from2 m. laminosus Phyre2 PDB 1n93 chain X Region: 27 - 38 Aligned: 12 Modelled: 12 Confidence: 6.0% Identity: 58% Fold: P40 nucleoprotein Superfamily: P40 nucleoprotein Family: P40 nucleoprotein Phyre2 PDB 1n93 chain X Region: 27 - 38 Aligned: 12 Modelled: 12 Confidence: 6.0% Identity: 58% PDB header:viral protein Chain: X: PDB Molecule:p40 nucleoprotein; PDBTitle: crystal structure of the borna disease virus nucleoprotein Phyre2 1 c2zt9H_ 2 d2e74h1 3 c1vf5U_ 4 c1vf5H_ 5 d1d1da1 6 c2d2cH_ 7 c2d2cU_ 8 d1n93x_ 9 c1n93X_

Detailed template information

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

1 c2zt9H_ 29.1 41 PDB header:photosynthesis Chain: H: PDB Molecule:cytochrome b6-f complex subunit 8; PDBTitle: crystal structure of the cytochrome b6f complex from nostoc sp. pcc2 7120 2 d2e74h1 8.2 46 Fold:Single transmembrane helix Superfamily:PetN subunit of the cytochrome b6f complex Family:PetN subunit of the cytochrome b6f complex 3 c1vf5U_ 8.2 46 PDB header:photosynthesis Chain: U: PDB Molecule:protein pet n; PDBTitle: crystal structure of cytochrome b6f complex from m.laminosus 4 c1vf5H_ 8.2 46 PDB header:photosynthesis Chain: H: PDB Molecule:protein pet n; PDBTitle: crystal structure of cytochrome b6f complex from m.laminosus 5 d1d1da1 8.1 71 Fold:Acyl carrier protein-like Superfamily:Retrovirus capsid dimerization domain-like Family:Retrovirus capsid protein C-terminal domain 6 c2d2cH_ 6.5 50 PDB header:photosynthesis Chain: H: PDB Molecule:cytochrome b6-f complex subunit viii; PDBTitle: crystal structure of cytochrome b6f complex with dbmib from2 m. laminosus 7 c2d2cU_ 6.5 50 PDB header:photosynthesis Chain: U: PDB Molecule:cytochrome b6-f complex subunit viii; PDBTitle: crystal structure of cytochrome b6f complex with dbmib from2 m. laminosus 8 d1n93x_ 6.0 58 Fold:P40 nucleoprotein Superfamily:P40 nucleoprotein Family:P40 nucleoprotein 9 c1n93X_ 6.0 58 PDB header:viral protein Chain: X: PDB Molecule:p40 nucleoprotein; PDBTitle: crystal structure of the borna disease virus nucleoprotein

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