Secondary structure and disorder prediction

1

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10

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20

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30

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40

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50

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60

Sequence

M

K

K

V

L

A

L

V

V

A

A

A

M

G

L

S

S

A

A

F

A

A

E

T

T

T

T

P

A

P

T

A

T

T

T

K

A

A

P

A

K

T

T

H

H

K

K

Q

H

K

A

A

P

A

Q

K

A

Q

A

A

Secondary structure

SS confidence

Disorder

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Disorder confidence

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70

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80

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90

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100

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Sequence

K

K

H

H

K

N

T

K

A

E

Q

K

A

P

E

Q

K

A

Q

A

A

K

K

H

A

K

K

H

S

H

Q

Q

P

A

K

P

A

A

Q

P

A

A

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 2e74 chain G domain 1 Region: 4 - 20 Aligned: 17 Modelled: 17 Confidence: 17.1% Identity: 53% Fold: Single transmembrane helix Superfamily: PetG subunit of the cytochrome b6f complex Family: PetG subunit of the cytochrome b6f complex Phyre2 PDB 1vf5 chain G Region: 4 - 20 Aligned: 17 Modelled: 17 Confidence: 16.8% Identity: 53% PDB header:photosynthesis Chain: G: PDB Molecule:protein pet g; PDBTitle: crystal structure of cytochrome b6f complex from m.laminosus Phyre2 PDB 1vf5 chain G Region: 4 - 20 Aligned: 17 Modelled: 17 Confidence: 16.8% Identity: 53% Fold: Single transmembrane helix Superfamily: PetG subunit of the cytochrome b6f complex Family: PetG subunit of the cytochrome b6f complex Phyre2 PDB 1kdl chain A Region: 1 - 8 Aligned: 8 Modelled: 8 Confidence: 6.4% Identity: 63% PDB header:structural protein Chain: A: PDB Molecule:yopd protein; PDBTitle: solution structure of the amphipathic domain of yopd from2 yersinia Phyre2 1 d2e74g1 2 c1vf5G_ 3 d1vf5g_ 4 c1kdlA_

Detailed template information

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

1 d2e74g1 17.1 53 Fold:Single transmembrane helix Superfamily:PetG subunit of the cytochrome b6f complex Family:PetG subunit of the cytochrome b6f complex 2 c1vf5G_ 16.8 53 PDB header:photosynthesis Chain: G: PDB Molecule:protein pet g; PDBTitle: crystal structure of cytochrome b6f complex from m.laminosus 3 d1vf5g_ 16.8 53 Fold:Single transmembrane helix Superfamily:PetG subunit of the cytochrome b6f complex Family:PetG subunit of the cytochrome b6f complex 4 c1kdlA_ 6.4 63 PDB header:structural protein Chain: A: PDB Molecule:yopd protein; PDBTitle: solution structure of the amphipathic domain of yopd from2 yersinia

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