Secondary structure and disorder prediction

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10

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20

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40

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50

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60

Sequence

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P

K

I

K

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V

R

G

A

A

K

R

F

K

K

T

G

K

G

G

F

K

H

K

H

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N

L

R

H

I

L

T

K

K

A

T

K

R

K

R

H

L

R

P

K

A

M

V

S

K

G

D

L

G

L

V

I

A

Secondary structure

SS confidence

Disorder

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Disorder confidence

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Sequence

C

L

P

Y

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 2qam chain 3 domain 1 Region: 2 - 65 Aligned: 64 Modelled: 64 Confidence: 100.0% Identity: 100% Fold: L35p-like Superfamily: L35p-like Family: Ribosomal protein L35p Phyre2 PDB 2j01 chain 8 domain 1 Region: 2 - 64 Aligned: 63 Modelled: 63 Confidence: 100.0% Identity: 33% Fold: L35p-like Superfamily: L35p-like Family: Ribosomal protein L35p Phyre2 PDB 3bbo chain 5 Region: 3 - 64 Aligned: 62 Modelled: 62 Confidence: 100.0% Identity: 45% PDB header:ribosome Chain: 5: PDB Molecule:ribosomal protein l35; PDBTitle: homology model for the spinach chloroplast 50s subunit2 fitted to 9.4a cryo-em map of the 70s chlororibosome Phyre2 1 d2qam31 2 d2j0181 3 c3bbo5_

Detailed template information

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

1 d2qam31 100.0 100 Fold:L35p-like Superfamily:L35p-like Family:Ribosomal protein L35p 2 d2j0181 100.0 33 Fold:L35p-like Superfamily:L35p-like Family:Ribosomal protein L35p 3 c3bbo5_ 100.0 45 PDB header:ribosome Chain: 5: PDB Molecule:ribosomal protein l35; PDBTitle: homology model for the spinach chloroplast 50s subunit2 fitted to 9.4a cryo-em map of the 70s chlororibosome

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