Secondary structure and disorder prediction

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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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Sequence

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A

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P

L

I

R

V

M

N

G

H

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Y

R

V

P

N

R

R

K

R

K

P

E

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K

P

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E

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P

T

L

L

G

Y

T

A

S

L

V

D

K

K

W

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R

L

A

A

R

R

S

H

G

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 2v5i chain A Region: 14 - 43 Aligned: 30 Modelled: 30 Confidence: 15.3% Identity: 30% PDB header:viral protein Chain: A: PDB Molecule:salmonella typhimurium db7155 bacteriophage det7 PDBTitle: structure of the receptor-binding protein of bacteriophage2 det7: a podoviral tailspike in a myovirus Phyre2 PDB 1uww chain A Region: 24 - 30 Aligned: 7 Modelled: 7 Confidence: 12.1% Identity: 71% Fold: Galactose-binding domain-like Superfamily: Galactose-binding domain-like Family: Family 28 carbohydrate binding module, CBM28 Phyre2 PDB 1tyw chain A Region: 14 - 43 Aligned: 30 Modelled: 30 Confidence: 9.6% Identity: 33% Fold: Single-stranded right-handed beta-helix Superfamily: Pectin lyase-like Family: P22 tailspike protein Phyre2 PDB 3acg chain A Region: 24 - 30 Aligned: 7 Modelled: 7 Confidence: 8.6% Identity: 57% PDB header:hydrolase Chain: A: PDB Molecule:beta-1,4-endoglucanase; PDBTitle: crystal structure of carbohydrate-binding module family 282 from clostridium josui cel5a in complex with cellobiose Phyre2 PDB 2dla chain B Region: 19 - 31 Aligned: 13 Modelled: 13 Confidence: 8.2% Identity: 69% PDB header:replication Chain: B: PDB Molecule:397aa long hypothetical protein; PDBTitle: primase large subunit amino terminal domain from pyrococcus horikoshii Phyre2 PDB 2xc1 chain A Region: 14 - 43 Aligned: 30 Modelled: 30 Confidence: 6.8% Identity: 33% PDB header:hydrolase Chain: A: PDB Molecule:bifunctional tail protein; PDBTitle: full-length tailspike protein mutant y108w of bacteriophage2 p22 Phyre2 PDB 3ech chain C Region: 47 - 54 Aligned: 8 Modelled: 8 Confidence: 6.8% Identity: 75% PDB header:transcription, transcription regulation Chain: C: PDB Molecule:25-mer fragment of protein armr; PDBTitle: the marr-family repressor mexr in complex with its antirepressor armr Phyre2 PDB 2wg3 chain C Region: 10 - 41 Aligned: 32 Modelled: 32 Confidence: 6.7% Identity: 34% PDB header:signaling protein Chain: C: PDB Molecule:hedgehog-interacting protein; PDBTitle: crystal structure of the complex between human hedgehog-2 interacting protein hip and desert hedgehog without calcium Phyre2 PDB 1ed7 chain A Region: 10 - 34 Aligned: 25 Modelled: 25 Confidence: 5.8% Identity: 28% Fold: WW domain-like Superfamily: Carbohydrate binding domain Family: Carbohydrate binding domain Phyre2 1 c2v5iA_ 2 d1uwwa_ 3 d1tywa_ 4 c3acgA_ 5 c2dlaB_ 6 c2xc1A_ 7 c3echC_ 8 c2wg3C_ 9 d1ed7a_

Detailed template information

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

1 c2v5iA_ 15.3 30 PDB header:viral protein Chain: A: PDB Molecule:salmonella typhimurium db7155 bacteriophage det7 PDBTitle: structure of the receptor-binding protein of bacteriophage2 det7: a podoviral tailspike in a myovirus 2 d1uwwa_ 12.1 71 Fold:Galactose-binding domain-like Superfamily:Galactose-binding domain-like Family:Family 28 carbohydrate binding module, CBM28 3 d1tywa_ 9.6 33 Fold:Single-stranded right-handed beta-helix Superfamily:Pectin lyase-like Family:P22 tailspike protein 4 c3acgA_ 8.6 57 PDB header:hydrolase Chain: A: PDB Molecule:beta-1,4-endoglucanase; PDBTitle: crystal structure of carbohydrate-binding module family 282 from clostridium josui cel5a in complex with cellobiose 5 c2dlaB_ 8.2 69 PDB header:replication Chain: B: PDB Molecule:397aa long hypothetical protein; PDBTitle: primase large subunit amino terminal domain from pyrococcus horikoshii 6 c2xc1A_ 6.8 33 PDB header:hydrolase Chain: A: PDB Molecule:bifunctional tail protein; PDBTitle: full-length tailspike protein mutant y108w of bacteriophage2 p22 7 c3echC_ 6.8 75 PDB header:transcription, transcription regulation Chain: C: PDB Molecule:25-mer fragment of protein armr; PDBTitle: the marr-family repressor mexr in complex with its antirepressor armr 8 c2wg3C_ 6.7 34 PDB header:signaling protein Chain: C: PDB Molecule:hedgehog-interacting protein; PDBTitle: crystal structure of the complex between human hedgehog-2 interacting protein hip and desert hedgehog without calcium 9 d1ed7a_ 5.8 28 Fold:WW domain-like Superfamily:Carbohydrate binding domain Family:Carbohydrate binding domain

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