Secondary structure and disorder prediction

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Sequence		M	S	L	E	N	A	P	D	D	V	K	L	A	V	D	L	I	V	L	L	E	E	N	Q	I	P	A	S	T	V	L	R	A	L	D	I	V	K	R	D	Y	E	K	K	L	T	R	D	D	E	A	E	K
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 2w83 chain C Region: 33 - 45 Aligned: 13 Modelled: 13 Confidence: 53.1% Identity: 54% PDB header:protein transport Chain: C: PDB Molecule:c-jun-amino-terminal kinase-interacting protein PDBTitle: crystal structure of the arf6 gtpase in complex with a2 specific effector, jip4 Phyre2 PDB 2xgl chain B Region: 37 - 47 Aligned: 11 Modelled: 11 Confidence: 9.6% Identity: 45% PDB header:antibiotic Chain: B: PDB Molecule:colicin-m immunity protein; PDBTitle: the x-ray structure of the escherichia coli colicin m immunity2 protein demonstrates the presence of a disulphide bridge, which is3 functionally essential Phyre2 PDB 1tzz chain A domain 2 Region: 30 - 47 Aligned: 18 Modelled: 18 Confidence: 8.1% Identity: 17% Fold: Enolase N-terminal domain-like Superfamily: Enolase N-terminal domain-like Family: Enolase N-terminal domain-like Phyre2 PDB 1yrl chain D Region: 9 - 18 Aligned: 10 Modelled: 10 Confidence: 7.0% Identity: 20% PDB header:oxidoreductase Chain: D: PDB Molecule:ketol-acid reductoisomerase; PDBTitle: escherichia coli ketol-acid reductoisomerase Phyre2 PDB 1yey chain A domain 2 Region: 30 - 46 Aligned: 17 Modelled: 17 Confidence: 6.3% Identity: 12% Fold: Enolase N-terminal domain-like Superfamily: Enolase N-terminal domain-like Family: Enolase N-terminal domain-like Phyre2 PDB 2kzt chain A Region: 1 - 42 Aligned: 42 Modelled: 42 Confidence: 6.0% Identity: 17% PDB header:apoptosis Chain: A: PDB Molecule:programmed cell death protein 4; PDBTitle: structure of the tandem ma-3 region of pdcd4 Phyre2 PDB 2aqe chain A domain 1 Region: 1 - 44 Aligned: 44 Modelled: 44 Confidence: 5.7% Identity: 16% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Homeodomain-like Family: SWIRM domain Phyre2 PDB 2rg8 chain A Region: 1 - 42 Aligned: 42 Modelled: 42 Confidence: 5.7% Identity: 17% PDB header:apoptosis, translation Chain: A: PDB Molecule:programmed cell death protein 4; PDBTitle: crystal structure of programmed for cell death 4 middle ma32 domain Phyre2 1 c2w83C_ 2 c2xglB_ 3 d1tzza2 4 c1yrlD_ 5 d1yeya2 6 c2kztA_ 7 d2aqea1 8 c2rg8A_

Detailed template information

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

1 c2w83C_ 53.1 54 PDB header:protein transport Chain: C: PDB Molecule:c-jun-amino-terminal kinase-interacting protein PDBTitle: crystal structure of the arf6 gtpase in complex with a2 specific effector, jip4 2 c2xglB_ 9.6 45 PDB header:antibiotic Chain: B: PDB Molecule:colicin-m immunity protein; PDBTitle: the x-ray structure of the escherichia coli colicin m immunity2 protein demonstrates the presence of a disulphide bridge, which is3 functionally essential 3 d1tzza2 8.1 17 Fold:Enolase N-terminal domain-like Superfamily:Enolase N-terminal domain-like Family:Enolase N-terminal domain-like 4 c1yrlD_ 7.0 20 PDB header:oxidoreductase Chain: D: PDB Molecule:ketol-acid reductoisomerase; PDBTitle: escherichia coli ketol-acid reductoisomerase 5 d1yeya2 6.3 12 Fold:Enolase N-terminal domain-like Superfamily:Enolase N-terminal domain-like Family:Enolase N-terminal domain-like 6 c2kztA_ 6.0 17 PDB header:apoptosis Chain: A: PDB Molecule:programmed cell death protein 4; PDBTitle: structure of the tandem ma-3 region of pdcd4 7 d2aqea1 5.7 16 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:SWIRM domain 8 c2rg8A_ 5.7 17 PDB header:apoptosis, translation Chain: A: PDB Molecule:programmed cell death protein 4; PDBTitle: crystal structure of programmed for cell death 4 middle ma32 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