Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.
Sequence		M	S	L	Y	Q	H	M	L	V	F	Y	A	V	M	A	A	I	A	F	L	I	T	W	F	L	S	H	D	K	K	R	I	R	F	L	S	A	F	L	V	G	A	T	W	P	M	S	F	P	V	A	L	L	F	S	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 2p7t chain C domain 1 Region: 14 - 29 Aligned: 16 Modelled: 16 Confidence: 22.5% Identity: 31% Fold: Voltage-gated potassium channels Superfamily: Voltage-gated potassium channels Family: Voltage-gated potassium channels Phyre2 PDB 1kzf chain A Region: 43 - 50 Aligned: 8 Modelled: 8 Confidence: 14.9% Identity: 63% Fold: Acyl-CoA N-acyltransferases (Nat) Superfamily: Acyl-CoA N-acyltransferases (Nat) Family: Autoinducer synthetase Phyre2 PDB 1ifl chain A Region: 36 - 51 Aligned: 16 Modelled: 16 Confidence: 11.6% Identity: 31% PDB header:virus Chain: A: PDB Molecule:inovirus; PDBTitle: molecular models and structural comparisons of native and2 mutant class i filamentous bacteriophages ff (fd, f1, m13),3 if1 and ike Phyre2 PDB 3b8e chain B Region: 4 - 13 Aligned: 10 Modelled: 10 Confidence: 9.6% Identity: 30% PDB header:hydrolase/transport protein Chain: B: PDB Molecule:sodium/potassium-transporting atpase subunit PDBTitle: crystal structure of the sodium-potassium pump Phyre2 PDB 2y69 chain X Region: 37 - 47 Aligned: 11 Modelled: 11 Confidence: 9.5% Identity: 36% PDB header:electron transport Chain: X: PDB Molecule:cytochrome c oxidase polypeptide 7b; PDBTitle: bovine heart cytochrome c oxidase re-refined with molecular2 oxygen Phyre2 PDB 1v54 chain K Region: 37 - 47 Aligned: 11 Modelled: 11 Confidence: 9.5% Identity: 36% Fold: Single transmembrane helix Superfamily: Mitochondrial cytochrome c oxidase subunit VIIb Family: Mitochondrial cytochrome c oxidase subunit VIIb Phyre2 PDB 1tub chain B domain 1 Region: 33 - 49 Aligned: 17 Modelled: 17 Confidence: 7.3% Identity: 35% Fold: Tubulin nucleotide-binding domain-like Superfamily: Tubulin nucleotide-binding domain-like Family: Tubulin, GTPase domain Phyre2 PDB 3ixz chain B Region: 4 - 13 Aligned: 10 Modelled: 10 Confidence: 6.2% Identity: 10% PDB header:hydrolase Chain: B: PDB Molecule:potassium-transporting atpase subunit beta; PDBTitle: pig gastric h+/k+-atpase complexed with aluminium fluoride Phyre2 1 d2p7tc1 2 d1kzfa_ 3 c1iflA_ 4 c3b8eB_ 5 c2y69X_ 6 d1v54k_ 7 d1tubb1 8 c3ixzB_

Detailed template information

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

1 d2p7tc1 22.5 31 Fold:Voltage-gated potassium channels Superfamily:Voltage-gated potassium channels Family:Voltage-gated potassium channels 2 d1kzfa_ 14.9 63 Fold:Acyl-CoA N-acyltransferases (Nat) Superfamily:Acyl-CoA N-acyltransferases (Nat) Family:Autoinducer synthetase 3 c1iflA_ 11.6 31 PDB header:virus Chain: A: PDB Molecule:inovirus; PDBTitle: molecular models and structural comparisons of native and2 mutant class i filamentous bacteriophages ff (fd, f1, m13),3 if1 and ike 4 c3b8eB_ 9.6 30 PDB header:hydrolase/transport protein Chain: B: PDB Molecule:sodium/potassium-transporting atpase subunit PDBTitle: crystal structure of the sodium-potassium pump 5 c2y69X_ 9.5 36 PDB header:electron transport Chain: X: PDB Molecule:cytochrome c oxidase polypeptide 7b; PDBTitle: bovine heart cytochrome c oxidase re-refined with molecular2 oxygen 6 d1v54k_ 9.5 36 Fold:Single transmembrane helix Superfamily:Mitochondrial cytochrome c oxidase subunit VIIb Family:Mitochondrial cytochrome c oxidase subunit VIIb 7 d1tubb1 7.3 35 Fold:Tubulin nucleotide-binding domain-like Superfamily:Tubulin nucleotide-binding domain-like Family:Tubulin, GTPase domain 8 c3ixzB_ 6.2 10 PDB header:hydrolase Chain: B: PDB Molecule:potassium-transporting atpase subunit beta; PDBTitle: pig gastric h+/k+-atpase complexed with aluminium fluoride

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

---

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