Secondary structure and disorder prediction

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Sequence		M	L	G	N	M	N	V	F	M	A	V	L	G	I	I	L	F	S	G	F	L	A	A	Y	F	S	H	K	W	D	D
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 3no7 chain A Region: 17 - 23 Aligned: 7 Modelled: 7 Confidence: 19.0% Identity: 86% PDB header:dna binding protein Chain: A: PDB Molecule:putative plasmid related protein; PDBTitle: crystal structure of the centromere-binding protein parb from plasmid2 pcxc100 Phyre2 PDB 3b8e chain B Region: 15 - 26 Aligned: 12 Modelled: 12 Confidence: 10.9% Identity: 42% PDB header:hydrolase/transport protein Chain: B: PDB Molecule:sodium/potassium-transporting atpase subunit PDBTitle: crystal structure of the sodium-potassium pump Phyre2 PDB 1d4o chain A Region: 1 - 10 Aligned: 10 Modelled: 10 Confidence: 10.4% Identity: 50% Fold: DHS-like NAD/FAD-binding domain Superfamily: DHS-like NAD/FAD-binding domain Family: Transhydrogenase domain III (dIII) Phyre2 PDB 1pno chain A Region: 1 - 10 Aligned: 10 Modelled: 10 Confidence: 9.8% Identity: 60% Fold: DHS-like NAD/FAD-binding domain Superfamily: DHS-like NAD/FAD-binding domain Family: Transhydrogenase domain III (dIII) Phyre2 PDB 2bru chain C Region: 1 - 10 Aligned: 10 Modelled: 10 Confidence: 9.8% Identity: 50% PDB header:oxidoreductase Chain: C: PDB Molecule:nad(p) transhydrogenase subunit beta; PDBTitle: complex of the domain i and domain iii of escherichia coli2 transhydrogenase Phyre2 PDB 1pt9 chain B Region: 1 - 10 Aligned: 10 Modelled: 10 Confidence: 9.6% Identity: 50% PDB header:oxidoreductase Chain: B: PDB Molecule:nad(p) transhydrogenase, mitochondrial; PDBTitle: crystal structure analysis of the diii component of transhydrogenase2 with a thio-nicotinamide nucleotide analogue Phyre2 PDB 1erf chain A Region: 16 - 23 Aligned: 8 Modelled: 8 Confidence: 6.5% Identity: 75% PDB header:viral protein Chain: A: PDB Molecule:transmembrane glycoprotein; PDBTitle: conformational mapping of the n-terminal fusion peptide of2 hiv-1 gp41 using 13c-enhanced fourier transform infrared3 spectroscopy (ftir) Phyre2 PDB 2pjv chain A Region: 16 - 23 Aligned: 8 Modelled: 8 Confidence: 6.4% Identity: 75% PDB header:viral protein Chain: A: PDB Molecule:envelope glycoprotein; PDBTitle: solution structure of hiv-1 gp41 fusion domain bound to dpc2 micelle Phyre2 PDB 3ixz chain B Region: 15 - 26 Aligned: 12 Modelled: 12 Confidence: 5.9% Identity: 17% PDB header:hydrolase Chain: B: PDB Molecule:potassium-transporting atpase subunit beta; PDBTitle: pig gastric h+/k+-atpase complexed with aluminium fluoride Phyre2 1 c3no7A_ 2 c3b8eB_ 3 d1d4oa_ 4 d1pnoa_ 5 c2bruC_ 6 c1pt9B_ 7 c1erfA_ 8 c2pjvA_ 9 c3ixzB_

Detailed template information

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

1 c3no7A_ 19.0 86 PDB header:dna binding protein Chain: A: PDB Molecule:putative plasmid related protein; PDBTitle: crystal structure of the centromere-binding protein parb from plasmid2 pcxc100 2 c3b8eB_ 10.9 42 PDB header:hydrolase/transport protein Chain: B: PDB Molecule:sodium/potassium-transporting atpase subunit PDBTitle: crystal structure of the sodium-potassium pump 3 d1d4oa_ 10.4 50 Fold:DHS-like NAD/FAD-binding domain Superfamily:DHS-like NAD/FAD-binding domain Family:Transhydrogenase domain III (dIII) 4 d1pnoa_ 9.8 60 Fold:DHS-like NAD/FAD-binding domain Superfamily:DHS-like NAD/FAD-binding domain Family:Transhydrogenase domain III (dIII) 5 c2bruC_ 9.8 50 PDB header:oxidoreductase Chain: C: PDB Molecule:nad(p) transhydrogenase subunit beta; PDBTitle: complex of the domain i and domain iii of escherichia coli2 transhydrogenase 6 c1pt9B_ 9.6 50 PDB header:oxidoreductase Chain: B: PDB Molecule:nad(p) transhydrogenase, mitochondrial; PDBTitle: crystal structure analysis of the diii component of transhydrogenase2 with a thio-nicotinamide nucleotide analogue 7 c1erfA_ 6.5 75 PDB header:viral protein Chain: A: PDB Molecule:transmembrane glycoprotein; PDBTitle: conformational mapping of the n-terminal fusion peptide of2 hiv-1 gp41 using 13c-enhanced fourier transform infrared3 spectroscopy (ftir) 8 c2pjvA_ 6.4 75 PDB header:viral protein Chain: A: PDB Molecule:envelope glycoprotein; PDBTitle: solution structure of hiv-1 gp41 fusion domain bound to dpc2 micelle 9 c3ixzB_ 5.9 17 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

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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