Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	K	K	V	F	L	C	A	I	L	A	S	L	S	Y	P	A	I	A	S	S	L	Q	D	Q	L	S	A	V	A	E	A	E	Q	Q	G	K	N	E	E	Q	R	Q	H	D	E	W	V	A	E	R	N	R	E	I	Q	Q	E	K	Q
Secondary structure
SS confidence
Disorder		?	?											?	?			?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		R	R	A	N	A	Q	A	A	A	N	K	R	A	A	T	A	A	A	N	K	K	A	R	Q	D	K	L	D	A	E	A	S	A	D	K	K	R	D	Q	S	Y	E	D	E	L	R	S	L	E	I	Q	K	Q	K	L	A	L	A	K	E
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.
Sequence		E	A	R	V	K	R	E	N	E	F	I	D	Q	E	L	K	H	K	A	A	Q	T	D	V	V	Q	S	E	A	D	A	N	R	N	M	T	E	G	G	R	D	L	M	K	S	V	G	K	A	E	E	N	K	S	D	S	W	F	N
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 1q90 chain G Region: 1 - 19 Aligned: 19 Modelled: 19 Confidence: 25.9% Identity: 37% PDB header:photosynthesis Chain: G: PDB Molecule:cytochrome b6f complex subunit petg; PDBTitle: structure of the cytochrome b6f (plastohydroquinone : plastocyanin2 oxidoreductase) from chlamydomonas reinhardtii Phyre2 PDB 1q90 chain G Region: 1 - 19 Aligned: 19 Modelled: 19 Confidence: 25.9% Identity: 37% Fold: Single transmembrane helix Superfamily: PetG subunit of the cytochrome b6f complex Family: PetG subunit of the cytochrome b6f complex Phyre2 PDB 2hjm chain B Region: 5 - 37 Aligned: 33 Modelled: 33 Confidence: 13.1% Identity: 24% PDB header:structural genomics, unknown function Chain: B: PDB Molecule:hypothetical protein pf1176; PDBTitle: crystal structure of a singleton protein pf1176 from p. furiosus Phyre2 PDB 2kqz chain A Region: 4 - 21 Aligned: 18 Modelled: 18 Confidence: 5.8% Identity: 33% PDB header:protein binding Chain: A: PDB Molecule:proteasomal ubiquitin receptor adrm1; PDBTitle: fragment of proteasome protein Phyre2 PDB 2koe chain A Region: 4 - 19 Aligned: 16 Modelled: 16 Confidence: 5.7% Identity: 19% PDB header:membrane protein, signaling protein Chain: A: PDB Molecule:human cannabinoid receptor 1 - helix 7/8 peptide; PDBTitle: human cannabinoid receptor 1 - helix 7/8 peptide Phyre2 PDB 1xnl chain A Region: 6 - 23 Aligned: 18 Modelled: 18 Confidence: 5.5% Identity: 28% PDB header:viral protein Chain: A: PDB Molecule:membrane protein gp37; PDBTitle: aslv fusion peptide Phyre2 PDB 3bya chain B Region: 2 - 16 Aligned: 15 Modelled: 15 Confidence: 5.4% Identity: 33% PDB header:metal binding protein Chain: B: PDB Molecule:glutamate [nmda] receptor subunit zeta-1 peptide; PDBTitle: structure of a calmodulin complex Phyre2 1 c1q90G_ 2 d1q90g_ 3 c2hjmB_ 4 c2kqzA_ 5 c2koeA_ 6 c1xnlA_ 7 c3byaB_

Detailed template information

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

1 c1q90G_ 25.9 37 PDB header:photosynthesis Chain: G: PDB Molecule:cytochrome b6f complex subunit petg; PDBTitle: structure of the cytochrome b6f (plastohydroquinone : plastocyanin2 oxidoreductase) from chlamydomonas reinhardtii 2 d1q90g_ 25.9 37 Fold:Single transmembrane helix Superfamily:PetG subunit of the cytochrome b6f complex Family:PetG subunit of the cytochrome b6f complex 3 c2hjmB_ 13.1 24 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:hypothetical protein pf1176; PDBTitle: crystal structure of a singleton protein pf1176 from p. furiosus 4 c2kqzA_ 5.8 33 PDB header:protein binding Chain: A: PDB Molecule:proteasomal ubiquitin receptor adrm1; PDBTitle: fragment of proteasome protein 5 c2koeA_ 5.7 19 PDB header:membrane protein, signaling protein Chain: A: PDB Molecule:human cannabinoid receptor 1 - helix 7/8 peptide; PDBTitle: human cannabinoid receptor 1 - helix 7/8 peptide 6 c1xnlA_ 5.5 28 PDB header:viral protein Chain: A: PDB Molecule:membrane protein gp37; PDBTitle: aslv fusion peptide 7 c3byaB_ 5.4 33 PDB header:metal binding protein Chain: B: PDB Molecule:glutamate [nmda] receptor subunit zeta-1 peptide; PDBTitle: structure of a calmodulin complex

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