Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	L	Q	L	L	L	A	V	F	I	G	G	G	T	G	S	V	A	R	W	L	L	S	M	R	F	N	P	L	H	Q	A	I	P	L	G	T	L	T	A	N	L	I	G	A	F	I	I	G	I	G	F	A	W	F	S	R	M	T	N
Secondary structure
SS confidence
Disorder		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		I	D	P	V	W	K	V	L	I	T	T	G	F	C	G	G	L	T	T	F	S	T	F	S	A	E	V	V	F	L	L	Q	E	G	R	F	G	W	A	L	L	N	V	F	V	N	L	L	G	S	F	A	M	T	A	L	A	F	W	L
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.
Sequence		F	S	A	S	T	A	H
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 1m2z chain E Region: 16 - 24 Aligned: 9 Modelled: 9 Confidence: 14.2% Identity: 33% PDB header:hormone/hormone activator Chain: E: PDB Molecule:nuclear receptor coactivator 2; PDBTitle: crystal structure of a dimer complex of the human2 glucocorticoid receptor ligand-binding domain bound to3 dexamethasone and a tif2 coactivator motif Phyre2 PDB 3gn8 chain C Region: 16 - 24 Aligned: 9 Modelled: 9 Confidence: 11.4% Identity: 33% PDB header:hormone/hormone activator Chain: C: PDB Molecule:nuclear receptor coactivator 2; PDBTitle: x-ray crystal structure of ancgr2 in complex with2 dexamethasone Phyre2 PDB 3gn8 chain E Region: 16 - 24 Aligned: 9 Modelled: 9 Confidence: 10.7% Identity: 33% PDB header:hormone/hormone activator Chain: E: PDB Molecule:nuclear receptor coactivator 2; PDBTitle: x-ray crystal structure of ancgr2 in complex with2 dexamethasone Phyre2 PDB 1m2z chain B Region: 16 - 24 Aligned: 9 Modelled: 9 Confidence: 9.6% Identity: 33% PDB header:hormone/hormone activator Chain: B: PDB Molecule:nuclear receptor coactivator 2; PDBTitle: crystal structure of a dimer complex of the human2 glucocorticoid receptor ligand-binding domain bound to3 dexamethasone and a tif2 coactivator motif Phyre2 PDB 2xok chain G Region: 72 - 79 Aligned: 8 Modelled: 8 Confidence: 8.9% Identity: 38% PDB header:hydrolase Chain: G: PDB Molecule:atp synthase subunit gamma, mitochondrial; PDBTitle: refined structure of yeast f1c10 atpase complex to 3 a2 resolution Phyre2 PDB 2qe7 chain G Region: 72 - 79 Aligned: 8 Modelled: 8 Confidence: 6.5% Identity: 25% PDB header:hydrolase Chain: G: PDB Molecule:atp synthase subunit gamma; PDBTitle: crystal structure of the f1-atpase from the thermoalkaliphilic2 bacterium bacillus sp. ta2.a1 Phyre2 PDB 2jdi chain G domain 1 Region: 72 - 79 Aligned: 8 Modelled: 8 Confidence: 6.4% Identity: 38% Fold: Pyruvate kinase C-terminal domain-like Superfamily: ATP synthase (F1-ATPase), gamma subunit Family: ATP synthase (F1-ATPase), gamma subunit Phyre2 PDB 1fs0 chain G Region: 72 - 79 Aligned: 8 Modelled: 8 Confidence: 6.2% Identity: 63% Fold: Pyruvate kinase C-terminal domain-like Superfamily: ATP synthase (F1-ATPase), gamma subunit Family: ATP synthase (F1-ATPase), gamma subunit Phyre2 PDB 1u7g chain A Region: 7 - 85 Aligned: 79 Modelled: 79 Confidence: 6.2% Identity: 14% Fold: Ammonium transporter Superfamily: Ammonium transporter Family: Ammonium transporter Phyre2 PDB 1sxd chain A Region: 75 - 86 Aligned: 12 Modelled: 12 Confidence: 5.7% Identity: 8% Fold: SAM domain-like Superfamily: SAM/Pointed domain Family: Pointed domain Phyre2 1 c1m2zE_ 2 c3gn8C_ 3 c3gn8E_ 4 c1m2zB_ 5 c2xokG_ 6 c2qe7G_ 7 d2jdig1 8 d1fs0g_ 9 d1u7ga_ 10 d1sxda_

Detailed template information

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

1 c1m2zE_ 14.2 33 PDB header:hormone/hormone activator Chain: E: PDB Molecule:nuclear receptor coactivator 2; PDBTitle: crystal structure of a dimer complex of the human2 glucocorticoid receptor ligand-binding domain bound to3 dexamethasone and a tif2 coactivator motif 2 c3gn8C_ 11.4 33 PDB header:hormone/hormone activator Chain: C: PDB Molecule:nuclear receptor coactivator 2; PDBTitle: x-ray crystal structure of ancgr2 in complex with2 dexamethasone 3 c3gn8E_ 10.7 33 PDB header:hormone/hormone activator Chain: E: PDB Molecule:nuclear receptor coactivator 2; PDBTitle: x-ray crystal structure of ancgr2 in complex with2 dexamethasone 4 c1m2zB_ 9.6 33 PDB header:hormone/hormone activator Chain: B: PDB Molecule:nuclear receptor coactivator 2; PDBTitle: crystal structure of a dimer complex of the human2 glucocorticoid receptor ligand-binding domain bound to3 dexamethasone and a tif2 coactivator motif 5 c2xokG_ 8.9 38 PDB header:hydrolase Chain: G: PDB Molecule:atp synthase subunit gamma, mitochondrial; PDBTitle: refined structure of yeast f1c10 atpase complex to 3 a2 resolution 6 c2qe7G_ 6.5 25 PDB header:hydrolase Chain: G: PDB Molecule:atp synthase subunit gamma; PDBTitle: crystal structure of the f1-atpase from the thermoalkaliphilic2 bacterium bacillus sp. ta2.a1 7 d2jdig1 6.4 38 Fold:Pyruvate kinase C-terminal domain-like Superfamily:ATP synthase (F1-ATPase), gamma subunit Family:ATP synthase (F1-ATPase), gamma subunit 8 d1fs0g_ 6.2 63 Fold:Pyruvate kinase C-terminal domain-like Superfamily:ATP synthase (F1-ATPase), gamma subunit Family:ATP synthase (F1-ATPase), gamma subunit 9 d1u7ga_ 6.2 14 Fold:Ammonium transporter Superfamily:Ammonium transporter Family:Ammonium transporter 10 d1sxda_ 5.7 8 Fold:SAM domain-like Superfamily:SAM/Pointed domain Family:Pointed 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

Transmembrane helix prediction

Transmembrane helices have been predicted in your sequence to adopt the topology shown below

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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