Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	Q	K	V	K	L	P	L	T	L	D	P	V	R	T	A	Q	K	R	L	D	Y	Q	G	I	Y	T	P	D	Q	V	E	R	V	A	E	S	V	V	S	V	D	S	D	V	E	C	S	M	S	F	A	I	D	N	Q	R	L	A	V
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?																																		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		L	N	G	D	A	K	V	T	V	T	L	E	C	Q	R	C	G	K	P	F	T	H	Q	V	Y	T	T	Y	C	F	S	P	V	R	S	D	E	Q	A	E	A	L	P	E	A	Y	E	P	I	E	V	N	E	F	G	E	I	D	L	L
Secondary structure
SS confidence
Disorder																																							?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.
Sequence		A	M	V	E	D	E	I	I	L	A	L	P	V	V	P	V	H	D	S	E	H	C	E	V	S	E	A	D	M	V	F	G	E	L	P	E	E	A	Q	K	P	N	P	F	A	V	L	A	S	L	K	R	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 3owt chain C Region: 164 - 173 Aligned: 10 Modelled: 10 Confidence: 30.5% Identity: 60% PDB header:protein binding Chain: C: PDB Molecule:regulatory protein sir3; PDBTitle: crystal structure of s. cerevisiae rap1-sir3 complex Phyre2 PDB 3s32 chain A Region: 67 - 81 Aligned: 15 Modelled: 15 Confidence: 15.1% Identity: 47% PDB header:transcription Chain: A: PDB Molecule:set1/ash2 histone methyltransferase complex subunit ash2; PDBTitle: crystal structure of ash2l n-terminal domain Phyre2 PDB 1wig chain A domain 2 Region: 73 - 80 Aligned: 8 Modelled: 8 Confidence: 7.6% Identity: 63% Fold: Glucocorticoid receptor-like (DNA-binding domain) Superfamily: Glucocorticoid receptor-like (DNA-binding domain) Family: LIM domain Phyre2 PDB 1g47 chain A domain 1 Region: 72 - 81 Aligned: 10 Modelled: 10 Confidence: 7.5% Identity: 40% Fold: Glucocorticoid receptor-like (DNA-binding domain) Superfamily: Glucocorticoid receptor-like (DNA-binding domain) Family: LIM domain Phyre2 PDB 1zfo chain A Region: 72 - 80 Aligned: 9 Modelled: 9 Confidence: 6.8% Identity: 56% Fold: Glucocorticoid receptor-like (DNA-binding domain) Superfamily: Glucocorticoid receptor-like (DNA-binding domain) Family: LASP-1 Phyre2 PDB 2dlo chain A domain 2 Region: 73 - 85 Aligned: 13 Modelled: 13 Confidence: 5.7% Identity: 23% Fold: Glucocorticoid receptor-like (DNA-binding domain) Superfamily: Glucocorticoid receptor-like (DNA-binding domain) Family: LIM domain Phyre2 PDB 1zup chain A domain 1 Region: 51 - 96 Aligned: 46 Modelled: 46 Confidence: 5.7% Identity: 7% Fold: Ribonuclease H-like motif Superfamily: Ribonuclease H-like Family: TM1739-like Phyre2 PDB 1es6 chain A domain 2 Region: 63 - 83 Aligned: 21 Modelled: 21 Confidence: 5.5% Identity: 29% Fold: EV matrix protein Superfamily: EV matrix protein Family: EV matrix protein Phyre2 PDB 2cup chain A domain 2 Region: 73 - 80 Aligned: 8 Modelled: 8 Confidence: 5.4% Identity: 38% Fold: Glucocorticoid receptor-like (DNA-binding domain) Superfamily: Glucocorticoid receptor-like (DNA-binding domain) Family: LIM domain Phyre2 1 c3owtC_ 2 c3s32A_ 3 d1wiga2 4 d1g47a1 5 d1zfoa_ 6 d2dloa2 7 d1zupa1 8 d1es6a2 9 d2cupa2

Detailed template information

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

1 c3owtC_ 30.5 60 PDB header:protein binding Chain: C: PDB Molecule:regulatory protein sir3; PDBTitle: crystal structure of s. cerevisiae rap1-sir3 complex 2 c3s32A_ 15.1 47 PDB header:transcription Chain: A: PDB Molecule:set1/ash2 histone methyltransferase complex subunit ash2; PDBTitle: crystal structure of ash2l n-terminal domain 3 d1wiga2 7.6 63 Fold:Glucocorticoid receptor-like (DNA-binding domain) Superfamily:Glucocorticoid receptor-like (DNA-binding domain) Family:LIM domain 4 d1g47a1 7.5 40 Fold:Glucocorticoid receptor-like (DNA-binding domain) Superfamily:Glucocorticoid receptor-like (DNA-binding domain) Family:LIM domain 5 d1zfoa_ 6.8 56 Fold:Glucocorticoid receptor-like (DNA-binding domain) Superfamily:Glucocorticoid receptor-like (DNA-binding domain) Family:LASP-1 6 d2dloa2 5.7 23 Fold:Glucocorticoid receptor-like (DNA-binding domain) Superfamily:Glucocorticoid receptor-like (DNA-binding domain) Family:LIM domain 7 d1zupa1 5.7 7 Fold:Ribonuclease H-like motif Superfamily:Ribonuclease H-like Family:TM1739-like 8 d1es6a2 5.5 29 Fold:EV matrix protein Superfamily:EV matrix protein Family:EV matrix protein 9 d2cupa2 5.4 38 Fold:Glucocorticoid receptor-like (DNA-binding domain) Superfamily:Glucocorticoid receptor-like (DNA-binding domain) Family:LIM 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