Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	K	Q	F	L	D	F	L	P	L	V	V	F	F	A	F	Y	K	I	Y	D	I	Y	A	A	T	A	A	L	I	V	A	T	A	I	V	L	I	Y	S	W	V	R	F	R	K	V	E	K	M	A	L	I	T	F	V	L	V	V	V
Secondary structure
SS confidence
Disorder		?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		F	G	G	L	T	L	F	F	H	N	D	E	F	I	K	W	K	V	T	V	I	Y	A	L	F	A	G	A	L	L	V	S	Q	W	V	M	K	K	P	L	I	Q	R	M	L	G	K	E	L	T	L	P	Q	P	V	W	S	K	L	N
Secondary structure
SS confidence
Disorder																																															?				?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.
Sequence		L	A	W	A	V	F	F	I	L	C	G	L	A	N	I	Y	I	A	F	W	L	P	Q	N	I	W	V	N	F	K	V	F	G	L	T	A	L	T	L	I	F	T	L	L	S	G	I	Y	I	Y	R	H	M	P	Q	E	D	K	S
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 2a5y chain B domain 2 Region: 2 - 17 Aligned: 16 Modelled: 16 Confidence: 11.8% Identity: 31% Fold: DEATH domain Superfamily: DEATH domain Family: Caspase recruitment domain, CARD Phyre2 PDB 2xl1 chain A Region: 111 - 120 Aligned: 10 Modelled: 10 Confidence: 10.0% Identity: 40% PDB header:translation Chain: A: PDB Molecule:arginine attenuator peptide; PDBTitle: structural basis of translational stalling by human cytomegalovirus2 (hcmv) and fungal arginine attenuator peptide (aap) Phyre2 PDB 2kyg chain C Region: 111 - 118 Aligned: 8 Modelled: 8 Confidence: 9.0% Identity: 38% PDB header:protein binding Chain: C: PDB Molecule:protein cbfa2t1; PDBTitle: structure of the aml1-eto nervy domain - pka(riia) complex and its2 contribution to aml1-eto activity Phyre2 PDB 1ckm chain A domain 2 Region: 70 - 78 Aligned: 9 Modelled: 9 Confidence: 9.0% Identity: 33% Fold: ATP-grasp Superfamily: DNA ligase/mRNA capping enzyme, catalytic domain Family: mRNA capping enzyme Phyre2 PDB 1p16 chain A domain 2 Region: 70 - 78 Aligned: 9 Modelled: 9 Confidence: 7.7% Identity: 33% Fold: ATP-grasp Superfamily: DNA ligase/mRNA capping enzyme, catalytic domain Family: mRNA capping enzyme Phyre2 PDB 3s0x chain B Region: 26 - 89 Aligned: 64 Modelled: 63 Confidence: 7.1% Identity: 14% PDB header:hydrolase Chain: B: PDB Molecule:peptidase a24b, flak domain protein; PDBTitle: the crystal structure of gxgd membrane protease flak Phyre2 1 d2a5yb2 2 c2xl1A_ 3 c2kygC_ 4 d1ckma2 5 d1p16a2 6 c3s0xB_

Detailed template information

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

1 d2a5yb2 11.8 31 Fold:DEATH domain Superfamily:DEATH domain Family:Caspase recruitment domain, CARD 2 c2xl1A_ 10.0 40 PDB header:translation Chain: A: PDB Molecule:arginine attenuator peptide; PDBTitle: structural basis of translational stalling by human cytomegalovirus2 (hcmv) and fungal arginine attenuator peptide (aap) 3 c2kygC_ 9.0 38 PDB header:protein binding Chain: C: PDB Molecule:protein cbfa2t1; PDBTitle: structure of the aml1-eto nervy domain - pka(riia) complex and its2 contribution to aml1-eto activity 4 d1ckma2 9.0 33 Fold:ATP-grasp Superfamily:DNA ligase/mRNA capping enzyme, catalytic domain Family:mRNA capping enzyme 5 d1p16a2 7.7 33 Fold:ATP-grasp Superfamily:DNA ligase/mRNA capping enzyme, catalytic domain Family:mRNA capping enzyme 6 c3s0xB_ 7.1 14 PDB header:hydrolase Chain: B: PDB Molecule:peptidase a24b, flak domain protein; PDBTitle: the crystal structure of gxgd membrane protease flak

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