Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	V	S	S	F	T	S	A	P	R	S	G	F	Y	Y	F	A	Q	G	W	K	L	V	S	Q	P	G	I	R	R	F	V	I	L	P	L	L	V	N	I	L	L	M	G	G	A	F	W	W	L	F	T	Q	L	D	V	W	I	P	T
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		L	M	S	Y	V	P	D	W	L	Q	W	L	S	Y	L	L	W	P	L	A	V	I	S	V	L	L	V	F	G	Y	F	F	S	T	I	A	N	W	I	A	A	P	F	N	G	L	L	A	E	Q	L	E	A	R	L	T	G	A	T	P
Secondary structure
SS confidence
Disorder																																																									?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		P	D	T	G	I	F	G	I	M	K	D	V	P	R	I	M	K	R	E	W	Q	K	F	A	W	Y	L	P	R	A	I	V	L	L	I	L	Y	F	I	P	G	I	G	Q	T	V	A	P	V	L	W	F	L	F	S	A	W	M	L	A
Secondary structure
SS confidence
Disorder		?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		I	Q	Y	C	D	Y	P	F	D	N	H	K	V	P	F	K	E	M	R	T	A	L	R	T	R	K	I	T	N	M	Q	F	G	A	L	T	S	L	F	T	M	I	P	L	L	N	L	F	I	M	P	V	A	V	C	G	A	T	A	M
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.
Sequence		W	V	D	C	Y	R	D	K	H	A	M	W	R
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 3zs9 chain D Region: 193 - 222 Aligned: 30 Modelled: 30 Confidence: 27.4% Identity: 27% PDB header:hydrolase/transport protein Chain: D: PDB Molecule:golgi to er traffic protein 2; PDBTitle: s. cerevisiae get3-adp-alf4- complex with a cytosolic get2 fragment Phyre2 PDB 2hg5 chain D Region: 213 - 249 Aligned: 35 Modelled: 37 Confidence: 26.9% Identity: 20% PDB header:membrane protein Chain: D: PDB Molecule:kcsa channel; PDBTitle: cs+ complex of a k channel with an amide to ester substitution in the2 selectivity filter Phyre2 PDB 3zs9 chain C Region: 193 - 222 Aligned: 30 Modelled: 30 Confidence: 19.6% Identity: 27% PDB header:hydrolase/transport protein Chain: C: PDB Molecule:golgi to er traffic protein 2; PDBTitle: s. cerevisiae get3-adp-alf4- complex with a cytosolic get2 fragment Phyre2 PDB 1b4u chain A Region: 185 - 220 Aligned: 36 Modelled: 36 Confidence: 17.9% Identity: 8% Fold: LigA subunit of an aromatic-ring-opening dioxygenase LigAB Superfamily: LigA subunit of an aromatic-ring-opening dioxygenase LigAB Family: LigA subunit of an aromatic-ring-opening dioxygenase LigAB Phyre2 PDB 2ww9 chain B Region: 191 - 228 Aligned: 38 Modelled: 38 Confidence: 14.3% Identity: 13% PDB header:ribosome Chain: B: PDB Molecule:protein transport protein sss1; PDBTitle: cryo-em structure of the active yeast ssh1 complex bound to the2 yeast 80s ribosome Phyre2 PDB 3sjd chain E Region: 194 - 222 Aligned: 29 Modelled: 29 Confidence: 13.7% Identity: 28% PDB header:hydrolase/transport protein Chain: E: PDB Molecule:golgi to er traffic protein 2; PDBTitle: crystal structure of s. cerevisiae get3 with bound adp-mg2+ in complex2 with get2 cytosolic domain Phyre2 1 c3zs9D_ 2 c2hg5D_ 3 c3zs9C_ 4 d1b4ua_ 5 c2ww9B_ 6 c3sjdE_

Detailed template information

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

1 c3zs9D_ 27.4 27 PDB header:hydrolase/transport protein Chain: D: PDB Molecule:golgi to er traffic protein 2; PDBTitle: s. cerevisiae get3-adp-alf4- complex with a cytosolic get2 fragment 2 c2hg5D_ 26.9 20 PDB header:membrane protein Chain: D: PDB Molecule:kcsa channel; PDBTitle: cs+ complex of a k channel with an amide to ester substitution in the2 selectivity filter 3 c3zs9C_ 19.6 27 PDB header:hydrolase/transport protein Chain: C: PDB Molecule:golgi to er traffic protein 2; PDBTitle: s. cerevisiae get3-adp-alf4- complex with a cytosolic get2 fragment 4 d1b4ua_ 17.9 8 Fold:LigA subunit of an aromatic-ring-opening dioxygenase LigAB Superfamily:LigA subunit of an aromatic-ring-opening dioxygenase LigAB Family:LigA subunit of an aromatic-ring-opening dioxygenase LigAB 5 c2ww9B_ 14.3 13 PDB header:ribosome Chain: B: PDB Molecule:protein transport protein sss1; PDBTitle: cryo-em structure of the active yeast ssh1 complex bound to the2 yeast 80s ribosome 6 c3sjdE_ 13.7 28 PDB header:hydrolase/transport protein Chain: E: PDB Molecule:golgi to er traffic protein 2; PDBTitle: crystal structure of s. cerevisiae get3 with bound adp-mg2+ in complex2 with get2 cytosolic 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