Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	E	I	L	Y	N	I	F	T	V	F	F	N	Q	V	M	T	N	A	P	L	L	L	G	I	V	T	C	L	G	Y	I	L	L	R	K	S	V	S	V	I	I	K	G	T	I	K	T	I	I	G	F	M	L	L	Q	A	G	S	G
Secondary structure
SS confidence
Disorder		?	?	?																																		?																				?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		I	L	T	S	T	F	K	P	V	V	A	K	M	S	E	V	Y	G	I	N	G	A	I	S	D	T	Y	A	S	M	M	A	T	I	D	R	M	G	D	A	Y	S	W	V	G	Y	A	V	L	L	A	L	A	L	N	I	C	Y	V	L
Secondary structure
SS confidence
Disorder																				?					?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		L	R	R	I	T	G	I	R	T	I	M	L	T	G	H	I	M	F	Q	Q	A	G	L	I	A	V	T	L	F	I	F	G	Y	S	M	W	T	T	I	I	C	T	A	I	L	V	S	L	Y	W	G	I	T	S	N	M	M	Y	K	P
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		T	Q	E	V	T	D	G	C	G	F	S	I	G	H	Q	Q	Q	F	A	S	W	I	A	Y	K	V	A	P	F	L	G	K	K	E	E	S	V	E	D	L	K	L	P	G	W	L	N	I	F	H	D	N	I	V	S	T	A	I	V	M
Secondary structure
SS confidence
Disorder																																		?	?		?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		T	I	F	F	G	A	I	L	L	S	F	G	I	D	T	V	Q	A	M	A	G	K	V	H	W	T	V	Y	I	L	Q	T	G	F	S	F	A	V	A	I	F	I	I	T	Q	G	V	R	M	F	V	A	E	L	S	E	A	F	N	G
Secondary structure
SS confidence
Disorder																			?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence		I	S	Q	R	L	I	P	G	A	V	L	A	I	D	C	A	A	I	Y	S	F	A	P	N	A	V	V	W	G	F	M	W	G	T	I	G	Q	L	I	A	V	G	I	L	V	A	C	G	S	S	I	L	I	I	P	G	F	I	P	M
Secondary structure
SS confidence
Disorder																																																?
Disorder confidence
		.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.	.	.	.	.	.	.	400	.	.	.	.	.	.	.	.	.	410	.	.	.	.	.	.	.	.	.	420
Sequence		F	F	S	N	A	T	I	G	V	F	A	N	H	F	G	G	W	R	A	A	L	K	I	C	L	V	M	G	M	I	E	I	F	G	C	V	W	A	V	K	L	T	G	M	S	A	W	M	G	M	A	D	W	S	I	L	A	P	P	M
Secondary structure
SS confidence
Disorder																																												?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	430	.	.	.	.	.	.	.	.	.	440	.	.	.	.	.	.	.	.	.	450	.	.	.	.	.	.	.	.	.	460	.	.	.	.	.
Sequence		M	Q	G	F	F	S	I	G	I	A	F	M	A	V	I	I	V	I	A	L	A	Y	M	F	F	A	G	R	A	L	R	A	E	E	D	A	E	K	Q	L	A	E	Q	S	A
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 3qnq chain D Region: 198 - 464 Aligned: 265 Modelled: 267 Confidence: 92.3% Identity: 11% PDB header:membrane protein, transport protein Chain: D: PDB Molecule:pts system, cellobiose-specific iic component; PDBTitle: crystal structure of the transporter chbc, the iic component from the2 n,n'-diacetylchitobiose-specific phosphotransferase system Phyre2 PDB 2oar chain A domain 1 Region: 371 - 463 Aligned: 93 Modelled: 93 Confidence: 90.7% Identity: 13% Fold: Gated mechanosensitive channel Superfamily: Gated mechanosensitive channel Family: Gated mechanosensitive channel Phyre2 PDB 2oar chain A Region: 371 - 463 Aligned: 93 Modelled: 93 Confidence: 89.4% Identity: 13% PDB header:membrane protein Chain: A: PDB Molecule:large-conductance mechanosensitive channel; PDBTitle: mechanosensitive channel of large conductance (mscl) Phyre2 PDB 3hzq chain A Region: 371 - 454 Aligned: 83 Modelled: 84 Confidence: 77.2% Identity: 13% PDB header:membrane protein Chain: A: PDB Molecule:large-conductance mechanosensitive channel; PDBTitle: structure of a tetrameric mscl in an expanded intermediate2 state Phyre2 PDB 5rub chain A domain 2 Region: 196 - 226 Aligned: 31 Modelled: 31 Confidence: 15.4% Identity: 19% Fold: Ferredoxin-like Superfamily: RuBisCO, large subunit, small (N-terminal) domain Family: Ribulose 1,5-bisphosphate carboxylase-oxygenase Phyre2 PDB 1gk8 chain A domain 2 Region: 196 - 226 Aligned: 31 Modelled: 31 Confidence: 14.3% Identity: 23% Fold: Ferredoxin-like Superfamily: RuBisCO, large subunit, small (N-terminal) domain Family: Ribulose 1,5-bisphosphate carboxylase-oxygenase Phyre2 PDB 1bwv chain A domain 2 Region: 196 - 226 Aligned: 31 Modelled: 31 Confidence: 11.7% Identity: 29% Fold: Ferredoxin-like Superfamily: RuBisCO, large subunit, small (N-terminal) domain Family: Ribulose 1,5-bisphosphate carboxylase-oxygenase Phyre2 PDB 1rbl chain A domain 2 Region: 196 - 226 Aligned: 31 Modelled: 31 Confidence: 11.4% Identity: 23% Fold: Ferredoxin-like Superfamily: RuBisCO, large subunit, small (N-terminal) domain Family: Ribulose 1,5-bisphosphate carboxylase-oxygenase Phyre2 PDB 2d69 chain A domain 2 Region: 196 - 226 Aligned: 31 Modelled: 31 Confidence: 11.0% Identity: 16% Fold: Ferredoxin-like Superfamily: RuBisCO, large subunit, small (N-terminal) domain Family: Ribulose 1,5-bisphosphate carboxylase-oxygenase Phyre2 PDB 2knc chain A Region: 406 - 461 Aligned: 54 Modelled: 56 Confidence: 10.3% Identity: 19% PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex Phyre2 PDB 8ruc chain A domain 2 Region: 196 - 226 Aligned: 31 Modelled: 31 Confidence: 9.8% Identity: 23% Fold: Ferredoxin-like Superfamily: RuBisCO, large subunit, small (N-terminal) domain Family: Ribulose 1,5-bisphosphate carboxylase-oxygenase Phyre2 PDB 2bbj chain B Region: 390 - 450 Aligned: 50 Modelled: 61 Confidence: 9.8% Identity: 22% PDB header:metal transport/membrane protein Chain: B: PDB Molecule:divalent cation transport-related protein; PDBTitle: crystal structure of the cora mg2+ transporter Phyre2 PDB 1bxn chain A domain 2 Region: 196 - 226 Aligned: 31 Modelled: 31 Confidence: 9.6% Identity: 19% Fold: Ferredoxin-like Superfamily: RuBisCO, large subunit, small (N-terminal) domain Family: Ribulose 1,5-bisphosphate carboxylase-oxygenase Phyre2 PDB 1geh chain A domain 2 Region: 196 - 226 Aligned: 31 Modelled: 31 Confidence: 9.1% Identity: 29% Fold: Ferredoxin-like Superfamily: RuBisCO, large subunit, small (N-terminal) domain Family: Ribulose 1,5-bisphosphate carboxylase-oxygenase Phyre2 PDB 1svd chain A domain 2 Region: 196 - 226 Aligned: 31 Modelled: 31 Confidence: 9.1% Identity: 16% Fold: Ferredoxin-like Superfamily: RuBisCO, large subunit, small (N-terminal) domain Family: Ribulose 1,5-bisphosphate carboxylase-oxygenase Phyre2 PDB 1ots chain A Region: 379 - 463 Aligned: 85 Modelled: 85 Confidence: 8.3% Identity: 12% Fold: Clc chloride channel Superfamily: Clc chloride channel Family: Clc chloride channel Phyre2 PDB 1ej7 chain L domain 2 Region: 196 - 226 Aligned: 31 Modelled: 31 Confidence: 6.9% Identity: 23% Fold: Ferredoxin-like Superfamily: RuBisCO, large subunit, small (N-terminal) domain Family: Ribulose 1,5-bisphosphate carboxylase-oxygenase Phyre2 PDB 2zvi chain B Region: 198 - 226 Aligned: 29 Modelled: 29 Confidence: 5.8% Identity: 7% PDB header:isomerase Chain: B: PDB Molecule:2,3-diketo-5-methylthiopentyl-1-phosphate PDBTitle: crystal structure of 2,3-diketo-5-methylthiopentyl-1-2 phosphate enolase from bacillus subtilis Phyre2 PDB 1wdd chain A domain 2 Region: 196 - 226 Aligned: 31 Modelled: 31 Confidence: 5.5% Identity: 23% Fold: Ferredoxin-like Superfamily: RuBisCO, large subunit, small (N-terminal) domain Family: Ribulose 1,5-bisphosphate carboxylase-oxygenase Phyre2 PDB 1w2w chain J Region: 282 - 313 Aligned: 30 Modelled: 32 Confidence: 5.5% Identity: 30% PDB header:isomerase Chain: J: PDB Molecule:5-methylthioribose-1-phosphate isomerase; PDBTitle: crystal structure of yeast ypr118w, a methylthioribose-1-2 phosphate isomerase related to regulatory eif2b subunits Phyre2 1 c3qnqD_ 2 d2oara1 3 c2oarA_ 4 c3hzqA_ 5 d5ruba2 6 d1gk8a2 7 d1bwva2 8 d1rbla2 9 d2d69a2 10 c2kncA_ 11 d8ruca2 12 c2bbjB_ 13 d1bxna2 14 d1geha2 15 d1svda2 16 d1otsa_ 17 d1ej7l2 18 c2zviB_ 19 d1wdda2 20 c1w2wJ_

Detailed template information

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

1 c3qnqD_ 92.3 11 PDB header:membrane protein, transport protein Chain: D: PDB Molecule:pts system, cellobiose-specific iic component; PDBTitle: crystal structure of the transporter chbc, the iic component from the2 n,n'-diacetylchitobiose-specific phosphotransferase system 2 d2oara1 90.7 13 Fold:Gated mechanosensitive channel Superfamily:Gated mechanosensitive channel Family:Gated mechanosensitive channel 3 c2oarA_ 89.4 13 PDB header:membrane protein Chain: A: PDB Molecule:large-conductance mechanosensitive channel; PDBTitle: mechanosensitive channel of large conductance (mscl) 4 c3hzqA_ 77.2 13 PDB header:membrane protein Chain: A: PDB Molecule:large-conductance mechanosensitive channel; PDBTitle: structure of a tetrameric mscl in an expanded intermediate2 state 5 d5ruba2 15.4 19 Fold:Ferredoxin-like Superfamily:RuBisCO, large subunit, small (N-terminal) domain Family:Ribulose 1,5-bisphosphate carboxylase-oxygenase 6 d1gk8a2 14.3 23 Fold:Ferredoxin-like Superfamily:RuBisCO, large subunit, small (N-terminal) domain Family:Ribulose 1,5-bisphosphate carboxylase-oxygenase 7 d1bwva2 11.7 29 Fold:Ferredoxin-like Superfamily:RuBisCO, large subunit, small (N-terminal) domain Family:Ribulose 1,5-bisphosphate carboxylase-oxygenase 8 d1rbla2 11.4 23 Fold:Ferredoxin-like Superfamily:RuBisCO, large subunit, small (N-terminal) domain Family:Ribulose 1,5-bisphosphate carboxylase-oxygenase 9 d2d69a2 11.0 16 Fold:Ferredoxin-like Superfamily:RuBisCO, large subunit, small (N-terminal) domain Family:Ribulose 1,5-bisphosphate carboxylase-oxygenase 10 c2kncA_ 10.3 19 PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex 11 d8ruca2 9.8 23 Fold:Ferredoxin-like Superfamily:RuBisCO, large subunit, small (N-terminal) domain Family:Ribulose 1,5-bisphosphate carboxylase-oxygenase 12 c2bbjB_ 9.8 22 PDB header:metal transport/membrane protein Chain: B: PDB Molecule:divalent cation transport-related protein; PDBTitle: crystal structure of the cora mg2+ transporter 13 d1bxna2 9.6 19 Fold:Ferredoxin-like Superfamily:RuBisCO, large subunit, small (N-terminal) domain Family:Ribulose 1,5-bisphosphate carboxylase-oxygenase 14 d1geha2 9.1 29 Fold:Ferredoxin-like Superfamily:RuBisCO, large subunit, small (N-terminal) domain Family:Ribulose 1,5-bisphosphate carboxylase-oxygenase 15 d1svda2 9.1 16 Fold:Ferredoxin-like Superfamily:RuBisCO, large subunit, small (N-terminal) domain Family:Ribulose 1,5-bisphosphate carboxylase-oxygenase 16 d1otsa_ 8.3 12 Fold:Clc chloride channel Superfamily:Clc chloride channel Family:Clc chloride channel 17 d1ej7l2 6.9 23 Fold:Ferredoxin-like Superfamily:RuBisCO, large subunit, small (N-terminal) domain Family:Ribulose 1,5-bisphosphate carboxylase-oxygenase 18 c2zviB_ 5.8 7 PDB header:isomerase Chain: B: PDB Molecule:2,3-diketo-5-methylthiopentyl-1-phosphate PDBTitle: crystal structure of 2,3-diketo-5-methylthiopentyl-1-2 phosphate enolase from bacillus subtilis 19 d1wdda2 5.5 23 Fold:Ferredoxin-like Superfamily:RuBisCO, large subunit, small (N-terminal) domain Family:Ribulose 1,5-bisphosphate carboxylase-oxygenase 20 c1w2wJ_ 5.5 30 PDB header:isomerase Chain: J: PDB Molecule:5-methylthioribose-1-phosphate isomerase; PDBTitle: crystal structure of yeast ypr118w, a methylthioribose-1-2 phosphate isomerase related to regulatory eif2b subunits

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