Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	E	I	T	T	L	Q	I	V	L	V	F	I	V	A	C	I	A	G	M	G	S	I	L	D	E	F	Q	F	H	R	P	L	I	A	C	T	L	V	G	I	V	L	G	D	M	K	T	G	I	I	I	G	G	T	L	E	M	I	A
Secondary structure
SS confidence
Disorder		?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		L	G	W	M	N	I	G	A	A	V	A	P	D	A	A	L	A	S	I	I	S	T	I	L	V	I	A	G	H	Q	S	I	G	A	G	I	A	L	A	I	P	L	A	A	A	G	Q	V	L	T	I	I	V	R	T	I	T	V	A	F
Secondary structure
SS confidence
Disorder						?	?																						?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		Q	H	A	A	D	K	A	A	D	N	G	N	L	T	A	I	S	W	I	H	V	S	S	L	F	L	Q	A	M	R	V	A	I	P	A	V	I	V	A	L	S	V	G	T	S	E	V	Q	N	M	L	N	A	I	P	E	V	V	T	N
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		G	L	N	I	A	G	G	M	I	V	V	V	G	Y	A	M	V	I	N	M	M	R	A	G	Y	L	M	P	F	F	Y	L	G	F	V	T	A	A	F	T	N	F	N	L	V	A	L	G	V	I	G	T	V	M	A	V	L	Y	I	Q
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.
Sequence		L	S	P	K	Y	N	R	V	A	G	A	P	A	Q	A	A	G	N	N	D	L	D	N	E	L	D
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: 208 - 266 Aligned: 54 Modelled: 59 Confidence: 65.9% 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 3iz5 chain Q Region: 236 - 266 Aligned: 31 Modelled: 31 Confidence: 40.0% Identity: 29% PDB header:ribosome Chain: Q: PDB Molecule:60s ribosomal protein l5 (l18p); PDBTitle: localization of the large subunit ribosomal proteins into a 5.5 a2 cryo-em map of triticum aestivum translating 80s ribosome Phyre2 PDB 2l34 chain B Region: 30 - 64 Aligned: 33 Modelled: 34 Confidence: 37.3% Identity: 30% PDB header:protein binding Chain: B: PDB Molecule:tyro protein tyrosine kinase-binding protein; PDBTitle: structure of the dap12 transmembrane homodimer Phyre2 PDB 2l35 chain B Region: 30 - 52 Aligned: 23 Modelled: 23 Confidence: 34.6% Identity: 30% PDB header:protein binding Chain: B: PDB Molecule:tyro protein tyrosine kinase-binding protein; PDBTitle: structure of the dap12-nkg2c transmembrane heterotrimer Phyre2 PDB 2l34 chain A Region: 36 - 52 Aligned: 17 Modelled: 17 Confidence: 27.1% Identity: 41% PDB header:protein binding Chain: A: PDB Molecule:tyro protein tyrosine kinase-binding protein; PDBTitle: structure of the dap12 transmembrane homodimer Phyre2 PDB 2l35 chain A Region: 36 - 65 Aligned: 28 Modelled: 30 Confidence: 19.2% Identity: 36% PDB header:protein binding Chain: A: PDB Molecule:dap12-nkg2c_tm; PDBTitle: structure of the dap12-nkg2c transmembrane heterotrimer Phyre2 PDB 1kqf chain B domain 2 Region: 223 - 264 Aligned: 32 Modelled: 42 Confidence: 14.9% Identity: 28% Fold: Single transmembrane helix Superfamily: Iron-sulfur subunit of formate dehydrogenase N, transmembrane anchor Family: Iron-sulfur subunit of formate dehydrogenase N, transmembrane anchor Phyre2 PDB 1cii chain A Region: 69 - 120 Aligned: 51 Modelled: 52 Confidence: 14.5% Identity: 14% PDB header:transmembrane protein Chain: A: PDB Molecule:colicin ia; PDBTitle: colicin ia Phyre2 PDB 2knc chain A Region: 224 - 264 Aligned: 35 Modelled: 41 Confidence: 7.4% Identity: 20% PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex Phyre2 PDB 1r7m chain A domain 1 Region: 32 - 45 Aligned: 14 Modelled: 14 Confidence: 6.7% Identity: 29% Fold: Homing endonuclease-like Superfamily: Homing endonucleases Family: Group I mobile intron endonuclease Phyre2 PDB 1r7m chain A Region: 32 - 45 Aligned: 14 Modelled: 14 Confidence: 5.7% Identity: 29% PDB header:hydrolase/dna Chain: A: PDB Molecule:intron-encoded endonuclease i-scei; PDBTitle: the homing endonuclease i-scei bound to its dna recognition2 region Phyre2 1 c3qnqD_ 2 c3iz5Q_ 3 c2l34B_ 4 c2l35B_ 5 c2l34A_ 6 c2l35A_ 7 d1kqfb2 8 c1ciiA_ 9 c2kncA_ 10 d1r7ma1 11 c1r7mA_

Detailed template information

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

1 c3qnqD_ 65.9 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 c3iz5Q_ 40.0 29 PDB header:ribosome Chain: Q: PDB Molecule:60s ribosomal protein l5 (l18p); PDBTitle: localization of the large subunit ribosomal proteins into a 5.5 a2 cryo-em map of triticum aestivum translating 80s ribosome 3 c2l34B_ 37.3 30 PDB header:protein binding Chain: B: PDB Molecule:tyro protein tyrosine kinase-binding protein; PDBTitle: structure of the dap12 transmembrane homodimer 4 c2l35B_ 34.6 30 PDB header:protein binding Chain: B: PDB Molecule:tyro protein tyrosine kinase-binding protein; PDBTitle: structure of the dap12-nkg2c transmembrane heterotrimer 5 c2l34A_ 27.1 41 PDB header:protein binding Chain: A: PDB Molecule:tyro protein tyrosine kinase-binding protein; PDBTitle: structure of the dap12 transmembrane homodimer 6 c2l35A_ 19.2 36 PDB header:protein binding Chain: A: PDB Molecule:dap12-nkg2c_tm; PDBTitle: structure of the dap12-nkg2c transmembrane heterotrimer 7 d1kqfb2 14.9 28 Fold:Single transmembrane helix Superfamily:Iron-sulfur subunit of formate dehydrogenase N, transmembrane anchor Family:Iron-sulfur subunit of formate dehydrogenase N, transmembrane anchor 8 c1ciiA_ 14.5 14 PDB header:transmembrane protein Chain: A: PDB Molecule:colicin ia; PDBTitle: colicin ia 9 c2kncA_ 7.4 20 PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex 10 d1r7ma1 6.7 29 Fold:Homing endonuclease-like Superfamily:Homing endonucleases Family:Group I mobile intron endonuclease 11 c1r7mA_ 5.7 29 PDB header:hydrolase/dna Chain: A: PDB Molecule:intron-encoded endonuclease i-scei; PDBTitle: the homing endonuclease i-scei bound to its dna recognition2 region

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