Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	S	S	K	V	E	R	E	R	R	K	A	Q	L	L	S	Q	I	Q	Q	Q	R	L	D	L	S	A	S	R	R	E	W	L	E	T	T	G	A	Y	D	R	R	W	N	M	L	L	S	L	R	S	W	A	L	V	G	S	S	V	M
Secondary structure
SS confidence
Disorder		?	?	?																																															?	?					?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.
Sequence		A	I	W	T	I	R	H	P	N	M	L	V	R	W	A	R	R	G	F	G	V	W	S	A	W	R	L	V	K	T	T	L	K	Q	Q	Q	L	R	G
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 3caz chain A Region: 5 - 42 Aligned: 38 Modelled: 38 Confidence: 38.1% Identity: 32% PDB header:signaling protein Chain: A: PDB Molecule:bar protein; PDBTitle: crystal structure of a bar protein from galdieria sulphuraria Phyre2 PDB 3sqg chain F Region: 37 - 50 Aligned: 14 Modelled: 14 Confidence: 28.7% Identity: 29% PDB header:transferase Chain: F: PDB Molecule:methyl-coenzyme m reductase, gamma subunit; PDBTitle: crystal structure of a methyl-coenzyme m reductase purified from black2 sea mats Phyre2 PDB 2yh5 chain A Region: 37 - 46 Aligned: 10 Modelled: 10 Confidence: 16.9% Identity: 30% PDB header:lipid binding protein Chain: A: PDB Molecule:dapx protein; PDBTitle: structure of the c-terminal domain of bamc Phyre2 PDB 3gn4 chain A Region: 72 - 96 Aligned: 25 Modelled: 25 Confidence: 9.8% Identity: 16% PDB header:motor protein Chain: A: PDB Molecule:myosin-vi; PDBTitle: myosin lever arm Phyre2 PDB 3s6i chain A Region: 10 - 82 Aligned: 72 Modelled: 73 Confidence: 9.5% Identity: 14% PDB header:hydrolase/dna Chain: A: PDB Molecule:dna-3-methyladenine glycosylase 1; PDBTitle: schizosaccaromyces pombe 3-methyladenine dna glycosylase (mag1) in2 complex with abasic-dna. Phyre2 PDB 1b0n chain B Region: 30 - 55 Aligned: 26 Modelled: 26 Confidence: 7.8% Identity: 19% PDB header:transcription regulator Chain: B: PDB Molecule:protein (sini protein); PDBTitle: sinr protein/sini protein complex Phyre2 PDB 1b0n chain B Region: 30 - 55 Aligned: 26 Modelled: 26 Confidence: 7.8% Identity: 19% Fold: Dimerisation interlock Superfamily: SinR repressor dimerisation domain-like Family: SinR repressor dimerisation domain-like Phyre2 PDB 2yg8 chain B Region: 38 - 80 Aligned: 43 Modelled: 43 Confidence: 7.8% Identity: 12% PDB header:hydrolase Chain: B: PDB Molecule:dna-3-methyladenine glycosidase ii, putative; PDBTitle: structure of an unusual 3-methyladenine dna glycosylase ii (2 alka) from deinococcus radiodurans Phyre2 1 c3cazA_ 2 c3sqgF_ 3 c2yh5A_ 4 c3gn4A_ 5 c3s6iA_ 6 c1b0nB_ 7 d1b0nb_ 8 c2yg8B_

Detailed template information

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

1 c3cazA_ 38.1 32 PDB header:signaling protein Chain: A: PDB Molecule:bar protein; PDBTitle: crystal structure of a bar protein from galdieria sulphuraria 2 c3sqgF_ 28.7 29 PDB header:transferase Chain: F: PDB Molecule:methyl-coenzyme m reductase, gamma subunit; PDBTitle: crystal structure of a methyl-coenzyme m reductase purified from black2 sea mats 3 c2yh5A_ 16.9 30 PDB header:lipid binding protein Chain: A: PDB Molecule:dapx protein; PDBTitle: structure of the c-terminal domain of bamc 4 c3gn4A_ 9.8 16 PDB header:motor protein Chain: A: PDB Molecule:myosin-vi; PDBTitle: myosin lever arm 5 c3s6iA_ 9.5 14 PDB header:hydrolase/dna Chain: A: PDB Molecule:dna-3-methyladenine glycosylase 1; PDBTitle: schizosaccaromyces pombe 3-methyladenine dna glycosylase (mag1) in2 complex with abasic-dna. 6 c1b0nB_ 7.8 19 PDB header:transcription regulator Chain: B: PDB Molecule:protein (sini protein); PDBTitle: sinr protein/sini protein complex 7 d1b0nb_ 7.8 19 Fold:Dimerisation interlock Superfamily:SinR repressor dimerisation domain-like Family:SinR repressor dimerisation domain-like 8 c2yg8B_ 7.8 12 PDB header:hydrolase Chain: B: PDB Molecule:dna-3-methyladenine glycosidase ii, putative; PDBTitle: structure of an unusual 3-methyladenine dna glycosylase ii (2 alka) from deinococcus radiodurans

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