Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	F	N	R	R	V	L	F	L	S	V	F	S	C	A	V	F	M	L	S	G	C	S	S	N	R	F	A	S	R	D	A	N	A	T	Y	V	N	T	Q	L	K	I	I	P	R	S	Q	E	K	I	Q	A	Q	S	Q	C	S	R	S
Secondary structure
SS confidence
Disorder		?	?	?																?			?	?	?	?	?	?	?	?	?	?	?	?		?	?		?	?	?	?	?	?	?	?	?	?	?	?	?	?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		F	S	L	L	Q	K	L	N	T	D	K	F	S	M	Y	R	N	Q	F	D	E	I	N	D	A	Y	F	F	Y	K	R	N	V	D	L	M	N	K	D	S	K	E	L	M	A	S	V	L	D	S	K	L	D	M	V	C	V	R	V	D
Secondary structure
SS confidence
Disorder								?																											?	?																	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.
Sequence		N	A	S	F	V	G	I	Y	G	K	M	K	K	V	M	D	L
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 2wss chain T Region: 48 - 66 Aligned: 19 Modelled: 19 Confidence: 28.8% Identity: 26% PDB header:hydrolase Chain: T: PDB Molecule:atp synthase subunit b, mitochondrial; PDBTitle: the structure of the membrane extrinsic region of bovine2 atp synthase Phyre2 PDB 3d19 chain E Region: 69 - 115 Aligned: 47 Modelled: 47 Confidence: 25.4% Identity: 11% PDB header:structural genomics, unknown function Chain: E: PDB Molecule:conserved metalloprotein; PDBTitle: crystal structure of a conserved metalloprotein from bacillus cereus Phyre2 PDB 1d8b chain A Region: 58 - 87 Aligned: 29 Modelled: 30 Confidence: 15.3% Identity: 10% Fold: SAM domain-like Superfamily: HRDC-like Family: HRDC domain from helicases Phyre2 PDB 3dby chain N Region: 69 - 115 Aligned: 45 Modelled: 47 Confidence: 15.2% Identity: 11% PDB header:structural genomics, unknown function Chain: N: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of uncharacterized protein from bacillus cereus2 g9241 (csap target) Phyre2 PDB 2lf0 chain A Region: 52 - 106 Aligned: 55 Modelled: 55 Confidence: 8.7% Identity: 11% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein yibl; PDBTitle: solution structure of sf3636, a two-domain unknown function protein2 from shigella flexneri 2a, determined by joint refinement of nmr,3 residual dipolar couplings and small-angle x-ray scatting, nesg4 target sfr339/ocsp target sf3636 Phyre2 PDB 2k47 chain A Region: 89 - 121 Aligned: 33 Modelled: 33 Confidence: 7.0% Identity: 18% PDB header:replication Chain: A: PDB Molecule:phosphoprotein; PDBTitle: solution structure of the c-terminal n-rna binding domain2 of the vesicular stomatitis virus phosphoprotein Phyre2 PDB 1q2z chain A Region: 56 - 93 Aligned: 38 Modelled: 38 Confidence: 6.8% Identity: 18% Fold: alpha-alpha superhelix Superfamily: C-terminal domain of Ku80 Family: C-terminal domain of Ku80 Phyre2 PDB 2kel chain B Region: 104 - 118 Aligned: 15 Modelled: 15 Confidence: 6.4% Identity: 27% PDB header:transcription repressor Chain: B: PDB Molecule:uncharacterized protein 56b; PDBTitle: structure of the transcription regulator svtr from the2 hyperthermophilic archaeal virus sirv1 Phyre2 PDB 3d19 chain A domain 1 Region: 70 - 115 Aligned: 46 Modelled: 46 Confidence: 5.8% Identity: 11% Fold: Bromodomain-like Superfamily: Bacillus cereus metalloprotein-like Family: Bacillus cereus metalloprotein-like Phyre2 PDB 1s58 chain A Region: 66 - 82 Aligned: 17 Modelled: 17 Confidence: 5.5% Identity: 12% Fold: Nucleoplasmin-like/VP (viral coat and capsid proteins) Superfamily: ssDNA viruses Family: Parvoviridae-like VP Phyre2 PDB 2k59 chain B Region: 8 - 29 Aligned: 22 Modelled: 22 Confidence: 5.4% Identity: 18% PDB header:transport protein Chain: B: PDB Molecule:neuronal acetylcholine receptor subunit beta-2; PDBTitle: nmr structures of the second transmembrane domain of the2 neuronal acetylcholine receptor beta 2 subunit Phyre2 1 c2wssT_ 2 c3d19E_ 3 d1d8ba_ 4 c3dbyN_ 5 c2lf0A_ 6 c2k47A_ 7 d1q2za_ 8 c2kelB_ 9 d3d19a1 10 d1s58a_ 11 c2k59B_

Detailed template information

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

1 c2wssT_ 28.8 26 PDB header:hydrolase Chain: T: PDB Molecule:atp synthase subunit b, mitochondrial; PDBTitle: the structure of the membrane extrinsic region of bovine2 atp synthase 2 c3d19E_ 25.4 11 PDB header:structural genomics, unknown function Chain: E: PDB Molecule:conserved metalloprotein; PDBTitle: crystal structure of a conserved metalloprotein from bacillus cereus 3 d1d8ba_ 15.3 10 Fold:SAM domain-like Superfamily:HRDC-like Family:HRDC domain from helicases 4 c3dbyN_ 15.2 11 PDB header:structural genomics, unknown function Chain: N: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of uncharacterized protein from bacillus cereus2 g9241 (csap target) 5 c2lf0A_ 8.7 11 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein yibl; PDBTitle: solution structure of sf3636, a two-domain unknown function protein2 from shigella flexneri 2a, determined by joint refinement of nmr,3 residual dipolar couplings and small-angle x-ray scatting, nesg4 target sfr339/ocsp target sf3636 6 c2k47A_ 7.0 18 PDB header:replication Chain: A: PDB Molecule:phosphoprotein; PDBTitle: solution structure of the c-terminal n-rna binding domain2 of the vesicular stomatitis virus phosphoprotein 7 d1q2za_ 6.8 18 Fold:alpha-alpha superhelix Superfamily:C-terminal domain of Ku80 Family:C-terminal domain of Ku80 8 c2kelB_ 6.4 27 PDB header:transcription repressor Chain: B: PDB Molecule:uncharacterized protein 56b; PDBTitle: structure of the transcription regulator svtr from the2 hyperthermophilic archaeal virus sirv1 9 d3d19a1 5.8 11 Fold:Bromodomain-like Superfamily:Bacillus cereus metalloprotein-like Family:Bacillus cereus metalloprotein-like 10 d1s58a_ 5.5 12 Fold:Nucleoplasmin-like/VP (viral coat and capsid proteins) Superfamily:ssDNA viruses Family:Parvoviridae-like VP 11 c2k59B_ 5.4 18 PDB header:transport protein Chain: B: PDB Molecule:neuronal acetylcholine receptor subunit beta-2; PDBTitle: nmr structures of the second transmembrane domain of the2 neuronal acetylcholine receptor beta 2 subunit

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