Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	S	K	I	I	A	T	L	Y	A	V	M	D	K	R	P	L	R	A	L	S	F	V	M	A	L	L	L	A	G	C	M	F	W	D	P	S	R	F	A	A	K	T	S	E	L	E	I	W	H	G	L	L	L	M	W	A	V	C	A
Secondary structure
SS confidence
Disorder		?	?													?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.
Sequence		G	V	I	H	G	V	G	F	R	P	Q	K	V	L	W	Q	G	I	F	C	P	L	L	A	D	I	V	L	I	V	G	L	I	F	F	F	F
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 1v54 chain G Region: 17 - 35 Aligned: 19 Modelled: 19 Confidence: 19.9% Identity: 26% Fold: Single transmembrane helix Superfamily: Mitochondrial cytochrome c oxidase subunit VIa Family: Mitochondrial cytochrome c oxidase subunit VIa Phyre2 PDB 2gv1 chain A Region: 63 - 70 Aligned: 8 Modelled: 8 Confidence: 17.6% Identity: 63% PDB header:hydrolase Chain: A: PDB Molecule:probable acylphosphatase; PDBTitle: nmr solution structure of the acylphosphatase from2 eschaerichia coli Phyre2 PDB 1ulr chain A Region: 63 - 70 Aligned: 8 Modelled: 8 Confidence: 15.4% Identity: 50% Fold: Ferredoxin-like Superfamily: Acylphosphatase/BLUF domain-like Family: Acylphosphatase-like Phyre2 PDB 3br8 chain A Region: 63 - 70 Aligned: 8 Modelled: 8 Confidence: 15.1% Identity: 63% PDB header:hydrolase Chain: A: PDB Molecule:probable acylphosphatase; PDBTitle: crystal structure of acylphosphatase from bacillus subtilis Phyre2 PDB 1w2i chain A Region: 63 - 70 Aligned: 8 Modelled: 8 Confidence: 14.9% Identity: 63% Fold: Ferredoxin-like Superfamily: Acylphosphatase/BLUF domain-like Family: Acylphosphatase-like Phyre2 PDB 3oak chain C Region: 1 - 15 Aligned: 15 Modelled: 15 Confidence: 14.1% Identity: 27% PDB header:transcription Chain: C: PDB Molecule:transcription elongation factor spt6; PDBTitle: crystal structure of a spn1 (iws1)-spt6 complex Phyre2 PDB 1aps chain A Region: 63 - 70 Aligned: 8 Modelled: 8 Confidence: 12.7% Identity: 50% Fold: Ferredoxin-like Superfamily: Acylphosphatase/BLUF domain-like Family: Acylphosphatase-like Phyre2 PDB 2bje chain A Region: 63 - 70 Aligned: 8 Modelled: 8 Confidence: 12.3% Identity: 63% PDB header:hydrolase Chain: A: PDB Molecule:acylphosphatase; PDBTitle: acylphosphatase from sulfolobus solfataricus. monclinic p212 space group Phyre2 PDB 1urr chain A Region: 63 - 70 Aligned: 8 Modelled: 8 Confidence: 11.8% Identity: 50% Fold: Ferredoxin-like Superfamily: Acylphosphatase/BLUF domain-like Family: Acylphosphatase-like Phyre2 PDB 2acy chain A Region: 63 - 70 Aligned: 8 Modelled: 8 Confidence: 11.4% Identity: 50% Fold: Ferredoxin-like Superfamily: Acylphosphatase/BLUF domain-like Family: Acylphosphatase-like Phyre2 PDB 1gxu chain A Region: 63 - 70 Aligned: 8 Modelled: 8 Confidence: 9.1% Identity: 75% Fold: Ferredoxin-like Superfamily: Acylphosphatase/BLUF domain-like Family: Acylphosphatase-like Phyre2 PDB 3nke chain A Region: 48 - 70 Aligned: 23 Modelled: 23 Confidence: 8.3% Identity: 22% PDB header:immune system Chain: A: PDB Molecule:protein ygbt; PDBTitle: high resolution structure of the c-terminal domain crisp-associated2 protein cas1 from escherichia coli str. k-12 Phyre2 PDB 2yru chain A Region: 2 - 66 Aligned: 61 Modelled: 65 Confidence: 6.6% Identity: 13% PDB header:apoptosis Chain: A: PDB Molecule:steroid receptor rna activator 1; PDBTitle: solution structure of mouse steroid receptor rna activator2 1 (sra1) protein Phyre2 PDB 2k9y chain B Region: 43 - 64 Aligned: 22 Modelled: 22 Confidence: 6.0% Identity: 27% PDB header:transferase Chain: B: PDB Molecule:ephrin type-a receptor 2; PDBTitle: epha2 dimeric structure in the lipidic bicelle at ph 5.0 Phyre2 PDB 3god chain A Region: 48 - 70 Aligned: 23 Modelled: 23 Confidence: 5.7% Identity: 22% PDB header:immune system Chain: A: PDB Molecule:cas1; PDBTitle: structural basis for dnase activity of a conserved protein2 implicated in crispr-mediated antiviral defense Phyre2 PDB 1izm chain A Region: 59 - 67 Aligned: 9 Modelled: 9 Confidence: 5.4% Identity: 22% Fold: YgfB-like Superfamily: YgfB-like Family: YgfB-like Phyre2 1 d1v54g_ 2 c2gv1A_ 3 d1ulra_ 4 c3br8A_ 5 d1w2ia_ 6 c3oakC_ 7 d1apsa_ 8 c2bjeA_ 9 d1urra_ 10 d2acya_ 11 d1gxua_ 12 c3nkeA_ 13 c2yruA_ 14 c2k9yB_ 15 c3godA_ 16 d1izma_

Detailed template information

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

1 d1v54g_ 19.9 26 Fold:Single transmembrane helix Superfamily:Mitochondrial cytochrome c oxidase subunit VIa Family:Mitochondrial cytochrome c oxidase subunit VIa 2 c2gv1A_ 17.6 63 PDB header:hydrolase Chain: A: PDB Molecule:probable acylphosphatase; PDBTitle: nmr solution structure of the acylphosphatase from2 eschaerichia coli 3 d1ulra_ 15.4 50 Fold:Ferredoxin-like Superfamily:Acylphosphatase/BLUF domain-like Family:Acylphosphatase-like 4 c3br8A_ 15.1 63 PDB header:hydrolase Chain: A: PDB Molecule:probable acylphosphatase; PDBTitle: crystal structure of acylphosphatase from bacillus subtilis 5 d1w2ia_ 14.9 63 Fold:Ferredoxin-like Superfamily:Acylphosphatase/BLUF domain-like Family:Acylphosphatase-like 6 c3oakC_ 14.1 27 PDB header:transcription Chain: C: PDB Molecule:transcription elongation factor spt6; PDBTitle: crystal structure of a spn1 (iws1)-spt6 complex 7 d1apsa_ 12.7 50 Fold:Ferredoxin-like Superfamily:Acylphosphatase/BLUF domain-like Family:Acylphosphatase-like 8 c2bjeA_ 12.3 63 PDB header:hydrolase Chain: A: PDB Molecule:acylphosphatase; PDBTitle: acylphosphatase from sulfolobus solfataricus. monclinic p212 space group 9 d1urra_ 11.8 50 Fold:Ferredoxin-like Superfamily:Acylphosphatase/BLUF domain-like Family:Acylphosphatase-like 10 d2acya_ 11.4 50 Fold:Ferredoxin-like Superfamily:Acylphosphatase/BLUF domain-like Family:Acylphosphatase-like 11 d1gxua_ 9.1 75 Fold:Ferredoxin-like Superfamily:Acylphosphatase/BLUF domain-like Family:Acylphosphatase-like 12 c3nkeA_ 8.3 22 PDB header:immune system Chain: A: PDB Molecule:protein ygbt; PDBTitle: high resolution structure of the c-terminal domain crisp-associated2 protein cas1 from escherichia coli str. k-12 13 c2yruA_ 6.6 13 PDB header:apoptosis Chain: A: PDB Molecule:steroid receptor rna activator 1; PDBTitle: solution structure of mouse steroid receptor rna activator2 1 (sra1) protein 14 c2k9yB_ 6.0 27 PDB header:transferase Chain: B: PDB Molecule:ephrin type-a receptor 2; PDBTitle: epha2 dimeric structure in the lipidic bicelle at ph 5.0 15 c3godA_ 5.7 22 PDB header:immune system Chain: A: PDB Molecule:cas1; PDBTitle: structural basis for dnase activity of a conserved protein2 implicated in crispr-mediated antiviral defense 16 d1izma_ 5.4 22 Fold:YgfB-like Superfamily:YgfB-like Family:YgfB-like

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