Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.
Sequence		Q	S	S	G	P	H	P	G	A	K	Y	Q	R	W	R	S	D	G	D	E	L	R	E	L	R	R	G	F	T	R	T	Y	R	Q	S	V	A	Y	C	G	V	W	P	A	C	R	Q
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 3mxn chain A Region: 6 - 42 Aligned: 37 Modelled: 37 Confidence: 17.1% Identity: 11% PDB header:replication Chain: A: PDB Molecule:recq-mediated genome instability protein 1; PDBTitle: crystal structure of the rmi core complex Phyre2 PDB 1bcg chain A Region: 29 - 45 Aligned: 16 Modelled: 17 Confidence: 12.2% Identity: 44% Fold: Knottins (small inhibitors, toxins, lectins) Superfamily: Scorpion toxin-like Family: Long-chain scorpion toxins Phyre2 PDB 2l1w chain B Region: 12 - 28 Aligned: 17 Modelled: 17 Confidence: 9.8% Identity: 41% PDB header:metal binding protein Chain: B: PDB Molecule:vacuolar calcium atpase bca1 peptide; PDBTitle: the solution structure of soybean calmodulin isoform 4 complexed with2 the vacuolar calcium atpase bca1 peptide Phyre2 PDB 2rdc chain A Region: 13 - 33 Aligned: 21 Modelled: 21 Confidence: 8.8% Identity: 52% PDB header:lipid binding protein Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of a putative lipid binding protein (gsu0061) from2 geobacter sulfurreducens pca at 1.80 a resolution Phyre2 PDB 3rnv chain A Region: 23 - 43 Aligned: 21 Modelled: 21 Confidence: 8.1% Identity: 33% PDB header:hydrolase Chain: A: PDB Molecule:helper component proteinase; PDBTitle: structure of the autocatalytic cysteine protease domain of potyvirus2 helper-component proteinase Phyre2 PDB 1okg chain A Region: 2 - 40 Aligned: 39 Modelled: 38 Confidence: 6.7% Identity: 21% PDB header:transferase Chain: A: PDB Molecule:possible 3-mercaptopyruvate sulfurtransferase; PDBTitle: 3-mercaptopyruvate sulfurtransferase from leishmania major Phyre2 PDB 2cl2 chain A Region: 39 - 44 Aligned: 6 Modelled: 6 Confidence: 6.3% Identity: 83% PDB header:hydrolase Chain: A: PDB Molecule:putative laminarinase; PDBTitle: endo-1,3(4)-beta-glucanase from phanerochaete chrysosporium,2 solved using native sulfur sad, exhibiting intact3 heptasaccharide glycosylation Phyre2 1 c3mxnA_ 2 d1bcga_ 3 c2l1wB_ 4 c2rdcA_ 5 c3rnvA_ 6 c1okgA_ 7 c2cl2A_

Detailed template information

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

1 c3mxnA_ 17.1 11 PDB header:replication Chain: A: PDB Molecule:recq-mediated genome instability protein 1; PDBTitle: crystal structure of the rmi core complex 2 d1bcga_ 12.2 44 Fold:Knottins (small inhibitors, toxins, lectins) Superfamily:Scorpion toxin-like Family:Long-chain scorpion toxins 3 c2l1wB_ 9.8 41 PDB header:metal binding protein Chain: B: PDB Molecule:vacuolar calcium atpase bca1 peptide; PDBTitle: the solution structure of soybean calmodulin isoform 4 complexed with2 the vacuolar calcium atpase bca1 peptide 4 c2rdcA_ 8.8 52 PDB header:lipid binding protein Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of a putative lipid binding protein (gsu0061) from2 geobacter sulfurreducens pca at 1.80 a resolution 5 c3rnvA_ 8.1 33 PDB header:hydrolase Chain: A: PDB Molecule:helper component proteinase; PDBTitle: structure of the autocatalytic cysteine protease domain of potyvirus2 helper-component proteinase 6 c1okgA_ 6.7 21 PDB header:transferase Chain: A: PDB Molecule:possible 3-mercaptopyruvate sulfurtransferase; PDBTitle: 3-mercaptopyruvate sulfurtransferase from leishmania major 7 c2cl2A_ 6.3 83 PDB header:hydrolase Chain: A: PDB Molecule:putative laminarinase; PDBTitle: endo-1,3(4)-beta-glucanase from phanerochaete chrysosporium,2 solved using native sulfur sad, exhibiting intact3 heptasaccharide glycosylation

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

---

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