Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.
Sequence		M	S	E	E	N	K	E	N	G	F	N	H	V	K	T	F	T	K	I	I	F	I	F	S	V	L	V	F	N	D	N	E	Y	K	I	T	D	A	A	V	N	L	F	I	Q	I
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 3dl8 chain D Region: 15 - 25 Aligned: 11 Modelled: 11 Confidence: 46.3% Identity: 82% PDB header:protein transport Chain: D: PDB Molecule:sece; PDBTitle: structure of the complex of aquifex aeolicus secyeg and2 bacillus subtilis seca Phyre2 PDB 2wwa chain C Region: 13 - 26 Aligned: 14 Modelled: 14 Confidence: 9.0% Identity: 50% PDB header:ribosome Chain: C: PDB Molecule:protein transport protein seb2; PDBTitle: cryo-em structure of idle yeast ssh1 complex bound to the2 yeast 80s ribosome Phyre2 PDB 2fna chain A domain 1 Region: 23 - 37 Aligned: 15 Modelled: 15 Confidence: 7.0% Identity: 13% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: Helicase DNA-binding domain Phyre2 PDB 1dpu chain A Region: 29 - 38 Aligned: 10 Modelled: 10 Confidence: 6.2% Identity: 50% PDB header:dna binding protein Chain: A: PDB Molecule:replication protein a (rpa32) c-terminal domain; PDBTitle: solution structure of the c-terminal domain of human rpa322 complexed with ung2(73-88) Phyre2 1 c3dl8D_ 2 c2wwaC_ 3 d2fnaa1 4 c1dpuA_

Detailed template information

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

1 c3dl8D_ 46.3 82 PDB header:protein transport Chain: D: PDB Molecule:sece; PDBTitle: structure of the complex of aquifex aeolicus secyeg and2 bacillus subtilis seca 2 c2wwaC_ 9.0 50 PDB header:ribosome Chain: C: PDB Molecule:protein transport protein seb2; PDBTitle: cryo-em structure of idle yeast ssh1 complex bound to the2 yeast 80s ribosome 3 d2fnaa1 7.0 13 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Helicase DNA-binding domain 4 c1dpuA_ 6.2 50 PDB header:dna binding protein Chain: A: PDB Molecule:replication protein a (rpa32) c-terminal domain; PDBTitle: solution structure of the c-terminal domain of human rpa322 complexed with ung2(73-88)

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