Secondary structure and disorder prediction

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Sequence		M	A	K	T	I	K	I	T	Q	T	R	S	A	I	G	R	L	P	K	H	K	A	T	L	L	G	L	G	L	R	R	I	G	H	T	V	E	R	E	D	T	P	A	I	R	G	M	I	N	A	V	S	F	M	V	K	V	E	E
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 1bxy chain A Region: 1 - 59 Aligned: 58 Modelled: 59 Confidence: 99.9% Identity: 43% Fold: Ribosomal protein L30p/L7e Superfamily: Ribosomal protein L30p/L7e Family: Ribosomal protein L30p/L7e Phyre2 PDB 2gyc chain X domain 1 Region: 4 - 59 Aligned: 56 Modelled: 56 Confidence: 99.9% Identity: 100% Fold: Ribosomal protein L30p/L7e Superfamily: Ribosomal protein L30p/L7e Family: Ribosomal protein L30p/L7e Phyre2 PDB 2zjr chain W domain 1 Region: 5 - 59 Aligned: 55 Modelled: 55 Confidence: 99.9% Identity: 45% Fold: Ribosomal protein L30p/L7e Superfamily: Ribosomal protein L30p/L7e Family: Ribosomal protein L30p/L7e Phyre2 PDB 4a1c chain V Region: 2 - 59 Aligned: 58 Modelled: 58 Confidence: 99.0% Identity: 21% PDB header:ribosome Chain: V: PDB Molecule:60s ribosomal protein l7; PDBTitle: t.thermophila 60s ribosomal subunit in complex with2 initiation factor 6. this file contains 5s rrna,3 5.8s rrna and proteins of molecule 4. Phyre2 PDB 3izc chain E Region: 2 - 59 Aligned: 58 Modelled: 58 Confidence: 98.9% Identity: 19% PDB header:ribosome Chain: E: PDB Molecule:60s ribosomal protein rpl11 (l5p); PDBTitle: localization of the large subunit ribosomal proteins into a 6.1 a2 cryo-em map of saccharomyces cerevisiae translating 80s ribosome Phyre2 PDB 3iz5 chain E Region: 2 - 59 Aligned: 58 Modelled: 58 Confidence: 98.9% Identity: 28% PDB header:ribosome Chain: E: PDB Molecule:60s ribosomal protein l11 (l5p); PDBTitle: localization of the large subunit ribosomal proteins into a 5.5 a2 cryo-em map of triticum aestivum translating 80s ribosome Phyre2 PDB 1vqo chain W domain 1 Region: 4 - 59 Aligned: 56 Modelled: 56 Confidence: 98.9% Identity: 25% Fold: Ribosomal protein L30p/L7e Superfamily: Ribosomal protein L30p/L7e Family: Ribosomal protein L30p/L7e Phyre2 PDB 3jyw chain F Region: 2 - 59 Aligned: 58 Modelled: 58 Confidence: 98.9% Identity: 19% PDB header:ribosome Chain: F: PDB Molecule:60s ribosomal protein l7(a); PDBTitle: structure of the 60s proteins for eukaryotic ribosome based on cryo-em2 map of thermomyces lanuginosus ribosome at 8.9a resolution Phyre2 PDB 2zkr chain W Region: 5 - 59 Aligned: 55 Modelled: 55 Confidence: 98.8% Identity: 22% PDB header:ribosomal protein/rna Chain: W: PDB Molecule:rna expansion segment es10; PDBTitle: structure of a mammalian ribosomal 60s subunit within an2 80s complex obtained by docking homology models of the rna3 and proteins into an 8.7 a cryo-em map Phyre2 PDB 1s1i chain F Region: 5 - 59 Aligned: 55 Modelled: 55 Confidence: 98.7% Identity: 18% PDB header:ribosome Chain: F: PDB Molecule:60s ribosomal protein l7-a; PDBTitle: structure of the ribosomal 80s-eef2-sordarin complex from2 yeast obtained by docking atomic models for rna and protein3 components into a 11.7 a cryo-em map. this file, 1s1i,4 contains 60s subunit. the 40s ribosomal subunit is in file5 1s1h. Phyre2 PDB 3exc chain X Region: 19 - 59 Aligned: 41 Modelled: 41 Confidence: 11.6% Identity: 24% PDB header:hydrolase Chain: X: PDB Molecule:uncharacterized protein; PDBTitle: structure of the rna'se sso8090 from sulfolobus solfataricus Phyre2 PDB 1jhf chain A domain 1 Region: 15 - 30 Aligned: 16 Modelled: 16 Confidence: 9.2% Identity: 31% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: LexA repressor, N-terminal DNA-binding domain Phyre2 1 d1bxya_ 2 d2gycx1 3 d2zjrw1 4 c4a1cV_ 5 c3izce_ 6 c3iz5e_ 7 d1vqow1 8 c3jywF_ 9 c2zkrw_ 10 c1s1iF_ 11 c3excX_ 12 d1jhfa1

Detailed template information

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

1 d1bxya_ 99.9 43 Fold:Ribosomal protein L30p/L7e Superfamily:Ribosomal protein L30p/L7e Family:Ribosomal protein L30p/L7e 2 d2gycx1 99.9 100 Fold:Ribosomal protein L30p/L7e Superfamily:Ribosomal protein L30p/L7e Family:Ribosomal protein L30p/L7e 3 d2zjrw1 99.9 45 Fold:Ribosomal protein L30p/L7e Superfamily:Ribosomal protein L30p/L7e Family:Ribosomal protein L30p/L7e 4 c4a1cV_ 99.0 21 PDB header:ribosome Chain: V: PDB Molecule:60s ribosomal protein l7; PDBTitle: t.thermophila 60s ribosomal subunit in complex with2 initiation factor 6. this file contains 5s rrna,3 5.8s rrna and proteins of molecule 4. 5 c3izce_ 98.9 19 PDB header:ribosome Chain: E: PDB Molecule:60s ribosomal protein rpl11 (l5p); PDBTitle: localization of the large subunit ribosomal proteins into a 6.1 a2 cryo-em map of saccharomyces cerevisiae translating 80s ribosome 6 c3iz5e_ 98.9 28 PDB header:ribosome Chain: E: PDB Molecule:60s ribosomal protein l11 (l5p); PDBTitle: localization of the large subunit ribosomal proteins into a 5.5 a2 cryo-em map of triticum aestivum translating 80s ribosome 7 d1vqow1 98.9 25 Fold:Ribosomal protein L30p/L7e Superfamily:Ribosomal protein L30p/L7e Family:Ribosomal protein L30p/L7e 8 c3jywF_ 98.9 19 PDB header:ribosome Chain: F: PDB Molecule:60s ribosomal protein l7(a); PDBTitle: structure of the 60s proteins for eukaryotic ribosome based on cryo-em2 map of thermomyces lanuginosus ribosome at 8.9a resolution 9 c2zkrw_ 98.8 22 PDB header:ribosomal protein/rna Chain: W: PDB Molecule:rna expansion segment es10; PDBTitle: structure of a mammalian ribosomal 60s subunit within an2 80s complex obtained by docking homology models of the rna3 and proteins into an 8.7 a cryo-em map 10 c1s1iF_ 98.7 18 PDB header:ribosome Chain: F: PDB Molecule:60s ribosomal protein l7-a; PDBTitle: structure of the ribosomal 80s-eef2-sordarin complex from2 yeast obtained by docking atomic models for rna and protein3 components into a 11.7 a cryo-em map. this file, 1s1i,4 contains 60s subunit. the 40s ribosomal subunit is in file5 1s1h. 11 c3excX_ 11.6 24 PDB header:hydrolase Chain: X: PDB Molecule:uncharacterized protein; PDBTitle: structure of the rna'se sso8090 from sulfolobus solfataricus 12 d1jhfa1 9.2 31 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:LexA repressor, N-terminal DNA-binding domain

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