Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	R	L	N	T	L	S	P	A	E	G	S	K	K	A	G	K	R	L	G	R	G	I	G	S	G	L	G	K	T	G	G	R	G	H	K	G	Q	K	S	R	S	G	G	G	V	R	R	G	F	E	G	G	Q	M	P	L	Y	R	R
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		L	P	K	F	G	F	T	S	R	K	A	A	I	T	A	E	I	R	L	S	D	L	A	K	V	E	G	G	V	V	D	L	N	T	L	K	A	A	N	I	I	G	I	Q	I	E	F	A	K	V	I	L	A	G	E	V	T	T	P	V
Secondary structure
SS confidence
Disorder										?	?	?															?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.
Sequence		T	V	R	G	L	R	V	T	K	G	A	R	A	A	I	E	A	A	G	G	K	I	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 2gyc chain J domain 1 Region: 4 - 143 Aligned: 140 Modelled: 140 Confidence: 100.0% Identity: 100% Fold: Ribosomal proteins L15p and L18e Superfamily: Ribosomal proteins L15p and L18e Family: Ribosomal proteins L15p and L18e Phyre2 PDB 2zjr chain I domain 1 Region: 4 - 143 Aligned: 138 Modelled: 140 Confidence: 100.0% Identity: 43% Fold: Ribosomal proteins L15p and L18e Superfamily: Ribosomal proteins L15p and L18e Family: Ribosomal proteins L15p and L18e Phyre2 PDB 3bbo chain N Region: 1 - 144 Aligned: 144 Modelled: 144 Confidence: 100.0% Identity: 42% PDB header:ribosome Chain: N: PDB Molecule:ribosomal protein l15; PDBTitle: homology model for the spinach chloroplast 50s subunit2 fitted to 9.4a cryo-em map of the 70s chlororibosome Phyre2 PDB 2j01 chain P domain 1 Region: 5 - 144 Aligned: 137 Modelled: 140 Confidence: 100.0% Identity: 42% Fold: Ribosomal proteins L15p and L18e Superfamily: Ribosomal proteins L15p and L18e Family: Ribosomal proteins L15p and L18e Phyre2 PDB 4a1c chain K Region: 12 - 143 Aligned: 127 Modelled: 132 Confidence: 100.0% Identity: 26% PDB header:ribosome Chain: K: PDB Molecule:60s ribosomal protein l27a; 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 1vqo chain L domain 1 Region: 12 - 143 Aligned: 126 Modelled: 132 Confidence: 100.0% Identity: 29% Fold: Ribosomal proteins L15p and L18e Superfamily: Ribosomal proteins L15p and L18e Family: Ribosomal proteins L15p and L18e Phyre2 PDB 1s1i chain V Region: 15 - 143 Aligned: 129 Modelled: 129 Confidence: 100.0% Identity: 24% PDB header:ribosome Chain: V: PDB Molecule:60s ribosomal protein l28; 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 2zkr chain L Region: 15 - 143 Aligned: 118 Modelled: 129 Confidence: 100.0% Identity: 25% PDB header:ribosomal protein/rna Chain: L: PDB Molecule:rna expansion segment es20; 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 3iz5 chain O Region: 12 - 143 Aligned: 125 Modelled: 132 Confidence: 100.0% Identity: 27% PDB header:ribosome Chain: O: PDB Molecule:60s ribosomal protein l27a (l15p); 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 O domain 1 Region: 56 - 143 Aligned: 72 Modelled: 74 Confidence: 99.1% Identity: 19% Fold: Ribosomal proteins L15p and L18e Superfamily: Ribosomal proteins L15p and L18e Family: Ribosomal proteins L15p and L18e Phyre2 PDB 3iz5 chain R Region: 56 - 142 Aligned: 71 Modelled: 73 Confidence: 98.6% Identity: 27% PDB header:ribosome Chain: R: PDB Molecule:60s ribosomal protein l18 (l18e); PDBTitle: localization of the large subunit ribosomal proteins into a 5.5 a2 cryo-em map of triticum aestivum translating 80s ribosome Phyre2 PDB 2zkr chain O Region: 56 - 142 Aligned: 71 Modelled: 73 Confidence: 98.6% Identity: 28% PDB header:ribosomal protein/rna Chain: O: PDB Molecule:rna expansion segment es30; 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 4a1a chain N Region: 56 - 142 Aligned: 76 Modelled: 87 Confidence: 98.4% Identity: 29% PDB header:ribosome Chain: N: PDB Molecule:rpl18; 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 3. Phyre2 PDB 3izc chain R Region: 54 - 142 Aligned: 79 Modelled: 81 Confidence: 98.3% Identity: 25% PDB header:ribosome Chain: R: PDB Molecule:60s ribosomal protein rpl18 (l18e); PDBTitle: localization of the large subunit ribosomal proteins into a 6.1 a2 cryo-em map of saccharomyces cerevisiae translating 80s ribosome Phyre2 PDB 1s1i chain O Region: 56 - 142 Aligned: 71 Modelled: 73 Confidence: 98.0% Identity: 30% PDB header:ribosome Chain: O: PDB Molecule:60s ribosomal protein l18; 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 1vqo chain C domain 1 Region: 11 - 137 Aligned: 125 Modelled: 127 Confidence: 20.9% Identity: 20% Fold: Ribosomal protein L4 Superfamily: Ribosomal protein L4 Family: Ribosomal protein L4 Phyre2 PDB 2jo4 chain C Region: 123 - 140 Aligned: 18 Modelled: 18 Confidence: 13.7% Identity: 39% PDB header:de novo protein Chain: C: PDB Molecule:kia7; PDBTitle: tetrameric structure of kia7 peptide Phyre2 PDB 2jo4 chain D Region: 123 - 140 Aligned: 18 Modelled: 18 Confidence: 13.7% Identity: 39% PDB header:de novo protein Chain: D: PDB Molecule:kia7; PDBTitle: tetrameric structure of kia7 peptide Phyre2 PDB 2jo4 chain A Region: 123 - 140 Aligned: 18 Modelled: 18 Confidence: 13.7% Identity: 39% PDB header:de novo protein Chain: A: PDB Molecule:kia7; PDBTitle: tetrameric structure of kia7 peptide Phyre2 PDB 2jo4 chain B Region: 123 - 140 Aligned: 18 Modelled: 18 Confidence: 13.7% Identity: 39% PDB header:de novo protein Chain: B: PDB Molecule:kia7; PDBTitle: tetrameric structure of kia7 peptide Phyre2 1 d2gycj1 2 d2zjri1 3 c3bboN_ 4 d2j01p1 5 c4a1cK_ 6 d1vqol1 7 c1s1iV_ 8 c2zkrl_ 9 c3iz5O_ 10 d1vqoo1 11 c3iz5R_ 12 c2zkro_ 13 c4a1aN_ 14 c3izcR_ 15 c1s1iO_ 16 d1vqoc1 17 c2jo4C_ 18 c2jo4D_ 19 c2jo4A_ 20 c2jo4B_ 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35

Detailed template information

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

1 d2gycj1 100.0 100 Fold:Ribosomal proteins L15p and L18e Superfamily:Ribosomal proteins L15p and L18e Family:Ribosomal proteins L15p and L18e 2 d2zjri1 100.0 43 Fold:Ribosomal proteins L15p and L18e Superfamily:Ribosomal proteins L15p and L18e Family:Ribosomal proteins L15p and L18e 3 c3bboN_ 100.0 42 PDB header:ribosome Chain: N: PDB Molecule:ribosomal protein l15; PDBTitle: homology model for the spinach chloroplast 50s subunit2 fitted to 9.4a cryo-em map of the 70s chlororibosome 4 d2j01p1 100.0 42 Fold:Ribosomal proteins L15p and L18e Superfamily:Ribosomal proteins L15p and L18e Family:Ribosomal proteins L15p and L18e 5 c4a1cK_ 100.0 26 PDB header:ribosome Chain: K: PDB Molecule:60s ribosomal protein l27a; 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. 6 d1vqol1 100.0 29 Fold:Ribosomal proteins L15p and L18e Superfamily:Ribosomal proteins L15p and L18e Family:Ribosomal proteins L15p and L18e 7 c1s1iV_ 100.0 24 PDB header:ribosome Chain: V: PDB Molecule:60s ribosomal protein l28; 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. 8 c2zkrl_ 100.0 25 PDB header:ribosomal protein/rna Chain: L: PDB Molecule:rna expansion segment es20; 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 9 c3iz5O_ 100.0 27 PDB header:ribosome Chain: O: PDB Molecule:60s ribosomal protein l27a (l15p); PDBTitle: localization of the large subunit ribosomal proteins into a 5.5 a2 cryo-em map of triticum aestivum translating 80s ribosome 10 d1vqoo1 99.1 19 Fold:Ribosomal proteins L15p and L18e Superfamily:Ribosomal proteins L15p and L18e Family:Ribosomal proteins L15p and L18e 11 c3iz5R_ 98.6 27 PDB header:ribosome Chain: R: PDB Molecule:60s ribosomal protein l18 (l18e); PDBTitle: localization of the large subunit ribosomal proteins into a 5.5 a2 cryo-em map of triticum aestivum translating 80s ribosome 12 c2zkro_ 98.6 28 PDB header:ribosomal protein/rna Chain: O: PDB Molecule:rna expansion segment es30; 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 13 c4a1aN_ 98.4 29 PDB header:ribosome Chain: N: PDB Molecule:rpl18; 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 3. 14 c3izcR_ 98.3 25 PDB header:ribosome Chain: R: PDB Molecule:60s ribosomal protein rpl18 (l18e); PDBTitle: localization of the large subunit ribosomal proteins into a 6.1 a2 cryo-em map of saccharomyces cerevisiae translating 80s ribosome 15 c1s1iO_ 98.0 30 PDB header:ribosome Chain: O: PDB Molecule:60s ribosomal protein l18; 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. 16 d1vqoc1 20.9 20 Fold:Ribosomal protein L4 Superfamily:Ribosomal protein L4 Family:Ribosomal protein L4 17 c2jo4C_ 13.7 39 PDB header:de novo protein Chain: C: PDB Molecule:kia7; PDBTitle: tetrameric structure of kia7 peptide 18 c2jo4D_ 13.7 39 PDB header:de novo protein Chain: D: PDB Molecule:kia7; PDBTitle: tetrameric structure of kia7 peptide 19 c2jo4A_ 13.7 39 PDB header:de novo protein Chain: A: PDB Molecule:kia7; PDBTitle: tetrameric structure of kia7 peptide 20 c2jo4B_ 13.7 39 PDB header:de novo protein Chain: B: PDB Molecule:kia7; PDBTitle: tetrameric structure of kia7 peptide 21 c2jo5A_ not modelled 13.5 39 PDB header:de novo protein Chain: A: PDB Molecule:kia7f; PDBTitle: tetrameric structure of kia7f peptide 22 c2jo5B_ not modelled 13.5 39 PDB header:de novo protein Chain: B: PDB Molecule:kia7f; PDBTitle: tetrameric structure of kia7f peptide 23 c2jo5C_ not modelled 13.5 39 PDB header:de novo protein Chain: C: PDB Molecule:kia7f; PDBTitle: tetrameric structure of kia7f peptide 24 c2jo5D_ not modelled 13.5 39 PDB header:de novo protein Chain: D: PDB Molecule:kia7f; PDBTitle: tetrameric structure of kia7f peptide 25 c3cceY_ not modelled 12.7 29 PDB header:ribosome Chain: Y: PDB Molecule:50s ribosomal protein l32e; PDBTitle: structure of anisomycin resistant 50s ribosomal subunit: 23s rrna2 mutation u2535a 26 d1vqoy1 not modelled 12.7 29 Fold:Barstar-like Superfamily:Ribosomal protein L32e Family:Ribosomal protein L32e 27 c1s1i0_ not modelled 8.7 32 PDB header:ribosome Chain: 0: PDB Molecule:60s ribosomal protein l32; 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. 28 c3jywD_ not modelled 8.5 14 PDB header:ribosome Chain: D: PDB Molecule:60s ribosomal protein l4(b); PDBTitle: structure of the 60s proteins for eukaryotic ribosome based on cryo-em2 map of thermomyces lanuginosus ribosome at 8.9a resolution 29 c2zjq5_ not modelled 8.5 40 PDB header:ribosome Chain: 5: PDB Molecule:50s ribosomal protein l7/l12; PDBTitle: interaction of l7 with l11 induced by microccocin binding2 to the deinococcus radiodurans 50s subunit 30 d2zjq51 not modelled 8.5 40 Fold:ClpS-like Superfamily:ClpS-like Family:Ribosomal protein L7/12, C-terminal domain 31 d1ctfa_ not modelled 7.9 33 Fold:ClpS-like Superfamily:ClpS-like Family:Ribosomal protein L7/12, C-terminal domain 32 d1dd3a2 not modelled 7.9 27 Fold:ClpS-like Superfamily:ClpS-like Family:Ribosomal protein L7/12, C-terminal domain 33 c2gya3_ not modelled 7.3 33 PDB header:ribosome Chain: 3: PDB Molecule:50s ribosomal protein l7/l12; PDBTitle: structure of the 50s subunit of a pre-translocational e.2 coli ribosome obtained by fitting atomic models for rna and3 protein components into cryo-em map emd-1056 34 c1giyJ_ not modelled 7.0 27 PDB header:ribosome Chain: J: PDB Molecule:50s ribosomal protein l7/l12; PDBTitle: crystal structure of the ribosome at 5.5 a resolution. this2 file, 1giy, contains the 50s ribosome subunit. the 30s3 ribosome subunit, three trna, and mrna molecules are in the4 file 1gix 35 d1a9xa3 not modelled 5.9 16 Fold:PreATP-grasp domain Superfamily:PreATP-grasp domain Family:BC N-terminal domain-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