Secondary structure and disorder prediction

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Sequence		M	E	T	I	A	K	H	R	H	A	R	S	S	A	Q	K	V	R	L	V	A	D	L	I	R	G	K	K	V	S	Q	A	L	D	I	L	T	Y	T	N	K	K	A	A	V	L	V	K	K	V	L	E	S	A	I	A	N	A	E	H
Secondary structure
SS confidence
Disorder		?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110
Sequence		N	D	G	A	D	I	D	D	L	K	V	T	K	I	F	V	D	E	G	P	S	M	K	R	I	M	P	R	A	K	G	R	A	D	R	I	L	K	R	T	S	H	I	T	V	V	V	S	D	R
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 2zjr chain P domain 1 Region: 2 - 110 Aligned: 109 Modelled: 109 Confidence: 100.0% Identity: 49% Fold: Ribosomal protein L22 Superfamily: Ribosomal protein L22 Family: Ribosomal protein L22 Phyre2 PDB 1i4j chain A Region: 1 - 110 Aligned: 107 Modelled: 110 Confidence: 100.0% Identity: 57% Fold: Ribosomal protein L22 Superfamily: Ribosomal protein L22 Family: Ribosomal protein L22 Phyre2 PDB 3bbo chain U Region: 2 - 110 Aligned: 109 Modelled: 109 Confidence: 100.0% Identity: 36% PDB header:ribosome Chain: U: PDB Molecule:ribosomal protein l22; PDBTitle: homology model for the spinach chloroplast 50s subunit2 fitted to 9.4a cryo-em map of the 70s chlororibosome Phyre2 PDB 1vqo chain R domain 1 Region: 2 - 109 Aligned: 107 Modelled: 108 Confidence: 100.0% Identity: 24% Fold: Ribosomal protein L22 Superfamily: Ribosomal protein L22 Family: Ribosomal protein L22 Phyre2 PDB 4a17 chain Q Region: 2 - 110 Aligned: 108 Modelled: 109 Confidence: 100.0% Identity: 22% PDB header:ribosome Chain: Q: PDB Molecule:rpl17; 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 2. Phyre2 PDB 3iz5 chain V Region: 3 - 110 Aligned: 107 Modelled: 108 Confidence: 100.0% Identity: 30% PDB header:ribosome Chain: V: PDB Molecule:60s ribosomal protein l17 (l22p); PDBTitle: localization of the large subunit ribosomal proteins into a 5.5 a2 cryo-em map of triticum aestivum translating 80s ribosome Phyre2 PDB 3jyw chain N Region: 3 - 110 Aligned: 107 Modelled: 108 Confidence: 100.0% Identity: 34% PDB header:ribosome Chain: N: PDB Molecule:60s ribosomal protein l17(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 2gyc chain Q domain 1 Region: 5 - 110 Aligned: 106 Modelled: 106 Confidence: 100.0% Identity: 100% Fold: Ribosomal protein L22 Superfamily: Ribosomal protein L22 Family: Ribosomal protein L22 Phyre2 PDB 2ftc chain M Region: 8 - 110 Aligned: 103 Modelled: 103 Confidence: 100.0% Identity: 29% PDB header:ribosome Chain: M: PDB Molecule:mitochondrial ribosomal protein l22 isoform a; PDBTitle: structural model for the large subunit of the mammalian mitochondrial2 ribosome Phyre2 PDB 2zkr chain R Region: 2 - 110 Aligned: 106 Modelled: 108 Confidence: 100.0% Identity: 30% PDB header:ribosomal protein/rna Chain: R: PDB Molecule:rna expansion segment es39 part i; 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 N Region: 2 - 109 Aligned: 107 Modelled: 108 Confidence: 100.0% Identity: 34% PDB header:ribosome Chain: N: PDB Molecule:60s ribosomal protein l17-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 1r9p chain A Region: 17 - 67 Aligned: 51 Modelled: 51 Confidence: 85.9% Identity: 20% Fold: SufE/NifU Superfamily: SufE/NifU Family: NifU/IscU domain Phyre2 PDB 2z7e chain B Region: 17 - 63 Aligned: 47 Modelled: 47 Confidence: 74.8% Identity: 19% PDB header:biosynthetic protein Chain: B: PDB Molecule:nifu-like protein; PDBTitle: crystal structure of aquifex aeolicus iscu with bound [2fe-2 2s] cluster Phyre2 PDB 1wfz chain A Region: 17 - 63 Aligned: 47 Modelled: 47 Confidence: 67.9% Identity: 21% Fold: SufE/NifU Superfamily: SufE/NifU Family: NifU/IscU domain Phyre2 PDB 3ka5 chain A Region: 24 - 39 Aligned: 16 Modelled: 14 Confidence: 32.6% Identity: 13% PDB header:chaperone Chain: A: PDB Molecule:ribosome-associated protein y (psrp-1); PDBTitle: crystal structure of ribosome-associated protein y (psrp-1)2 from clostridium acetobutylicum. northeast structural3 genomics consortium target id car123a Phyre2 PDB 1fs1 chain B domain 1 Region: 17 - 31 Aligned: 15 Modelled: 15 Confidence: 29.6% Identity: 33% Fold: Skp1 dimerisation domain-like Superfamily: Skp1 dimerisation domain-like Family: Skp1 dimerisation domain-like Phyre2 PDB 3lyv chain F Region: 24 - 39 Aligned: 16 Modelled: 14 Confidence: 28.9% Identity: 13% PDB header:chaperone Chain: F: PDB Molecule:ribosome-associated factor y; PDBTitle: crystal structure of a domain of ribosome-associated factor y from2 streptococcus pyogenes serotype m6. northeast structural genomics3 consortium target id dr64a Phyre2 PDB 2oux chain A domain 1 Region: 19 - 61 Aligned: 43 Modelled: 43 Confidence: 27.4% Identity: 21% Fold: alpha-alpha superhelix Superfamily: MgtE N-terminal domain-like Family: MgtE N-terminal domain-like Phyre2 PDB 3k2t chain A Region: 27 - 39 Aligned: 13 Modelled: 13 Confidence: 26.9% Identity: 8% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:lmo2511 protein; PDBTitle: crystal structure of lmo2511 protein from listeria2 monocytogenes, northeast structural genomics consortium3 target lkr84a Phyre2 PDB 1xjs chain A Region: 17 - 57 Aligned: 41 Modelled: 41 Confidence: 26.3% Identity: 34% Fold: SufE/NifU Superfamily: SufE/NifU Family: NifU/IscU domain Phyre2 1 d2zjrp1 2 d1i4ja_ 3 c3bboU_ 4 d1vqor1 5 c4a17Q_ 6 c3iz5V_ 7 c3jywN_ 8 d2gycq1 9 c2ftcM_ 10 c2zkrr_ 11 c1s1iN_ 12 d1r9pa_ 13 c2z7eB_ 14 d1wfza_ 15 c3ka5A_ 16 d1fs1b1 17 c3lyvF_ 18 d2ouxa1 19 c3k2tA_ 20 d1xjsa_ 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48

Detailed template information

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

1 d2zjrp1 100.0 49 Fold:Ribosomal protein L22 Superfamily:Ribosomal protein L22 Family:Ribosomal protein L22 2 d1i4ja_ 100.0 57 Fold:Ribosomal protein L22 Superfamily:Ribosomal protein L22 Family:Ribosomal protein L22 3 c3bboU_ 100.0 36 PDB header:ribosome Chain: U: PDB Molecule:ribosomal protein l22; PDBTitle: homology model for the spinach chloroplast 50s subunit2 fitted to 9.4a cryo-em map of the 70s chlororibosome 4 d1vqor1 100.0 24 Fold:Ribosomal protein L22 Superfamily:Ribosomal protein L22 Family:Ribosomal protein L22 5 c4a17Q_ 100.0 22 PDB header:ribosome Chain: Q: PDB Molecule:rpl17; 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 2. 6 c3iz5V_ 100.0 30 PDB header:ribosome Chain: V: PDB Molecule:60s ribosomal protein l17 (l22p); PDBTitle: localization of the large subunit ribosomal proteins into a 5.5 a2 cryo-em map of triticum aestivum translating 80s ribosome 7 c3jywN_ 100.0 34 PDB header:ribosome Chain: N: PDB Molecule:60s ribosomal protein l17(a); PDBTitle: structure of the 60s proteins for eukaryotic ribosome based on cryo-em2 map of thermomyces lanuginosus ribosome at 8.9a resolution 8 d2gycq1 100.0 100 Fold:Ribosomal protein L22 Superfamily:Ribosomal protein L22 Family:Ribosomal protein L22 9 c2ftcM_ 100.0 29 PDB header:ribosome Chain: M: PDB Molecule:mitochondrial ribosomal protein l22 isoform a; PDBTitle: structural model for the large subunit of the mammalian mitochondrial2 ribosome 10 c2zkrr_ 100.0 30 PDB header:ribosomal protein/rna Chain: R: PDB Molecule:rna expansion segment es39 part i; 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 11 c1s1iN_ 100.0 34 PDB header:ribosome Chain: N: PDB Molecule:60s ribosomal protein l17-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. 12 d1r9pa_ 85.9 20 Fold:SufE/NifU Superfamily:SufE/NifU Family:NifU/IscU domain 13 c2z7eB_ 74.8 19 PDB header:biosynthetic protein Chain: B: PDB Molecule:nifu-like protein; PDBTitle: crystal structure of aquifex aeolicus iscu with bound [2fe-2 2s] cluster 14 d1wfza_ 67.9 21 Fold:SufE/NifU Superfamily:SufE/NifU Family:NifU/IscU domain 15 c3ka5A_ 32.6 13 PDB header:chaperone Chain: A: PDB Molecule:ribosome-associated protein y (psrp-1); PDBTitle: crystal structure of ribosome-associated protein y (psrp-1)2 from clostridium acetobutylicum. northeast structural3 genomics consortium target id car123a 16 d1fs1b1 29.6 33 Fold:Skp1 dimerisation domain-like Superfamily:Skp1 dimerisation domain-like Family:Skp1 dimerisation domain-like 17 c3lyvF_ 28.9 13 PDB header:chaperone Chain: F: PDB Molecule:ribosome-associated factor y; PDBTitle: crystal structure of a domain of ribosome-associated factor y from2 streptococcus pyogenes serotype m6. northeast structural genomics3 consortium target id dr64a 18 d2ouxa1 27.4 21 Fold:alpha-alpha superhelix Superfamily:MgtE N-terminal domain-like Family:MgtE N-terminal domain-like 19 c3k2tA_ 26.9 8 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:lmo2511 protein; PDBTitle: crystal structure of lmo2511 protein from listeria2 monocytogenes, northeast structural genomics consortium3 target lkr84a 20 d1xjsa_ 26.3 34 Fold:SufE/NifU Superfamily:SufE/NifU Family:NifU/IscU domain 21 d1fs2b1 not modelled 23.6 33 Fold:Skp1 dimerisation domain-like Superfamily:Skp1 dimerisation domain-like Family:Skp1 dimerisation domain-like 22 d1nexa1 not modelled 19.6 33 Fold:Skp1 dimerisation domain-like Superfamily:Skp1 dimerisation domain-like Family:Skp1 dimerisation domain-like 23 d1dwka1 not modelled 19.4 16 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Cyanase N-terminal domain 24 c2zqeA_ not modelled 14.6 36 PDB header:dna binding protein Chain: A: PDB Molecule:muts2 protein; PDBTitle: crystal structure of the smr domain of thermus thermophilus muts2 25 d1pyya2 not modelled 13.6 13 Fold:Penicillin-binding protein 2x (pbp-2x), c-terminal domain Superfamily:Penicillin-binding protein 2x (pbp-2x), c-terminal domain Family:Penicillin-binding protein 2x (pbp-2x), c-terminal domain 26 d1su0b_ not modelled 13.5 25 Fold:SufE/NifU Superfamily:SufE/NifU Family:NifU/IscU domain 27 d1rp5a2 not modelled 13.1 14 Fold:Penicillin-binding protein 2x (pbp-2x), c-terminal domain Superfamily:Penicillin-binding protein 2x (pbp-2x), c-terminal domain Family:Penicillin-binding protein 2x (pbp-2x), c-terminal domain 28 c1rh1A_ not modelled 12.9 21 PDB header:antibiotic Chain: A: PDB Molecule:colicin b; PDBTitle: crystal structure of the cytotoxic bacterial protein2 colicin b at 2.5 a resolution 29 c3ouvA_ not modelled 12.3 21 PDB header:transferase Chain: A: PDB Molecule:serine/threonine protein kinase; PDBTitle: semet derivative of l512m mutant of pasta domain 3 of mycobacterium2 tuberculosis pknb 30 d1r4va_ not modelled 11.9 29 Fold:Histone-fold Superfamily:Histone-fold Family:Bacterial histone-fold protein 31 c2i88A_ not modelled 11.5 29 PDB header:membrane protein Chain: A: PDB Molecule:colicin-e1; PDBTitle: crystal structure of the channel-forming domain of colicin2 e1 32 d1k25a2 not modelled 10.6 19 Fold:Penicillin-binding protein 2x (pbp-2x), c-terminal domain Superfamily:Penicillin-binding protein 2x (pbp-2x), c-terminal domain Family:Penicillin-binding protein 2x (pbp-2x), c-terminal domain 33 c2qq4A_ not modelled 9.5 36 PDB header:metal binding protein Chain: A: PDB Molecule:iron-sulfur cluster biosynthesis protein iscu; PDBTitle: crystal structure of iron-sulfur cluster biosynthesis2 protein iscu (ttha1736) from thermus thermophilus hb8 34 d1ciia1 not modelled 9.2 25 Fold:Toxins' membrane translocation domains Superfamily:Colicin Family:Colicin 35 c3fewX_ not modelled 9.0 24 PDB header:immune system Chain: X: PDB Molecule:colicin s4; PDBTitle: structure and function of colicin s4, a colicin with a2 duplicated receptor binding domain 36 c1xc0A_ not modelled 8.4 29 PDB header:signaling protein Chain: A: PDB Molecule:pardaxin p-4; PDBTitle: twenty lowest energy structures of pa4 by solution nmr 37 d2ovra1 not modelled 8.1 25 Fold:Skp1 dimerisation domain-like Superfamily:Skp1 dimerisation domain-like Family:Skp1 dimerisation domain-like 38 d1a87a_ not modelled 8.0 25 Fold:Toxins' membrane translocation domains Superfamily:Colicin Family:Colicin 39 c1a87A_ not modelled 8.0 25 PDB header:bacteriocin Chain: A: PDB Molecule:colicin n; PDBTitle: colicin n 40 c2p1nD_ not modelled 8.0 40 PDB header:signaling protein Chain: D: PDB Molecule:skp1-like protein 1a; PDBTitle: mechanism of auxin perception by the tir1 ubiqutin ligase 41 d1pyya1 not modelled 8.0 7 Fold:Penicillin-binding protein 2x (pbp-2x), c-terminal domain Superfamily:Penicillin-binding protein 2x (pbp-2x), c-terminal domain Family:Penicillin-binding protein 2x (pbp-2x), c-terminal domain 42 c2guzD_ not modelled 7.2 19 PDB header:chaperone, protein transport Chain: D: PDB Molecule:mitochondrial import inner membrane translocase PDBTitle: structure of the tim14-tim16 complex of the mitochondrial2 protein import motor 43 d1k25a1 not modelled 7.2 14 Fold:Penicillin-binding protein 2x (pbp-2x), c-terminal domain Superfamily:Penicillin-binding protein 2x (pbp-2x), c-terminal domain Family:Penicillin-binding protein 2x (pbp-2x), c-terminal domain 44 d1v95a_ not modelled 7.2 15 Fold:Anticodon-binding domain-like Superfamily:Class II aaRS ABD-related Family:Anticodon-binding domain of Class II aaRS 45 c2qdoC_ not modelled 6.9 14 PDB header:photosynthesis Chain: C: PDB Molecule:nbla protein; PDBTitle: nbla protein from t. vulcanus 46 d1wwia1 not modelled 6.8 35 Fold:Histone-fold Superfamily:Histone-fold Family:Bacterial histone-fold protein 47 d1jiha2 not modelled 6.3 13 Fold:DNA/RNA polymerases Superfamily:DNA/RNA polymerases Family:Lesion bypass DNA polymerase (Y-family), catalytic domain 48 d1rh1a2 not modelled 5.8 22 Fold:Toxins' membrane translocation domains Superfamily:Colicin Family:Colicin

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