Phyre Home Retrieve Phyre Job Id
Emailmdejesus@rockefeller.edu
DescriptionRVBD0700_(rpsJ)_800490_800795
DateFri Jul 26 01:50:27 BST 2019
Unique Job ID9e945d9f431fd548
SequenceVAGQKIRIRL ... Download FASTA
Job Typenormal
Job Expiry

Summary 

Top model
Image coloured by rainbow N → C terminus
Model dimensions (Å):X:72.149 Y:27.985 Z:24.227
Model (left) based on template c5o5jJ_
Top template information
PDB header:ribosome
Chain: J: PDB Molecule:30s ribosomal protein s10;
PDBTitle: structure of the 30s small ribosomal subunit from mycobacterium2 smegmatis
Confidence and coverage
Confidence:100.0% Coverage: 98%
99 residues ( 98% of your sequence) have been modelled with 100.0% confidence by the single highest scoring template.
3D viewing
Interactive 3D view in JSmol
For other options to view your downloaded structure offline see the FAQ

Sequence analysis 

Download FASTA version

Secondary structure and disorder prediction [Show] 

Domain analysis [Show] 

Detailed template information [Hide] 

 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c5o5jJ_



100.0 98
PDB header:ribosome
Chain: J: PDB Molecule:30s ribosomal protein s10;
PDBTitle: structure of the 30s small ribosomal subunit from mycobacterium2 smegmatis
2d2qalj1



100.0 61
Fold:Ferredoxin-like
Superfamily:Ribosomal protein S10
Family:Ribosomal protein S10
3d2uubj1



100.0 58
Fold:Ferredoxin-like
Superfamily:Ribosomal protein S10
Family:Ribosomal protein S10
4c3bbnJ_



100.0 53
PDB header:ribosome
Chain: J: PDB Molecule:ribosomal protein s10;
PDBTitle: homology model for the spinach chloroplast 30s subunit fitted to 9.4a2 cryo-em map of the 70s chlororibosome.
5c3zeyQ_



100.0 19
PDB header:ribosome
Chain: Q: PDB Molecule:ribosomal protein s20, putative;
PDBTitle: high-resolution cryo-electron microscopy structure of the trypanosoma2 brucei ribosome
6c3j20L_



100.0 35
PDB header:ribosome
Chain: L: PDB Molecule:30s ribosomal protein s10p;
PDBTitle: promiscuous behavior of proteins in archaeal ribosomes revealed by2 cryo-em: implications for evolution of eukaryotic ribosomes (30s3 ribosomal subunit)
7c2xznJ_



100.0 27
PDB header:ribosome
Chain: J: PDB Molecule:ribosomal protein s10 containing protein;
PDBTitle: crystal structure of the eukaryotic 40s ribosomal2 subunit in complex with initiation factor 1. this file3 contains the 40s subunit and initiation factor for4 molecule 2
8c3j6vJ_



100.0 25
PDB header:ribosome
Chain: J: PDB Molecule:28s ribosomal protein s10, mitochondrial;
PDBTitle: cryo-em structure of the small subunit of the mammalian mitochondrial2 ribosome
9c2zkqj_



100.0 25
PDB header:ribosomal protein/rna
Chain: J: PDB Molecule:
PDBTitle: structure of a mammalian ribosomal 40s subunit within an 80s complex2 obtained by docking homology models of the rna and proteins into an3 8.7 a cryo-em map
10c1s1hJ_



100.0 29
PDB header:ribosome
Chain: J: PDB Molecule:40s ribosomal protein s20;
PDBTitle: structure of the ribosomal 80s-eef2-sordarin complex from yeast2 obtained by docking atomic models for rna and protein components into3 a 11.7 a cryo-em map. this file, 1s1h, contains 40s subunit. the 60s4 ribosomal subunit is in file 1s1i.
11c3iz6J_



100.0 26
PDB header:ribosome
Chain: J: PDB Molecule:40s ribosomal protein s20 (s10p);
PDBTitle: localization of the small subunit ribosomal proteins into a 5.5 a2 cryo-em map of triticum aestivum translating 80s ribosome
12c5xyiU_



100.0 24
PDB header:ribosome
Chain: U: PDB Molecule:ribosomal protein s10p/s20e, putative;
PDBTitle: small subunit of trichomonas vaginalis ribosome
13c4v1ak_



99.9 20
PDB header:ribosome
Chain: K: PDB Molecule:
PDBTitle: structure of the large subunit of the mammalian mitoribosome, part 22 of 2
14c2mewA_



99.9 70
PDB header:structural protein
Chain: A: PDB Molecule:30s ribosomal protein s10;
PDBTitle: solution structure of nuse (s10) from thermotoga maritima
15c3r2cJ_



99.9 57
PDB header:transcription/rna
Chain: J: PDB Molecule:30s ribosomal protein s10;
PDBTitle: crystal structure of antitermination factors nusb and nuse in complex2 with boxa rna
16c3j7yf_



99.3 17
PDB header:ribosome
Chain: F: PDB Molecule:ul4;
PDBTitle: structure of the large ribosomal subunit from human mitochondria
17d1xbpg1



35.4 29
Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Ribosomal protein L11, C-terminal domain
Family:Ribosomal protein L11, C-terminal domain
18c3cjqB_



27.6 38
PDB header:transferase/ribosomal protein
Chain: B: PDB Molecule:50s ribosomal protein l11;
PDBTitle: ribosomal protein l11 methyltransferase (prma) in complex with2 dimethylated ribosomal protein l11 in space group p212121
19c4hubI_



21.1 24
PDB header:ribosome
Chain: I: PDB Molecule:50s ribosomal protein l11p;
PDBTitle: the re-refined crystal structure of the haloarcula marismortui large2 ribosomal subunit at 2.4 angstrom resolution: more complete structure3 of the l7/l12 and l1 stalk, l5 and lx proteins
20c5colB_



19.5 19
PDB header:translation
Chain: B: PDB Molecule:50s ribosomal protein l11;
PDBTitle: ribosomal protein l11 from methanococcus jannaschii
21d1fnoa3



not modelled 18.7 21
Fold:Ferredoxin-like
Superfamily:Bacterial exopeptidase dimerisation domain
Family:Bacterial exopeptidase dimerisation domain
22d1hc8a_



not modelled 16.9 37
Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Ribosomal protein L11, C-terminal domain
Family:Ribosomal protein L11, C-terminal domain
23d1mmsa1



not modelled 16.8 26
Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Ribosomal protein L11, C-terminal domain
Family:Ribosomal protein L11, C-terminal domain
24c3ai4A_



not modelled 15.7 23
PDB header:fluorescent protein, replication
Chain: A: PDB Molecule:yeast enhanced green fluorescent protein,dna polymerase
PDBTitle: crystal structure of yeast enhanced green fluorescent protein - mouse2 polymerase iota ubiquitin binding motif fusion protein
25c3j39K_



not modelled 15.5 19
PDB header:ribosome
Chain: K: PDB Molecule:60s ribosomal protein l12;
PDBTitle: structure of the d. melanogaster 60s ribosomal proteins
26c1s1iK_



not modelled 14.9 21
PDB header:ribosome
Chain: K: PDB Molecule:60s ribosomal protein l12;
PDBTitle: structure of the ribosomal 80s-eef2-sordarin complex from yeast2 obtained by docking atomic models for rna and protein components into3 a 11.7 a cryo-em map. this file, 1s1i, contains 60s subunit. the 40s4 ribosomal subunit is in file 1s1h.
27c2kl8A_



not modelled 13.8 14
PDB header:de novo protein
Chain: A: PDB Molecule:or15;
PDBTitle: solution nmr structure of de novo designed ferredoxin-like fold2 protein, northeast structural genomics consortium target or15
28c3izcn_



not modelled 13.7 20
PDB header:ribosome
Chain: N: PDB Molecule:60s ribosomal protein rpl14 (l14e);
PDBTitle: localization of the large subunit ribosomal proteins into a 6.1 a2 cryo-em map of saccharomyces cerevisiae translating 80s ribosome
29c1vq8I_



not modelled 13.4 21
PDB header:ribosome
Chain: I: PDB Molecule:50s ribosomal protein l11p;
PDBTitle: the structure of ccda-phe-cap-bio and the antibiotic sparsomycin bound2 to the large ribosomal subunit of haloarcula marismortui
30c1s6xA_



not modelled 11.4 36
PDB header:toxin
Chain: A: PDB Molecule:kvap channel;
PDBTitle: solution structure of vstx
31c2zkri_



not modelled 11.1 21
PDB header:ribosomal protein/rna
Chain: I: PDB Molecule:rna expansion segment es15 part i;
PDBTitle: structure of a mammalian ribosomal 60s subunit within an 80s complex2 obtained by docking homology models of the rna and proteins into an3 8.7 a cryo-em map
32c2yqrA_



not modelled 11.0 24
PDB header:rna binding protein
Chain: A: PDB Molecule:kiaa0907 protein;
PDBTitle: solution structure of the kh domain in kiaa0907 protein
33c5cw9A_



not modelled 10.9 14
PDB header:de novo protein
Chain: A: PDB Molecule:de novo designed ferredoxin-ferredoxin domain insertion
PDBTitle: crystal structure of de novo designed ferredoxin-ferredoxin domain2 insertion protein
34d1dbda_



not modelled 10.9 19
Fold:Ferredoxin-like
Superfamily:Viral DNA-binding domain
Family:Viral DNA-binding domain
35d2bopa_



not modelled 10.6 19
Fold:Ferredoxin-like
Superfamily:Viral DNA-binding domain
Family:Viral DNA-binding domain
36c4ky3A_



not modelled 10.5 10
PDB header:de novo protein
Chain: A: PDB Molecule:designed protein or327;
PDBTitle: three-dimensional structure of the orthorhombic crystal of2 computationally designed insertion domain , northeast structural3 genomics consortium (nesg) target or327
37d1iwga2



not modelled 10.4 15
Fold:Ferredoxin-like
Superfamily:Multidrug efflux transporter AcrB pore domain; PN1, PN2, PC1 and PC2 subdomains
Family:Multidrug efflux transporter AcrB pore domain; PN1, PN2, PC1 and PC2 subdomains
38c2ko4A_



not modelled 10.0 31
PDB header:transcription
Chain: A: PDB Molecule:mediator of rna polymerase ii transcription subunit 15;
PDBTitle: complex structure of the activation domain of gcn4 bound to the2 mediator co-activator domain of gal11/med15
39c1jqmA_



not modelled 9.8 26
PDB header:ribosome
Chain: A: PDB Molecule:50s ribosomal protein l11;
PDBTitle: fitting of l11 protein and elongation factor g (ef-g) in2 the cryo-em map of e. coli 70s ribosome bound with ef-g,3 gdp and fusidic acid
40c2k6nA_



not modelled 9.7 36
PDB header:structural protein
Chain: A: PDB Molecule:supervillin;
PDBTitle: solution structure of human supervillin headpiece, minimized2 average
41c3j46n_



not modelled 9.6 33
PDB header:ribosome/protein transport
Chain: N: PDB Molecule:
PDBTitle: structure of the secy protein translocation channel in action
42c3zf7y_



not modelled 9.4 15
PDB header:ribosome
Chain: Y: PDB Molecule:60s ribosomal protein l24, putative;
PDBTitle: high-resolution cryo-electron microscopy structure of the trypanosoma2 brucei ribosome
43c5o60J_



not modelled 9.4 42
PDB header:ribosome
Chain: J: PDB Molecule:50s ribosomal protein l11;
PDBTitle: structure of the 50s large ribosomal subunit from mycobacterium2 smegmatis
44c3bboK_



not modelled 9.2 26
PDB header:ribosome
Chain: K: PDB Molecule:ribosomal protein l11;
PDBTitle: homology model for the spinach chloroplast 50s subunit fitted to 9.4a2 cryo-em map of the 70s chlororibosome
45c2vhmI_



not modelled 9.2 33
PDB header:ribosome
Chain: I: PDB Molecule:50s ribosomal protein l11;
PDBTitle: structure of pdf binding helix in complex with the ribosome2 (part 1 of 4)
46c4a1eE_



not modelled 9.2 11
PDB header:ribosome
Chain: E: PDB Molecule:60s ribosomal protein l9;
PDBTitle: t.thermophila 60s ribosomal subunit in complex with2 initiation factor 6. this file contains 5s rrna, 5.8s rrna3 and proteins of molecule 1
47c3lpeF_



not modelled 9.1 25
PDB header:transferase
Chain: F: PDB Molecule:dna-directed rna polymerase subunit e'';
PDBTitle: crystal structure of spt4/5ngn heterodimer complex from methanococcus2 jannaschii
48c4p1zD_



not modelled 8.8 11
PDB header:rna binding protein
Chain: D: PDB Molecule:piwi-like protein 1;
PDBTitle: structure of the mid domain from miwi
49d1vqoe2



not modelled 8.5 21
Fold:Ribosomal protein L6
Superfamily:Ribosomal protein L6
Family:Ribosomal protein L6
50c4g0mB_



not modelled 8.5 11
PDB header:gene regulation
Chain: B: PDB Molecule:protein argonaute 2;
PDBTitle: crystal structure of arabidopsis thaliana ago2 mid domain
51c2kwvA_



not modelled 8.1 40
PDB header:protein binding/signaling protein
Chain: A: PDB Molecule:dna polymerase iota;
PDBTitle: solution structure of ubm1 of murine polymerase iota in complex with2 ubiquitin
52d1yvua2



not modelled 8.1 5
Fold:Ribonuclease H-like motif
Superfamily:Ribonuclease H-like
Family:PIWI domain
53c3iz5F_



not modelled 7.9 22
PDB header:ribosome
Chain: F: PDB Molecule:60s ribosomal protein l9 (l6p);
PDBTitle: localization of the large subunit ribosomal proteins into a 5.5 a2 cryo-em map of triticum aestivum translating 80s ribosome
54c2hxgB_



not modelled 7.8 15
PDB header:isomerase
Chain: B: PDB Molecule:l-arabinose isomerase;
PDBTitle: crystal structure of mn2+ bound ecai
55d1vqoi1



not modelled 7.6 21
Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Ribosomal protein L11, C-terminal domain
Family:Ribosomal protein L11, C-terminal domain
56c5h2wD_



not modelled 7.4 14
PDB header:protein transport/hydrolase
Chain: D: PDB Molecule:ubiquitin-like-specific protease 1;
PDBTitle: crystal structure of the karyopherin kap60p bound to the sumo protease2 ulp1p (150-340)
57c5h2xB_



not modelled 7.4 14
PDB header:protein transport/hydrogenase
Chain: B: PDB Molecule:ubiquitin-like-specific protease 1;
PDBTitle: crystal structure of the karyopherin kap60p bound to the sumo protease2 ulp1p (150-172)
58c3j39H_



not modelled 7.1 19
PDB header:ribosome
Chain: H: PDB Molecule:60s ribosomal protein l9;
PDBTitle: structure of the d. melanogaster 60s ribosomal proteins
59c2ln3A_



not modelled 7.0 11
PDB header:de novo protein
Chain: A: PDB Molecule:de novo designed protein or135;
PDBTitle: solution nmr structure of de novo designed protein, if3-like fold,2 northeast structural genomics consortium target or135 (casd target)
60c6amgA_



not modelled 6.7 8
PDB header:metal binding protein
Chain: A: PDB Molecule:cytochrome p460;
PDBTitle: cyt p460 of nitrosomonas sp. al212
61d2q79a1



not modelled 6.6 12
Fold:Ferredoxin-like
Superfamily:Viral DNA-binding domain
Family:Viral DNA-binding domain
62c2mulA_



not modelled 6.6 50
PDB header:protein binding
Chain: A: PDB Molecule:e3 ubiquitin-protein ligase huwe1;
PDBTitle: solution structure of the ubm1 domain of human huwe1/arf-bp1
63c3zf7M_



not modelled 6.3 16
PDB header:ribosome
Chain: M: PDB Molecule:60s ribosomal protein l12, putative;
PDBTitle: high-resolution cryo-electron microscopy structure of the trypanosoma2 brucei ribosome
64c2l3xA_



not modelled 6.3 56
PDB header:protein binding
Chain: A: PDB Molecule:ablim2 protein;
PDBTitle: villin head piece domain of human ablim2
65c3ccmE_



not modelled 6.3 19
PDB header:ribosome
Chain: E: PDB Molecule:50s ribosomal protein l6p;
PDBTitle: structure of anisomycin resistant 50s ribosomal subunit: 23s rrna2 mutation g2611u
66c3f41B_



not modelled 6.0 23
PDB header:hydrolase
Chain: B: PDB Molecule:phytase;
PDBTitle: structure of the tandemly repeated protein tyrosine2 phosphatase like phytase from mitsuokella multacida
67c5an9B_



not modelled 5.9 19
PDB header:translation
Chain: B: PDB Molecule:60s ribosomal protein l9;
PDBTitle: mechanism of eif6 release from the nascent 60s ribosomal subunit
68d1yu5x1



not modelled 5.8 71
Fold:VHP, Villin headpiece domain
Superfamily:VHP, Villin headpiece domain
Family:VHP, Villin headpiece domain
69c3b0vD_



not modelled 5.8 15
PDB header:oxidoreductase/rna
Chain: D: PDB Molecule:trna-dihydrouridine synthase;
PDBTitle: trna-dihydrouridine synthase from thermus thermophilus in complex with2 trna
70d1a7ge_



not modelled 5.5 15
Fold:Ferredoxin-like
Superfamily:Viral DNA-binding domain
Family:Viral DNA-binding domain
71d1j2jb_



not modelled 5.4 32
Fold:Spectrin repeat-like
Superfamily:GAT-like domain
Family:GAT domain
72c4bduC_



not modelled 5.4 24
PDB header:apoptosis
Chain: C: PDB Molecule:green fluorescent protein, apoptosis regulator bax;
PDBTitle: bax bh3-in-groove dimer (gfp)
73d1pbya3



not modelled 5.4 25
Fold:Immunoglobulin-like beta-sandwich
Superfamily:E set domains
Family:Quinohemoprotein amine dehydrogenase A chain, domains 4 and 5
74d1f9fa_



not modelled 5.3 11
Fold:Ferredoxin-like
Superfamily:Viral DNA-binding domain
Family:Viral DNA-binding domain
75c5o60W_



not modelled 5.2 20
PDB header:ribosome
Chain: W: PDB Molecule:50s ribosomal protein l25;
PDBTitle: structure of the 50s large ribosomal subunit from mycobacterium2 smegmatis
76d1r8ha_



not modelled 5.2 4
Fold:Ferredoxin-like
Superfamily:Viral DNA-binding domain
Family:Viral DNA-binding domain
77d1qzpa_



not modelled 5.1 57
Fold:VHP, Villin headpiece domain
Superfamily:VHP, Villin headpiece domain
Family:VHP, Villin headpiece domain
78c5vntA_



not modelled 5.1 29
PDB header:protein binding
Chain: A: PDB Molecule:villin-4;
PDBTitle: solution nmr structure of the c-terminal headpiece domain of villin 42 from a.thaliana, the first non-vertebrate headpiece structure

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