Phyre Home Retrieve Phyre Job Id
Emailmdejesus@rockefeller.edu
DescriptionRVBD0710_(rpsQ)_805759_806169
DateFri Jul 26 01:50:28 BST 2019
Unique Job IDe484dd3c782e40fd
SequenceVMAEAKTGAK ... Download FASTA
Job Typenormal
Job Expiry

Summary 

Top model
Image coloured by rainbow N → C terminus
Model dimensions (Å):X:47.630 Y:63.873 Z:51.056
Model (left) based on template c5o5jQ_
Top template information
PDB header:ribosome
Chain: Q: PDB Molecule:30s ribosomal protein s17;
PDBTitle: structure of the 30s small ribosomal subunit from mycobacterium2 smegmatis
Confidence and coverage
Confidence:100.0% Coverage: 69%
94 residues ( 69% of your sequence) have been modelled with 100.0% confidence by the single highest scoring template.
You may wish to submit your sequence to Phyrealarm. This will automatically scan your sequence every week for new potential templates as they appear in the Phyre2 library.
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
1c5o5jQ_
100.0 88
PDB header:ribosome
Chain: Q: PDB Molecule:30s ribosomal protein s17;
PDBTitle: structure of the 30s small ribosomal subunit from mycobacterium2 smegmatis
2c3zeyE_
100.0 24
PDB header:ribosome
Chain: E: PDB Molecule:40s ribosomal proteins s11, putative;
PDBTitle: high-resolution cryo-electron microscopy structure of the trypanosoma2 brucei ribosome
3c3u5gL_
100.0 32
PDB header:ribosome
Chain: L: PDB Molecule:40s ribosomal protein s11-a;
PDBTitle: the structure of the eukaryotic ribosome at 3.0 a resolution. this2 entry contains proteins of the 40s subunit, ribosome b
4c3j3aL_
100.0 30
PDB header:ribosome
Chain: L: PDB Molecule:40s ribosomal protein s11;
PDBTitle: structure of the human 40s ribosomal proteins
5c3j20R_
100.0 34
PDB header:ribosome
Chain: R: PDB Molecule:30s ribosomal protein s17p;
PDBTitle: promiscuous behavior of proteins in archaeal ribosomes revealed by2 cryo-em: implications for evolution of eukaryotic ribosomes (30s3 ribosomal subunit)
6c2xznQ_
100.0 22
PDB header:ribosome
Chain: Q: PDB Molecule:ribosomal protein s17 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
7c5xyiL_
100.0 28
PDB header:ribosome
Chain: L: PDB Molecule:uncharacterized protein;
PDBTitle: small subunit of trichomonas vaginalis ribosome
8d2uubq1
100.0 46
Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Cold shock DNA-binding domain-like
9d1i94q_
100.0 46
Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Cold shock DNA-binding domain-like
10c3bbnQ_
100.0 38
PDB header:ribosome
Chain: Q: PDB Molecule:ribosomal protein s17;
PDBTitle: homology model for the spinach chloroplast 30s subunit fitted to 9.4a2 cryo-em map of the 70s chlororibosome.
11d2gy9q1
100.0 55
Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Cold shock DNA-binding domain-like
12c1s1hQ_
100.0 32
PDB header:ribosome
Chain: Q: PDB Molecule:40s ribosomal protein s11;
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.
13d1ripa_
100.0 63
Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Cold shock DNA-binding domain-like
14c2zkqq_
100.0 28
PDB header:ribosomal protein/rna
Chain: Q: 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
15c3j6vQ_
100.0 28
PDB header:ribosome
Chain: Q: PDB Molecule:28s ribosomal protein s17, mitochondrial;
PDBTitle: cryo-em structure of the small subunit of the mammalian mitochondrial2 ribosome
16c3izbP_
99.9 33
PDB header:ribosome
Chain: P: PDB Molecule:40s ribosomal protein rps11 (s17p);
PDBTitle: localization of the small subunit ribosomal proteins into a 6.1 a2 cryo-em map of saccharomyces cerevisiae translating 80s ribosome
17c3iz6P_
99.9 25
PDB header:ribosome
Chain: P: PDB Molecule:40s ribosomal protein s11 (s17p);
PDBTitle: localization of the small subunit ribosomal proteins into a 5.5 a2 cryo-em map of triticum aestivum translating 80s ribosome
18d1t9ha1
46.6 18
Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Cold shock DNA-binding domain-like
19c6gmaA_
34.8 32
PDB header:protein binding
Chain: A: PDB Molecule:rb1-inducible coiled-coil protein 1;
PDBTitle: crystal structure of the fip200 c-terminal region
20c2xzm1_
25.3 42
PDB header:ribosome
Chain: 1: PDB Molecule:ribosomal protein s28e 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 1
21d1ne3a_
not modelled 24.6 33
Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Cold shock DNA-binding domain-like
22c3zeyZ_
not modelled 22.6 58
PDB header:ribosome
Chain: Z: PDB Molecule:40s ribosomal protein s33, putative;
PDBTitle: high-resolution cryo-electron microscopy structure of the trypanosoma2 brucei ribosome
23d1ny4a_
not modelled 22.1 42
Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Cold shock DNA-binding domain-like
24d1u0la1
not modelled 18.8 35
Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Cold shock DNA-binding domain-like
25d1e32a1
not modelled 18.1 25
Fold:Double psi beta-barrel
Superfamily:ADC-like
Family:Cdc48 N-terminal domain-like
26c4i7aD_
not modelled 16.7 24
PDB header:structural protein
Chain: D: PDB Molecule:ethanolamine utilization protein eutn/carboxysome
PDBTitle: grpn pentameric microcompartment shell protein from rhodospirillum2 rubrum
27c5ly5A_
not modelled 15.7 14
PDB header:unknown function
Chain: A: PDB Molecule:arcadin-1;
PDBTitle: arcadin-1 from pyrobaculum calidifontis
28c2yv5A_
not modelled 15.6 25
PDB header:hydrolase
Chain: A: PDB Molecule:yjeq protein;
PDBTitle: crystal structure of yjeq from aquifex aeolicus
29c2rqrA_
not modelled 15.1 25
PDB header:protein binding
Chain: A: PDB Molecule:engulfment and cell motility protein 1, linker, dedicator
PDBTitle: the solution structure of human dock2 sh3 domain - elmo1 peptide2 chimera complex
30c5uvnA_
not modelled 14.5 12
PDB header:transport protein
Chain: A: PDB Molecule:paraquat-inducible protein b;
PDBTitle: structure of e. coli mce protein pqib, periplasmic domain
31c5uvnC_
not modelled 14.5 12
PDB header:transport protein
Chain: C: PDB Molecule:paraquat-inducible protein b;
PDBTitle: structure of e. coli mce protein pqib, periplasmic domain
32c5uvnD_
not modelled 14.5 12
PDB header:transport protein
Chain: D: PDB Molecule:paraquat-inducible protein b;
PDBTitle: structure of e. coli mce protein pqib, periplasmic domain
33c5uvnE_
not modelled 14.5 12
PDB header:transport protein
Chain: E: PDB Molecule:paraquat-inducible protein b;
PDBTitle: structure of e. coli mce protein pqib, periplasmic domain
34c5uvnF_
not modelled 14.5 12
PDB header:transport protein
Chain: F: PDB Molecule:paraquat-inducible protein b;
PDBTitle: structure of e. coli mce protein pqib, periplasmic domain
35c5uvnB_
not modelled 14.5 12
PDB header:transport protein
Chain: B: PDB Molecule:paraquat-inducible protein b;
PDBTitle: structure of e. coli mce protein pqib, periplasmic domain
36d2hd3a1
not modelled 14.2 16
Fold:OB-fold
Superfamily:EutN/CcmL-like
Family:EutN/CcmL-like
37c3iz6Y_
not modelled 14.2 33
PDB header:ribosome
Chain: Y: PDB Molecule:40s ribosomal protein s28 (s28e);
PDBTitle: localization of the small subunit ribosomal proteins into a 5.5 a2 cryo-em map of triticum aestivum translating 80s ribosome
38c4n8xB_
not modelled 13.8 18
PDB header:structural protein
Chain: B: PDB Molecule:carbon dioxide concentrating mechanism protein;
PDBTitle: the structure of nostoc sp. pcc 7120 ccml
39c4ytlB_
not modelled 13.1 17
PDB header:transcription
Chain: B: PDB Molecule:transcription elongation factor spt5;
PDBTitle: structure of the kow2-kow3 domain of transcription elongation factor2 spt5.
40c4k73A_
not modelled 13.1 38
PDB header:transferase
Chain: A: PDB Molecule:l,d-transpeptidase;
PDBTitle: x-ray crystal structure of an l,d-transpeptidase from mycobacterium2 tuberculosis h37rv
41d1udxa3
not modelled 12.6 33
Fold:Obg GTP-binding protein C-terminal domain
Superfamily:Obg GTP-binding protein C-terminal domain
Family:Obg GTP-binding protein C-terminal domain
42c2yupA_
not modelled 12.3 20
PDB header:cell adhesion
Chain: A: PDB Molecule:vinexin;
PDBTitle: solution structure of the second sh3 domain of human vinexin
43c4tseA_
not modelled 12.3 23
PDB header:ligase
Chain: A: PDB Molecule:e3 ubiquitin-protein ligase mib1;
PDBTitle: crystal structure of the mib repeat domain of mind bomb 1
44c5uz4Z_
not modelled 12.2 19
PDB header:ribosome/hydrolase
Chain: Z: PDB Molecule:small ribosomal subunit biogenesis gtpase rsga;
PDBTitle: the cryo-em structure of yjeq bound to the 30s subunit suggests a2 fidelity checkpoint function for this protein in ribosome assembly
45c5ohoB_
not modelled 12.2 16
PDB header:transcription
Chain: B: PDB Molecule:transcription elongation factor spt5;
PDBTitle: crystal structure of the kowx-kow4 domain of human dsif
46c2dbkA_
not modelled 12.1 25
PDB header:signaling protein
Chain: A: PDB Molecule:crk-like protein;
PDBTitle: solution structures of the sh3 domain of human crk-like2 protein
47c5znpB_
not modelled 11.9 14
PDB header:gene regulation
Chain: B: PDB Molecule:short life family protein;
PDBTitle: crystal structure of ptshl in complex with an h3k4me3 peptide
48c3d0fA_
not modelled 11.7 12
PDB header:transferase
Chain: A: PDB Molecule:penicillin-binding 1 transmembrane protein mrca;
PDBTitle: structure of the big_1156.2 domain of putative penicillin-binding2 protein mrca from nitrosomonas europaea atcc 19718
49d1gria2
not modelled 11.5 14
Fold:SH3-like barrel
Superfamily:SH3-domain
Family:SH3-domain
50c3nmzD_
not modelled 11.3 20
PDB header:cell adhesion/cell cycle
Chain: D: PDB Molecule:rho guanine nucleotide exchange factor 4;
PDBTitle: crystal structure of apc complexed with asef
51d1ue9a_
not modelled 11.3 17
Fold:SH3-like barrel
Superfamily:SH3-domain
Family:SH3-domain
52c2d8jA_
not modelled 10.8 14
PDB header:transferase
Chain: A: PDB Molecule:fyn-related kinase;
PDBTitle: solution structure of the sh3 domain of fyn-related kinase
53d1grja2
not modelled 10.7 12
Fold:FKBP-like
Superfamily:FKBP-like
Family:GreA transcript cleavage factor, C-terminal domain
54c2e6zA_
not modelled 10.6 17
PDB header:transcription
Chain: A: PDB Molecule:transcription elongation factor spt5;
PDBTitle: solution structure of the second kow motif of human2 transcription elongation factor spt5
55c1negA_
not modelled 9.5 13
PDB header:structural protein
Chain: A: PDB Molecule:spectrin alpha chain, brain;
PDBTitle: crystal structure analysis of n-and c-terminal labeled sh3-domain of2 alpha-chicken spectrin
56d1nega_
not modelled 9.5 13
Fold:SH3-like barrel
Superfamily:SH3-domain
Family:SH3-domain
57d2b1ya1
not modelled 9.4 11
Fold:Atu1913-like
Superfamily:Atu1913-like
Family:Atu1913-like
58c2dl8A_
not modelled 8.6 10
PDB header:signaling protein
Chain: A: PDB Molecule:slit-robo rho gtpase-activating protein 2;
PDBTitle: solution structure of the sh3 domain of human slit-robo rho2 gtpase-activating protein 2
59c1grjA_
not modelled 8.5 12
PDB header:transcription regulation
Chain: A: PDB Molecule:grea protein;
PDBTitle: grea transcript cleavage factor from escherichia coli
60c2dmoA_
not modelled 8.5 14
PDB header:signaling protein
Chain: A: PDB Molecule:neutrophil cytosol factor 2;
PDBTitle: refined solution structure of the 1st sh3 domain from human2 neutrophil cytosol factor 2 (ncf-2)
61d1h8ka_
not modelled 8.5 14
Fold:SH3-like barrel
Superfamily:SH3-domain
Family:SH3-domain
62c3plxB_
not modelled 8.1 50
PDB header:lyase
Chain: B: PDB Molecule:aspartate 1-decarboxylase;
PDBTitle: the crystal structure of aspartate alpha-decarboxylase from2 campylobacter jejuni subsp. jejuni nctc 11168
63c4gopB_
not modelled 7.9 18
PDB header:dna binding protein/dna
Chain: B: PDB Molecule:putative uncharacterized protein;
PDBTitle: structure and conformational change of a replication protein a2 heterotrimer bound to ssdna
64c1x2pA_
not modelled 7.8 17
PDB header:transferase
Chain: A: PDB Molecule:protein arginine n-methyltransferase 2;
PDBTitle: solution structure of the sh3 domain of the protein2 arginine n-methyltransferase 2
65c2mi6A_
not modelled 7.8 25
PDB header:transcription
Chain: A: PDB Molecule:transcription termination/antitermination protein nusg;
PDBTitle: solution structure of the carboxy terminal domain of nusg from2 mycobacterium tuberculosis
66d1nz9a_
not modelled 7.6 27
Fold:SH3-like barrel
Superfamily:Translation proteins SH3-like domain
Family:N-utilization substance G protein NusG, C-terminal domain
67c1uheA_
not modelled 7.6 40
PDB header:lyase
Chain: A: PDB Molecule:aspartate 1-decarboxylase alpha chain;
PDBTitle: crystal structure of aspartate decarboxylase, isoaspargine complex
68c2egcA_
not modelled 7.6 15
PDB header:signaling protein
Chain: A: PDB Molecule:sh3 and px domain-containing protein 2a;
PDBTitle: solution structure of the fifth sh3 domain from human2 kiaa0418 protein
69c5ounA_
not modelled 7.4 25
PDB header:hydrolase
Chain: A: PDB Molecule:ruvb-like protein 2;
PDBTitle: nmr solution structure of the external dii domain of rvb2 from2 saccharomyces cerevisiae
70c2jvvA_
not modelled 7.3 13
PDB header:transcription
Chain: A: PDB Molecule:transcription antitermination protein nusg;
PDBTitle: solution structure of e. coli nusg carboxyterminal domain
71c2kvqG_
not modelled 7.3 13
PDB header:transcription
Chain: G: PDB Molecule:transcription antitermination protein nusg;
PDBTitle: solution structure of nuse:nusg-ctd complex
72c1vc3B_
not modelled 7.3 40
PDB header:lyase
Chain: B: PDB Molecule:l-aspartate-alpha-decarboxylase heavy chain;
PDBTitle: crystal structure of l-aspartate-alpha-decarboxylase
73c2d7gD_
not modelled 7.3 58
PDB header:hydrolase
Chain: D: PDB Molecule:primosomal protein n';
PDBTitle: crystal structure of the aa complex of the n-terminal domain of pria
74c2ekhA_
not modelled 7.2 15
PDB header:signaling protein
Chain: A: PDB Molecule:sh3 and px domain-containing protein 2a;
PDBTitle: solution structures of the sh3 domain of human kiaa0418
75c1pyuD_
not modelled 7.1 40
PDB header:lyase
Chain: D: PDB Molecule:aspartate 1-decarboxylase alfa chain;
PDBTitle: processed aspartate decarboxylase mutant with ser25 mutated to cys
76d1oe1a2
not modelled 7.0 21
Fold:Cupredoxin-like
Superfamily:Cupredoxins
Family:Multidomain cupredoxins
77c4xi7A_
not modelled 6.8 22
PDB header:ligase
Chain: A: PDB Molecule:e3 ubiquitin-protein ligase mib1;
PDBTitle: crystal structure of the mzm-rep domains of mind bomb 1 in complex2 with jagged1 n-box peptide
78d1e6ga_
not modelled 6.7 10
Fold:SH3-like barrel
Superfamily:SH3-domain
Family:SH3-domain
79c1wxbA_
not modelled 6.7 10
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:epidermal growth factor receptor pathway
PDBTitle: solution structure of the sh3 domain from human epidermal2 growth factor receptor pathway substrate 8-like protein
80d1arka_
not modelled 6.7 31
Fold:SH3-like barrel
Superfamily:SH3-domain
Family:SH3-domain
81d1ppya_
not modelled 6.7 36
Fold:Double psi beta-barrel
Superfamily:ADC-like
Family:Pyruvoyl dependent aspartate decarboxylase, ADC
82c2ct4A_
not modelled 6.6 29
PDB header:signaling protein
Chain: A: PDB Molecule:cdc42-interacting protein 4;
PDBTitle: solution strutcure of the sh3 domain of the cdc42-2 interacting protein 4
83d1nppa2
not modelled 6.5 36
Fold:SH3-like barrel
Superfamily:Translation proteins SH3-like domain
Family:N-utilization substance G protein NusG, C-terminal domain
84d1uffa_
not modelled 6.5 25
Fold:SH3-like barrel
Superfamily:SH3-domain
Family:SH3-domain
85c5utvA_
not modelled 6.4 24
PDB header:viral protein
Chain: A: PDB Molecule:papain-like proteinase;
PDBTitle: sars-unique fold in the rousettus bat coronavirus hku9
86c2moxA_
not modelled 6.3 14
PDB header:signaling protein
Chain: A: PDB Molecule:sorbin and sh3 domain-containing protein 1;
PDBTitle: solution structure of tandem sh3 domain of sorbin and sh3 domain-2 containing protein 1
87d1uuea_
not modelled 6.2 14
Fold:SH3-like barrel
Superfamily:SH3-domain
Family:SH3-domain
88c2ed0A_
not modelled 6.2 13
PDB header:signaling protein
Chain: A: PDB Molecule:abl interactor 2;
PDBTitle: solution structure of the sh3 domain of abl interactor 22 (abelson interactor 2)
89c2c45F_
not modelled 6.1 36
PDB header:lyase
Chain: F: PDB Molecule:aspartate 1-decarboxylase;
PDBTitle: native precursor of pyruvoyl dependent aspartate decarboxylase
90c1pt1B_
not modelled 6.1 36
PDB header:lyase
Chain: B: PDB Molecule:aspartate 1-decarboxylase;
PDBTitle: unprocessed pyruvoyl dependent aspartate decarboxylase with histidine2 11 mutated to alanine
91c3ougA_
not modelled 6.1 27
PDB header:lyase
Chain: A: PDB Molecule:aspartate 1-decarboxylase;
PDBTitle: crystal structure of cleaved l-aspartate-alpha-decarboxylase from2 francisella tularensis
92c2pqhA_
not modelled 6.1 13
PDB header:structural protein
Chain: A: PDB Molecule:spectrin alpha chain, brain;
PDBTitle: structure of sh3 chimera with a type ii ligand linked to the chain c-2 terminal
93d1i07a_
not modelled 6.1 10
Fold:SH3-like barrel
Superfamily:SH3-domain
Family:SH3-domain
94d1uwva1
not modelled 6.0 14
Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:TRAM domain
95d1g2ba_
not modelled 6.0 13
Fold:SH3-like barrel
Superfamily:SH3-domain
Family:SH3-domain
96d1j3ta_
not modelled 5.9 15
Fold:SH3-like barrel
Superfamily:SH3-domain
Family:SH3-domain
97c4he5A_
not modelled 5.9 20
PDB header:unknown function
Chain: A: PDB Molecule:peptidase family u32;
PDBTitle: crystal structure of the selenomethionine variant of the c-terminal2 domain of geobacillus thermoleovorans putative u32 peptidase
98c2crvA_
not modelled 5.8 23
PDB header:translation
Chain: A: PDB Molecule:translation initiation factor if-2;
PDBTitle: solution structure of c-terminal domain of mitochondrial2 translational initiationfactor 2
99c2hj1A_
not modelled 5.8 39
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:hypothetical protein;
PDBTitle: crystal structure of a 3d domain-swapped dimer of protein hi0395 from2 haemophilus influenzae

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