Phyre Home Retrieve Phyre Job Id
Emailmdejesus@rockefeller.edu
DescriptionRVBD3443c_(rplM)_3862127_3862570
DateFri Aug 9 18:20:11 BST 2019
Unique Job ID7f101e89b9fa8f29
SequenceVPTYAPKAGD ... Download FASTA
Job Typenormal
Job Expiry

Summary 

Top model
Image coloured by rainbow N → C terminus
Model dimensions (Å):X:49.038 Y:46.411 Z:42.113
Model (left) based on template c5o60K_
Top template information
PDB header:ribosome
Chain: K: PDB Molecule:50s ribosomal protein l13;
PDBTitle: structure of the 50s large ribosomal subunit from mycobacterium2 smegmatis
Confidence and coverage
Confidence:100.0% Coverage: 99%
145 residues ( 99% of your sequence) have been modelled with 100.0% confidence by the single highest scoring template.
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Sequence analysis 

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Domain analysis [Show] 

Detailed template information [Hide] 

 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c5o60K_
100.0 81
PDB header:ribosome
Chain: K: PDB Molecule:50s ribosomal protein l13;
PDBTitle: structure of the 50s large ribosomal subunit from mycobacterium2 smegmatis
2c4wfaG_
100.0 50
PDB header:ribosome
Chain: G: PDB Molecule:50s ribosomal protein l13;
PDBTitle: the crystal structure of the large ribosomal subunit of staphylococcus2 aureus in complex with linezolid
3c5mlcL_
100.0 52
PDB header:ribosome
Chain: L: PDB Molecule:50s ribosomal protein l13, chloroplastic;
PDBTitle: cryo-em structure of the spinach chloroplast ribosome reveals the2 location of plastid-specific ribosomal proteins and extensions
4c3j3wJ_
100.0 51
PDB header:ribosome
Chain: J: PDB Molecule:50s ribosomal protein l13;
PDBTitle: atomic model of the immature 50s subunit from bacillus subtilis (state2 ii-a)
5d2j01n1
100.0 51
Fold:Ribosomal protein L13
Superfamily:Ribosomal protein L13
Family:Ribosomal protein L13
6d2zjrg1
100.0 49
Fold:Ribosomal protein L13
Superfamily:Ribosomal protein L13
Family:Ribosomal protein L13
7c3cf5G_
100.0 49
PDB header:ribosome/antibiotic
Chain: G: PDB Molecule:50s ribosomal protein l13;
PDBTitle: thiopeptide antibiotic thiostrepton bound to the large ribosomal2 subunit of deinococcus radiodurans
8c3d5bN_
100.0 52
PDB header:ribosome
Chain: N: PDB Molecule:50s ribosomal protein l13;
PDBTitle: structural basis for translation termination on the 70s ribosome. this2 file contains the 50s subunit of one 70s ribosome. the entire crystal3 structure contains two 70s ribosomes as described in remark 400.
9d2gych1
100.0 51
Fold:Ribosomal protein L13
Superfamily:Ribosomal protein L13
Family:Ribosomal protein L13
10c4v19N_
100.0 33
PDB header:ribosome
Chain: N: PDB Molecule:mitoribosomal protein ul13m, mrpl13;
PDBTitle: structure of the large subunit of the mammalian mitoribosome, part 12 of 2
11c2ftcH_
100.0 33
PDB header:ribosome
Chain: H: PDB Molecule:39s ribosomal protein l13, mitochondrial;
PDBTitle: structural model for the large subunit of the mammalian mitochondrial2 ribosome
12c3bboL_
100.0 54
PDB header:ribosome
Chain: L: PDB Molecule:ribosomal protein l13;
PDBTitle: homology model for the spinach chloroplast 50s subunit fitted to 9.4a2 cryo-em map of the 70s chlororibosome
13c1vw4H_
100.0 36
PDB header:ribosome
Chain: H: PDB Molecule:54s ribosomal protein l23, mitochondrial;
PDBTitle: structure of the yeast mitochondrial large ribosomal subunit
14c3j39O_
100.0 27
PDB header:ribosome
Chain: O: PDB Molecule:60s ribosomal protein l13a;
PDBTitle: structure of the d. melanogaster 60s ribosomal proteins
15c1s1iM_
100.0 28
PDB header:ribosome
Chain: M: PDB Molecule:60s ribosomal protein l16-a;
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.
16c2zkrj_
100.0 25
PDB header:ribosomal protein/rna
Chain: J: PDB Molecule:rna expansion segment es15 part ii;
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
17c3j3bO_
100.0 24
PDB header:ribosome
Chain: O: PDB Molecule:60s ribosomal protein l13a;
PDBTitle: structure of the human 60s ribosomal proteins
18c3iz5K_
100.0 25
PDB header:ribosome
Chain: K: PDB Molecule:60s ribosomal protein l13a (l13p);
PDBTitle: localization of the large subunit ribosomal proteins into a 5.5 a2 cryo-em map of triticum aestivum translating 80s ribosome
19c3izcK_
100.0 27
PDB header:ribosome
Chain: K: PDB Molecule:60s ribosomal protein rpl16 (l13p);
PDBTitle: localization of the large subunit ribosomal proteins into a 6.1 a2 cryo-em map of saccharomyces cerevisiae translating 80s ribosome
20c4a1aI_
100.0 25
PDB header:ribosome
Chain: I: PDB Molecule:60s ribosomal protein l13a;
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.
21c3zf7O_
not modelled 100.0 26
PDB header:ribosome
Chain: O: PDB Molecule:60s ribosomal protein l13a, putative;
PDBTitle: high-resolution cryo-electron microscopy structure of the trypanosoma2 brucei ribosome
22c3jywM_
not modelled 100.0 28
PDB header:ribosome
Chain: M: PDB Molecule:60s ribosomal protein l16(a);
PDBTitle: structure of the 60s proteins for eukaryotic ribosome based on cryo-em2 map of thermomyces lanuginosus ribosome at 8.9a resolution
23d1j3aa_
not modelled 100.0 33
Fold:Ribosomal protein L13
Superfamily:Ribosomal protein L13
Family:Ribosomal protein L13
24d1vqoj1
not modelled 100.0 26
Fold:Ribosomal protein L13
Superfamily:Ribosomal protein L13
Family:Ribosomal protein L13
25d1qvca_
not modelled 32.5 40
Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Single strand DNA-binding domain, SSB
26c1qvcA_
not modelled 32.5 40
PDB header:dna binding protein
Chain: A: PDB Molecule:single stranded dna binding protein monomer;
PDBTitle: crystal structure analysis of single stranded dna binding protein2 (ssb) from e.coli
27c3kojA_
not modelled 30.5 25
PDB header:dna binding protein
Chain: A: PDB Molecule:uncharacterized protein ycf41;
PDBTitle: crystal structure of the ssb domain of q5n255_synp6 protein from2 synechococcus sp. northeast structural genomics consortium target3 snr59a.
28c5gqoB_
not modelled 28.8 45
PDB header:dna binding protein
Chain: B: PDB Molecule:single-stranded dna-binding protein;
PDBTitle: structure of the second single stranded dna binding protein (ssbb)2 from mycobacterium smegmatis
29c1z9fA_
not modelled 27.0 53
PDB header:dna binding protein
Chain: A: PDB Molecule:single-strand binding protein;
PDBTitle: crystal structure of single stranded dna-binding protein (tm0604) from2 thermotoga maritima at 2.60 a resolution
30c4damA_
not modelled 26.3 45
PDB header:dna binding protein
Chain: A: PDB Molecule:single-stranded dna-binding protein 1;
PDBTitle: crystal structure of small single-stranded dna-binding protein from2 streptomyces coelicolor
31c5odnG_
not modelled 25.2 35
PDB header:dna binding protein
Chain: G: PDB Molecule:single-stranded dna-binding protein;
PDBTitle: salinibacter ruber single-strand binding protein
32c2ra9A_
not modelled 24.3 21
PDB header:unknown function
Chain: A: PDB Molecule:uncharacterized protein duf1285;
PDBTitle: crystal structure of a duf1285 family protein (sbal_2486) from2 shewanella baltica os155 at 1.40 a resolution
33c2vw9B_
not modelled 22.1 35
PDB header:dna-binding protein
Chain: B: PDB Molecule:single-stranded dna binding protein;
PDBTitle: single stranded dna binding protein complex from2 helicobacter pylori
34c1eqqD_
not modelled 20.4 42
PDB header:replication/rna
Chain: D: PDB Molecule:single stranded dna binding protein;
PDBTitle: single stranded dna binding protein and ssdna complex
35d2pstx1
not modelled 20.1 31
Fold:MbtH/L9 domain-like
Superfamily:MbtH-like
Family:MbtH-like
36c5hdwA_
not modelled 18.4 29
PDB header:protein binding
Chain: A: PDB Molecule:f-box only protein 3;
PDBTitle: apag domain of fbxo3
37d1tzaa_
not modelled 17.2 36
Fold:Immunoglobulin-like beta-sandwich
Superfamily:ApaG-like
Family:ApaG-like
38c5ld1D_
not modelled 17.1 29
PDB header:transferase
Chain: D: PDB Molecule:polyphosphate:amp phosphotransferase;
PDBTitle: crystal structure of polyphosphate kinase from meiothermus ruber bound2 to atp
39d1xq4a_
not modelled 17.0 29
Fold:Immunoglobulin-like beta-sandwich
Superfamily:ApaG-like
Family:ApaG-like
40c3fmaD_
not modelled 16.9 29
PDB header:protein binding
Chain: D: PDB Molecule:protein smy2;
PDBTitle: crystal structure of the gyf domain of smy2 in complex with a proline-2 rich peptide from bbp/scsf1
41c3vdyA_
not modelled 16.8 26
PDB header:dna binding protein/dna
Chain: A: PDB Molecule:single-stranded dna-binding protein ssbb;
PDBTitle: b. subtilis ssbb/ssdna
42c2f1eA_
not modelled 16.5 21
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:protein apag;
PDBTitle: solution structure of apag protein
43d1xvsa_
not modelled 16.3 29
Fold:Immunoglobulin-like beta-sandwich
Superfamily:ApaG-like
Family:ApaG-like
44d2gpfa1
not modelled 16.0 31
Fold:MbtH/L9 domain-like
Superfamily:MbtH-like
Family:MbtH-like
45d1puja_
not modelled 14.6 17
Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:G proteins
46c5wmmB_
not modelled 14.6 23
PDB header:biosynthetic protein
Chain: B: PDB Molecule:mbth homologue;
PDBTitle: crystal structure of an adenylation domain interrupted by a2 methylation domain (ama4) from nonribosomal peptide synthetase tios
47c5ja1B_
not modelled 14.5 38
PDB header:ligase
Chain: B: PDB Molecule:enterobactin biosynthesis protein ybdz;
PDBTitle: entf, a terminal nonribosomal peptide synthetase module bound to the2 mbth-like protein ybdz
48c2wojD_
not modelled 14.4 23
PDB header:hydrolase
Chain: D: PDB Molecule:atpase get3;
PDBTitle: adp-alf4 complex of s. cerevisiae get3
49d1eyga_
not modelled 14.1 40
Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Single strand DNA-binding domain, SSB
50c2khrA_
not modelled 13.6 31
PDB header:biosynthetic protein
Chain: A: PDB Molecule:protein mbth;
PDBTitle: solution structure of rv2377c, a mbth-like protein from mycobacterium2 tuberculosis
51d2q07a1
not modelled 13.2 13
Fold:PUA domain-like
Superfamily:PUA domain-like
Family:PUA domain
52c5xgtA_
not modelled 12.9 25
PDB header:dna binding protein
Chain: A: PDB Molecule:single-stranded dna-binding protein;
PDBTitle: crystal structure of the n-terminal domain of staphylococcus aureus2 single-stranded dna-binding protein ssba at 1.82 angstrom resolution
53d2bm8a1
not modelled 12.1 27
Fold:S-adenosyl-L-methionine-dependent methyltransferases
Superfamily:S-adenosyl-L-methionine-dependent methyltransferases
Family:CmcI-like
54d1ue1a_
not modelled 11.8 40
Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Single strand DNA-binding domain, SSB
55c2ihfA_
not modelled 11.5 30
PDB header:dna binding protein
Chain: A: PDB Molecule:single-stranded dna-binding protein;
PDBTitle: crystal structure of deletion mutant delta 228-252 r190a of the2 single-stranded dna binding protein from thermus aquaticus
56c2lpdA_
not modelled 11.3 23
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized protein;
PDBTitle: solution structure of a mbth-like protein from burkholderia2 pseudomallei, the etiological agent responsible for melioidosis,3 seattle structural genomics center for infectious disease target4 bupsa.13472.b
57c5u89B_
not modelled 10.8 23
PDB header:hydrolase/inhibitor
Chain: B: PDB Molecule:mbth domain protein;
PDBTitle: crystal structure of a cross-module fragment from the dimodular nrps2 dhbf
58c3tqyA_
not modelled 10.8 30
PDB header:transferase
Chain: A: PDB Molecule:single-stranded dna-binding protein;
PDBTitle: structure of a single-stranded dna-binding protein (ssb), from2 coxiella burnetii
59c2p8tA_
not modelled 10.6 22
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:hypothetical protein ph0730;
PDBTitle: hypothetical protein ph0730 from pyrococcus horikoshii ot3
60c3eivB_
not modelled 10.3 37
PDB header:dna binding protein
Chain: B: PDB Molecule:single-stranded dna-binding protein 2;
PDBTitle: crystal structure of single-stranded dna-binding protein2 from streptomyces coelicolor
61c1is7F_
not modelled 10.0 23
PDB header:hydrolase/protein binding
Chain: F: PDB Molecule:gtp cyclohydrolase i;
PDBTitle: crystal structure of rat gtpchi/gfrp stimulatory complex
62c3rhfB_
not modelled 10.0 38
PDB header:transferase
Chain: B: PDB Molecule:putative polyphosphate kinase 2 family protein;
PDBTitle: crystal structure of polyphosphate kinase 2 from arthrobacter2 aurescens tc1
63c3czqA_
not modelled 9.8 35
PDB header:transferase
Chain: A: PDB Molecule:putative polyphosphate kinase 2;
PDBTitle: crystal structure of putative polyphosphate kinase 2 from2 sinorhizobium meliloti
64c2q07A_
not modelled 9.8 13
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized protein af0587;
PDBTitle: crystal structure of af0587, a protein of unknown function
65c2e6zA_
not modelled 9.7 22
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
66c6aqeB_
not modelled 9.1 31
PDB header:transferase
Chain: B: PDB Molecule:molecule a;
PDBTitle: crystal structure of ppk2 in complex with mg atp
67d2exna1
not modelled 9.0 21
Fold:MOSC N-terminal domain-like
Superfamily:MOSC N-terminal domain-like
Family:MOSC N-terminal domain-like
68c2rndA_
not modelled 8.7 24
PDB header:endocytosis
Chain: A: PDB Molecule:myc box-dependent-interacting protein 1;
PDBTitle: structure of the n-terminal barpeptide in dpc micelles
69c2iheA_
not modelled 8.7 29
PDB header:dna binding protein
Chain: A: PDB Molecule:single-stranded dna-binding protein;
PDBTitle: crystal structure of wild-type single-stranded dna binding protein2 from thermus aquaticus
70c3czpA_
not modelled 8.4 38
PDB header:transferase
Chain: A: PDB Molecule:putative polyphosphate kinase 2;
PDBTitle: crystal structure of putative polyphosphate kinase 2 from pseudomonas2 aeruginosa pa01
71c4xz7A_
not modelled 8.3 33
PDB header:transferase
Chain: A: PDB Molecule:putative uncharacterized protein;
PDBTitle: crystal structure of a tgase
72c4yegA_
not modelled 8.3 25
PDB header:transferase
Chain: A: PDB Molecule:polyphosphate kinase 2;
PDBTitle: characterisation of polyphosphate kinase 2 from the intracellular2 pathogen francisella tularensis
73d1a8ra_
not modelled 8.2 17
Fold:T-fold
Superfamily:Tetrahydrobiopterin biosynthesis enzymes-like
Family:GTP cyclohydrolase I
74d1wpla_
not modelled 7.8 23
Fold:T-fold
Superfamily:Tetrahydrobiopterin biosynthesis enzymes-like
Family:GTP cyclohydrolase I
75d1v5pa_
not modelled 7.6 21
Fold:PH domain-like barrel
Superfamily:PH domain-like
Family:Pleckstrin-homology domain (PH domain)
76d2d7na1
not modelled 7.4 26
Fold:Immunoglobulin-like beta-sandwich
Superfamily:E set domains
Family:Filamin repeat (rod domain)
77c2mlgA_
not modelled 7.4 21
PDB header:dna binding protein
Chain: A: PDB Molecule:sulfolobus transcription factor 76 aminoacid protein,
PDBTitle: stf76 from the sulfolobus islandicus plasmid-virus pssvx
78d1v1qa_
not modelled 7.1 25
Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Single strand DNA-binding domain, SSB
79c5n0lC_
not modelled 7.0 32
PDB header:transcription
Chain: C: PDB Molecule:gtp-sensing transcriptional pleiotropic repressor cody;
PDBTitle: the structure of the cofactor binding gaf domain of the nutrient2 sensor cody from clostridium difficile
80d2uubp1
not modelled 6.6 33
Fold:Ribosomal protein S16
Superfamily:Ribosomal protein S16
Family:Ribosomal protein S16
81c1ue7A_
not modelled 6.5 26
PDB header:dna binding protein
Chain: A: PDB Molecule:single-strand binding protein;
PDBTitle: crystal structure of the single-stranded dna-binding2 protein from mycobacterium tuberculosis
82d1a9xa3
not modelled 6.5 24
Fold:PreATP-grasp domain
Superfamily:PreATP-grasp domain
Family:BC N-terminal domain-like
83c5v6xB_
not modelled 6.3 31
PDB header:ligase/rna
Chain: B: PDB Molecule:pyrrolysine--trna ligase;
PDBTitle: crystal structure of the trna binding domain of pyrrolysyl-trna2 synthetase mutant (32a ntd) bound to trna(pyl)
84c2cwaA_
not modelled 6.3 45
PDB header:dna binding protein
Chain: A: PDB Molecule:single-strand binding protein;
PDBTitle: crystal structure of the single-stranded dna binding protein from2 thermus thermophilus hb8
85d2do3a1
not modelled 6.0 30
Fold:SH3-like barrel
Superfamily:Translation proteins SH3-like domain
Family:SPT5 KOW domain-like
86c4nwyA_
not modelled 6.0 12
PDB header:isomerase
Chain: A: PDB Molecule:protein disulfide-isomerase-like protein of the testis;
PDBTitle: crystal structure of the b' domain of human protein disulfide2 isomerase-like protein of the testis (pdilt)
87d2ntka1
not modelled 5.8 21
Fold:Ntn hydrolase-like
Superfamily:Archaeal IMP cyclohydrolase PurO
Family:Archaeal IMP cyclohydrolase PurO
88c6au0A_
not modelled 5.7 44
PDB header:transferase/transferase inhibitor
Chain: A: PDB Molecule:polyphosphate:amp phosphotransferase;
PDBTitle: crystal structure of ppk2 (class iii) in complex with bisphosphonate2 inhibitor (2-((3,5-dichlorophenyl)amino)ethane-1,1-diyl)diphosphonic3 acid
89c2l8kA_
not modelled 5.5 46
PDB header:viral protein
Chain: A: PDB Molecule:non-structural protein 7;
PDBTitle: nmr structure of the arterivirus nonstructural protein 7 alpha (nsp72 alpha)
90c2r37A_
not modelled 5.2 13
PDB header:oxidoreductase
Chain: A: PDB Molecule:glutathione peroxidase 3;
PDBTitle: crystal structure of human glutathione peroxidase 3 (selenocysteine to2 glycine mutant)
91c6r7tB_
not modelled 5.1 33
PDB header:immune system
Chain: B: PDB Molecule:melanoma-associated antigen b1;
PDBTitle: crystal structure of human melanoma-associated antigen b1 (mageb1) in2 complex with nanobody
92c6cqoH_
not modelled 5.1 24
PDB header:dna binding protein
Chain: H: PDB Molecule:single-stranded dna-binding protein rim1, mitochondrial;
PDBTitle: crystal structure of mitochondrial single-stranded dna binding2 proteins from s. cerevisiae (semet labeled), rim1 (form2)
93d1txya_
not modelled 5.0 26
Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Single strand DNA-binding domain, SSB

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