Phyre Home Retrieve Phyre Job Id
Emailmdejesus@rockefeller.edu
DescriptionRVBD2904c_(rplS)_3213922_3214263
DateThu Aug 8 16:20:06 BST 2019
Unique Job IDb1f0a8ded0309013
SequenceMNRLDFVDKP ... Download FASTA
Job Typenormal
Job Expiry

Summary 

Top model
Image coloured by rainbow N → C terminus
Model dimensions (Å):X:46.658 Y:36.241 Z:45.877
Model (left) based on template c5o60Q_
Top template information
PDB header:ribosome
Chain: Q: PDB Molecule:50s ribosomal protein l19;
PDBTitle: structure of the 50s large ribosomal subunit from mycobacterium2 smegmatis
Confidence and coverage
Confidence:100.0% Coverage:100%
113 residues (100% 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
1c5o60Q_



100.0 90
PDB header:ribosome
Chain: Q: PDB Molecule:50s ribosomal protein l19;
PDBTitle: structure of the 50s large ribosomal subunit from mycobacterium2 smegmatis
2d2j01t1



100.0 50
Fold:SH3-like barrel
Superfamily:Translation proteins SH3-like domain
Family:Ribosomal protein L19
3d2gycn1



100.0 53
Fold:SH3-like barrel
Superfamily:Translation proteins SH3-like domain
Family:Ribosomal protein L19
4c1nwxN_



100.0 54
PDB header:ribosome
Chain: N: PDB Molecule:ribosomal protein l19;
PDBTitle: complex of the large ribosomal subunit from deinococcus2 radiodurans with abt-773
5c3j3vP_



100.0 70
PDB header:ribosome
Chain: P: PDB Molecule:50s ribosomal protein l19;
PDBTitle: atomic model of the immature 50s subunit from bacillus subtilis (state2 i-a)
6d2zjrm1



100.0 53
Fold:SH3-like barrel
Superfamily:Translation proteins SH3-like domain
Family:Ribosomal protein L19
7c3bboR_



100.0 40
PDB header:ribosome
Chain: R: PDB Molecule:ribosomal protein l19;
PDBTitle: homology model for the spinach chloroplast 50s subunit fitted to 9.4a2 cryo-em map of the 70s chlororibosome
8c4v19T_



100.0 27
PDB header:ribosome
Chain: T: PDB Molecule:mitoribosomal protein bl19m, mrpl19;
PDBTitle: structure of the large subunit of the mammalian mitoribosome, part 12 of 2
9c2ftcK_



100.0 29
PDB header:ribosome
Chain: K: PDB Molecule:39s ribosomal protein l19, mitochondrial;
PDBTitle: structural model for the large subunit of the mammalian mitochondrial2 ribosome
10c1vw4M_



100.0 23
PDB header:ribosome
Chain: M: PDB Molecule:54s ribosomal protein img1, mitochondrial;
PDBTitle: structure of the yeast mitochondrial large ribosomal subunit
11d1zq1a1



67.4 25
Fold:Sm-like fold
Superfamily:GatD N-terminal domain-like
Family:GatD N-terminal domain-like
12d1jb7a1



66.6 24
Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Single strand DNA-binding domain, SSB
13c2e6zA_



62.0 27
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
14c1zq1B_



61.8 24
PDB header:lyase
Chain: B: PDB Molecule:glutamyl-trna(gln) amidotransferase subunit d;
PDBTitle: structure of gatde trna-dependent amidotransferase from2 pyrococcus abyssi
15c3zf7Z_



59.3 17
PDB header:ribosome
Chain: Z: PDB Molecule:60s ribosomal protein l26, putative;
PDBTitle: high-resolution cryo-electron microscopy structure of the trypanosoma2 brucei ribosome
16c3iz5Y_



55.3 17
PDB header:ribosome
Chain: Y: PDB Molecule:60s ribosomal protein l26 (l24p);
PDBTitle: localization of the large subunit ribosomal proteins into a 5.5 a2 cryo-em map of triticum aestivum translating 80s ribosome
17d1vqot1



52.7 18
Fold:SH3-like barrel
Superfamily:Translation proteins SH3-like domain
Family:Ribosomal proteins L24p and L21e
18c4he5A_



49.6 24
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
19c2kvqG_



49.0 33
PDB header:transcription
Chain: G: PDB Molecule:transcription antitermination protein nusg;
PDBTitle: solution structure of nuse:nusg-ctd complex
20c2jvvA_



49.0 33
PDB header:transcription
Chain: A: PDB Molecule:transcription antitermination protein nusg;
PDBTitle: solution structure of e. coli nusg carboxyterminal domain
21c3j21U_



not modelled 48.1 17
PDB header:ribosome
Chain: U: PDB Molecule:50s ribosomal protein l24p;
PDBTitle: promiscuous behavior of proteins in archaeal ribosomes revealed by2 cryo-em: implications for evolution of eukaryotic ribosomes (50s3 ribosomal proteins)
22d1nppa2



not modelled 45.9 33
Fold:SH3-like barrel
Superfamily:Translation proteins SH3-like domain
Family:N-utilization substance G protein NusG, C-terminal domain
23c2f1lA_



not modelled 42.4 18
PDB header:unknown function
Chain: A: PDB Molecule:16s rrna processing protein;
PDBTitle: crystal structure of a putative 16s ribosomal rna processing protein2 rimm (pa3744) from pseudomonas aeruginosa at 2.46 a resolution
24c4r80A_



not modelled 41.3 35
PDB header:de novo protein
Chain: A: PDB Molecule:or486;
PDBTitle: crystal structure of a de novo designed beta sheet protein, cystatin2 fold, northeast structural genomics consortium (nesg) target or486
25d1nz9a_



not modelled 38.1 31
Fold:SH3-like barrel
Superfamily:Translation proteins SH3-like domain
Family:N-utilization substance G protein NusG, C-terminal domain
26c4ytlB_



not modelled 37.7 21
PDB header:transcription
Chain: B: PDB Molecule:transcription elongation factor spt5;
PDBTitle: structure of the kow2-kow3 domain of transcription elongation factor2 spt5.
27c4a1cS_



not modelled 37.2 13
PDB header:ribosome
Chain: S: PDB Molecule:rpl26;
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.
28c2d6fA_



not modelled 36.6 25
PDB header:ligase/rna
Chain: A: PDB Molecule:glutamyl-trna(gln) amidotransferase subunit d;
PDBTitle: crystal structure of glu-trna(gln) amidotransferase in the2 complex with trna(gln)
29c2dxcG_



not modelled 36.2 36
PDB header:hydrolase
Chain: G: PDB Molecule:thiocyanate hydrolase subunit alpha;
PDBTitle: recombinant thiocyanate hydrolase, fully-matured form
30c2mi6A_



not modelled 33.5 14
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
31c1jb7A_



not modelled 32.5 21
PDB header:dna-binding protein/dna
Chain: A: PDB Molecule:telomere-binding protein alpha subunit;
PDBTitle: dna g-quartets in a 1.86 a resolution structure of an oxytricha nova2 telomeric protein-dna complex
32c1ph4A_



not modelled 32.5 21
PDB header:dna binding protein/dna
Chain: A: PDB Molecule:telomere-binding protein alpha subunit;
PDBTitle: crystal structure of the oxytricha nova telomere end-binding protein2 complexed with noncognate ssdna ggggttttggcg
33c1k8gC_



not modelled 32.2 18
PDB header:dna binding protein/dna
Chain: C: PDB Molecule:telomere-binding protein alpha subunit;
PDBTitle: crystal structure of the n-terminal domain of oxytricha2 nova telomere end binding protein alpha subunit both3 uncomplexed and complexed with telomeric ssdna
34c3p8bB_



not modelled 30.2 19
PDB header:transferase/transcription
Chain: B: PDB Molecule:transcription antitermination protein nusg;
PDBTitle: x-ray crystal structure of pyrococcus furiosus transcription2 elongation factor spt4/5
35d1ugpb_



not modelled 28.7 36
Fold:SH3-like barrel
Superfamily:Electron transport accessory proteins
Family:Nitrile hydratase beta chain
36d2d6fa1



not modelled 28.2 26
Fold:Sm-like fold
Superfamily:GatD N-terminal domain-like
Family:GatD N-terminal domain-like
37c3qz9D_



not modelled 27.1 36
PDB header:lyase
Chain: D: PDB Molecule:co-type nitrile hydratase beta subunit;
PDBTitle: crystal structure of co-type nitrile hydratase beta-y215f from2 pseudomonas putida.
38c5u9jB_



not modelled 27.0 25
PDB header:signaling protein
Chain: B: PDB Molecule:aryl hydrocarbon receptor-interacting protein-like 1
PDBTitle: crystal structure of the fkbp domain of human aryl hydrocarbon2 receptor-interacting protein-like 1 (aipl1) complexed with geranyl3 geranyl pyrophoshate
39c4ql5A_



not modelled 26.9 17
PDB header:translation
Chain: A: PDB Molecule:translation initiation factor if-1;
PDBTitle: crystal structure of translation initiation factor if-1 from2 streptococcus pneumoniae tigr4
40d1hr0w_



not modelled 25.9 21
Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Cold shock DNA-binding domain-like
41d1v29b_



not modelled 25.7 36
Fold:SH3-like barrel
Superfamily:Electron transport accessory proteins
Family:Nitrile hydratase beta chain
42c6c00A_



not modelled 24.6 25
PDB header:translation
Chain: A: PDB Molecule:translation initiation factor if-1;
PDBTitle: solution structure of translation initiation factor 1 from clostridium2 difficile
43d2bi0a2



not modelled 23.3 14
Fold:Thioesterase/thiol ester dehydrase-isomerase
Superfamily:Thioesterase/thiol ester dehydrase-isomerase
Family:MaoC-like
44c4ljoA_



not modelled 22.3 38
PDB header:ligase
Chain: A: PDB Molecule:e3 ubiquitin-protein ligase rnf31;
PDBTitle: structure of an active ligase (hoip)/ubiquitin transfer complex
45c4fm4D_



not modelled 22.0 27
PDB header:lyase
Chain: D: PDB Molecule:nitrile hydratase beta subunit;
PDBTitle: wild type fe-type nitrile hydratase from comamonas testosteroni ni1
46d2qdyb1



not modelled 21.6 27
Fold:SH3-like barrel
Superfamily:Electron transport accessory proteins
Family:Nitrile hydratase beta chain
47c2eifA_



not modelled 21.5 17
PDB header:gene regulation
Chain: A: PDB Molecule:protein (eukaryotic translation initiation factor 5a);
PDBTitle: eukaryotic translation initiation factor 5a from methanococcus2 jannaschii
48c2lktA_



not modelled 21.4 25
PDB header:hydrolase
Chain: A: PDB Molecule:retinoic acid receptor responder protein 3;
PDBTitle: solution structure of n-terminal domain of human tig3 in 2 m urea
49d1ah9a_



not modelled 21.4 21
Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Cold shock DNA-binding domain-like
50c2bi0A_



not modelled 20.7 19
PDB header:hypothetical protein
Chain: A: PDB Molecule:hypothetical protein rv0216;
PDBTitle: rv0216, a conserved hypothetical protein from mycobacterium2 tuberculosis that is essential for bacterial survival3 during infection, has a double hotdogfold
51c3l53F_



not modelled 20.7 27
PDB header:structural genomics, unknown function
Chain: F: PDB Molecule:putative fumarylacetoacetate isomerase/hydrolase;
PDBTitle: crystal structure of a putative fumarylacetoacetate2 isomerase/hydrolase from oleispira antarctica
52c2fhdA_



not modelled 20.5 20
PDB header:cell cycle
Chain: A: PDB Molecule:dna repair protein rhp9/crb2;
PDBTitle: crystal structure of crb2 tandem tudor domains
53c3i4oA_



not modelled 20.5 17
PDB header:translation
Chain: A: PDB Molecule:translation initiation factor if-1;
PDBTitle: crystal structure of translation initiation factor 1 from2 mycobacterium tuberculosis
54c5waiC_



not modelled 20.4 18
PDB header:transcription
Chain: C: PDB Molecule:zinc finger protein aebp2;
PDBTitle: crystal structure of a suz12-rbbp4-jarid2-aebp2 heterotetrameric2 complex
55d1je3a_



not modelled 20.3 15
Fold:IF3-like
Superfamily:SirA-like
Family:SirA-like
56c1m1gB_



not modelled 20.2 35
PDB header:transcription
Chain: B: PDB Molecule:transcription antitermination protein nusg;
PDBTitle: crystal structure of aquifex aeolicus n-utilization2 substance g (nusg), space group p2(1)
57c4tkoB_



not modelled 19.7 18
PDB header:membrane protein
Chain: B: PDB Molecule:emra;
PDBTitle: structure of the periplasmic adaptor protein emra
58c2kytA_



not modelled 19.6 44
PDB header:hydrolase
Chain: A: PDB Molecule:group xvi phospholipase a2;
PDBTitle: solution structure of the h-rev107 n-terminal domain
59d1y14b1



not modelled 19.5 8
Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Cold shock DNA-binding domain-like
60c3zey0_



not modelled 18.9 16
PDB header:ribosome
Chain: 0: PDB Molecule:40s ribosomal protein s3a, putative;
PDBTitle: high-resolution cryo-electron microscopy structure of the trypanosoma2 brucei ribosome
61d1kl9a2



not modelled 18.7 16
Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Cold shock DNA-binding domain-like
62c3e0eA_



not modelled 18.5 29
PDB header:replication
Chain: A: PDB Molecule:replication protein a;
PDBTitle: crystal structure of a domain of replication protein a from2 methanococcus maripaludis. northeast structural genomics3 targe mrr110b
63c2v43A_



not modelled 17.6 16
PDB header:regulator
Chain: A: PDB Molecule:sigma-e factor regulatory protein rseb;
PDBTitle: crystal structure of rseb: a sensor for periplasmic stress2 response in e. coli
64c5xyiB_



not modelled 17.6 8
PDB header:ribosome
Chain: B: PDB Molecule:ribosomal protein s3ae, putative;
PDBTitle: small subunit of trichomonas vaginalis ribosome
65c2l66B_



not modelled 17.3 29
PDB header:transcription regulator
Chain: B: PDB Molecule:transcriptional regulator, abrb family;
PDBTitle: the dna-recognition fold of sso7c4 suggests a new member of spovt-abrb2 superfamily from archaea.
66d2bi0a1



not modelled 16.9 19
Fold:Thioesterase/thiol ester dehydrase-isomerase
Superfamily:Thioesterase/thiol ester dehydrase-isomerase
Family:MaoC-like
67d1e9ya1



not modelled 16.8 32
Fold:beta-clip
Superfamily:Urease, beta-subunit
Family:Urease, beta-subunit
68c2equA_



not modelled 16.5 13
PDB header:protein binding
Chain: A: PDB Molecule:phd finger protein 20-like 1;
PDBTitle: solution structure of the tudor domain of phd finger2 protein 20-like 1
69d1ejxb_



not modelled 16.3 32
Fold:beta-clip
Superfamily:Urease, beta-subunit
Family:Urease, beta-subunit
70d4ubpb_



not modelled 15.9 24
Fold:beta-clip
Superfamily:Urease, beta-subunit
Family:Urease, beta-subunit
71c2rm4A_



not modelled 15.5 19
PDB header:protein binding
Chain: A: PDB Molecule:cg6311-pb;
PDBTitle: solution structure of the lsm domain of dm edc3 (enhancer2 of decapping 3)
72c2wknE_



not modelled 15.4 31
PDB header:hydrolase
Chain: E: PDB Molecule:formamidase;
PDBTitle: gamma lactamase from delftia acidovorans
73c4z42B_



not modelled 15.3 35
PDB header:hydrolase
Chain: B: PDB Molecule:urease subunit beta;
PDBTitle: crystal structure of urease from yersinia enterocolitica
74c2ldmA_



not modelled 15.2 13
PDB header:transcription/protein binding
Chain: A: PDB Molecule:uncharacterized protein;
PDBTitle: solution structure of human phf20 tudor2 domain bound to a p53 segment2 containing a dimethyllysine analog p53k370me2
75d2nn6i1



not modelled 15.1 27
Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Cold shock DNA-binding domain-like
76d2ifra1



not modelled 14.6 31
Fold:Concanavalin A-like lectins/glucanases
Superfamily:Concanavalin A-like lectins/glucanases
Family:Peptidase A4
77c3u5gB_



not modelled 14.1 13
PDB header:ribosome
Chain: B: PDB Molecule:40s ribosomal protein s1-a;
PDBTitle: the structure of the eukaryotic ribosome at 3.0 a resolution. this2 entry contains proteins of the 40s subunit, ribosome b
78c2lknA_



not modelled 13.4 25
PDB header:protein binding
Chain: A: PDB Molecule:ah receptor-interacting protein;
PDBTitle: solution structure of the ppiase domain of human aryl-hydrocarbon2 receptor-interacting protein (aip)
79d1is3a_



not modelled 13.2 30
Fold:Concanavalin A-like lectins/glucanases
Superfamily:Concanavalin A-like lectins/glucanases
Family:Galectin (animal S-lectin)
80d2asba1



not modelled 13.1 6
Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Cold shock DNA-binding domain-like
81d1hh2p1



not modelled 13.1 12
Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Cold shock DNA-binding domain-like
82d2hbaa1



not modelled 13.0 25
Fold:MbtH/L9 domain-like
Superfamily:L9 N-domain-like
Family:Ribosomal protein L9 N-domain
83d1cqua_



not modelled 13.0 25
Fold:MbtH/L9 domain-like
Superfamily:L9 N-domain-like
Family:Ribosomal protein L9 N-domain
84c2dbkA_



not modelled 12.7 35
PDB header:signaling protein
Chain: A: PDB Molecule:crk-like protein;
PDBTitle: solution structures of the sh3 domain of human crk-like2 protein
85d1bf2a1



not modelled 12.6 21
Fold:Immunoglobulin-like beta-sandwich
Superfamily:E set domains
Family:E-set domains of sugar-utilizing enzymes
86c4ifdI_



not modelled 12.4 27
PDB header:hydrolase/rna
Chain: I: PDB Molecule:exosome complex component csl4;
PDBTitle: crystal structure of an 11-subunit eukaryotic exosome complex bound to2 rna
87d1xjva1



not modelled 12.4 18
Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Single strand DNA-binding domain, SSB
88d1vyva1



not modelled 12.3 30
Fold:SH3-like barrel
Superfamily:SH3-domain
Family:SH3-domain
89d2do3a1



not modelled 12.2 44
Fold:SH3-like barrel
Superfamily:Translation proteins SH3-like domain
Family:SPT5 KOW domain-like
90d1t0ha_



not modelled 12.1 35
Fold:SH3-like barrel
Superfamily:SH3-domain
Family:SH3-domain
91c2nn6I_



not modelled 11.8 19
PDB header:hydrolase/transferase
Chain: I: PDB Molecule:3'-5' exoribonuclease csl4 homolog;
PDBTitle: structure of the human rna exosome composed of rrp41, rrp45,2 rrp46, rrp43, mtr3, rrp42, csl4, rrp4, and rrp40
92c3j3aB_



not modelled 11.8 17
PDB header:ribosome
Chain: B: PDB Molecule:40s ribosomal protein s3a;
PDBTitle: structure of the human 40s ribosomal proteins
93c1vw4G_



not modelled 11.5 35
PDB header:ribosome
Chain: G: PDB Molecule:54s ribosomal protein l50, mitochondrial;
PDBTitle: structure of the yeast mitochondrial large ribosomal subunit
94d2ahob2



not modelled 11.3 14
Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Cold shock DNA-binding domain-like
95c1e9zA_



not modelled 11.2 32
PDB header:hydrolase
Chain: A: PDB Molecule:urease subunit alpha;
PDBTitle: crystal structure of helicobacter pylori urease
96c2lq8A_



not modelled 11.2 20
PDB header:transcription
Chain: A: PDB Molecule:transcription antitermination protein nusg;
PDBTitle: domain interaction in thermotoga maritima nusg
97c2khjA_



not modelled 11.1 9
PDB header:ribosomal protein
Chain: A: PDB Molecule:30s ribosomal protein s1;
PDBTitle: nmr structure of the domain 6 of the e. coli ribosomal2 protein s1
98d2vv5a1



not modelled 11.0 18
Fold:Sm-like fold
Superfamily:Sm-like ribonucleoproteins
Family:Mechanosensitive channel protein MscS (YggB), middle domain
99d1t3la1



not modelled 11.0 35
Fold:SH3-like barrel
Superfamily:SH3-domain
Family:SH3-domain

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