Phyre Home Retrieve Phyre Job Id
Emailmdejesus@rockefeller.edu
DescriptionRVBD0703_(rplW)_802136_802438
DateFri Jul 26 01:50:27 BST 2019
Unique Job ID86e244886ba517a3
SequenceMATLADPRDI ... Download FASTA
Job Typenormal
Job Expiry

Summary 

Top model
Image coloured by rainbow N → C terminus
Model dimensions (Å):X:32.190 Y:41.352 Z:50.819
Model (left) based on template c5o60U_
Top template information
PDB header:ribosome
Chain: U: PDB Molecule:50s ribosomal protein l23;
PDBTitle: structure of the 50s large ribosomal subunit from mycobacterium2 smegmatis
Confidence and coverage
Confidence:100.0% Coverage: 97%
97 residues ( 97% 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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#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c5o60U_



100.0 87
PDB header:ribosome
Chain: U: PDB Molecule:50s ribosomal protein l23;
PDBTitle: structure of the 50s large ribosomal subunit from mycobacterium2 smegmatis
2c3j3vT_



100.0 44
PDB header:ribosome
Chain: T: PDB Molecule:50s ribosomal protein l23;
PDBTitle: atomic model of the immature 50s subunit from bacillus subtilis (state2 i-a)
3d2zjrq1



100.0 43
Fold:Ribosomal proteins S24e, L23 and L15e
Superfamily:Ribosomal proteins S24e, L23 and L15e
Family:L23p
4c4wfbQ_



100.0 52
PDB header:ribosome
Chain: Q: PDB Molecule:50s ribosomal protein l23;
PDBTitle: the crystal structure of the large ribosomal subunit of staphylococcus2 aureus in complex with bc-3205
5d2j01x1



100.0 48
Fold:Ribosomal proteins S24e, L23 and L15e
Superfamily:Ribosomal proteins S24e, L23 and L15e
Family:L23p
6d2qamt1



100.0 36
Fold:Ribosomal proteins S24e, L23 and L15e
Superfamily:Ribosomal proteins S24e, L23 and L15e
Family:L23p
7c2ww9K_



100.0 35
PDB header:ribosome
Chain: K: PDB Molecule:60s ribosomal protein l25;
PDBTitle: cryo-em structure of the active yeast ssh1 complex bound to the yeast2 80s ribosome
8c3zf7X_



100.0 34
PDB header:ribosome
Chain: X: PDB Molecule:60s ribosomal protein l23a;
PDBTitle: high-resolution cryo-electron microscopy structure of the trypanosoma2 brucei ribosome
9c4b6aX_



100.0 36
PDB header:ribosome
Chain: X: PDB Molecule:60s ribosomal protein l25;
PDBTitle: cryo-em structure of the 60s ribosomal subunit in complex2 with arx1 and rei1
10c3j39X_



100.0 34
PDB header:ribosome
Chain: X: PDB Molecule:60s ribosomal protein l23a;
PDBTitle: structure of the d. melanogaster 60s ribosomal proteins
11c4a17R_



100.0 42
PDB header:ribosome
Chain: R: PDB Molecule:rpl23a;
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.
12c3izrX_



100.0 31
PDB header:ribosome
Chain: X: PDB Molecule:60s ribosomal protein l23a (l23p);
PDBTitle: localization of the large subunit ribosomal proteins into a 5.5 a2 cryo-em map of triticum aestivum translating 80s ribosome
13c2go54_



100.0 29
PDB header:translation/rna
Chain: 4: PDB Molecule:ribosomal protein l23;
PDBTitle: structure of signal recognition particle receptor (sr) in2 complex with signal recognition particle (srp) and3 ribosome nascent chain complex
14c3bboV_



99.9 32
PDB header:ribosome
Chain: V: PDB Molecule:ribosomal protein l23;
PDBTitle: homology model for the spinach chloroplast 50s subunit fitted to 9.4a2 cryo-em map of the 70s chlororibosome
15d1vqos1



99.9 30
Fold:Ribosomal proteins S24e, L23 and L15e
Superfamily:Ribosomal proteins S24e, L23 and L15e
Family:L23p
16c3j21T_



99.9 35
PDB header:ribosome
Chain: T: PDB Molecule:50s ribosomal protein l23p;
PDBTitle: promiscuous behavior of proteins in archaeal ribosomes revealed by2 cryo-em: implications for evolution of eukaryotic ribosomes (50s3 ribosomal proteins)
17c2zkrs_



99.9 40
PDB header:ribosomal protein/rna
Chain: S: PDB Molecule:rna expansion segment es39 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
18c1s1iT_



99.9 39
PDB header:ribosome
Chain: T: PDB Molecule:60s ribosomal protein l25;
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.
19c4v19X_



99.9 26
PDB header:ribosome
Chain: X: PDB Molecule:mitoribosomal protein ul23m, mrpl23;
PDBTitle: structure of the large subunit of the mammalian mitoribosome, part 12 of 2
20c4ce4X_



99.9 29
PDB header:ribosome
Chain: X: PDB Molecule:mrpl23;
PDBTitle: 39s large subunit of the porcine mitochondrial ribosome
21c1vw4P_



not modelled 99.5 16
PDB header:ribosome
Chain: P: PDB Molecule:54s ribosomal protein l41, mitochondrial;
PDBTitle: structure of the yeast mitochondrial large ribosomal subunit
22d1wx7a1



not modelled 78.0 18
Fold:beta-Grasp (ubiquitin-like)
Superfamily:Ubiquitin-like
Family:Ubiquitin-related
23d2v94a1



not modelled 66.4 13
Fold:Ribosomal proteins S24e, L23 and L15e
Superfamily:Ribosomal proteins S24e, L23 and L15e
Family:Ribosomal protein S24e
24c2mqjA_



not modelled 63.9 10
PDB header:ligase
Chain: A: PDB Molecule:ubiquitin-like protein;
PDBTitle: solution structure of ubiquitin-like protein from caldiarchaeum2 subterraneum
25d1v86a_



not modelled 61.1 18
Fold:beta-Grasp (ubiquitin-like)
Superfamily:Ubiquitin-like
Family:Ubiquitin-related
26d1yqba1



not modelled 59.8 18
Fold:beta-Grasp (ubiquitin-like)
Superfamily:Ubiquitin-like
Family:Ubiquitin-related
27d2g1da1



not modelled 57.5 14
Fold:Ribosomal proteins S24e, L23 and L15e
Superfamily:Ribosomal proteins S24e, L23 and L15e
Family:Ribosomal protein S24e
28d1wjna_



not modelled 56.3 8
Fold:beta-Grasp (ubiquitin-like)
Superfamily:Ubiquitin-like
Family:Ubiquitin-related
29c2dzmA_



not modelled 55.4 13
PDB header:structural genomics unknown function
Chain: A: PDB Molecule:fas-associated factor 1;
PDBTitle: solution structure of the ubiquitin-like domain in human2 fas-associated factor 1 (hfaf1)
30c6gf2A_



not modelled 53.8 23
PDB header:immune system
Chain: A: PDB Molecule:ubiquitin d;
PDBTitle: the structure of the ubiquitin-like modifier fat10 reveals a novel2 targeting mechanism for degradation by the 26s proteasome
31d1zkha1



not modelled 53.4 14
Fold:beta-Grasp (ubiquitin-like)
Superfamily:Ubiquitin-like
Family:Ubiquitin-related
32d1t0ya_



not modelled 48.5 13
Fold:beta-Grasp (ubiquitin-like)
Superfamily:Ubiquitin-like
Family:Ubiquitin-related
33c1t0yA_



not modelled 48.5 13
PDB header:chaperone
Chain: A: PDB Molecule:tubulin folding cofactor b;
PDBTitle: solution structure of a ubiquitin-like domain from tubulin-2 binding cofactor b
34d1wx8a1



not modelled 48.4 18
Fold:beta-Grasp (ubiquitin-like)
Superfamily:Ubiquitin-like
Family:Ubiquitin-related
35c2kanA_



not modelled 46.5 9
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized protein ar3433a;
PDBTitle: solution nmr structure of ubiquitin-like domain of2 arabidopsis thaliana protein at2g32350. northeast3 structural genomics consortium target ar3433a
36c2klcA_



not modelled 45.3 20
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:ubiquilin-1;
PDBTitle: nmr solution structure of human ubiquitin-like domain of ubiquilin 1,2 northeast structural genomics consortium (nesg) target ht5a
37c2ojrA_



not modelled 45.3 12
PDB header:protein binding
Chain: A: PDB Molecule:ubiquitin;
PDBTitle: structure of ubiquitin solved by sad using the lanthanide-binding tag
38c2kd0A_



not modelled 45.0 18
PDB header:signaling protein
Chain: A: PDB Molecule:lrr repeats and ubiquitin-like domain-containing
PDBTitle: nmr solution structure of o64736 protein from arabidopsis2 thaliana. northeast structural genomics consortium mega3 target ar3445a
39d1ywxa1



not modelled 44.7 13
Fold:Ribosomal proteins S24e, L23 and L15e
Superfamily:Ribosomal proteins S24e, L23 and L15e
Family:Ribosomal protein S24e
40c2mlbA_



not modelled 44.2 9
PDB header:de novo protein
Chain: A: PDB Molecule:redesigned ubiquitin;
PDBTitle: nmr solution structure of a computational designed protein based on2 template of human erythrocytic ubiquitin
41c2xzmP_



not modelled 43.4 21
PDB header:ribosome
Chain: P: PDB Molecule:rps24e;
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
42d1xn9a_



not modelled 41.6 14
Fold:Ribosomal proteins S24e, L23 and L15e
Superfamily:Ribosomal proteins S24e, L23 and L15e
Family:Ribosomal protein S24e
43c1yx5B_



not modelled 41.6 16
PDB header:hydrolase
Chain: B: PDB Molecule:ubiquitin;
PDBTitle: solution structure of s5a uim-1/ubiquitin complex
44c1z2mA_



not modelled 39.0 9
PDB header:signaling protein
Chain: A: PDB Molecule:interferon, alpha-inducible protein (clone ifi-
PDBTitle: crystal structure of isg15, the interferon-induced2 ubiquitin cross reactive protein
45d1bt0a_



not modelled 38.1 16
Fold:beta-Grasp (ubiquitin-like)
Superfamily:Ubiquitin-like
Family:Ubiquitin-related
46c3j3aY_



not modelled 38.1 18
PDB header:ribosome
Chain: Y: PDB Molecule:40s ribosomal protein s24;
PDBTitle: structure of the human 40s ribosomal proteins
47d1z2ma2



not modelled 37.2 20
Fold:beta-Grasp (ubiquitin-like)
Superfamily:Ubiquitin-like
Family:Ubiquitin-related
48d1v5oa_



not modelled 36.3 14
Fold:beta-Grasp (ubiquitin-like)
Superfamily:Ubiquitin-like
Family:Ubiquitin-related
49c2dziA_



not modelled 35.2 21
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:ubiquitin-like protein 4a;
PDBTitle: 2dzi/solution structure of the n-terminal ubiquitin-like2 domain in human ubiquitin-like protein 4a (gdx)
50c2kdiA_



not modelled 35.1 9
PDB header:signaling protein
Chain: A: PDB Molecule:ubiquitin, vacuolar protein sorting-associated
PDBTitle: solution structure of a ubiquitin/uim fusion protein
51d1sifa_



not modelled 34.9 9
Fold:beta-Grasp (ubiquitin-like)
Superfamily:Ubiquitin-like
Family:Ubiquitin-related
52d2znvb1



not modelled 33.1 16
Fold:beta-Grasp (ubiquitin-like)
Superfamily:Ubiquitin-like
Family:Ubiquitin-related
53d1wh3a_



not modelled 32.4 15
Fold:beta-Grasp (ubiquitin-like)
Superfamily:Ubiquitin-like
Family:Ubiquitin-related
54d2bwfa1



not modelled 32.3 26
Fold:beta-Grasp (ubiquitin-like)
Superfamily:Ubiquitin-like
Family:Ubiquitin-related
55c4dbgA_



not modelled 31.3 17
PDB header:ligase
Chain: A: PDB Molecule:ranbp-type and c3hc4-type zinc finger-containing protein 1;
PDBTitle: crystal structure of hoil-1l-ubl complexed with a hoip-uba derivative
56c5xyiY_



not modelled 31.1 16
PDB header:ribosome
Chain: Y: PDB Molecule:ribosomal protein s24e, putative;
PDBTitle: small subunit of trichomonas vaginalis ribosome
57c4b6wA_



not modelled 30.9 12
PDB header:chaperone
Chain: A: PDB Molecule:tubulin-specific chaperone;
PDBTitle: architecture of trypanosoma brucei tubulin-binding cofactor b
58c2kjrA_



not modelled 30.7 15
PDB header:chaperone
Chain: A: PDB Molecule:cg11242;
PDBTitle: solution nmr structure of the n-terminal ubiquitin-like2 domain from tubulin-binding cofactor b, cg11242, from3 drosophila melanogaster. northeast structural genomics4 consortium target fr629a (residues 8-92)
59c2dmxA_



not modelled 30.1 32
PDB header:chaperone
Chain: A: PDB Molecule:dnaj homolog subfamily b member 8;
PDBTitle: solution structure of the j domain of dnaj homolog2 subfamily b member 8
60d1v2ya_



not modelled 29.8 16
Fold:beta-Grasp (ubiquitin-like)
Superfamily:Ubiquitin-like
Family:Ubiquitin-related
61c3q3fA_



not modelled 29.2 14
PDB header:hydrolase, protein binding
Chain: A: PDB Molecule:ribonuclease/ubiquitin chimeric protein;
PDBTitle: engineering domain-swapped binding interfaces by mutually exclusive2 folding: insertion of ubiquitin into position 103 of barnase
62c5wc3S_



not modelled 28.7 30
PDB header:protein transport
Chain: S: PDB Molecule:spoiiiag, stage iii sporulation engulfment assemblyprotein;
PDBTitle: spoiiiag
63c5y3tA_



not modelled 28.7 18
PDB header:ligase
Chain: A: PDB Molecule:ranbp-type and c3hc4-type zinc finger-containing protein 1;
PDBTitle: crystal structure of hetero-trimeric core of lubac: hoip double-uba2 complexed with hoil-1l ubl and sharpin ubl
64d1ndda_



not modelled 28.4 16
Fold:beta-Grasp (ubiquitin-like)
Superfamily:Ubiquitin-like
Family:Ubiquitin-related
65c2w9nA_



not modelled 28.0 13
PDB header:cell cycle
Chain: A: PDB Molecule:ubiquitin;
PDBTitle: crystal structure of linear di-ubiquitin
66c5y3tC_



not modelled 28.0 10
PDB header:ligase
Chain: C: PDB Molecule:sharpin;
PDBTitle: crystal structure of hetero-trimeric core of lubac: hoip double-uba2 complexed with hoil-1l ubl and sharpin ubl
67c5chfB_



not modelled 27.6 13
PDB header:antiviral protein
Chain: B: PDB Molecule:ubiquitin-like protein isg15;
PDBTitle: crystal structure of murine isg15 in space group p21212
68c2n7dA_



not modelled 27.0 14
PDB header:unknown function
Chain: A: PDB Molecule:protein ddi1 homolog 2;
PDBTitle: solution structure of the ubl domain of human ddi2
69c3m62B_



not modelled 26.5 5
PDB header:ligase/protein binding
Chain: B: PDB Molecule:uv excision repair protein rad23;
PDBTitle: crystal structure of ufd2 in complex with the ubiquitin-like (ubl)2 domain of rad23
70c3u5cY_



not modelled 26.0 18
PDB header:ribosome
Chain: Y: PDB Molecule:40s ribosomal protein s24-a;
PDBTitle: the structure of the eukaryotic ribosome at 3.0 a resolution. this2 entry contains proteins of the 40s subunit, ribosome a
71d1wx9a1



not modelled 25.9 20
Fold:beta-Grasp (ubiquitin-like)
Superfamily:Ubiquitin-like
Family:Ubiquitin-related
72d1j8ca_



not modelled 25.3 23
Fold:beta-Grasp (ubiquitin-like)
Superfamily:Ubiquitin-like
Family:Ubiquitin-related
73c2kk8A_



not modelled 25.1 12
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized protein at4g05270;
PDBTitle: nmr solution structure of a putative uncharacterized protein2 obtained from arabidopsis thaliana: northeast structural3 genomics consortium target ar3449a
74d1v6ea_



not modelled 24.3 12
Fold:beta-Grasp (ubiquitin-like)
Superfamily:Ubiquitin-like
Family:Ubiquitin-related
75c2n9pC_



not modelled 24.1 19
PDB header:ligase
Chain: C: PDB Molecule:large proline-rich protein bag6;
PDBTitle: solution structure of rnf126 n-terminal zinc finger domain in complex2 with bag6 ubiquitin-like domain
76d1wjua_



not modelled 22.7 10
Fold:beta-Grasp (ubiquitin-like)
Superfamily:Ubiquitin-like
Family:Ubiquitin-related
77c2lkzA_



not modelled 22.6 17
PDB header:rna binding protein
Chain: A: PDB Molecule:rna-binding protein 5;
PDBTitle: solution structure of the second rrm domain of rbm5
78d1c3ta_



not modelled 21.4 11
Fold:beta-Grasp (ubiquitin-like)
Superfamily:Ubiquitin-like
Family:Ubiquitin-related
79c6mdhA_



not modelled 21.2 14
PDB header:signaling protein
Chain: A: PDB Molecule:ubiquitin-like protein isg15;
PDBTitle: x-ray crystal structure of isg15 from myotis davidii
80d2fnjb1



not modelled 21.2 14
Fold:beta-Grasp (ubiquitin-like)
Superfamily:Ubiquitin-like
Family:Ubiquitin-related
81d1fxla2



not modelled 20.8 10
Fold:Ferredoxin-like
Superfamily:RNA-binding domain, RBD
Family:Canonical RBD
82c3m63B_



not modelled 20.6 28
PDB header:ligase/protein binding
Chain: B: PDB Molecule:ubiquitin domain-containing protein dsk2;
PDBTitle: crystal structure of ufd2 in complex with the ubiquitin-like (ubl)2 domain of dsk2
83c2mrpA_



not modelled 19.9 12
PDB header:ubiquitin-binding protein
Chain: A: PDB Molecule:dna damage-inducible protein 1;
PDBTitle: nmr solution structure of the ubiquitin like domain (ubl) of dna-2 damage-inducible 1 protein (ddi1)
84c2l7rA_



not modelled 19.9 20
PDB header:protein binding
Chain: A: PDB Molecule:ubiquitin-like protein fubi;
PDBTitle: solution nmr structure of n-terminal ubiquitin-like domain of fubi, a2 ribosomal protein s30 precursor from homo sapiens. northeast3 structural genomics consortium (nesg) target hr6166
85d1ogwa_



not modelled 19.5 13
Fold:beta-Grasp (ubiquitin-like)
Superfamily:Ubiquitin-like
Family:Ubiquitin-related
86d2faza1



not modelled 19.2 6
Fold:beta-Grasp (ubiquitin-like)
Superfamily:Ubiquitin-like
Family:Ubiquitin-related
87c3izbU_



not modelled 19.2 18
PDB header:ribosome
Chain: U: PDB Molecule:40s ribosomal protein s24;
PDBTitle: localization of the small subunit ribosomal proteins into a 6.1 a2 cryo-em map of saccharomyces cerevisiae translating 80s ribosome
88c2hgmA_



not modelled 19.0 13
PDB header:rna binding protein
Chain: A: PDB Molecule:heterogeneous nuclear ribonucleoprotein f;
PDBTitle: nmr structure of the second qrrm domain of human hnrnp f
89d2zeqa1



not modelled 18.9 21
Fold:beta-Grasp (ubiquitin-like)
Superfamily:Ubiquitin-like
Family:Ubiquitin-related
90d1wgga_



not modelled 18.3 13
Fold:beta-Grasp (ubiquitin-like)
Superfamily:Ubiquitin-like
Family:Ubiquitin-related
91c2mx2A_



not modelled 17.9 7
PDB header:hydrolase
Chain: A: PDB Molecule:deubiquitinating protein vcip135;
PDBTitle: ubx-l domain of vcip135
92c2dgpA_



not modelled 17.9 11
PDB header:rna binding protein
Chain: A: PDB Molecule:bruno-like 4, rna binding protein;
PDBTitle: solution structure of the n-terminal rna binding domain in2 bruno-like 4 rna-binding protein
93d1ud7a_



not modelled 17.1 16
Fold:beta-Grasp (ubiquitin-like)
Superfamily:Ubiquitin-like
Family:Ubiquitin-related
94c3zeyT_



not modelled 17.0 16
PDB header:ribosome
Chain: T: PDB Molecule:40s ribosomal protein s24;
PDBTitle: high-resolution cryo-electron microscopy structure of the trypanosoma2 brucei ribosome
95c1ttnA_



not modelled 16.9 15
PDB header:signaling protein
Chain: A: PDB Molecule:dendritic cell-derived ubiquitin-like protein;
PDBTitle: solution structure of the ubiquitin-like domain of human dc-2 ubp from dendritic cells
96d1ttna1



not modelled 16.9 15
Fold:beta-Grasp (ubiquitin-like)
Superfamily:Ubiquitin-like
Family:Ubiquitin-related
97d2io3b1



not modelled 16.7 12
Fold:beta-Grasp (ubiquitin-like)
Superfamily:Ubiquitin-like
Family:Ubiquitin-related
98c2mdaB_



not modelled 16.7 9
PDB header:oxidoreductase
Chain: B: PDB Molecule:tyrosine 3-monooxygenase;
PDBTitle: the solution structure of the regulatory domain of tyrosine2 hydroxylase
99c2k25A_



not modelled 16.6 16
PDB header:unknown function
Chain: A: PDB Molecule:ubb;
PDBTitle: automated nmr structure of the ubb by fapsy

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