Phyre Home Retrieve Phyre Job Id
Emailmdejesus@rockefeller.edu
DescriptionRVBD0719_(rplF)_813401_813940
DateFri Jul 26 01:50:29 BST 2019
Unique Job ID8cdcd5ecff074a7d
SequenceMSRIGKQPIP ... Download FASTA
Job Typenormal
Job Expiry

Summary 

Top model
Image coloured by rainbow N → C terminus
Model dimensions (Å):X:51.105 Y:61.514 Z:54.839
Model (left) based on template c5o60G_
Top template information
PDB header:ribosome
Chain: G: PDB Molecule:50s ribosomal protein l6;
PDBTitle: structure of the 50s large ribosomal subunit from mycobacterium2 smegmatis
Confidence and coverage
Confidence:100.0% Coverage: 98%
176 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
1c5o60G_
100.0 87
PDB header:ribosome
Chain: G: PDB Molecule:50s ribosomal protein l6;
PDBTitle: structure of the 50s large ribosomal subunit from mycobacterium2 smegmatis
2c3bboI_
100.0 47
PDB header:ribosome
Chain: I: PDB Molecule:ribosomal protein l6;
PDBTitle: homology model for the spinach chloroplast 50s subunit fitted to 9.4a2 cryo-em map of the 70s chlororibosome
3c1vw4F_
100.0 35
PDB header:ribosome
Chain: F: PDB Molecule:54s ribosomal protein l6, mitochondrial;
PDBTitle: structure of the yeast mitochondrial large ribosomal subunit
4c1sm1E_
100.0 55
PDB header:ribosome/antibiotic
Chain: E: PDB Molecule:50s ribosomal protein l6;
PDBTitle: complex of the large ribosomal subunit from deinococcus radiodurans2 with quinupristin and dalfopristin
5c2hguH_
100.0 55
PDB header:ribosome
Chain: H: PDB Molecule:50s ribosomal protein l6;
PDBTitle: 70s t.th. ribosome functional complex with mrna and e- and p-site2 trnas at 4.5a. this entry 2hgu contains 50s ribosomal subunit. the3 30s ribosomal subunit can be found in pdb entry 2hgr.
6c2i2vG_
100.0 43
PDB header:ribosome
Chain: G: PDB Molecule:50s ribosomal protein l6;
PDBTitle: crystal structure of ribosome with messenger rna and the anticodon2 stem-loop of p-site trna. this file contains the 50s subunit of one3 70s ribosome. the entire crystal structure contains two 70s ribosomes4 and is described in remark 400.
7c1pnuE_
100.0 55
PDB header:ribosome
Chain: E: PDB Molecule:50s ribosomal protein l6;
PDBTitle: crystal structure of a streptomycin dependent ribosome from2 escherichia coli, 50s subunit of 70s ribosome. this file, 1pnu,3 contains only molecules of the 50s ribosomal subunit. the 30s4 subunit, mrna, p-site trna, and a-site trna are in the pdb file 1pns.
8c487dJ_
100.0 51
PDB header:ribosome
Chain: J: PDB Molecule:protein (50s l6 ribosomal protein);
PDBTitle: seven ribosomal proteins fitted to a cryo-electron2 microscopic map of the large 50s subunit at 7.5 angstroms3 resolution
9c3j21F_
100.0 31
PDB header:ribosome
Chain: F: PDB Molecule:50s ribosomal protein l6p;
PDBTitle: promiscuous behavior of proteins in archaeal ribosomes revealed by2 cryo-em: implications for evolution of eukaryotic ribosomes (50s3 ribosomal proteins)
10c3ccmE_
100.0 27
PDB header:ribosome
Chain: E: PDB Molecule:50s ribosomal protein l6p;
PDBTitle: structure of anisomycin resistant 50s ribosomal subunit: 23s rrna2 mutation g2611u
11c2zkre_
100.0 22
PDB header:ribosomal protein/rna
Chain: E: PDB Molecule:rna expansion segment es7 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
12c3j39H_
100.0 20
PDB header:ribosome
Chain: H: PDB Molecule:60s ribosomal protein l9;
PDBTitle: structure of the d. melanogaster 60s ribosomal proteins
13c4a1eE_
100.0 25
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
14c5an9B_
100.0 23
PDB header:translation
Chain: B: PDB Molecule:60s ribosomal protein l9;
PDBTitle: mechanism of eif6 release from the nascent 60s ribosomal subunit
15c3zf7y_
100.0 22
PDB header:ribosome
Chain: Y: PDB Molecule:60s ribosomal protein l24, putative;
PDBTitle: high-resolution cryo-electron microscopy structure of the trypanosoma2 brucei ribosome
16c3iz5F_
100.0 25
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
17c4wf9E_
100.0 49
PDB header:ribosome
Chain: E: PDB Molecule:50s ribosomal protein l6;
PDBTitle: the crystal structure of the large ribosomal subunit of staphylococcus2 aureus in complex with telithromycin
18c1s1iH_
100.0 25
PDB header:ribosome
Chain: H: PDB Molecule:60s ribosomal protein l9-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.
19d2qamg2
100.0 48
Fold:Ribosomal protein L6
Superfamily:Ribosomal protein L6
Family:Ribosomal protein L6
20d1rl6a2
100.0 54
Fold:Ribosomal protein L6
Superfamily:Ribosomal protein L6
Family:Ribosomal protein L6
21d2zjre1
not modelled 100.0 61
Fold:Ribosomal protein L6
Superfamily:Ribosomal protein L6
Family:Ribosomal protein L6
22d2j01h2
not modelled 100.0 58
Fold:Ribosomal protein L6
Superfamily:Ribosomal protein L6
Family:Ribosomal protein L6
23d2qamg1
not modelled 99.9 38
Fold:Ribosomal protein L6
Superfamily:Ribosomal protein L6
Family:Ribosomal protein L6
24d1vqoe1
not modelled 99.9 23
Fold:Ribosomal protein L6
Superfamily:Ribosomal protein L6
Family:Ribosomal protein L6
25d1rl6a1
not modelled 99.9 47
Fold:Ribosomal protein L6
Superfamily:Ribosomal protein L6
Family:Ribosomal protein L6
26d2cqla1
not modelled 99.9 28
Fold:Ribosomal protein L6
Superfamily:Ribosomal protein L6
Family:Ribosomal protein L6
27d2zjre2
not modelled 99.9 47
Fold:Ribosomal protein L6
Superfamily:Ribosomal protein L6
Family:Ribosomal protein L6
28d2j01h1
not modelled 99.8 48
Fold:Ribosomal protein L6
Superfamily:Ribosomal protein L6
Family:Ribosomal protein L6
29d1vqoe2
not modelled 99.7 31
Fold:Ribosomal protein L6
Superfamily:Ribosomal protein L6
Family:Ribosomal protein L6
30c2bolA_
not modelled 61.5 18
PDB header:heat shock protein
Chain: A: PDB Molecule:small heat shock protein;
PDBTitle: crystal structure and assembly of tsp36, a metazoan small heat shock2 protein
31c3q9qB_
not modelled 36.8 18
PDB header:chaperone
Chain: B: PDB Molecule:heat shock protein beta-1;
PDBTitle: hspb1 fragment second crystal form
32c2wj7D_
not modelled 35.5 35
PDB header:chaperone
Chain: D: PDB Molecule:alpha-crystallin b chain;
PDBTitle: human alphab crystallin
33d1a0ia1
not modelled 35.4 12
Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:DNA ligase/mRNA capping enzyme postcatalytic domain
34c6f2rA_
not modelled 34.4 24
PDB header:chaperone
Chain: A: PDB Molecule:hspb2,heat shock protein beta-2,heat shock protein beta-2,
PDBTitle: a hetrotetramer of human hspb2 and hspb3
35c6f2rE_
not modelled 34.4 24
PDB header:chaperone
Chain: E: PDB Molecule:hspb2,heat shock protein beta-2,heat shock protein beta-2,
PDBTitle: a hetrotetramer of human hspb2 and hspb3
36c4pbdA_
not modelled 33.1 27
PDB header:protein binding
Chain: A: PDB Molecule:protein shq1 homolog;
PDBTitle: crystal structure of the n-terminal cs domain of human shq1
37c6f2rI_
not modelled 31.6 24
PDB header:chaperone
Chain: I: PDB Molecule:hspb2,heat shock protein beta-2,heat shock protein beta-2,
PDBTitle: a hetrotetramer of human hspb2 and hspb3
38c5ltwK_
not modelled 29.7 19
PDB header:protein binding
Chain: K: PDB Molecule:heat shock protein beta-6;
PDBTitle: complex of human 14-3-3 sigma clu1 mutant with phosphorylated heat2 shock protein b6
39c6f2rK_
not modelled 29.3 24
PDB header:chaperone
Chain: K: PDB Molecule:hspb2,heat shock protein beta-2,heat shock protein beta-2,
PDBTitle: a hetrotetramer of human hspb2 and hspb3
40c6ghsA_
not modelled 26.7 26
PDB header:hydrolase
Chain: A: PDB Molecule:tagi restriction endonuclease;
PDBTitle: modification dependent tagi restriction endonuclease
41c2jugB_
not modelled 25.6 29
PDB header:biosynthetic protein
Chain: B: PDB Molecule:tubc protein;
PDBTitle: multienzyme docking in hybrid megasynthetases
42c6f2rT_
not modelled 24.5 12
PDB header:chaperone
Chain: T: PDB Molecule:heat shock protein beta-3,heat shock protein beta-3,heat
PDBTitle: a hetrotetramer of human hspb2 and hspb3
43c2klrA_
not modelled 23.3 35
PDB header:chaperone
Chain: A: PDB Molecule:alpha-crystallin b chain;
PDBTitle: solid-state nmr structure of the alpha-crystallin domain in alphab-2 crystallin oligomers
44c5y82B_
not modelled 22.7 19
PDB header:transport protein
Chain: B: PDB Molecule:membrane protein insertase yidc;
PDBTitle: crystal structure of the periplasmic domain of the thermotoga maritima2 yidc
45d1oopc_
not modelled 21.1 18
Fold:Nucleoplasmin-like/VP (viral coat and capsid proteins)
Superfamily:Positive stranded ssRNA viruses
Family:Picornaviridae-like VP (VP1, VP2, VP3 and VP4)
46c2ygdV_
not modelled 20.5 35
PDB header:chaperone
Chain: V: PDB Molecule:
PDBTitle: molecular architectures of the 24meric eye lens chaperone alphab-2 crystallin elucidated by a triple hybrid approach
47d1eah3_
not modelled 20.4 16
Fold:Nucleoplasmin-like/VP (viral coat and capsid proteins)
Superfamily:Positive stranded ssRNA viruses
Family:Picornaviridae-like VP (VP1, VP2, VP3 and VP4)
48c2wzr3_
not modelled 20.1 7
PDB header:virus
Chain: 3: PDB Molecule:polyprotein;
PDB Fragment:residues 285-503; PDBTitle: the structure of foot and mouth disease virus serotype sat1
49d2mev3_
not modelled 20.1 13
Fold:Nucleoplasmin-like/VP (viral coat and capsid proteins)
Superfamily:Positive stranded ssRNA viruses
Family:Picornaviridae-like VP (VP1, VP2, VP3 and VP4)
50d1ncqc_
not modelled 19.7 13
Fold:Nucleoplasmin-like/VP (viral coat and capsid proteins)
Superfamily:Positive stranded ssRNA viruses
Family:Picornaviridae-like VP (VP1, VP2, VP3 and VP4)
51c4ydzA_
not modelled 17.2 29
PDB header:chaperone
Chain: A: PDB Molecule:stress-induced protein 1;
PDBTitle: stress-induced protein 1 from caenorhabditis elegans
52c5mquC_
not modelled 16.5 9
PDB header:virus
Chain: C: PDB Molecule:vp3;
PDBTitle: crystal structure of bovine enterovirus 2 determined with serial2 femtosecond x-ray crystallography
53c3vbhC_
not modelled 16.1 13
PDB header:virus
Chain: C: PDB Molecule:genome polyprotein, vapsid protein vp3;
PDBTitle: crystal structure of formaldehyde treated human enterovirus 71 (space2 group r32)
54c2wj5A_
not modelled 15.8 24
PDB header:chaperone
Chain: A: PDB Molecule:heat shock protein beta-6;
PDBTitle: rat alpha crystallin domain
55d1v5ma_
not modelled 15.4 25
Fold:PH domain-like barrel
Superfamily:PH domain-like
Family:Pleckstrin-homology domain (PH domain)
56d1aym3_
not modelled 15.4 22
Fold:Nucleoplasmin-like/VP (viral coat and capsid proteins)
Superfamily:Positive stranded ssRNA viruses
Family:Picornaviridae-like VP (VP1, VP2, VP3 and VP4)
57c6dv5T_
not modelled 15.2 18
PDB header:chaperone
Chain: T: PDB Molecule:heat shock protein beta-1;
PDBTitle: oligomeric complex of a hsp27 24-mer at 3.6 a resolution
58c3nicA_
not modelled 15.2 31
PDB header:hydrolase/dna
Chain: A: PDB Molecule:eco29kir;
PDBTitle: dna binding and cleavage by the giy-yig endonuclease r.eco29ki2 inactive variant y49f
59c2gh8B_
not modelled 14.8 13
PDB header:virus
Chain: B: PDB Molecule:capsid protein;
PDBTitle: x-ray structure of a native calicivirus
60c2mblA_
not modelled 14.7 22
PDB header:de novo protein
Chain: A: PDB Molecule:top7 fold protein top7m13;
PDBTitle: solution nmr structure of de novo designed top7 fold protein top7m13,2 northeast structural genomics consortium (nesg) target or33
61d1j5pa3
not modelled 14.6 18
Fold:FwdE/GAPDH domain-like
Superfamily:Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain
Family:Dihydrodipicolinate reductase-like
62c4imyG_
not modelled 14.5 44
PDB header:transferase
Chain: G: PDB Molecule:af4/fmr2 family member 4;
PDBTitle: the aff4 scaffold binds human p-tefb adjacent to hiv tat
63c4imyI_
not modelled 14.5 44
PDB header:transferase
Chain: I: PDB Molecule:af4/fmr2 family member 4;
PDBTitle: the aff4 scaffold binds human p-tefb adjacent to hiv tat
64d1bev3_
not modelled 13.9 15
Fold:Nucleoplasmin-like/VP (viral coat and capsid proteins)
Superfamily:Positive stranded ssRNA viruses
Family:Picornaviridae-like VP (VP1, VP2, VP3 and VP4)
65d2gv8a2
not modelled 13.7 28
Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:FAD/NAD-linked reductases, N-terminal and central domains
66d1omwg_
not modelled 13.0 38
Fold:Non-globular all-alpha subunits of globular proteins
Superfamily:Transducin (heterotrimeric G protein), gamma chain
Family:Transducin (heterotrimeric G protein), gamma chain
67d1fpn3_
not modelled 12.9 18
Fold:Nucleoplasmin-like/VP (viral coat and capsid proteins)
Superfamily:Positive stranded ssRNA viruses
Family:Picornaviridae-like VP (VP1, VP2, VP3 and VP4)
68c2wff3_
not modelled 12.9 14
PDB header:virus
Chain: 3: PDB Molecule:p1;
PDB Fragment:capsid protein vp3, residues 311-536; PDBTitle: equine rhinitis a virus
69c4imyH_
not modelled 12.8 44
PDB header:transferase
Chain: H: PDB Molecule:af4/fmr2 family member 4;
PDBTitle: the aff4 scaffold binds human p-tefb adjacent to hiv tat
70c3l1eA_
not modelled 12.2 18
PDB header:chaperone
Chain: A: PDB Molecule:alpha-crystallin a chain;
PDBTitle: bovine alphaa crystallin zinc bound
71c3kd4A_
not modelled 12.1 17
PDB header:hydrolase
Chain: A: PDB Molecule:putative protease;
PDBTitle: crystal structure of a putative protease (bdi_1141) from2 parabacteroides distasonis atcc 8503 at 2.00 a resolution
72c2gjhA_
not modelled 11.4 28
PDB header:de novo protein
Chain: A: PDB Molecule:designed protein;
PDBTitle: nmr structure of cfr (c-terminal fragment of2 computationally designed novel-topology protein top7)
73d1cov3_
not modelled 10.9 16
Fold:Nucleoplasmin-like/VP (viral coat and capsid proteins)
Superfamily:Positive stranded ssRNA viruses
Family:Picornaviridae-like VP (VP1, VP2, VP3 and VP4)
74c3cjiB_
not modelled 10.4 9
PDB header:virus
Chain: B: PDB Molecule:polyprotein;
PDBTitle: structure of seneca valley virus-001
75c2ktsA_
not modelled 9.4 19
PDB header:chaperone
Chain: A: PDB Molecule:heat shock protein hslj;
PDBTitle: nmr structure of the protein np_415897.1
76c3i38E_
not modelled 9.3 33
PDB header:chaperone
Chain: E: PDB Molecule:putative chaperone dnaj;
PDBTitle: structure of a putative chaperone protein dnaj from klebsiella2 pneumoniae subsp. pneumoniae mgh 78578
77c3i38C_
not modelled 9.3 33
PDB header:chaperone
Chain: C: PDB Molecule:putative chaperone dnaj;
PDBTitle: structure of a putative chaperone protein dnaj from klebsiella2 pneumoniae subsp. pneumoniae mgh 78578
78c5j4aA_
not modelled 9.2 53
PDB header:toxin
Chain: A: PDB Molecule:trna nuclease cdia;
PDBTitle: cdia-ct toxin from burkholderia pseudomallei e479 in complex with2 cognate cdii immunity protein
79c2n3jA_
not modelled 9.0 18
PDB header:chaperone
Chain: A: PDB Molecule:heat shock protein beta-1;
PDBTitle: solution structure of the alpha-crystallin domain from the redox-2 sensitive chaperone, hspb1
80d1hxs3_
not modelled 8.7 18
Fold:Nucleoplasmin-like/VP (viral coat and capsid proteins)
Superfamily:Positive stranded ssRNA viruses
Family:Picornaviridae-like VP (VP1, VP2, VP3 and VP4)
81d1rhi3_
not modelled 8.3 16
Fold:Nucleoplasmin-like/VP (viral coat and capsid proteins)
Superfamily:Positive stranded ssRNA viruses
Family:Picornaviridae-like VP (VP1, VP2, VP3 and VP4)
82c5cupB_
not modelled 8.2 46
PDB header:transferase
Chain: B: PDB Molecule:phosphate propanoyltransferase;
PDBTitle: structure of rhodopseudomonas palustris pdul - phosphate bound form
83c4zjdF_
not modelled 7.9 11
PDB header:chaperone
Chain: F: PDB Molecule:aggregation suppressing protein;
PDBTitle: small heat shock protein agsa from salmonella typhimurium: truncations2 at n- and c- termini
84c3glaA_
not modelled 7.8 24
PDB header:chaperone
Chain: A: PDB Molecule:low molecular weight heat shock protein;
PDBTitle: crystal structure of the hspa from xanthomonas axonopodis
85c2d2fA_
not modelled 7.6 17
PDB header:protein binding
Chain: A: PDB Molecule:sufc protein;
PDBTitle: crystal structure of atypical cytoplasmic abc-atpase sufc from thermus2 thermophilus hb8
86c5mb8J_
not modelled 7.4 21
PDB header:chaperone
Chain: J: PDB Molecule:25.3 kda heat shock protein, chloroplastic;
PDBTitle: hsp21 dodecamer, structural model based on cryo-em and homology2 modelling
87d1aqta2
not modelled 7.2 14
Fold:Epsilon subunit of F1F0-ATP synthase N-terminal domain
Superfamily:Epsilon subunit of F1F0-ATP synthase N-terminal domain
Family:Epsilon subunit of F1F0-ATP synthase N-terminal domain
88d1r1a3_
not modelled 7.2 15
Fold:Nucleoplasmin-like/VP (viral coat and capsid proteins)
Superfamily:Positive stranded ssRNA viruses
Family:Picornaviridae-like VP (VP1, VP2, VP3 and VP4)
89c2mmvA_
not modelled 7.0 32
PDB header:cell cycle
Chain: A: PDB Molecule:cell division protein zapa;
PDBTitle: zapa mutant dimer from geobacillus stearothermophilus
90d2z0sa2
not modelled 6.9 6
Fold:Eukaryotic type KH-domain (KH-domain type I)
Superfamily:Eukaryotic type KH-domain (KH-domain type I)
Family:Eukaryotic type KH-domain (KH-domain type I)
91d1cuka3
not modelled 6.8 40
Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:DNA helicase RuvA subunit, N-terminal domain
92c4qeoA_
not modelled 6.7 20
PDB header:transcription/dna
Chain: A: PDB Molecule:histone-lysine n-methyltransferase, h3 lysine-9 specific
PDBTitle: crystal structure of kryptonite in complex with mchh dna, h3(1-15)2 peptide and sah
93d1fmd3_
not modelled 6.6 13
Fold:Nucleoplasmin-like/VP (viral coat and capsid proteins)
Superfamily:Positive stranded ssRNA viruses
Family:Picornaviridae-like VP (VP1, VP2, VP3 and VP4)
94d1ev13_
not modelled 6.6 15
Fold:Nucleoplasmin-like/VP (viral coat and capsid proteins)
Superfamily:Positive stranded ssRNA viruses
Family:Picornaviridae-like VP (VP1, VP2, VP3 and VP4)
95c3zueB_
not modelled 6.5 19
PDB header:virus
Chain: B: PDB Molecule:capsid structural protein vp60;
PDBTitle: rabbit hemorrhagic disease virus (rhdv)capsid protein
96c4nj5A_
not modelled 6.3 20
PDB header:metal binding protein
Chain: A: PDB Molecule:probable histone-lysine n-methyltransferase, h3 lysine-9
PDBTitle: crystal structure of suvh9
97c5aca3_
not modelled 6.2 9
PDB header:virus
Chain: 3: PDB Molecule:vp3;
PDBTitle: structure-based energetics of protein interfaces guide foot-and-mouth2 disease virus vaccine design
98c3w1zD_
not modelled 6.2 18
PDB header:chaperone
Chain: D: PDB Molecule:heat shock protein 16;
PDBTitle: heat shock protein 16.0 from schizosaccharomyces pombe
99c6fkhe_
not modelled 6.1 15
PDB header:membrane protein
Chain: E: PDB Molecule:atp synthase subunit alpha, chloroplastic;
PDBTitle: chloroplast f1fo conformation 2

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