6T59

Structure of rabbit 80S ribosome translating beta-tubulin in complex with tetratricopeptide protein 5 and nascent chain-associated complex


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.11 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

TTC5 mediates autoregulation of tubulin via mRNA degradation.

Lin, Z.Gasic, I.Chandrasekaran, V.Peters, N.Shao, S.Mitchison, T.J.Hegde, R.S.

(2019) Science --: --

  • DOI: 10.1126/science.aaz4352

  • PubMed Abstract: 
  • Tubulins play crucial roles in cell division, intracellular traffic, and cell shape. Tubulin concentration is autoregulated by feedback control of mRNA degradation via an unknown mechanism. Here, we identified tetratricopeptide protein 5 (TTC5) as a ...

    Tubulins play crucial roles in cell division, intracellular traffic, and cell shape. Tubulin concentration is autoregulated by feedback control of mRNA degradation via an unknown mechanism. Here, we identified tetratricopeptide protein 5 (TTC5) as a tubulin-specific ribosome-associating factor that triggers co-translational degradation of tubulin mRNAs in response to excess soluble tubulin. Structural analysis revealed that TTC5 binds near the ribosome exit tunnel and engages the N terminus of nascent tubulins. TTC5 mutants incapable of ribosome or nascent tubulin interaction abolished tubulin autoregulation and showed chromosome segregation defects during mitosis. Our findings show how a subset of mRNAs can be targeted for coordinated degradation by a specificity factor that recognizes the nascent polypeptides they encode.


    Organizational Affiliation

    Department of Systems Biology, Blavatnik Institute, Harvard Medical School, Boston, MA 02115, USA.,MRC Laboratory of Molecular Biology, Cambridge CB2 0QH, UK.,MRC Laboratory of Molecular Biology, Cambridge CB2 0QH, UK. rhegde@mrc-lmb.cam.ac.uk.,Department of Cell Biology, Blavatnik Institute, Harvard Medical School, Boston, MA 02115, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure


Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Ribosomal protein L8
A3
257Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPL8
Find proteins for G1TT27 (Oryctolagus cuniculus)
Go to Gene View: RPL8
Go to UniProtKB:  G1TT27
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
uL3
B3
403Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPL3
Find proteins for G1TL06 (Oryctolagus cuniculus)
Go to Gene View: RPL3
Go to UniProtKB:  G1TL06
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
uL4
C3
425N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 4
MoleculeChainsSequence LengthOrganismDetails
60S ribosomal protein L5
D3
297Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPL5
Find proteins for G1SYJ6 (Oryctolagus cuniculus)
Go to Gene View: RPL5
Go to UniProtKB:  G1SYJ6
Entity ID: 5
MoleculeChainsSequence LengthOrganismDetails
60S ribosomal protein L6
E3
291Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPL6
Find proteins for G1SKF7 (Oryctolagus cuniculus)
Go to Gene View: RPL6
Go to UniProtKB:  G1SKF7
Entity ID: 6
MoleculeChainsSequence LengthOrganismDetails
Ul30
F3
247Oryctolagus cuniculusMutation(s): 0 
Find proteins for G1TUB1 (Oryctolagus cuniculus)
Go to UniProtKB:  G1TUB1
Entity ID: 7
MoleculeChainsSequence LengthOrganismDetails
eL8
G3
319N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 8
MoleculeChainsSequence LengthOrganismDetails
uL6
H3
192Oryctolagus cuniculusMutation(s): 0 
Find proteins for G1TX33 (Oryctolagus cuniculus)
Go to UniProtKB:  G1TX33
Entity ID: 9
MoleculeChainsSequence LengthOrganismDetails
60S ribosomal protein L10
I3
214Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPL10
Find proteins for B7NZQ2 (Oryctolagus cuniculus)
Go to Gene View: RPL10
Go to UniProtKB:  B7NZQ2
Entity ID: 10
MoleculeChainsSequence LengthOrganismDetails
Ribosomal protein L11
J3
178Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPL11
Find proteins for G1TUB8 (Oryctolagus cuniculus)
Go to Gene View: RPL11
Go to UniProtKB:  G1TUB8
Entity ID: 11
MoleculeChainsSequence LengthOrganismDetails
eL13
L3
211N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 12
MoleculeChainsSequence LengthOrganismDetails
Ribosomal protein L14
M3
218Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPL14
Find proteins for G1SZ12 (Oryctolagus cuniculus)
Go to Gene View: RPL14
Go to UniProtKB:  G1SZ12
Entity ID: 13
MoleculeChainsSequence LengthOrganismDetails
Ribosomal protein L15
N3
204Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPL15 (LOC100358370)
Find proteins for G1T0C1 (Oryctolagus cuniculus)
Go to Gene View: RPL15
Go to UniProtKB:  G1T0C1
Entity ID: 14
MoleculeChainsSequence LengthOrganismDetails
uL13
O3
203N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 15
MoleculeChainsSequence LengthOrganismDetails
uL22
P3
184Oryctolagus cuniculusMutation(s): 0 
Gene Names: LOC100339314
Find proteins for G1TVT6 (Oryctolagus cuniculus)
Go to UniProtKB:  G1TVT6
Entity ID: 16
MoleculeChainsSequence LengthOrganismDetails
eL18
Q3
188N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 17
MoleculeChainsSequence LengthOrganismDetails
eL19
R3
196N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 18
MoleculeChainsSequence LengthOrganismDetails
eL20
S3
176N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 19
MoleculeChainsSequence LengthOrganismDetails
eL21
T3
160Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPL21 (LOC100343039)
Find proteins for G1SHQ2 (Oryctolagus cuniculus)
Go to Gene View: RPL21
Go to UniProtKB:  G1SHQ2
Entity ID: 20
MoleculeChainsSequence LengthOrganismDetails
eL22
U3
128N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 21
MoleculeChainsSequence LengthOrganismDetails
Ribosomal protein L23
V3
140Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPL23
Find proteins for G1T6D1 (Oryctolagus cuniculus)
Go to Gene View: RPL23
Go to UniProtKB:  G1T6D1
Entity ID: 22
MoleculeChainsSequence LengthOrganismDetails
eL24
W3
157Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPL24
Find proteins for G1SE28 (Oryctolagus cuniculus)
Go to Gene View: RPL24
Go to UniProtKB:  G1SE28
Entity ID: 23
MoleculeChainsSequence LengthOrganismDetails
uL23
X3
156Oryctolagus cuniculusMutation(s): 0 
Gene Names: LOC108177184 (LOC108177974)
Find proteins for G1SE76 (Oryctolagus cuniculus)
Go to UniProtKB:  G1SE76
Entity ID: 24
MoleculeChainsSequence LengthOrganismDetails
Ribosomal protein L26
Y3
145Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPL26
Find proteins for G1SQH0 (Oryctolagus cuniculus)
Go to Gene View: RPL26
Go to UniProtKB:  G1SQH0
Entity ID: 25
MoleculeChainsSequence LengthOrganismDetails
60S ribosomal protein L27
Z3
136Oryctolagus cuniculusMutation(s): 0 
Gene Names: LOC100356974 (RPL27)
Find proteins for G1TXF6 (Oryctolagus cuniculus)
Go to UniProtKB:  G1TXF6
Entity ID: 26
MoleculeChainsSequence LengthOrganismDetails
uL15
a3
148Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPL27A
Find proteins for G1SNY0 (Oryctolagus cuniculus)
Go to Gene View: RPL27A
Go to UniProtKB:  G1SNY0
Entity ID: 27
MoleculeChainsSequence LengthOrganismDetails
eL29
b3
226Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPL29
Find proteins for G1SGR6 (Oryctolagus cuniculus)
Go to Gene View: RPL29
Go to UniProtKB:  G1SGR6
Entity ID: 28
MoleculeChainsSequence LengthOrganismDetails
eL30
c3
115Oryctolagus cuniculusMutation(s): 0 
Gene Names: LOC100343129
Find proteins for G1TDL2 (Oryctolagus cuniculus)
Go to UniProtKB:  G1TDL2
Entity ID: 29
MoleculeChainsSequence LengthOrganismDetails
eL31
d3
125Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPL31
Find proteins for G1SHG0 (Oryctolagus cuniculus)
Go to Gene View: RPL31
Go to UniProtKB:  G1SHG0
Entity ID: 30
MoleculeChainsSequence LengthOrganismDetails
eL32
e3
135Oryctolagus cuniculusMutation(s): 0 
Gene Names: LOC100352536 (LOC100345217, LOC100353583, LOC100359042)
Find proteins for G1U437 (Oryctolagus cuniculus)
Go to UniProtKB:  G1U437
Entity ID: 31
MoleculeChainsSequence LengthOrganismDetails
eL33
f3
110Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPL35A
Find proteins for G1SF08 (Oryctolagus cuniculus)
Go to Gene View: RPL35A
Go to UniProtKB:  G1SF08
Entity ID: 32
MoleculeChainsSequence LengthOrganismDetails
eL34
g3
116Oryctolagus cuniculusMutation(s): 0 
Gene Names: LOC100354714
Find proteins for G1U945 (Oryctolagus cuniculus)
Go to UniProtKB:  G1U945
Entity ID: 33
MoleculeChainsSequence LengthOrganismDetails
uL29
h3
123Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPL35
Find proteins for G1SIT5 (Oryctolagus cuniculus)
Go to Gene View: RPL35
Go to UniProtKB:  G1SIT5
Entity ID: 34
MoleculeChainsSequence LengthOrganismDetails
60S ribosomal protein L36
i3
105Oryctolagus cuniculusMutation(s): 0 
Gene Names: LOC100348796
Find proteins for G1TTQ5 (Oryctolagus cuniculus)
Go to UniProtKB:  G1TTQ5
Entity ID: 35
MoleculeChainsSequence LengthOrganismDetails
Ribosomal protein L37
j3
97Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPL37
Find proteins for U3KPD5 (Oryctolagus cuniculus)
Go to Gene View: RPL37
Go to UniProtKB:  U3KPD5
Entity ID: 36
MoleculeChainsSequence LengthOrganismDetails
eL38
k3
70Oryctolagus cuniculusMutation(s): 0 
Gene Names: LOC100352574
Find proteins for G1U001 (Oryctolagus cuniculus)
Go to UniProtKB:  G1U001
Entity ID: 37
MoleculeChainsSequence LengthOrganismDetails
eL39
l3
51Oryctolagus cuniculusMutation(s): 0 
Gene Names: LOC100343258
Find proteins for G1TTN1 (Oryctolagus cuniculus)
Go to UniProtKB:  G1TTN1
Entity ID: 38
MoleculeChainsSequence LengthOrganismDetails
eL40
m3
102N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 39
MoleculeChainsSequence LengthOrganismDetails
60s ribosomal protein l41
n3
25Oryctolagus cuniculusMutation(s): 0 
Find proteins for A0A087WNH4 (Oryctolagus cuniculus)
Go to UniProtKB:  A0A087WNH4
Entity ID: 40
MoleculeChainsSequence LengthOrganismDetails
eL42
o3
106Oryctolagus cuniculusMutation(s): 0 
Gene Names: LOC100358069 (LOC100342087, LOC100350675, RPL36AL)
Find proteins for G1U344 (Oryctolagus cuniculus)
Go to UniProtKB:  G1U344
Entity ID: 41
MoleculeChainsSequence LengthOrganismDetails
eL43
p3
92Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPL37A
Find proteins for G1SY53 (Oryctolagus cuniculus)
Go to Gene View: RPL37A
Go to UniProtKB:  G1SY53
Entity ID: 42
MoleculeChainsSequence LengthOrganismDetails
eL28
r3
137Oryctolagus cuniculusMutation(s): 0 
Gene Names: LOC100358162
Find proteins for G1U7L1 (Oryctolagus cuniculus)
Go to UniProtKB:  G1U7L1
Entity ID: 43
MoleculeChainsSequence LengthOrganismDetails
uL10
s3
318N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 44
MoleculeChainsSequence LengthOrganismDetails
Ribosomal protein L12
t3
165Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPL12
Find proteins for G1SMR7 (Oryctolagus cuniculus)
Go to Gene View: RPL12
Go to UniProtKB:  G1SMR7
Entity ID: 49
MoleculeChainsSequence LengthOrganismDetails
Nascent polypeptide-associated complex subunit alpha N-terminal region
NI
29N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 50
MoleculeChainsSequence LengthOrganismDetails
Nascent polypeptide-associated complex subunit alpha
NA
215N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 51
MoleculeChainsSequence LengthOrganismDetails
Transcription factor BTF3
NB
206N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 52
MoleculeChainsSequence LengthOrganismDetails
Tetratricopeptide repeat protein 5
TT
440Homo sapiensMutation(s): 0 
Gene Names: TTC5
Find proteins for Q8N0Z6 (Homo sapiens)
Go to Gene View: TTC5
Go to UniProtKB:  Q8N0Z6
Entity ID: 53
MoleculeChainsSequence LengthOrganismDetails
Tubulin Beta
1
64N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 45
MoleculeChainsLengthOrganism
P-site tRNA2376Oryctolagus cuniculus
Entity ID: 46
MoleculeChainsLengthOrganism
28S ribosomal RNA543543Oryctolagus cuniculus
Entity ID: 47
MoleculeChainsLengthOrganism
5S ribosomal RNA74120Oryctolagus cuniculus
Entity ID: 48
MoleculeChainsLengthOrganism
5.8S ribosomal RNA84156Oryctolagus cuniculus
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ZN
Query on ZN

Download SDF File 
Download CCD File 
g3, j3, m3, o3, p3
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
 Ligand Interaction
MG
Query on MG

Download SDF File 
Download CCD File 
54, 74, 84, a3, g3, j3, P3, V3
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
UNK
Query on UNK
Q3
L-PEPTIDE LINKINGC4 H9 N O2

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Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.11 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Medical Research Council (United Kingdom)United KingdomMC_UP_A022_1007
Medical Research Council (United Kingdom)United KingdomMC_U105184332
Wellcome TrustUnited KingdomWT096570

Revision History 

  • Version 1.0: 2019-11-27
    Type: Initial release