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 1.1 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.

(2020) Science 367: 100-104

  • DOI: 10.1126/science.aaz4352
  • Structures With Same Primary Citation

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

    Tubulins play crucial roles in cell division, intracellular traffic, and cell shape. Tubulin concentration is autoregulated by feedback control of messenger RNA (mRNA) degradation via an unknown mechanism. We identified tetratricopeptide protein 5 (TTC5) as a tubulin-specific ribosome-associating factor that triggers cotranslational degradation of tubulin mRNAs in response to excess soluble tubulin. Structural analysis revealed that TTC5 binds near the ribosome exit tunnel and engages the amino 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

    MRC Laboratory of Molecular Biology, Cambridge CB2 0QH, UK. rhegde@mrc-lmb.cam.ac.uk.



Macromolecules

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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Ribosomal protein L8
A3
257Oryctolagus cuniculusMutation(s): 0 
Gene Names: ZNF34
Find proteins for G1TT27 (Oryctolagus cuniculus)
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
uL4
C3
425Oryctolagus cuniculusMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.

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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetails
60S ribosomal protein L5
D3
297Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPL5
Find proteins for G1SYJ6 (Oryctolagus cuniculus)
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Entity ID: 5
MoleculeChainsSequence LengthOrganismDetails
60S ribosomal protein L6
E3
291Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPL6
Find proteins for G1SKF7 (Oryctolagus cuniculus)
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Entity ID: 6
MoleculeChainsSequence LengthOrganismDetails
Ul30
F3
247Oryctolagus cuniculusMutation(s): 0 
Find proteins for G1TUB1 (Oryctolagus cuniculus)
Go to UniProtKB:  G1TUB1

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Entity ID: 7
MoleculeChainsSequence LengthOrganismDetails
eL8
G3
319Oryctolagus cuniculusMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.

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Entity ID: 8
MoleculeChainsSequence LengthOrganismDetails
uL6
H3
192Oryctolagus cuniculusMutation(s): 0 
Gene Names: LOC100354760
Find proteins for G1SWI6 (Oryctolagus cuniculus)
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Entity ID: 9
MoleculeChainsSequence LengthOrganismDetails
60S ribosomal protein L10
I3
214Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPL10
Find proteins for B7NZQ2 (Oryctolagus cuniculus)
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Entity ID: 12
MoleculeChainsSequence LengthOrganismDetails
Ribosomal protein L14
M3
218Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPL14
Find proteins for G1SZ12 (Oryctolagus cuniculus)
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Entity ID: 13
MoleculeChainsSequence LengthOrganismDetails
Ribosomal protein L15
N3
204Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPL15
Find proteins for G1T0C1 (Oryctolagus cuniculus)
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Entity ID: 15
MoleculeChainsSequence LengthOrganismDetails
uL22
P3
184Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPL17-C18orf32
Find proteins for G1TVT6 (Oryctolagus cuniculus)
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Entity ID: 16
MoleculeChainsSequence LengthOrganismDetails
eL18
Q3
188Oryctolagus cuniculusMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.

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Entity ID: 18
MoleculeChainsSequence LengthOrganismDetails
eL20
S3
176Oryctolagus cuniculusMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.

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Entity ID: 19
MoleculeChainsSequence LengthOrganismDetails
eL21
T3
160Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPL21
Find proteins for G1SHQ2 (Oryctolagus cuniculus)
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Entity ID: 20
MoleculeChainsSequence LengthOrganismDetails
eL22
U3
128Oryctolagus cuniculusMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.

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Entity ID: 21
MoleculeChainsSequence LengthOrganismDetails
Ribosomal protein L23
V3
140Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPL23
Find proteins for G1T6D1 (Oryctolagus cuniculus)
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Entity ID: 22
MoleculeChainsSequence LengthOrganismDetails
eL24
W3
157Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPL24
Find proteins for G1SE28 (Oryctolagus cuniculus)
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Entity ID: 23
MoleculeChainsSequence LengthOrganismDetails
uL23
X3
156Oryctolagus cuniculusMutation(s): 0 
Gene Names: LOC100350855
Find proteins for G1SE76 (Oryctolagus cuniculus)
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Entity ID: 24
MoleculeChainsSequence LengthOrganismDetails
Ribosomal protein L26
Y3
145Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPL26
Find proteins for G1SQH0 (Oryctolagus cuniculus)
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Entity ID: 25
MoleculeChainsSequence LengthOrganismDetails
60S ribosomal protein L27
Z3
136Oryctolagus cuniculusMutation(s): 0 
Gene Names: LOC100356974RPL27
Find proteins for G1TXF6 (Oryctolagus cuniculus)
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Entity ID: 26
MoleculeChainsSequence LengthOrganismDetails
uL15
a3
148Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPL27ALOC100350771
Find proteins for G1SNY0 (Oryctolagus cuniculus)
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Entity ID: 27
MoleculeChainsSequence LengthOrganismDetails
eL29
b3
226Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPL29
Find proteins for G1SGR6 (Oryctolagus cuniculus)
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Entity ID: 28
MoleculeChainsSequence LengthOrganismDetails
eL30
c3
115Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPL30
Find proteins for G1TDL2 (Oryctolagus cuniculus)
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Entity ID: 29
MoleculeChainsSequence LengthOrganismDetails
eL31
d3
125Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPL31
Find proteins for G1SHG0 (Oryctolagus cuniculus)
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Entity ID: 30
MoleculeChainsSequence LengthOrganismDetails
eL32
e3
135Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPL32
Find proteins for G1U437 (Oryctolagus cuniculus)
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Entity ID: 31
MoleculeChainsSequence LengthOrganismDetails
eL33
f3
110Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPL35A
Find proteins for G1SF08 (Oryctolagus cuniculus)
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Entity ID: 32
MoleculeChainsSequence LengthOrganismDetails
eL34
g3
116Oryctolagus cuniculusMutation(s): 0 
Gene Names: LOC100354714
Find proteins for G1U945 (Oryctolagus cuniculus)
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Entity ID: 33
MoleculeChainsSequence LengthOrganismDetails
uL29
h3
123Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPL35
Find proteins for G1SIT5 (Oryctolagus cuniculus)
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Entity ID: 34
MoleculeChainsSequence LengthOrganismDetails
60S ribosomal protein L36
i3
105Oryctolagus cuniculusMutation(s): 0 
Find proteins for G1TTQ5 (Oryctolagus cuniculus)
Go to UniProtKB:  G1TTQ5

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Entity ID: 38
MoleculeChainsSequence LengthOrganismDetails
eL40
m3
102Oryctolagus cuniculusMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.

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Entity ID: 39
MoleculeChainsSequence LengthOrganismDetails
60s ribosomal protein l41
n3
25Oryctolagus cuniculusMutation(s): 0 
Find proteins for A0A087WNH4 (Oryctolagus cuniculus)
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Entity ID: 40
MoleculeChainsSequence LengthOrganismDetails
eL42
o3
106Oryctolagus cuniculusMutation(s): 0 
Gene Names: LOC100342087
Find proteins for G1U344 (Oryctolagus cuniculus)
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Entity ID: 41
MoleculeChainsSequence LengthOrganismDetails
eL43
p3
92Oryctolagus cuniculusMutation(s): 0 
Gene Names: LOC100351807LOC100349729RPL37A
Find proteins for G1SY53 (Oryctolagus cuniculus)
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Entity ID: 42
MoleculeChainsSequence LengthOrganismDetails
eL28
r3
137Oryctolagus cuniculusMutation(s): 0 
Gene Names: LOC100358162
Find proteins for G1U7L1 (Oryctolagus cuniculus)
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Entity ID: 43
MoleculeChainsSequence LengthOrganismDetails
uL10
s3
318Oryctolagus cuniculusMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.

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Entity ID: 49
MoleculeChainsSequence LengthOrganismDetails
Nascent polypeptide-associated complex subunit alpha N-terminal region
NI
29Oryctolagus cuniculusMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.

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Entity ID: 50
MoleculeChainsSequence LengthOrganismDetails
Nascent polypeptide-associated complex subunit alpha
NA
215Oryctolagus cuniculusMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.

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Entity ID: 51
MoleculeChainsSequence LengthOrganismDetails
Transcription factor BTF3
NB
206Oryctolagus cuniculusMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.

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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 UniProtKB:  Q8N0Z6
NIH Common Fund Data Resources
PHAROS  Q8N0Z6

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Entity ID: 53
MoleculeChainsSequence LengthOrganismDetails
Tubulin Beta
1
64Oryctolagus cuniculusMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.

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Entity ID: 10
MoleculeChainsSequence LengthOrganismDetails
Ribosomal protein L11
J3
178Oryctolagus cuniculusMutation(s): 0 
Gene Names: ELOA
Find proteins for G1TUB8 (Oryctolagus cuniculus)
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Entity ID: 11
MoleculeChainsSequence LengthOrganismDetails
eL13
L3
211Oryctolagus cuniculusMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.

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Entity ID: 14
MoleculeChainsSequence LengthOrganismDetails
uL13
O3
203Oryctolagus cuniculusMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.

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Entity ID: 17
MoleculeChainsSequence LengthOrganismDetails
eL19
R3
196Oryctolagus cuniculusMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.

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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
uL3
B3
403Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPL3
Find proteins for G1TL06 (Oryctolagus cuniculus)
Go to UniProtKB:  G1TL06

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Entity ID: 35
MoleculeChainsSequence LengthOrganismDetails
Ribosomal protein L37
j3
97Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPL37
Find proteins for U3KPD5 (Oryctolagus cuniculus)
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Entity ID: 36
MoleculeChainsSequence LengthOrganismDetails
eL38
k3
70Oryctolagus cuniculusMutation(s): 0 
Gene Names: LOC100352574
Find proteins for G1U001 (Oryctolagus cuniculus)
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Entity ID: 37
MoleculeChainsSequence LengthOrganismDetails
eL39
l3
51Oryctolagus cuniculusMutation(s): 0 
Gene Names: LOC100343258
Find proteins for G1TTN1 (Oryctolagus cuniculus)
Go to UniProtKB:  G1TTN1

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Entity ID: 44
MoleculeChainsSequence LengthOrganismDetails
Ribosomal protein L12
t3
165Oryctolagus cuniculusMutation(s): 0 
Gene Names: RPL12
Find proteins for G1SMR7 (Oryctolagus cuniculus)
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Find similar nucleic acids by: Sequence   |  Structure

Entity ID: 47
MoleculeChainsLengthOrganism
5S ribosomal RNA74120Oryctolagus cuniculus

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Entity ID: 48
MoleculeChainsLengthOrganism
5.8S ribosomal RNA84156Oryctolagus cuniculus

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Entity ID: 45
MoleculeChainsLengthOrganism
P-site tRNA2376Oryctolagus cuniculus

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Entity ID: 46
MoleculeChainsLengthOrganism
28S ribosomal RNA543543Oryctolagus cuniculus
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ZN
Query on ZN

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

Download CCD File 
54, 74, 84, P3, V3, a3, g3, j3
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
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



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
  • Version 1.1: 2020-01-15
    Changes: Database references