9F1B image
Entry Detail
PDB ID:
9F1B
EMDB ID:
Keywords:
Title:
Mammalian ternary complex of a translating 80S ribosome, NAC and NatA/E
Biological Source:
PDB Version:
Deposition Date:
2024-04-18
Release Date:
2024-08-21
Method Details:
Experimental Method:
Resolution:
3.01 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
Macromolecular Entities
Polymer Type:polyribonucleotide
Description:18S rRNA
Chain IDs:KB (auth: A2)
Chain Length:1870
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S27
Chain IDs:NB (auth: AA)
Chain Length:264
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S28
Chain IDs:QB (auth: AB)
Chain Length:293
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:Ribosomal protein S27a
Chain IDs:TB (auth: AC)
Chain Length:281
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S30
Chain IDs:WB (auth: AD)
Chain Length:263
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:Small ribosomal subunit protein eS26
Chain IDs:ZB (auth: AE)
Chain Length:115
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:Small ribosomal subunit protein RACK1
Chain IDs:CC (auth: AF)
Chain Length:317
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S29
Chain IDs:FC (auth: AG)
Chain Length:432
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polyribonucleotide
Description:mRNA
Chain IDs:IC (auth: AH)
Chain Length:208
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polyribonucleotide
Description:P-site tRNA
Chain IDs:D (auth: AT)
Chain Length:119
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:Small ribosomal subunit protein uS2
Chain IDs:FA (auth: AZ)
Chain Length:294
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S3a
Chain IDs:JA (auth: Aa)
Chain Length:264
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S2
Chain IDs:OA (auth: Ab)
Chain Length:293
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S3
Chain IDs:SA (auth: Ac)
Chain Length:281
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S4
Chain IDs:WA (auth: Ad)
Chain Length:263
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:Ribosomal protein S5
Chain IDs:AB (auth: Ae)
Chain Length:115
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S6
Chain IDs:EB (auth: Af)
Chain Length:317
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S7
Chain IDs:IB (auth: Ag)
Chain Length:432
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S8
Chain IDs:LB (auth: Ah)
Chain Length:208
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S9
Chain IDs:OB (auth: Ai)
Chain Length:194
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:S10_plectin domain-containing protein
Chain IDs:RB (auth: Aj)
Chain Length:165
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S11
Chain IDs:UB (auth: Ak)
Chain Length:158
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S12
Chain IDs:XB (auth: Al)
Chain Length:132
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S13
Chain IDs:AC (auth: Am)
Chain Length:151
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:Small ribosomal subunit protein uS11
Chain IDs:DC (auth: An)
Chain Length:151
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:40S ribosomal protein uS19
Chain IDs:GC (auth: Ao)
Chain Length:145
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:Small ribosomal subunit protein uS9
Chain IDs:JC (auth: Ap)
Chain Length:172
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:40S ribosomal protein eS17
Chain IDs:B (auth: Aq)
Chain Length:135
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:Small ribosomal subunit protein uS13
Chain IDs:E (auth: Ar)
Chain Length:151
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S19
Chain IDs:K (auth: As)
Chain Length:145
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:Small ribosomal subunit protein uS10
Chain IDs:N (auth: At)
Chain Length:119
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:Small ribosomal subunit protein eS21
Chain IDs:DA (auth: Au)
Chain Length:83
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:Ribosomal protein S15a
Chain IDs:R (auth: Av)
Chain Length:130
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S23
Chain IDs:W (auth: Aw)
Chain Length:143
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S24
Chain IDs:BA (auth: Ax)
Chain Length:130
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:40S ribosomal protein S25
Chain IDs:GA (auth: Ay)
Chain Length:124
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:60S ribosomal protein L41
Chain IDs:KA (auth: Az)
Chain Length:294
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:Large ribosomal subunit protein uL18
Chain IDs:YA (auth: B)
Chain Length:297
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polyribonucleotide
Description:28S rRNA
Chain IDs:X (auth: B5)
Chain Length:4808
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polyribonucleotide
Description:5S rRNA
Chain IDs:CA (auth: B7)
Chain Length:119
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polyribonucleotide
Description:5.8S rRNA
Chain IDs:HA (auth: B8)
Chain Length:158
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:Large ribosomal subunit protein uL2
Chain IDs:LA (auth: BA)
Chain Length:148
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:Ribosomal protein L3
Chain IDs:QA (auth: BB)
Chain Length:245
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:Large ribosomal subunit protein uL4
Chain IDs:UA (auth: BC)
Chain Length:412
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:60S ribosomal protein L6
Chain IDs:CB (auth: BE)
Chain Length:291
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:Ribosomal Protein uL30
Chain IDs:GB (auth: BF)
Chain Length:110
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:60S ribosomal protein L7a
Chain IDs:P (auth: BG)
Chain Length:266
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:60S ribosomal protein L9
Chain IDs:U (auth: BH)
Chain Length:123
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:60S ribosomal protein L10
Chain IDs:Z (auth: BI)
Chain Length:214
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:60S ribosomal protein L11
Chain IDs:EA (auth: BJ)
Chain Length:178
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:Nascent chain
Chain IDs:IA (auth: BK)
Chain Length:29
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:Large ribosomal subunit protein eL13
Chain IDs:G (auth: BL)
Chain Length:211
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:60S ribosomal protein L14
Chain IDs:NA (auth: BM)
Chain Length:128
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:Ribosomal protein L15
Chain IDs:VA (auth: BN)
Chain Length:204
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:Large ribosomal subunit protein uL13
Chain IDs:ZA (auth: BO)
Chain Length:106
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:Large ribosomal subunit protein uL22
Chain IDs:A (auth: BP)
Chain Length:184
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:Large ribosomal subunit protein eL18
Chain IDs:J (auth: BQ)
Chain Length:188
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:Ribosomal protein L19
Chain IDs:M (auth: BR)
Chain Length:136
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:Large ribosomal subunit protein eL20
Chain IDs:RA (auth: BS)
Chain Length:318
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:60S ribosomal protein L21
Chain IDs:Y (auth: BT)
Chain Length:165
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:60S ribosomal protein L22
Chain IDs:Q (auth: BU)
Chain Length:128
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:Ribosomal protein L23
Chain IDs:V (auth: BV)
Chain Length:140
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:Ribosomal protein L24
Chain IDs:AA (auth: BW)
Chain Length:157
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:Ribosomal_L23eN domain-containing protein
Chain IDs:H (auth: BX)
Chain Length:156
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:Ribosomal protein L26
Chain IDs:PA (auth: BY)
Chain Length:145
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:60S ribosomal protein L27
Chain IDs:TA (auth: BZ)
Chain Length:136
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:60S ribosomal protein L27a
Chain IDs:XA (auth: Ba)
Chain Length:148
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:60S ribosomal protein L29
Chain IDs:BB (auth: Bb)
Chain Length:245
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:60S ribosomal protein L30
Chain IDs:FB (auth: Bc)
Chain Length:412
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:60S ribosomal protein L31
Chain IDs:JB (auth: Bd)
Chain Length:125
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:Ribosomal protein L32
Chain IDs:MB (auth: Be)
Chain Length:291
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:60S ribosomal protein L35a
Chain IDs:PB (auth: Bf)
Chain Length:110
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:Large ribosomal subunit protein eL34
Chain IDs:SB (auth: Bg)
Chain Length:266
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:60S ribosomal protein L35
Chain IDs:VB (auth: Bh)
Chain Length:123
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:60S ribosomal protein L36
Chain IDs:YB (auth: Bi)
Chain Length:214
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:Ribosomal protein L37
Chain IDs:BC (auth: Bj)
Chain Length:178
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:60S ribosomal protein L38
Chain IDs:EC (auth: Bk)
Chain Length:29
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:60S ribosomal protein L39-like
Chain IDs:HC (auth: Bl)
Chain Length:211
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:Ubiquitin-ribosomal protein eL40 fusion protein
Chain IDs:KC (auth: Bm)
Chain Length:128
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:Large ribosomal subunit protein eL42
Chain IDs:C (auth: Bo)
Chain Length:106
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:60S ribosomal protein L37a
Chain IDs:I (auth: Bp)
Chain Length:184
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:Large ribosomal subunit protein eL28
Chain IDs:L (auth: Br)
Chain Length:136
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:60S acidic ribosomal protein P0
Chain IDs:O (auth: Bs)
Chain Length:318
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:60S ribosomal protein L12
Chain IDs:MA (auth: Bt)
Chain Length:165
Number of Molecules:1
Biological Source:Oryctolagus cuniculus
Polymer Type:polypeptide(L)
Description:Nascent polypeptide-associated complex subunit alpha
Chain IDs:T (auth: Ct)
Chain Length:238
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Description:Transcription factor BTF3
Chain IDs:F (auth: Cu)
Chain Length:162
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Description:Glutathione S-transferase class-mu 26 kDa isozyme,N-alpha-acetyltransferase 50
Chain IDs:DB (auth: DA)
Chain Length:403
Number of Molecules:1
Biological Source:Schistosoma japonicum, Homo sapiens
Polymer Type:polypeptide(L)
Description:N-alpha-acetyltransferase 15, NatA auxiliary subunit
Chain IDs:S (auth: DB)
Chain Length:915
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Description:N-alpha-acetyltransferase 10
Mutations:E24Q, Y26F
Chain IDs:HB (auth: DC)
Chain Length:235
Number of Molecules:1
Biological Source:Homo sapiens
Modified Residue
Compound ID Chain ID Parent Comp ID Details 2D Image
1MA X A modified residue
5MC X C modified residue
6MZ X A modified residue
A2M X A modified residue
AME DA MET modified residue
AYA UA ALA modified residue
G7M KB G modified residue
HIC QA HIS modified residue
HY3 W PRO modified residue
M3L KC LYS modified residue
MA6 KB A modified residue
MLZ C LYS modified residue
NMM K ARG modified residue
OMC X C modified residue
OMG X G modified residue
OMU X U modified residue
PSU X U modified residue
SAC E SER modified residue
UR3 X U modified residue
V5N LA HIS modified residue
Primary Citation
NAC guides a ribosomal multienzyme complex for nascent protein processing.
Nature 633 718 724 (2024)
PMID: 39169182 DOI: 10.1038/s41586-024-07846-7

Abstact

Approximately 40% of the mammalian proteome undergoes N-terminal methionine excision and acetylation, mediated sequentially by methionine aminopeptidase (MetAP) and N-acetyltransferase A (NatA), respectively1. Both modifications are strictly cotranslational and essential in higher eukaryotic organisms1. The interaction, activity and regulation of these enzymes on translating ribosomes are poorly understood. Here we perform biochemical, structural and in vivo studies to demonstrate that the nascent polypeptide-associated complex2,3 (NAC) orchestrates the action of these enzymes. NAC assembles a multienzyme complex with MetAP1 and NatA early during translation and pre-positions the active sites of both enzymes for timely sequential processing of the nascent protein. NAC further releases the inhibitory interactions from the NatA regulatory protein huntingtin yeast two-hybrid protein K4,5 (HYPK) to activate NatA on the ribosome, enforcing cotranslational N-terminal acetylation. Our results provide a mechanistic model for the cotranslational processing of proteins in eukaryotic cells.

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Primary Citation of related structures