- EMDB-10053: Cryo-EM structure of the 90S pre-ribosome (Kre33-Noc4) from Chaet... -
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基本情報
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データベース: EMDB / ID: EMD-10053
タイトル
Cryo-EM structure of the 90S pre-ribosome (Kre33-Noc4) from Chaetomium thermophilum, state B2
マップデータ
試料
90S pre-ribosome, state B2
Periodic tryptophan protein 2-like protein
Utp2
Utp3
Utp4
Utp6
Utp7
UTP10
(U3 small nucleolar RNA-associated protein ...) x 2
Utp12
Utp13
Utp14
Utp15
Utp17
Utp18
Utp21
Utp24
Utp30
Nop1
Nop56
Nop58
Snu13NHP2L1
Rrp9
RNA 3'-terminal phosphate cyclase-like protein
Bms1
Imp3
Imp4
Mpp10
Sof1
Emg1
KRR1 small subunit processome component
Pre-rRNA-processing protein PNO1
Kre33
Fcf2
(40S ribosomal protein ...) x 15
Faf1
(nucleic-acid核酸) x 2
Rrp7
Ribosome biogenesis protein ENP2リボソーム生合成
Utp20
Utp8
Utp5
Noc4
Rps1840S ribosomal protein S18
Enp1
U3 small nucleolar ribonucleoprotein protein lcp5-like protein
Bfr2
Utp16
(ligandリガンド) x 3
機能・相同性
機能・相同性情報
rRNA cytidine N-acetyltransferase activity / tRNA acetylation / mRNA modification / Mpp10 complex / rRNA (pseudouridine) methyltransferase activity / rRNA modification / endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) / nuclear microtubule / endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA) / box C/D RNP complex ...rRNA cytidine N-acetyltransferase activity / tRNA acetylation / mRNA modification / Mpp10 complex / rRNA (pseudouridine) methyltransferase activity / rRNA modification / endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) / nuclear microtubule / endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA) / box C/D RNP complex / snRNA binding / rRNA base methylation / protein localization to nucleolus / U3 snoRNA binding / rRNA export from nucleus / sno(s)RNA-containing ribonucleoprotein complex / 90S preribosome / preribosome, small subunit precursor / snoRNA binding / endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) / 転写後修飾 / small-subunit processome / ribosomal small subunit biogenesis / nuclear periphery / 転移酵素; アシル基を移すもの; アミノアシル基以外のアシル基を移すもの / 助触媒 / small ribosomal subunit rRNA binding / maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) / rRNA processing / 転写後修飾 / リボソーム生合成 / methyltransferase activity / cytosolic small ribosomal subunit / ribonucleoprotein complex / small ribosomal subunit / tRNA binding / メチル化 / rRNA binding / リボソーム / structural constituent of ribosome / protein ubiquitination / 翻訳 (生物学) / GTPase activity / GTP binding / 核小体 / RNA binding / 生体膜 / ATP binding / identical protein binding / 細胞核 / 細胞質
Ribosomal protein S13, conserved site / Fcf2 pre-rRNA processing, C-terminal / RNA 3'-terminal phosphate cyclase/enolpyruvate transferase, alpha/beta / Ribosomal protein S4e, N-terminal / Ribosomal protein S4e, central region / Small-subunit processome, Utp13 / U3 small nucleolar RNA-associated protein 6 / Ribosomal protein S6, eukaryotic / Ribosomal protein S5 domain 2-type fold, subgroup / Ribosomal protein L2, domain 2 ...Ribosomal protein S13, conserved site / Fcf2 pre-rRNA processing, C-terminal / RNA 3'-terminal phosphate cyclase/enolpyruvate transferase, alpha/beta / Ribosomal protein S4e, N-terminal / Ribosomal protein S4e, central region / Small-subunit processome, Utp13 / U3 small nucleolar RNA-associated protein 6 / Ribosomal protein S6, eukaryotic / Ribosomal protein S5 domain 2-type fold, subgroup / Ribosomal protein L2, domain 2 / WD40/YVTN repeat-like-containing domain superfamily / tRNA(Met) cytidine acetyltransferase TmcA, N-terminal / Armadillo-type fold / Ribosomal protein L1, 3-layer alpha/beta-sandwich / RNA 3'-terminal phosphate cyclase type 2 / WD40-repeat-containing domain / Ribosomal protein S4, conserved site / Ribosomal S24e conserved site / Ribosomal S11, conserved site / Ribosomal protein S4e, N-terminal, conserved site / RNA 3'-terminal phosphate cyclase, insert domain / U3 snoRNA associated / Ribosomal protein S3Ae, conserved site / U3 small nucleolar ribonucleoprotein complex, subunit Mpp10 / Helicase domain / Bystin / S15/NS1, RNA-binding / Ribosomal protein S13-like, H2TH / Quinoprotein amine dehydrogenase, beta chain-like / Quinoprotein alcohol dehydrogenase-like superfamily / Down-regulated-in-metastasis protein / Tetratricopeptide-like helical domain superfamily / Nucleic acid-binding, OB-fold / NOSIC / NUC153 / Ribosomal protein S13/S15, N-terminal / Apoptosis-antagonizing transcription factor, C-terminal / Nucleotide-binding alpha-beta plait domain superfamily / Ribosomal protein L23/L15e core domain superfamily / AARP2CN / BING4, C-terminal domain / BP28, C-terminal domain / NOP5, N-terminal / Nrap protein, domain 6 / Ribosomal protein S6e, conserved site / Sof1-like protein / Alpha/beta knot methyltransferases / 30s ribosomal protein S13, C-terminal / 40S ribosomal protein S1/3, eukaryotes / Possible tRNA binding domain / Ribosomal protein S17, archaeal/eukaryotic / Ribosomal protein L1/ribosomal biogenesis protein / Ribosomal protein S28e conserved site / Helix hairpin bin domain superfamily / tRNA (guanine-N1-)-methyltransferase, N-terminal / S-adenosyl-L-methionine-dependent methyltransferase / Nucleolar complex protein 4 / 50S ribosomal protein L30e-like / Bms1/Tsr1-type G domain / 40S ribosomal protein S4, C-terminal domain / 40S ribosomal protein S11, N-terminal / TmcA/NAT10/Kre33 / RNA cytidine acetyltransferase NAT10 / Nrap protein domain 1 / Nrap protein, domain 2 / Nrap protein, domain 3 / P-loop containing nucleoside triphosphate hydrolase / Periodic tryptophan protein 2 / Pyrrolo-quinoline quinone beta-propeller repeat / Ribosomal protein S7, conserved site / Ribosomal protein L7Ae/L8/Nhp2 family / Sas10 C-terminal domain / U3 small nucleolar RNA-associated protein 15, C-terminal / WD40 repeat, conserved site / Ribosomal protein S17, conserved site / G-protein beta WD-40 repeat / Ribosomal protein S5 domain 2-type fold / Ribosomal protein S9, conserved site / Fibrillarin, conserved site / AATF leucine zipper-containing domain / U3 small nucleolar RNA-associated protein 10, N-terminal / Ribosomal protein S8e/ribosomal biogenesis NSA2 / Ribosomal protein S4/S9 / Ribosomal protein S15P / Ribosomal protein L1-like / RNA 3'-terminal phosphate cyclase domain / Ribosomal protein S7 domain / Ribosomal RNA assembly KRR1 / Ribosomal RNA-processing protein 7, C-terminal domain / Small-subunit processome, Utp21 / Nucleolar protein 14 / Nrap protein, domain 5 / Ribosome biogenesis protein Bms1, N-terminal / Ribosomal protein S17/S11 / Ribosomal protein S5/S7 / RNA 3'-terminal phosphate cyclase / GNAT domain / Ribosomal protein S8 superfamily / Nop domain superfamily / Small-subunit processome, Utp12
S4 RNA-binding domain-containing protein / WD_REPEATS_REGION domain-containing protein / WD_REPEATS_REGION domain-containing protein / WD_REPEATS_REGION domain-containing protein / 40S ribosomal protein S16-like protein / Putative U3 small nucleolar ribonucleoprotein protein / Uncharacterized protein / Protein BFR2 / 40S ribosomal protein S28-like protein / Ribosome biogenesis protein ENP2 ...S4 RNA-binding domain-containing protein / WD_REPEATS_REGION domain-containing protein / WD_REPEATS_REGION domain-containing protein / WD_REPEATS_REGION domain-containing protein / 40S ribosomal protein S16-like protein / Putative U3 small nucleolar ribonucleoprotein protein / Uncharacterized protein / Protein BFR2 / 40S ribosomal protein S28-like protein / Ribosome biogenesis protein ENP2 / Uncharacterized protein / 40S ribosomal protein S7 / Uncharacterized protein / DRIM domain-containing protein / Uncharacterized protein / Putative U3 small nucleolar ribonucleoprotein / WD_REPEATS_REGION domain-containing protein / 40S ribosomal protein S11-like protein / U3 small nucleolar RNA-associated protein 11 / Periodic tryptophan protein 2-like protein / 40S ribosomal protein S14-like protein / Uncharacterized protein / WD_REPEATS_REGION domain-containing protein / Ribonucloprotein / Histone-glutamine methyltransferase / 40S ribosomal protein S22-like protein / U3 small nucleolar ribonucleoprotein protein lcp5-like protein / Uncharacterized protein CTHT_0071780 / Putative U3 snoRNP protein / Uncharacterized protein / Uncharacterized protein / 40S ribosomal protein S4 / 40S ribosomal protein s23-like protein / 40S ribosomal protein S6 / 40S ribosomal protein S8 / DDB1- and CUL4-associated factor 13 / Nucleolar protein 58 / Utp12 domain-containing protein / WD_REPEATS_REGION domain-containing protein / CBF domain-containing protein / WD_REPEATS_REGION domain-containing protein / 40S ribosomal protein S13-like protein / RNA 3'-terminal phosphate cyclase-like protein / 40S ribosomal protein s9-like protein / 40S ribosomal protein s5-like protein / 40S ribosomal protein S1 / RNA cytidine acetyltransferase / U3 small nucleolar RNA-associated protein 22 / Nucleolar protein 58 / Pre-rRNA-processing protein PNO1 / KRR1 small subunit processome component / Bms1-type G domain-containing protein / Fcf2 domain-containing protein / Sas10 domain-containing protein / Uncharacterized protein / Uncharacterized protein / U3 small nucleolar RNA-associated protein 10 / Uncharacterized protein / Putative ribosomal protein / 40S ribosomal protein S24
ジャーナル: Mol Cell / 年: 2019 タイトル: Thermophile 90S Pre-ribosome Structures Reveal the Reverse Order of Co-transcriptional 18S rRNA Subdomain Integration. 著者: Jingdong Cheng / Jochen Baßler / Paulina Fischer / Benjamin Lau / Nikola Kellner / Ruth Kunze / Sabine Griesel / Martina Kallas / Otto Berninghausen / Daniela Strauss / Roland Beckmann / Ed Hurt / 要旨: Eukaryotic ribosome biogenesis involves RNA folding and processing that depend on assembly factors and small nucleolar RNAs (snoRNAs). The 90S (SSU-processome) is the earliest pre-ribosome ...Eukaryotic ribosome biogenesis involves RNA folding and processing that depend on assembly factors and small nucleolar RNAs (snoRNAs). The 90S (SSU-processome) is the earliest pre-ribosome structurally analyzed, which was suggested to assemble stepwise along the growing pre-rRNA from 5' > 3', but this directionality may not be accurate. Here, by analyzing the structure of a series of 90S assembly intermediates from Chaetomium thermophilum, we discover a reverse order of 18S rRNA subdomain incorporation. Large parts of the 18S rRNA 3' and central domains assemble first into the 90S before the 5' domain is integrated. This final incorporation depends on a contact between a heterotrimer Enp2-Bfr2-Lcp5 recruited to the flexible 5' domain and Kre33, which reconstitutes the Kre33-Enp-Brf2-Lcp5 module on the compacted 90S. Keeping the 5' domain temporarily segregated from the 90S scaffold could provide extra time to complete the multifaceted 5' domain folding, which depends on a distinct set of snoRNAs and processing factors.