- PDB-6skf: Cryo-EM Structure of T. kodakarensis 70S ribosome -
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基本情報
登録情報
データベース: PDB / ID: 6skf
タイトル
Cryo-EM Structure of T. kodakarensis 70S ribosome
要素
(30S ribosomal protein ...) x 24
(50S ribosomal protein ...) x 32
16S rRNA
23S rRNA
5S rRNA
LSU ribosomal protein L41E
Predicted zinc-ribbon RNA-binding protein involved in translation
キーワード
RIBOSOME / T. kodakarensis / ac4C / cryo-EM
機能・相同性
機能・相同性情報
ribonuclease P activity / tRNA 5'-leader removal / maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) / maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) / ribosomal large subunit biogenesis / maturation of SSU-rRNA / ribosome biogenesis / ribosomal small subunit biogenesis / ribosomal small subunit assembly / small ribosomal subunit ...ribonuclease P activity / tRNA 5'-leader removal / maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) / maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) / ribosomal large subunit biogenesis / maturation of SSU-rRNA / ribosome biogenesis / ribosomal small subunit biogenesis / ribosomal small subunit assembly / small ribosomal subunit / small ribosomal subunit rRNA binding / 5S rRNA binding / large ribosomal subunit rRNA binding / cytosolic small ribosomal subunit / cytosolic large ribosomal subunit / cytoplasmic translation / tRNA binding / rRNA binding / negative regulation of translation / ribosome / structural constituent of ribosome / ribonucleoprotein complex / translation / mRNA binding / RNA binding / zinc ion binding / cytosol / cytoplasm 類似検索 - 分子機能
Small zinc finger protein HVO_2753-like, zinc-binding pocket / Small zinc finger protein HVO_2753-like / Small zinc finger protein HVO_2753-like, Zn-binding pocket / Ribosomal protein L14e / : / Ribosomal protein L40e, archaeal / : / Ribosomal protein S9, archaeal / Ribosomal protein S13, archaeal / Ribosomal protein S17, archaeal ...Small zinc finger protein HVO_2753-like, zinc-binding pocket / Small zinc finger protein HVO_2753-like / Small zinc finger protein HVO_2753-like, Zn-binding pocket / Ribosomal protein L14e / : / Ribosomal protein L40e, archaeal / : / Ribosomal protein S9, archaeal / Ribosomal protein S13, archaeal / Ribosomal protein S17, archaeal / Ribosomal protein S6e, archaeal / Ribosomal protein S4, archaeal / Ribosomal protein S12, archaea / Ribosomal protein S3, archaeal / 30S ribosomal protein S3Ae / Ribosomal protein S7, archaeal / Ribosomal protein S19e, archaeal / Ribosomal protein S11, archaeal / Ribosomal protein S2, archaeal / Ribosomal protein S14, type Z, archaeal / Ribosomal protein S8e, archaeal / Ribosomal protein L15e, archaeal / Ribosomal protein L30, archaeal / Ribosomal protein L6P, archaea / Ribosomal protein L14P, archaeal / Ribosomal protein L21e, archaeal / Ribosomal protein L18e, archaea / Ribosomal protein L10e, archaea / Ribosomal protein L32e, archaeal / Ribosomal protein L3, archaeal / Ribosomal protein L4, archaea / Ribosomal protein L5, archaeal / Ribosomal protein L7Ae, archaea / Ribosomal protein L24e / Ribosomal protein L30e / Ribosomal protein L2, archaeal-type / : / Ribosomal L15/L27a, N-terminal / : / Ribosomal protein L23 / metallochaperone-like domain / TRASH domain / Ribosomal protein S5, eukaryotic/archaeal / Ribosomal protein S19e, conserved site / Ribosomal protein S19e signature. / Ribosomal protein S10, eukaryotic/archaeal / Ribosomal protein S2, eukaryotic/archaeal / Ribosomal protein S17e, conserved site / Ribosomal protein S17e signature. / Ribosomal protein L44e signature. / Ribosomal protein L10e, conserved site / Ribosomal protein L10e signature. / Ribosomal protein L10e / 40S ribosomal protein S29/30S ribosomal protein S14 type Z / Ribosomal protein S3, eukaryotic/archaeal / Ribosomal protein S19e / Ribosomal protein S3Ae, conserved site / Ribosomal protein S19e / Ribosomal protein S3Ae signature. / Ribosomal_S19e / Ribosomal protein S27e signature. / Ribosomal protein L24e, conserved site / Ribosomal protein L24e signature. / Ribosomal protein L44e / Ribosomal protein S4e, N-terminal, conserved site / Ribosomal protein L19/L19e conserved site / Ribosomal protein L44 / Ribosomal protein L19e signature. / Ribosomal protein S4e signature. / Ribosomal protein L34e, conserved site / Ribosomal protein L34e signature. / Ribosomal protein S19A/S15e / Ribosomal protein S8e, conserved site / Ribosomal protein S8e signature. / 50S ribosomal protein L18Ae/60S ribosomal protein L20 and L18a / Ribosomal protein 50S-L18Ae/60S-L20/60S-L18A / Ribosomal proteins 50S-L18Ae/60S-L20/60S-L18A / Ribosomal_L40e / Ribosomal protein L40e / Ribosomal protein L40e superfamily / Ribosomal protein S17e / Ribosomal protein S17e-like superfamily / Ribosomal S17 / Ribosomal protein L30e signature 2. / Ribosomal protein L30e, conserved site / Ribosomal protein S4e, N-terminal / RS4NT (NUC023) domain / Ribosomal protein 60S L18 and 50S L18e / Ribosomal S24e conserved site / Ribosomal protein S24e signature. / Ribosomal protein L39e, conserved site / Ribosomal protein L39e signature. / Ribosomal protein L34Ae / Ribosomal protein L34e / Ribosomal protein L18/L18-A/B/e, conserved site / Ribosomal protein L18e signature. / 60S ribosomal protein L19 / Ribosomal protein S4, KOW domain / Ribosomal protein S4e / Ribosomal protein S4e, central region 類似検索 - ドメイン・相同性
: / RNA / RNA (> 10) / RNA (> 100) / RNA (> 1000) / Small ribosomal subunit protein eS17 / Large ribosomal subunit protein uL23 / Large ribosomal subunit protein uL2 / Small ribosomal subunit protein uS19 / Large ribosomal subunit protein uL22 ...: / RNA / RNA (> 10) / RNA (> 100) / RNA (> 1000) / Small ribosomal subunit protein eS17 / Large ribosomal subunit protein uL23 / Large ribosomal subunit protein uL2 / Small ribosomal subunit protein uS19 / Large ribosomal subunit protein uL22 / Small ribosomal subunit protein uS3 / Large ribosomal subunit protein uL29 / Small ribosomal subunit protein uS17 / Large ribosomal subunit protein uL4 / Large ribosomal subunit protein uL16 / Large ribosomal subunit protein uL3 / Small ribosomal subunit protein eS6 / Large ribosomal subunit protein eL43 / Small ribosomal subunit protein uS7 / Small ribosomal subunit protein uS12 / Large ribosomal subunit protein eL30 / Small ribosomal subunit protein eS27 / Large ribosomal subunit protein eL42 / LSU ribosomal protein L41E / Predicted zinc-ribbon RNA-binding protein involved in translation / Small ribosomal subunit protein uS10 / Small ribosomal subunit protein eS8 / Small ribosomal subunit protein uS15 / Small ribosomal subunit protein eS1 / Small ribosomal subunit protein eS19 / Large ribosomal subunit protein eL8 / Small ribosomal subunit protein eS28 / Large ribosomal subunit protein eL24 / Large ribosomal subunit protein eL20 / Large ribosomal subunit protein eL31 / Large ribosomal subunit protein eL39 / Large ribosomal subunit protein eL15 / Large ribosomal subunit protein eL21 / Large ribosomal subunit protein eL37 / Small ribosomal subunit protein eS24 / Small ribosomal subunit protein uS2 / Large ribosomal subunit protein eL40 / Small ribosomal subunit protein uS9 / Large ribosomal subunit protein eL14 / Small ribosomal subunit protein uS13 / Small ribosomal subunit protein uS4 / Small ribosomal subunit protein uS11 / Large ribosomal subunit protein eL18 / Large ribosomal subunit protein uL13 / Large ribosomal subunit protein eL34 / Large ribosomal subunit protein uL14 / Large ribosomal subunit protein uL24 / Small ribosomal subunit protein eS4 / Large ribosomal subunit protein uL5 / Small ribosomal subunit protein uS14 / Small ribosomal subunit protein uS8 / Large ribosomal subunit protein uL6 / Large ribosomal subunit protein eL32 / Large ribosomal subunit protein eL19 / Large ribosomal subunit protein uL18 / Small ribosomal subunit protein uS5 / Large ribosomal subunit protein uL30 / Large ribosomal subunit protein uL15 類似検索 - 構成要素
ジャーナル: Nature / 年: 2020 タイトル: Dynamic RNA acetylation revealed by quantitative cross-evolutionary mapping. 著者: Aldema Sas-Chen / Justin M Thomas / Donna Matzov / Masato Taoka / Kellie D Nance / Ronit Nir / Keri M Bryson / Ran Shachar / Geraldy L S Liman / Brett W Burkhart / Supuni Thalalla Gamage / ...著者: Aldema Sas-Chen / Justin M Thomas / Donna Matzov / Masato Taoka / Kellie D Nance / Ronit Nir / Keri M Bryson / Ran Shachar / Geraldy L S Liman / Brett W Burkhart / Supuni Thalalla Gamage / Yuko Nobe / Chloe A Briney / Michaella J Levy / Ryan T Fuchs / G Brett Robb / Jesse Hartmann / Sunny Sharma / Qishan Lin / Laurence Florens / Michael P Washburn / Toshiaki Isobe / Thomas J Santangelo / Moran Shalev-Benami / Jordan L Meier / Schraga Schwartz / 要旨: N-acetylcytidine (acC) is an ancient and highly conserved RNA modification that is present on tRNA and rRNA and has recently been investigated in eukaryotic mRNA. However, the distribution, dynamics ...N-acetylcytidine (acC) is an ancient and highly conserved RNA modification that is present on tRNA and rRNA and has recently been investigated in eukaryotic mRNA. However, the distribution, dynamics and functions of cytidine acetylation have yet to be fully elucidated. Here we report acC-seq, a chemical genomic method for the transcriptome-wide quantitative mapping of acC at single-nucleotide resolution. In human and yeast mRNAs, acC sites are not detected but can be induced-at a conserved sequence motif-via the ectopic overexpression of eukaryotic acetyltransferase complexes. By contrast, cross-evolutionary profiling revealed unprecedented levels of acC across hundreds of residues in rRNA, tRNA, non-coding RNA and mRNA from hyperthermophilic archaea. AcC is markedly induced in response to increases in temperature, and acetyltransferase-deficient archaeal strains exhibit temperature-dependent growth defects. Visualization of wild-type and acetyltransferase-deficient archaeal ribosomes by cryo-electron microscopy provided structural insights into the temperature-dependent distribution of acC and its potential thermoadaptive role. Our studies quantitatively define the acC landscape, providing a technical and conceptual foundation for elucidating the role of this modification in biology and disease.
#241 - 2020年1月 20年の分子を振り返って (Twenty Years of Molecules) 類似性 (1)
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集合体
登録構造単位
Aa: 16S rRNA Ab: 30S ribosomal protein S2 Ac: 30S ribosomal protein S3 Ad: 30S ribosomal protein S3Ae Ae: 30S ribosomal protein S4 Af: 30S ribosomal protein S4e Ag: 30S ribosomal protein S5 Ah: 30S ribosomal protein S6e Ai: 30S ribosomal protein S7 Aj: 30S ribosomal protein S8 Ak: 30S ribosomal protein S8e Al: 30S ribosomal protein S9 Am: 30S ribosomal protein S10 An: 30S ribosomal protein S11 Ao: 30S ribosomal protein S12 Ap: 30S ribosomal protein S13 Aq: 30S ribosomal protein S15 Ar: 30S ribosomal protein S14 type Z As: 30S ribosomal protein S17 At: 30S ribosomal protein S17e Au: 30S ribosomal protein S19 Av: 30S ribosomal protein S19e Aw: 30S ribosomal protein S24e Ax: 30S ribosomal protein S27e Ay: 30S ribosomal protein S28e Az: Predicted zinc-ribbon RNA-binding protein involved in translation BA: 23S rRNA BB: 5S rRNA BC: 50S ribosomal protein L2 BD: 50S ribosomal protein L3 BE: 50S ribosomal protein L4 BF: 50S ribosomal protein L5 BG: 50S ribosomal protein L6 BH: 50S ribosomal protein L7Ae BI: 50S ribosomal protein L7Ae BJ: 50S ribosomal protein L10e BK: 50S ribosomal protein L13 BL: 50S ribosomal protein L14 BM: 50S ribosomal protein L14e BN: 50S ribosomal protein L14e BO: 50S ribosomal protein L15 BP: 50S ribosomal protein L15e BQ: 50S ribosomal protein L18 BR: 50S ribosomal protein L18e BS: 50S ribosomal protein L19e BT: 50S ribosomal protein L18Ae BU: 50S ribosomal protein L21e BV: 50S ribosomal protein L22 BW: 50S ribosomal protein L23 BX: 50S ribosomal protein L24 BY: 50S ribosomal protein L24e BZ: 50S ribosomal protein L29 Ba: 50S ribosomal protein L30 Bb: 50S ribosomal protein L30e Bc: 50S ribosomal protein L31e Bd: 50S ribosomal protein L32e Be: 50S ribosomal protein L34e Bg: 50S ribosomal protein L37Ae Bh: 50S ribosomal protein L37e Bi: 50S ribosomal protein L39e Bj: 50S ribosomal protein L40e Bk: LSU ribosomal protein L41E Bl: 50S ribosomal protein L44e ヘテロ分子