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- PDB-6zsd: Human mitochondrial ribosome in complex with mRNA, P-site tRNA an... -

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Entry
Database: PDB / ID: 6zsd
TitleHuman mitochondrial ribosome in complex with mRNA, P-site tRNA and E-site tRNA
Components
  • (28S ribosomal protein ...) x 26
  • (39S ribosomal protein ...) x 46
  • 12SrRNA
  • 16S rRNA
  • Aurora kinase A-interacting protein
  • Coiled-coil-helix-coiled-coil-helix domain-containing protein 1
  • Growth arrest and DNA damage-inducible proteins-interacting protein 1
  • MRPS21 isoform 1
  • Mitochondrial ribosomal protein L18, isoform CRA_b
  • Pentatricopeptide repeat domain-containing protein 3, mitochondrial
  • Peptidyl-tRNA hydrolase ICT1, mitochondrial
  • Ribosomal protein 63, mitochondrialRibosome
  • cDNA FLJ76418, highly similar to Homo sapiens mitochondrial ribosomal protein L52 (MRPL52), transcript variant 1, mRNA
  • mt-tRNAVal
KeywordsTRANSLATION / Mitochondria / Ribosome / tRNA / mRNA
Function / homology
Function and homology information


mitochondrial ribosome assembly / mitochondrial ribosome binding / mitochondrial transcription / mitochondrial translational termination / translation release factor activity, codon nonspecific / mitochondrial translational elongation / positive regulation of mitochondrial translation / mitochondrial ribosome / mitochondrial small ribosomal subunit / aminoacyl-tRNA hydrolase ...mitochondrial ribosome assembly / mitochondrial ribosome binding / mitochondrial transcription / mitochondrial translational termination / translation release factor activity, codon nonspecific / mitochondrial translational elongation / positive regulation of mitochondrial translation / mitochondrial ribosome / mitochondrial small ribosomal subunit / aminoacyl-tRNA hydrolase / Hydrolases; Acting on ester bonds; Endoribonucleases producing 5'-phosphomonoesters / aminoacyl-tRNA hydrolase activity / ribonuclease III activity / mitochondrial translation / primary miRNA processing / negative regulation of mitotic nuclear division / production of siRNA involved in RNA interference / mitochondrial large ribosomal subunit / pre-miRNA processing / mitotic cell cycle arrest / positive regulation of proteolysis / ribosomal small subunit binding / RNA processing / anatomical structure morphogenesis / cellular response to leukemia inhibitory factor / apoptotic signaling pathway / small ribosomal subunit rRNA binding / ribosomal small subunit assembly / maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) / fibrillar center / DNA damage response, detection of DNA damage / mRNA 5'-UTR binding / large ribosomal subunit rRNA binding / mRNA processing / ribosome biogenesis / cell population proliferation / large ribosomal subunit / ribosomal large subunit assembly / double-stranded RNA binding / cytosolic small ribosomal subunit / cell junction / regulation of translation / ribonucleoprotein complex / small ribosomal subunit / mitochondrial inner membrane / negative regulation of translation / tRNA binding / rRNA binding / ribosome / nuclear body / hydrolase activity / nuclear membrane / structural constituent of ribosome / mitochondrial matrix / translation / cell cycle / mRNA binding / intracellular membrane-bounded organelle / protein domain specific binding / GTP binding / nucleotide binding / apoptotic process / nucleolus / viral process / positive regulation of transcription, DNA-templated / mitochondrion / RNA binding / nucleoplasm / plasma membrane / nucleus / cytosol / cytoplasm
Ribosomal protein L7/L12 dimerisation domain / Ribosomal protein L17 superfamily / Ribosomal protein S10 domain superfamily / Ribosomal protein S7 domain superfamily / Ribosomal protein L11/L12, N-terminal domain superfamily / Ribosomal protein L11, C-terminal domain superfamily / PEBP-like superfamily / Ribosomal protein L22/L17 superfamily / Ribonuclease III, endonuclease domain superfamily / Thioredoxin-like superfamily ...Ribosomal protein L7/L12 dimerisation domain / Ribosomal protein L17 superfamily / Ribosomal protein S10 domain superfamily / Ribosomal protein S7 domain superfamily / Ribosomal protein L11/L12, N-terminal domain superfamily / Ribosomal protein L11, C-terminal domain superfamily / PEBP-like superfamily / Ribosomal protein L22/L17 superfamily / Ribonuclease III, endonuclease domain superfamily / Thioredoxin-like superfamily / Ribosomal protein S18 superfamily / Ribosomal protein L7/L12, oligomerisation domain superfamily / Ribosomal L18e/L15P superfamily / L21-like superfamily / Ribosomal protein S6 superfamily / Ribosomal protein L36 superfamily / Phosphatidylethanolamine-binding protein, eukaryotic / Ribosomal protein L20, C-terminal / Ribosomal protein L14 superfamily / Ribosomal protein L13 superfamily / L28p-like / Ribosomal protein L19 superfamily / 28S ribosomal protein S25, mitochondrial / 39S ribosomal protein L46, mitochondrial / Ribosomal protein S30, mitochondrial / 39S ribosomal protein L43/54S ribosomal protein L51 / Ribosomal protein S24/S35, mitochondrial / 28S ribosomal protein S17, mitochondrial / 39S ribosomal protein L40, mitochondrial / Ribosomal protein L33 superfamily / Ribosomal protein L30, ferredoxin-like fold domain superfamily / Ribosomal protein S21 superfamily / MRP-L47 superfamily, mitochondrial / Pentatricopeptide repeat domain-containing protein 3 / Ribosomal protein L35 superfamily / Ribosomal protein L28/L24 superfamily / Ribosomal protein S11 superfamily / Ribosomal protein L9, N-terminal domain superfamily / Ribosomal protein L10e/L16 superfamily / MRPS27/PTCD2 / 39S ribosomal protein L52, mitochondrial / 28S ribosomal protein S10, mitochondrial / Ribosomal protein L3, conserved site / Ribosomal protein L18e/L15P / Ribosomal protein L11, N-terminal / Ribosomal protein L11, C-terminal / Ribosomal protein S9, conserved site / Ribosomal protein S5 domain 2-type fold / Ribosomal protein L9, N-terminal / Ribosomal protein L3, bacterial/organelle-type / Ribosomal protein L53, mitochondrial / Ribosomal protein L46, N-terminal / Ribosomal protein S23, mitochondrial / Ribosomal protein S28, mitochondrial / Ribosomal protein S22, mitochondrial / Ribosomal protein L51, mitochondrial / Ribosomal protein S23/S29, mitochondrial / Ribosomal protein S24/S35, mitochondrial, conserved domain / 39S ribosomal protein L42, mitochondrial / Ribosomal protein L35, mitochondrial / Ribosomal protein L35 / Ribosomal Proteins L2, RNA binding domain / Mitochondrial ribosomal protein L46 NUDIX / Ribosomal protein L28/L24 / NTF2-like domain superfamily / Mitochondrial 28S ribosomal protein S34 / Ribosomal protein L15 / Ribosomal protein L21-like / Mitochondrial ribosomal protein L48 / Ribosomal protein S10 domain / P-loop containing nucleoside triphosphate hydrolase / Mitochondrial 28S ribosomal protein S31 / Ribosomal protein L2, C-terminal / 28S ribosomal protein S24, mitochondrial / 28S ribosomal protein S26 / Ribosomal protein S16 domain superfamily / Ribosomal protein S7 domain / Ribosomal protein S23/S25, mitochondrial / Ribosomal protein S2, flavodoxin-like domain superfamily / Ribosomal protein L4 domain superfamily / Ribosomal protein L13, conserved site / 28S ribosomal protein S18b, mitochondrial / Ribosomal protein L26/L24, KOW domain / Ribosomal protein L28/L40, mitochondrial / Ribosomal protein L14p/L23e / Ribosomal prokaryotic L21 protein / Ribosomal protein L20 / Ribosomal protein L19 / Ribosomal L18 of archaea, bacteria, mitoch. and chloroplast / Ribosomal protein L17 / Ribosomal protein L16p/L10e / Ribosomal proteins 50S-L15, 50S-L18e, 60S-L27A / Ribosomal protein L13 / Ribosomal protein L23 / Ribosomal protein L11, N-terminal domain / Ribosomal protein L11, RNA binding domain / Ribosomal protein L10 / Ribosomal protein L9, N-terminal domain / Ribosomal protein L4/L1 family / Ribosomal protein L3
39S ribosomal protein L52, mitochondrial / 39S ribosomal protein L3, mitochondrial / 28S ribosomal protein S12, mitochondrial / 39S ribosomal protein L33, mitochondrial / 28S ribosomal protein S14, mitochondrial / Mitochondrial ribosomal protein L18, isoform CRA_b / 39S ribosomal protein L22, mitochondrial / MRPS21 isoform 1 / 28S ribosomal protein S15, mitochondrial / 39S ribosomal protein L19, mitochondrial ...39S ribosomal protein L52, mitochondrial / 39S ribosomal protein L3, mitochondrial / 28S ribosomal protein S12, mitochondrial / 39S ribosomal protein L33, mitochondrial / 28S ribosomal protein S14, mitochondrial / Mitochondrial ribosomal protein L18, isoform CRA_b / 39S ribosomal protein L22, mitochondrial / MRPS21 isoform 1 / 28S ribosomal protein S15, mitochondrial / 39S ribosomal protein L19, mitochondrial / 28S ribosomal protein S34, mitochondrial / 39S ribosomal protein L53, mitochondrial / 28S ribosomal protein S27, mitochondrial / 28S ribosomal protein S31, mitochondrial / 39S ribosomal protein L24, mitochondrial / Coiled-coil-helix-coiled-coil-helix domain-containing protein 1 / 39S ribosomal protein L38, mitochondrial / 28S ribosomal protein S24, mitochondrial / Pentatricopeptide repeat domain-containing protein 3, mitochondrial / Growth arrest and DNA damage-inducible proteins-interacting protein 1 / 39S ribosomal protein L48, mitochondrial / 39S ribosomal protein L34, mitochondrial / Ribosomal protein 63, mitochondrial / 39S ribosomal protein L45, mitochondrial / 39S ribosomal protein L32, mitochondrial / 39S ribosomal protein L20, mitochondrial / 28S ribosomal protein S11, mitochondrial / 39S ribosomal protein L43, mitochondrial / 39S ribosomal protein L9, mitochondrial / 39S ribosomal protein L51, mitochondrial / 28S ribosomal protein S6, mitochondrial / 28S ribosomal protein S9, mitochondrial / 39S ribosomal protein L28, mitochondrial / 39S ribosomal protein L49, mitochondrial / Peptidyl-tRNA hydrolase ICT1, mitochondrial / 39S ribosomal protein L23, mitochondrial / 39S ribosomal protein L2, mitochondrial / 39S ribosomal protein L50, mitochondrial / 39S ribosomal protein L54, mitochondrial / 39S ribosomal protein L14, mitochondrial / 39S ribosomal protein L21, mitochondrial / 39S ribosomal protein L55, mitochondrial / 39S ribosomal protein L10, mitochondrial / 39S ribosomal protein L41, mitochondrial / 39S ribosomal protein L13, mitochondrial / 39S ribosomal protein L4, mitochondrial / 28S ribosomal protein S29, mitochondrial / 28S ribosomal protein S18b, mitochondrial / 28S ribosomal protein S7, mitochondrial / 28S ribosomal protein S2, mitochondrial / 39S ribosomal protein L11, mitochondrial / 28S ribosomal protein S16, mitochondrial / 28S ribosomal protein S18c, mitochondrial / 28S ribosomal protein S23, mitochondrial / 39S ribosomal protein L42, mitochondrial / 28S ribosomal protein S28, mitochondrial / 28S ribosomal protein S5, mitochondrial / 28S ribosomal protein S35, mitochondrial / 28S ribosomal protein S10, mitochondrial / 28S ribosomal protein S25, mitochondrial / 28S ribosomal protein S22, mitochondrial / 39S ribosomal protein L12, mitochondrial / 28S ribosomal protein S17, mitochondrial / 28S ribosomal protein S33, mitochondrial / 28S ribosomal protein S26, mitochondrial / 39S ribosomal protein L17, mitochondrial / 39S ribosomal protein L37, mitochondrial / 39S ribosomal protein L46, mitochondrial / 39S ribosomal protein L44, mitochondrial / 39S ribosomal protein L47, mitochondrial / 39S ribosomal protein S30, mitochondrial / 39S ribosomal protein L40, mitochondrial / 39S ribosomal protein S18a, mitochondrial / 39S ribosomal protein L27, mitochondrial / Aurora kinase A-interacting protein / 39S ribosomal protein L16, mitochondrial / 39S ribosomal protein L39, mitochondrial / 39S ribosomal protein L35, mitochondrial / 39S ribosomal protein L15, mitochondrial / 39S ribosomal protein L36, mitochondrial / 39S ribosomal protein L30, mitochondrial
Biological speciesHomo sapiens (human)
Pongo abelii (Sumatran orangutan)
MethodELECTRON MICROSCOPY / single particle reconstruction / cryo EM / Resolution: 3.7 Å
AuthorsAibara, S. / Singh, V. / Modelska, A. / Amunts, A.
Funding support4items
OrganizationGrant numberCountry
Swedish Research Council
European Research Council (ERC)
Knut and Alice Wallenberg Foundation
European Molecular Biology Organization (EMBO)
CitationJournal: Elife / Year: 2020
Title: Structural basis of mitochondrial translation.
Authors: Shintaro Aibara / Vivek Singh / Angelika Modelska / Alexey Amunts /
Abstract: Translation of mitochondrial messenger RNA (mt-mRNA) is performed by distinct mitoribosomes comprising at least 36 mitochondria-specific proteins. How these mitoribosomal proteins assist in the ...Translation of mitochondrial messenger RNA (mt-mRNA) is performed by distinct mitoribosomes comprising at least 36 mitochondria-specific proteins. How these mitoribosomal proteins assist in the binding of mt-mRNA and to what extent they are involved in the translocation of transfer RNA (mt-tRNA) is unclear. To visualize the process of translation in human mitochondria, we report ~3.0 Å resolution structure of the human mitoribosome, including the L7/L12 stalk, and eight structures of its functional complexes with mt-mRNA, mt-tRNAs, recycling factor and additional trans factors. The study reveals a transacting protein module LRPPRC-SLIRP that delivers mt-mRNA to the mitoribosomal small subunit through a dedicated platform formed by the mitochondria-specific protein mS39. Mitoribosomal proteins of the large subunit mL40, mL48, and mL64 coordinate translocation of mt-tRNA. The comparison between those structures shows dynamic interactions between the mitoribosome and its ligands, suggesting a sequential mechanism of conformational changes.
Validation Report
SummaryFull reportAbout validation report
History
DepositionJul 15, 2020Deposition site: PDBE / Processing site: PDBE
Revision 1.0Sep 16, 2020Provider: repository / Type: Initial release

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Assembly

Deposited unit
0: 39S ribosomal protein L32, mitochondrial
1: 39S ribosomal protein L33, mitochondrial
2: 39S ribosomal protein L34, mitochondrial
3: 39S ribosomal protein L35, mitochondrial
4: 39S ribosomal protein L36, mitochondrial
5: 39S ribosomal protein L37, mitochondrial
6: 39S ribosomal protein L38, mitochondrial
7: 39S ribosomal protein L39, mitochondrial
8: 39S ribosomal protein L40, mitochondrial
9: 39S ribosomal protein L41, mitochondrial
XA: 16S rRNA
A0: 28S ribosomal protein S34, mitochondrial
A1: 28S ribosomal protein S35, mitochondrial
A2: Coiled-coil-helix-coiled-coil-helix domain-containing protein 1
A3: Aurora kinase A-interacting protein
A4: Pentatricopeptide repeat domain-containing protein 3, mitochondrial
AA: 12SrRNA
AB: 28S ribosomal protein S2, mitochondrial
AC: 28S ribosomal protein S24, mitochondrial
AD: 28S ribosomal protein S5, mitochondrial
AE: 28S ribosomal protein S6, mitochondrial
AF: 28S ribosomal protein S7, mitochondrial
AG: 28S ribosomal protein S9, mitochondrial
AH: 28S ribosomal protein S10, mitochondrial
AI: 28S ribosomal protein S11, mitochondrial
AJ: 28S ribosomal protein S12, mitochondrial
AK: 28S ribosomal protein S14, mitochondrial
AL: 28S ribosomal protein S15, mitochondrial
AM: 28S ribosomal protein S16, mitochondrial
AN: 28S ribosomal protein S17, mitochondrial
AO: 28S ribosomal protein S18b, mitochondrial
AP: 28S ribosomal protein S18c, mitochondrial
AQ: MRPS21 isoform 1
AR: 28S ribosomal protein S22, mitochondrial
AS: 28S ribosomal protein S23, mitochondrial
AT: 28S ribosomal protein S25, mitochondrial
AU: 28S ribosomal protein S26, mitochondrial
AV: 28S ribosomal protein S27, mitochondrial
AW: 28S ribosomal protein S28, mitochondrial
AX: 28S ribosomal protein S29, mitochondrial
AY: 28S ribosomal protein S31, mitochondrial
AZ: 28S ribosomal protein S33, mitochondrial
XB: mt-tRNAVal
XD: 39S ribosomal protein L2, mitochondrial
XE: 39S ribosomal protein L3, mitochondrial
XF: 39S ribosomal protein L4, mitochondrial
XH: 39S ribosomal protein L9, mitochondrial
XI: 39S ribosomal protein L10, mitochondrial
XJ: 39S ribosomal protein L11, mitochondrial
XK: 39S ribosomal protein L13, mitochondrial
XL: 39S ribosomal protein L14, mitochondrial
XM: 39S ribosomal protein L15, mitochondrial
XN: 39S ribosomal protein L16, mitochondrial
XO: 39S ribosomal protein L17, mitochondrial
XP: Mitochondrial ribosomal protein L18, isoform CRA_b
XQ: 39S ribosomal protein L19, mitochondrial
XR: 39S ribosomal protein L20, mitochondrial
XS: 39S ribosomal protein L21, mitochondrial
XT: 39S ribosomal protein L22, mitochondrial
XU: 39S ribosomal protein L23, mitochondrial
XV: 39S ribosomal protein L24, mitochondrial
XW: 39S ribosomal protein L27, mitochondrial
XX: 39S ribosomal protein L28, mitochondrial
XY: 39S ribosomal protein L47, mitochondrial
XZ: 39S ribosomal protein L30, mitochondrial
a: 39S ribosomal protein L42, mitochondrial
b: 39S ribosomal protein L43, mitochondrial
c: 39S ribosomal protein L44, mitochondrial
d: 39S ribosomal protein L45, mitochondrial
e: 39S ribosomal protein L46, mitochondrial
f: 39S ribosomal protein L48, mitochondrial
g: 39S ribosomal protein L49, mitochondrial
h: 39S ribosomal protein L50, mitochondrial
i: 39S ribosomal protein L51, mitochondrial
j: cDNA FLJ76418, highly similar to Homo sapiens mitochondrial ribosomal protein L52 (MRPL52), transcript variant 1, mRNA
k: 39S ribosomal protein L53, mitochondrial
l: 39S ribosomal protein L54, mitochondrial
m: 39S ribosomal protein L55, mitochondrial
o: Ribosomal protein 63, mitochondrial
p: Peptidyl-tRNA hydrolase ICT1, mitochondrial
q: Growth arrest and DNA damage-inducible proteins-interacting protein 1
r: 39S ribosomal protein S18a, mitochondrial
s: 39S ribosomal protein S30, mitochondrial
t1: 39S ribosomal protein L12, mitochondrial
t2: 39S ribosomal protein L12, mitochondrial
t3: 39S ribosomal protein L12, mitochondrial
t4: 39S ribosomal protein L12, mitochondrial
t5: 39S ribosomal protein L12, mitochondrial
t6: 39S ribosomal protein L12, mitochondrial
hetero molecules


Theoretical massNumber of molelcules
Total (without water)3,048,956457
Polymers2,990,71889
Non-polymers58,239368
Water0
1


  • Idetical with deposited unit
  • defined by author
TypeNameSymmetry operationNumber
identity operation1_5551

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Components

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39S ribosomal protein ... , 46 types, 51 molecules 0123456789XDXEXFXHXIXJXKXLXMXNXOXQXRXSXTXUXVXWXXXY...

#1: Protein 39S ribosomal protein L32, mitochondrial / Ribosome / MRP-L32 / Mitochondrial large ribosomal subunit protein bL32m


Mass: 21437.799 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q9BYC8
#2: Protein 39S ribosomal protein L33, mitochondrial / Ribosome / MRP-L33 / Mitochondrial large ribosomal subunit protein bL33m


Mass: 7635.204 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: O75394
#3: Protein 39S ribosomal protein L34, mitochondrial / Ribosome / MRP-L34 / Mitochondrial large ribosomal subunit protein bL34m


Mass: 10183.913 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q9BQ48
#4: Protein 39S ribosomal protein L35, mitochondrial / Ribosome / MRP-L35 / Mitochondrial large ribosomal subunit protein bL35m


Mass: 21558.488 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q9NZE8
#5: Protein 39S ribosomal protein L36, mitochondrial / Ribosome / MRP-L36 / BRCA1-interacting protein 1 / Mitochondrial large ribosomal subunit protein bL36m


Mass: 11809.301 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q9P0J6
#6: Protein 39S ribosomal protein L37, mitochondrial / Ribosome / MRP-L37 / 39S ribosomal protein L2 / mitochondrial / MRP-L2 / Mitochondrial large ribosomal subunit ...MRP-L37 / 39S ribosomal protein L2 / mitochondrial / MRP-L2 / Mitochondrial large ribosomal subunit protein mL37


Mass: 48183.344 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q9BZE1
#7: Protein 39S ribosomal protein L38, mitochondrial / Ribosome / MRP-L38 / Mitochondrial large ribosomal subunit protein mL38


Mass: 44659.430 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q96DV4
#8: Protein 39S ribosomal protein L39, mitochondrial / Ribosome / MRP-L39 / 39S ribosomal protein L5 / mitochondrial / MRP-L5 / Mitochondrial large ribosomal subunit ...MRP-L39 / 39S ribosomal protein L5 / mitochondrial / MRP-L5 / Mitochondrial large ribosomal subunit protein mL39


Mass: 38764.785 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q9NYK5
#9: Protein 39S ribosomal protein L40, mitochondrial / Ribosome / MRP-L40 / Mitochondrial large ribosomal subunit protein mL40 / Nuclear localization signal- ...MRP-L40 / Mitochondrial large ribosomal subunit protein mL40 / Nuclear localization signal-containing protein deleted in velocardiofacial syndrome / Up-regulated in metastasis


Mass: 24534.422 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q9NQ50
#10: Protein 39S ribosomal protein L41, mitochondrial / Ribosome / MRP-L41 / 39S ribosomal protein L27 homolog / Bcl-2-interacting mitochondrial ribosomal protein L41 ...MRP-L41 / 39S ribosomal protein L27 homolog / Bcl-2-interacting mitochondrial ribosomal protein L41 / Cell proliferation-inducing gene 3 protein / MRP-L27 homolog / Mitochondrial large ribosomal subunit protein mL41


Mass: 15404.708 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q8IXM3
#44: Protein 39S ribosomal protein L2, mitochondrial / Ribosome / MRP-L2 / Mitochondrial large ribosomal subunit protein uL2m


Mass: 33355.941 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q5T653
#45: Protein 39S ribosomal protein L3, mitochondrial / Ribosome / MRP-L3 / Mitochondrial large ribosomal subunit protein uL3m


Mass: 38689.562 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: P09001
#46: Protein 39S ribosomal protein L4, mitochondrial / Ribosome / MRP-L4 / Mitochondrial large ribosomal subunit protein uL4m


Mass: 34970.195 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q9BYD3
#47: Protein 39S ribosomal protein L9, mitochondrial / Ribosome / MRP-L9 / Mitochondrial large ribosomal subunit protein bL9m


Mass: 30296.355 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q9BYD2
#48: Protein 39S ribosomal protein L10, mitochondrial / Ribosome / MRP-L10 / 39S ribosomal protein L8 / mitochondrial / MRP-L8 / Mitochondrial large ribosomal subunit ...MRP-L10 / 39S ribosomal protein L8 / mitochondrial / MRP-L8 / Mitochondrial large ribosomal subunit protein uL10m


Mass: 29322.529 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q7Z7H8
#49: Protein 39S ribosomal protein L11, mitochondrial / Ribosome / MRP-L11 / Mitochondrial large ribosomal subunit protein uL11m


Mass: 20716.227 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q9Y3B7
#50: Protein 39S ribosomal protein L13, mitochondrial / Ribosome / MRP-L13 / Mitochondrial large ribosomal subunit protein uL13m


Mass: 20722.988 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q9BYD1
#51: Protein 39S ribosomal protein L14, mitochondrial / Ribosome / MRP-L14 / 39S ribosomal protein L32 / mitochondrial / MRP-L32 / Mitochondrial large ribosomal ...MRP-L14 / 39S ribosomal protein L32 / mitochondrial / MRP-L32 / Mitochondrial large ribosomal subunit protein uL14m


Mass: 15973.702 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q6P1L8
#52: Protein 39S ribosomal protein L15, mitochondrial / Ribosome / MRP-L15 / Mitochondrial large ribosomal subunit protein uL15m


Mass: 33473.820 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q9P015
#53: Protein 39S ribosomal protein L16, mitochondrial / Ribosome / MRP-L16 / Mitochondrial large ribosomal subunit protein uL16m


Mass: 28496.285 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q9NX20
#54: Protein 39S ribosomal protein L17, mitochondrial / Ribosome / MRP-L17 / LYST-interacting protein 2 / Mitochondrial large ribosomal subunit protein bL17m


Mass: 20083.266 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q9NRX2
#56: Protein 39S ribosomal protein L19, mitochondrial / Ribosome / MRP-L19 / 39S ribosomal protein L15 / mitochondrial / MRP-L15 / Mitochondrial large ribosomal ...MRP-L19 / 39S ribosomal protein L15 / mitochondrial / MRP-L15 / Mitochondrial large ribosomal subunit protein bL19m


Mass: 33584.996 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: P49406
#57: Protein 39S ribosomal protein L20, mitochondrial / Ribosome / MRP-L20 / Mitochondrial large ribosomal subunit protein bL20m


Mass: 17479.654 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q9BYC9
#58: Protein 39S ribosomal protein L21, mitochondrial / Ribosome / MRP-L21 / Mitochondrial large ribosomal subunit protein bL21m


Mass: 22847.682 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q7Z2W9
#59: Protein 39S ribosomal protein L22, mitochondrial / Ribosome


Mass: 24369.527 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: E7ESL0
#60: Protein 39S ribosomal protein L23, mitochondrial / Ribosome / MRP-L23 / L23 mitochondrial-related protein / Mitochondrial large ribosomal subunit protein uL23m / ...MRP-L23 / L23 mitochondrial-related protein / Mitochondrial large ribosomal subunit protein uL23m / Ribosomal protein L23-like


Mass: 17807.189 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q16540
#61: Protein 39S ribosomal protein L24, mitochondrial / Ribosome / MRP-L24 / Mitochondrial large ribosomal subunit protein uL24m


Mass: 24953.875 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q96A35
#62: Protein 39S ribosomal protein L27, mitochondrial / Ribosome / MRP-L27 / Mitochondrial large ribosomal subunit protein bL27m


Mass: 16102.859 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q9P0M9
#63: Protein 39S ribosomal protein L28, mitochondrial / Ribosome / MRP-L28 / Melanoma antigen p15 / Melanoma-associated antigen recognized by T-lymphocytes / ...MRP-L28 / Melanoma antigen p15 / Melanoma-associated antigen recognized by T-lymphocytes / Mitochondrial large ribosomal subunit protein bL28m


Mass: 30202.867 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q13084
#64: Protein 39S ribosomal protein L47, mitochondrial / Ribosome / MRP-L47 / Mitochondrial large ribosomal subunit protein uL29m / Nasopharyngeal carcinoma metastasis- ...MRP-L47 / Mitochondrial large ribosomal subunit protein uL29m / Nasopharyngeal carcinoma metastasis-related protein 1


Mass: 29508.535 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q9HD33
#65: Protein 39S ribosomal protein L30, mitochondrial / Ribosome / MRP-L30 / 39S ribosomal protein L28 / mitochondrial / MRP-L28 / Mitochondrial large ribosomal ...MRP-L30 / 39S ribosomal protein L28 / mitochondrial / MRP-L28 / Mitochondrial large ribosomal subunit protein uL30m


Mass: 18582.812 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q8TCC3
#66: Protein 39S ribosomal protein L42, mitochondrial / Ribosome / MRP-L42 / 39S ribosomal protein L31 / mitochondrial / MRP-L31 / Mitochondrial large ribosomal ...MRP-L42 / 39S ribosomal protein L31 / mitochondrial / MRP-L31 / Mitochondrial large ribosomal subunit protein mL42


Mass: 16691.176 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q9Y6G3
#67: Protein 39S ribosomal protein L43, mitochondrial / Ribosome / MRP-L43 / Mitochondrial large ribosomal subunit protein mL43 / Mitochondrial ribosomal protein bMRP36a


Mass: 23457.789 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q8N983
#68: Protein 39S ribosomal protein L44, mitochondrial / Ribosome / MRP-L44 / Mitochondrial large ribosomal subunit protein mL44


Mass: 37583.312 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human)
References: UniProt: Q9H9J2, Hydrolases; Acting on ester bonds; Endoribonucleases producing 5'-phosphomonoesters
#69: Protein 39S ribosomal protein L45, mitochondrial / Ribosome / MRP-L45 / Mitochondrial large ribosomal subunit protein mL45


Mass: 29161.502 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q9BRJ2
#70: Protein 39S ribosomal protein L46, mitochondrial / Ribosome / MRP-L46 / Mitochondrial large ribosomal subunit protein mL46 / P2ECSL


Mass: 31748.107 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q9H2W6
#71: Protein 39S ribosomal protein L48, mitochondrial / Ribosome / MRP-L48 / Mitochondrial large ribosomal subunit protein mL48


Mass: 23970.814 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q96GC5
#72: Protein 39S ribosomal protein L49, mitochondrial / Ribosome / MRP-L49 / Mitochondrial large ribosomal subunit protein mL49 / Neighbor of FAU / NOF / Protein NOF1


Mass: 19225.043 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q13405
#73: Protein 39S ribosomal protein L50, mitochondrial / Ribosome / MRP-L50 / Mitochondrial large ribosomal subunit protein mL50


Mass: 18349.943 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q8N5N7
#74: Protein 39S ribosomal protein L51, mitochondrial / Ribosome / MRP-L51 / Mitochondrial large ribosomal subunit protein mL51 / bMRP-64 / bMRP64


Mass: 15125.917 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q4U2R6
#76: Protein 39S ribosomal protein L53, mitochondrial / Ribosome / MRP-L53 / Mitochondrial large ribosomal subunit protein mL53


Mass: 12125.859 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q96EL3
#77: Protein 39S ribosomal protein L54, mitochondrial / Ribosome / MRP-L54 / Mitochondrial large ribosomal subunit protein mL54


Mass: 15844.178 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q6P161
#78: Protein 39S ribosomal protein L55, mitochondrial / Ribosome / MRP-L55 / Mitochondrial large ribosomal subunit protein bL31m / Mitochondrial large ribosomal ...MRP-L55 / Mitochondrial large ribosomal subunit protein bL31m / Mitochondrial large ribosomal subunit protein mL55


Mass: 15160.433 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q7Z7F7
#82: Protein 39S ribosomal protein S18a, mitochondrial / Ribosome / S18mt-a / 39S ribosomal protein S18-3 / mitochondrial / MRP-S18-3 / Mitochondrial large ribosomal ...S18mt-a / 39S ribosomal protein S18-3 / mitochondrial / MRP-S18-3 / Mitochondrial large ribosomal subunit protein bS18a / Mitochondrial large ribosomal subunit protein mL66


Mass: 22224.078 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q9NVS2
#83: Protein 39S ribosomal protein S30, mitochondrial / Ribosome / S30mt / Mitochondrial large ribosomal subunit protein mL65 / Mitochondrial large ribosomal subunit ...S30mt / Mitochondrial large ribosomal subunit protein mL65 / Mitochondrial large ribosomal subunit protein mS30 / Programmed cell death protein 9


Mass: 50429.578 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q9NP92
#84: Protein
39S ribosomal protein L12, mitochondrial / Ribosome / MRP-L12 / 5c5-2 / Mitochondrial large ribosomal subunit protein bL12m


Mass: 21378.164 Da / Num. of mol.: 6 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: P52815

+
RNA chain , 3 types, 3 molecules XAAAXB

#11: RNA chain 16S rRNA


Mass: 500025.594 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human)
#17: RNA chain 12SrRNA


Mass: 305171.562 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human)
#43: RNA chain mt-tRNAVal


Mass: 23266.883 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human)

+
28S ribosomal protein ... , 26 types, 26 molecules A0A1ABACADAEAFAGAHAIAJAKALAMANAOAPARASATAUAVAWAXAYAZ

#12: Protein 28S ribosomal protein S34, mitochondrial / Ribosome / S34mt / Mitochondrial small ribosomal subunit protein mS34


Mass: 25695.549 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: P82930
#13: Protein 28S ribosomal protein S35, mitochondrial / Ribosome / S35mt / 28S ribosomal protein S28 / mitochondrial / S28mt / Mitochondrial small ribosomal subunit protein mS35


Mass: 36898.328 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: P82673
#18: Protein 28S ribosomal protein S2, mitochondrial / Ribosome / S2mt / Mitochondrial small ribosomal subunit protein uS2m


Mass: 33298.238 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q9Y399
#19: Protein 28S ribosomal protein S24, mitochondrial / Ribosome / S24mt / Mitochondrial small ribosomal subunit protein uS3m / bMRP-47 / bMRP47


Mass: 19046.164 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q96EL2
#20: Protein 28S ribosomal protein S5, mitochondrial / Ribosome / S5mt / Mitochondrial small ribosomal subunit protein uS5m


Mass: 48094.594 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: P82675
#21: Protein 28S ribosomal protein S6, mitochondrial / Ribosome / S6mt / Mitochondrial small ribosomal subunit protein bS6m


Mass: 14250.588 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: P82932
#22: Protein 28S ribosomal protein S7, mitochondrial / Ribosome / S7mt / Mitochondrial small ribosomal subunit protein uS7m / bMRP-27a / bMRP27a


Mass: 28186.154 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q9Y2R9
#23: Protein 28S ribosomal protein S9, mitochondrial / Ribosome / S9mt / Mitochondrial small ribosomal subunit protein uS9m


Mass: 45909.859 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: P82933
#24: Protein 28S ribosomal protein S10, mitochondrial / Ribosome / S10mt / Mitochondrial small ribosomal subunit protein uS10m


Mass: 23001.436 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: P82664
#25: Protein 28S ribosomal protein S11, mitochondrial / Ribosome / S11mt / Cervical cancer proto-oncogene 2 protein / HCC-2 / Mitochondrial small ribosomal subunit protein uS11m


Mass: 20648.793 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: P82912
#26: Protein 28S ribosomal protein S12, mitochondrial / Ribosome / S12mt / MT-RPS12 / Mitochondrial small ribosomal subunit protein uS12m


Mass: 15200.947 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: O15235
#27: Protein 28S ribosomal protein S14, mitochondrial / Ribosome / S14mt / Mitochondrial small ribosomal subunit protein uS14m


Mass: 15168.788 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: O60783
#28: Protein 28S ribosomal protein S15, mitochondrial / Ribosome / S15mt / Mitochondrial small ribosomal subunit protein uS15m


Mass: 29903.293 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: P82914
#29: Protein 28S ribosomal protein S16, mitochondrial / Ribosome / S16mt / Mitochondrial small ribosomal subunit protein bS16m


Mass: 15371.899 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q9Y3D3
#30: Protein 28S ribosomal protein S17, mitochondrial / Ribosome / S17mt / Mitochondrial small ribosomal subunit protein uS17m


Mass: 14526.078 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q9Y2R5
#31: Protein 28S ribosomal protein S18b, mitochondrial / Ribosome / S18mt-b / 28S ribosomal protein S18-2 / mitochondrial / MRP-S18-2 / Mitochondrial small ribosomal ...S18mt-b / 28S ribosomal protein S18-2 / mitochondrial / MRP-S18-2 / Mitochondrial small ribosomal subunit protein bS18b / Mitochondrial small ribosomal subunit protein mS40


Mass: 29440.629 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q9Y676
#32: Protein 28S ribosomal protein S18c, mitochondrial / Ribosome / S18mt-c / 28S ribosomal protein S18-1 / mitochondrial / MRP-S18-1 / Mitochondrial small ribosomal ...S18mt-c / 28S ribosomal protein S18-1 / mitochondrial / MRP-S18-1 / Mitochondrial small ribosomal subunit protein bS18c / Mitochondrial small ribosomal subunit protein bS18m


Mass: 15876.786 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q9Y3D5
#34: Protein 28S ribosomal protein S22, mitochondrial / Ribosome / S22mt / Mitochondrial small ribosomal subunit protein mS22


Mass: 41337.316 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: P82650
#35: Protein 28S ribosomal protein S23, mitochondrial / Ribosome / S23mt / Mitochondrial small ribosomal subunit protein mS23


Mass: 21805.664 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q9Y3D9
#36: Protein 28S ribosomal protein S25, mitochondrial / Ribosome / S25mt / Mitochondrial small ribosomal subunit protein mS25


Mass: 20146.428 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: P82663
#37: Protein 28S ribosomal protein S26, mitochondrial / Ribosome / S26mt / 28S ribosomal protein S13 / mitochondrial / S13mt / Mitochondrial small ribosomal subunit protein mS26


Mass: 24259.820 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q9BYN8
#38: Protein 28S ribosomal protein S27, mitochondrial / Ribosome / S27mt / Mitochondrial ribosomal protein S27 / Mitochondrial small ribosomal subunit protein mS27


Mass: 47669.262 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q92552
#39: Protein 28S ribosomal protein S28, mitochondrial / Ribosome / S28mt / 28S ribosomal protein S35 / mitochondrial / S35mt / Mitochondrial small ribosomal subunit protein bS1m


Mass: 20878.846 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q9Y2Q9
#40: Protein 28S ribosomal protein S29, mitochondrial / Ribosome / S29mt / Death-associated protein 3 / DAP-3 / Ionizing radiation resistance conferring protein / ...S29mt / Death-associated protein 3 / DAP-3 / Ionizing radiation resistance conferring protein / Mitochondrial small ribosomal subunit protein mS29


Mass: 39992.750 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: P51398
#41: Protein 28S ribosomal protein S31, mitochondrial / Ribosome / S31mt / Imogen 38 / Mitochondrial small ribosomal subunit protein mS31


Mass: 45391.473 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q92665
#42: Protein 28S ribosomal protein S33, mitochondrial / Ribosome / S33mt / Mitochondrial small ribosomal subunit protein mS33


Mass: 12657.776 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q9Y291

+
Protein , 9 types, 9 molecules A2A3A4AQXPjopq

#14: Protein Coiled-coil-helix-coiled-coil-helix domain-containing protein 1 / 28S ribosomal protein S37 / mitochondrial / MRP-S37 / Mitochondrial small ribosomal subunit protein ...28S ribosomal protein S37 / mitochondrial / MRP-S37 / Mitochondrial small ribosomal subunit protein mS37 / Nuclear protein C2360


Mass: 13498.819 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q96BP2
#15: Protein Aurora kinase A-interacting protein / AURKA-interacting protein / 28S ribosomal protein S38 / mitochondrial / MRP-S38 / Mitochondrial ...AURKA-interacting protein / 28S ribosomal protein S38 / mitochondrial / MRP-S38 / Mitochondrial small ribosomal subunit protein mS38


Mass: 22395.326 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q9NWT8
#16: Protein Pentatricopeptide repeat domain-containing protein 3, mitochondrial / 28S ribosomal protein S39 / mitochondrial / MRP-S39 / Mitochondrial small ribosomal subunit protein ...28S ribosomal protein S39 / mitochondrial / MRP-S39 / Mitochondrial small ribosomal subunit protein mS39 / Transformation-related gene 15 protein / TRG-15


Mass: 72759.742 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q96EY7
#33: Protein MRPS21 isoform 1 / MRPS21 isoform 2


Mass: 10633.456 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Pongo abelii (Sumatran orangutan) / References: UniProt: A0A2J8VEN6
#55: Protein Mitochondrial ribosomal protein L18, isoform CRA_b / cDNA FLJ76688 / highly similar to Homo sapiens HSPC071 mRNA


Mass: 20465.348 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: A8K9D2
#75: Protein cDNA FLJ76418, highly similar to Homo sapiens mitochondrial ribosomal protein L52 (MRPL52), transcript variant 1, mRNA


Mass: 13696.684 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: A8K7J6
#79: Protein Ribosomal protein 63, mitochondrial / Ribosome / hMRP63 / Mitochondrial large ribosomal subunit protein mL63 / Mitochondrial ribosomal protein 63 / ...hMRP63 / Mitochondrial large ribosomal subunit protein mL63 / Mitochondrial ribosomal protein 63 / Mitochondrial ribosomal protein L57


Mass: 12292.333 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q9BQC6
#80: Protein Peptidyl-tRNA hydrolase ICT1, mitochondrial / 39S ribosomal protein L58 / mitochondrial / MRP-L58 / Digestion substraction 1 / DS-1 / Immature ...39S ribosomal protein L58 / mitochondrial / MRP-L58 / Digestion substraction 1 / DS-1 / Immature colon carcinoma transcript 1 protein / Mitochondrial large ribosomal subunit protein mL62


Mass: 23674.203 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q14197, aminoacyl-tRNA hydrolase
#81: Protein Growth arrest and DNA damage-inducible proteins-interacting protein 1 / 39S ribosomal protein L59 / mitochondrial / MRP-L59 / CKII beta-associating protein / CR6- ...39S ribosomal protein L59 / mitochondrial / MRP-L59 / CKII beta-associating protein / CR6-interacting factor 1 / CRIF1 / Mitochondrial large ribosomal subunit protein mL64 / Papillomavirus L2-interacting nuclear protein 1 / PLINP-1 / p53-responsive gene 6 protein


Mass: 23101.174 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q8TAE8

+
Non-polymers , 7 types, 368 molecules

#85: Chemical
ChemComp-ZN / ZINC ION / Zinc


Mass: 65.409 Da / Num. of mol.: 7 / Source method: obtained synthetically / Formula: Zn
#86: Chemical...
ChemComp-P5P / PURINE RIBOSIDE-5'-MONOPHOSPHATE


Type: RNA linking / Mass: 332.207 Da / Num. of mol.: 75 / Source method: obtained synthetically / Formula: C10H13N4O7P
#87: Chemical...
ChemComp-Y5P / 1-(5-O-phosphono-beta-D-ribofuranosyl)-1,4-dihydropyrimidine / PYRIMIDINE RIBOSIDE-5'-MONOPHOSPHATE


Type: RNA linking / Mass: 294.198 Da / Num. of mol.: 88 / Source method: obtained synthetically / Formula: C9H15N2O7P
#88: Chemical...
ChemComp-MG / MAGNESIUM ION / Magnesium


Mass: 24.305 Da / Num. of mol.: 195 / Source method: obtained synthetically / Formula: Mg
#89: Chemical ChemComp-H8Q / ~{N}-[(3~{S},6~{R},12~{R},15~{S},16~{S},19~{S},22~{S},25~{S})-25-[[(3~{S})-1-azabicyclo[2.2.2]octan-3-yl]sulfanylmethyl]-3-[[4-(dimethylamino)phenyl]methyl]-12-ethyl-4,16-dimethyl-2,5,11,14,18,21,24-heptakis(oxidanylidene)-19-phenyl-17-oxa-1,4,10,13,20-pentazatricyclo[20.4.0.0^{6,10}]hexacosan-15-yl]-3-oxidanyl-pyridine-2-carboxamide / Quinupristin


Mass: 1022.218 Da / Num. of mol.: 1 / Source method: obtained synthetically / Formula: C53H67N9O10S / Comment: antibiotic*YM
#90: Chemical ChemComp-DOL / 5-(2-DIETHYLAMINO-ETHANESULFONYL)-21-HYDROXY-10-ISOPROPYL-11,19-DIMETHYL-9,26-DIOXA-3,15,28-TRIAZA-TRICYCLO[23.2.1.00,255]OCTACOSA-1(27),12,17,19,25(28)-PENTAENE-2,8,14,23-TETRAONE / DALFOPRISTIN / Dalfopristin


Mass: 690.847 Da / Num. of mol.: 1 / Source method: obtained synthetically / Formula: C34H50N4O9S / Comment: antibiotic*YM
#91: Chemical ChemComp-GTP / GUANOSINE-5'-TRIPHOSPHATE / Guanosine triphosphate


Mass: 523.180 Da / Num. of mol.: 1 / Source method: obtained synthetically / Formula: C10H16N5O14P3 / Comment: GTP, energy-carrying molecule*YM

+
Details

Has ligand of interestN

-
Experimental details

-
Experiment

ExperimentMethod: ELECTRON MICROSCOPY
EM experimentAggregation state: PARTICLE / 3D reconstruction method: single particle reconstruction

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Sample preparation

Component
IDNameTypeEntity IDParent-IDSource
1Human mitochondrial ribosome bound to mRNA and A-, P- and E-site tRNAsRIBOSOME#1-#840MULTIPLE SOURCES
2Human mitochondrial ribosome bound to mRNA and A-, P- and E-site tRNAsRIBOSOME#1-#32, #34-#841NATURAL
3MRPS21 isoform 1RIBOSOME#331NATURAL
Source (natural)
IDEntity assembly-IDOrganismNcbi tax-ID
22Homo sapiens (human)9606
33Pongo abelii (Sumatran orangutan)9601
Buffer solutionpH: 7.5
SpecimenEmbedding applied: NO / Shadowing applied: NO / Staining applied: NO / Vitrification applied: YES
VitrificationCryogen name: ETHANE

-
Electron microscopy imaging

MicroscopyModel: FEI TITAN
Electron gunElectron source: FIELD EMISSION GUN / Accelerating voltage: 300 kV / Illumination mode: FLOOD BEAM
Electron lensMode: BRIGHT FIELDBright-field microscopy
Image recordingElectron dose: 30 e/Å2 / Film or detector model: GATAN K2 SUMMIT (4k x 4k)

-
Processing

Software
NameVersionClassificationNB
phenix.real_space_refine1.17.1_3660refinement
PHENIX1.17.1_3660refinement
CTF correctionType: PHASE FLIPPING AND AMPLITUDE CORRECTION
3D reconstructionResolution: 3.7 Å / Resolution method: FSC 0.143 CUT-OFF / Num. of particles: 24491 / Symmetry type: POINT
RefinementCross valid method: NONE
Stereochemistry target values: GeoStd + Monomer Library + CDL v1.2
Displacement parametersBiso mean: 91.36 Å2
Refine LS restraints
Refinement-IDTypeDev idealNumber
ELECTRON MICROSCOPYf_bond_d0.0054180053
ELECTRON MICROSCOPYf_angle_d0.564255785
ELECTRON MICROSCOPYf_chiral_restr0.040330121
ELECTRON MICROSCOPYf_plane_restr0.003823037
ELECTRON MICROSCOPYf_dihedral_angle_d20.661946860

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