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- PDB-9vxm: Human mitoribosome in a non-rotated state, with multiple neomycin... -

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Basic information

Entry
Database: PDB / ID: 9vxm
TitleHuman mitoribosome in a non-rotated state, with multiple neomycin molecules bound, featuring A/A-site and P/P-site tRNAs
Components
  • (Large ribosomal subunit protein ...) x 50
  • (Small ribosomal subunit protein ...) x 30
  • 12S mitochondrial rRNA
  • 16S mitochondrial rRNA
  • A/A-tRNA
  • P/P-tRNA
  • mRNA
  • mitochondrial tRNAVal
KeywordsRIBOSOME / mitoribosome / neomycin
Function / homology
Function and homology information


rRNA import into mitochondrion / rescue of stalled mitochondrial ribosome / mitochondrial translational termination / mitochondrial translational elongation / translation release factor activity, codon nonspecific / mitochondrial ribosome assembly / Mitochondrial translation elongation / Mitochondrial translation initiation / Mitochondrial ribosome-associated quality control / Mitochondrial translation termination ...rRNA import into mitochondrion / rescue of stalled mitochondrial ribosome / mitochondrial translational termination / mitochondrial translational elongation / translation release factor activity, codon nonspecific / mitochondrial ribosome assembly / Mitochondrial translation elongation / Mitochondrial translation initiation / Mitochondrial ribosome-associated quality control / Mitochondrial translation termination / mitochondrial large ribosomal subunit / peptidyl-tRNA hydrolase / mitochondrial ribosome / mitochondrial small ribosomal subunit / peptidyl-tRNA hydrolase activity / mitochondrial translation / positive regulation of proteolysis / ribosomal small subunit binding / anatomical structure morphogenesis / RNA processing / Mitochondrial protein degradation / apoptotic signaling pathway / cell population proliferation / fibrillar center / regulation of translation / double-stranded RNA binding / 5S rRNA binding / small ribosomal subunit / small ribosomal subunit rRNA binding / large ribosomal subunit rRNA binding / Hydrolases; Acting on acid anhydrides; Acting on GTP to facilitate cellular and subcellular movement / tRNA binding / mitochondrial inner membrane / negative regulation of translation / rRNA binding / structural constituent of ribosome / ribosome / translation / mitochondrial matrix / ribonucleoprotein complex / protein domain specific binding / nucleotide binding / mRNA binding / GTPase activity / apoptotic process / GTP binding / mitochondrion / : / RNA binding / nucleoplasm / nucleus / cytosol / cytoplasm
Similarity search - Function
Coiled-coil-helix-coiled-coil-helix domain-containing protein 1 / Cysteine alpha-hairpin motif superfamily / 28S ribosomal protein S26 / Mitochondrial ribosome subunit S26 / 28S ribosomal protein S27, mitochondrial / Ribosomal protein S23, mitochondrial / Ribosomal protein S23/S25, mitochondrial / Mitochondrial 28S ribosomal protein S31 / MRPS27/PTCD2 / Mitochondrial 28S ribosomal protein S27 ...Coiled-coil-helix-coiled-coil-helix domain-containing protein 1 / Cysteine alpha-hairpin motif superfamily / 28S ribosomal protein S26 / Mitochondrial ribosome subunit S26 / 28S ribosomal protein S27, mitochondrial / Ribosomal protein S23, mitochondrial / Ribosomal protein S23/S25, mitochondrial / Mitochondrial 28S ribosomal protein S31 / MRPS27/PTCD2 / Mitochondrial 28S ribosomal protein S27 / Mitochondrial ribosomal protein S23 / Mitochondrial 28S ribosomal protein S31 / Ribosomal protein S22, mitochondrial / 28S ribosomal protein S10, mitochondrial / : / Mitochondrial 28S ribosomal protein S22 / Ribosomal protein S29, mitochondrial / Ribosomal protein S28, mitochondrial / 28S ribosomal protein S18b, mitochondrial / Mitochondrial ribosomal protein MRP-S35 / 28S ribosomal protein S24, mitochondrial / Mitochondrial 28S ribosomal protein S34 / Pentatricopeptide repeat domain-containing protein 3 / 28S ribosomal protein S17, mitochondrial / : / : / Mitochondrial ribosome subunit S24 / Mitochondrial 28S ribosomal protein S34 / Small ribosomal subunit protein uS5m, N-terminal / Small ribosomal subunit protein mS39, PPR / : / 28S ribosomal protein S25, mitochondrial / Ribosomal protein L55, mitochondrial / Mitochondrial ribosomal protein L55 superfamily / : / Mitochondrial ribosomal protein L55 / Mitochondrial ribosomal protein L48 / 39S ribosomal protein L40, mitochondrial / Ribosomal protein S30, mitochondrial / Ribosomal protein L53, mitochondrial / 39S ribosomal protein L53/MRP-L53 / 39S ribosomal protein L42, mitochondrial / Mitochondrial 28S ribosomal protein S32 / Ribosomal protein L37, mitochondrial / Mitochondrial ribosomal protein L37 / Ribosomal protein 63, mitochondrial / Growth arrest/ DNA-damage-inducible protein-interacting protein 1 / Ribosomal protein L35, mitochondrial / Ribosomal protein L51, mitochondrial / Growth arrest and DNA-damage-inducible proteins-interacting protein 1 / Mitochondrial ribosomal subunit / Mitochondrial ribosome protein 63 / Ribosomal protein L37/S30 / Growth arrest and DNA damage-inducible proteins-interacting protein 1 domain superfamily / : / : / Mitochondrial 28S ribosomal protein S30 (PDCD9) / 39S ribosomal protein L52, mitochondrial / Mitoribosomal protein mL52 / : / : / Large ribosomal subunit protein mL44, endonuclease domain / Ribosomal protein L28/L40, mitochondrial / Mitochondrial ribosomal protein L28 / Pentatricopeptide repeat domain / : / : / Large ribosomal subunit protein bL9m C-terminal domain / Large ribosomal subunit protein bL9m N-terminal domain / Tim44-like domain / Tim44-like domain / Tim44 / Ribosomal protein S27/S33, mitochondrial / : / Mitochondrial ribosomal subunit S27 / Ribosomal protein S24/S35, mitochondrial / : / : / Ribosomal protein S24/S35, mitochondrial, conserved domain / Mitochondrial ribosomal subunit protein / Mitochondrial ribosomal protein L46 NUDIX / Ribosomal protein L50, mitochondria / MRPL44, double-stranded RNA binding domain / Ribosomal subunit 39S / MRPL44 dsRNA-binding domain / Ribosomal protein L46, N-terminal / 39S mitochondrial ribosomal protein L46 / Pentatricopeptide (PPR) repeat profile. / Ribosomal protein L49/IMG2 / Mitochondrial large subunit ribosomal protein (Img2) / Ribosomal protein L27/L41, mitochondrial / : / Mitochondrial ribosomal protein L27 / 39S ribosomal protein L46, mitochondrial / Pentatricopeptide repeat / Ribosomal protein S23/S29, mitochondrial / Mitochondrial ribosomal death-associated protein 3 / Mitochondrial mRNA-processing protein COX24, C-terminal / Mitochondrial mRNA-processing protein COX24, C-terminal / Mitochondrial domain of unknown function (DUF1713)
Similarity search - Domain/homology
ADENOSINE-5'-TRIPHOSPHATE / FE2/S2 (INORGANIC) CLUSTER / GUANOSINE-5'-DIPHOSPHATE / : / NICOTINAMIDE-ADENINE-DINUCLEOTIDE / NEOMYCIN / 1,4-DIAMINOBUTANE / SPERMIDINE / SPERMINE / VALINE ...ADENOSINE-5'-TRIPHOSPHATE / FE2/S2 (INORGANIC) CLUSTER / GUANOSINE-5'-DIPHOSPHATE / : / NICOTINAMIDE-ADENINE-DINUCLEOTIDE / NEOMYCIN / 1,4-DIAMINOBUTANE / SPERMIDINE / SPERMINE / VALINE / : / RNA / RNA (> 10) / RNA (> 100) / RNA (> 1000) / Small ribosomal subunit protein uS12m / Small ribosomal subunit protein uS14m / Large ribosomal subunit protein bL33m / Large ribosomal subunit protein uL3m / Large ribosomal subunit protein bL19m / Small ribosomal subunit protein mS29 / Small ribosomal subunit protein mS22 / Small ribosomal subunit protein mS25 / Small ribosomal subunit protein uS10m / Small ribosomal subunit protein mS35 / Small ribosomal subunit protein uS5m / Small ribosomal subunit protein uS11m / Small ribosomal subunit protein uS15m / Small ribosomal subunit protein bS21m / Small ribosomal subunit protein mS34 / Small ribosomal subunit protein bS6m / Small ribosomal subunit protein uS9m / Large ribosomal subunit protein bL28m / Large ribosomal subunit protein mL49 / Large ribosomal subunit protein mL62 / Large ribosomal subunit protein uL23m / Large ribosomal subunit protein mL51 / Large ribosomal subunit protein uL2m / Large ribosomal subunit protein mL54 / Large ribosomal subunit protein uL14m / Large ribosomal subunit protein bL21m / Large ribosomal subunit protein mL55 / Large ribosomal subunit protein uL10m / Large ribosomal subunit protein mL52 / Large ribosomal subunit protein mL41 / Large ribosomal subunit protein mL50 / Large ribosomal subunit protein mL43 / Large ribosomal subunit protein mL64 / Large ribosomal subunit protein uL30m / Small ribosomal subunit protein mS27 / Small ribosomal subunit protein mS31 / Large ribosomal subunit protein uL24m / Small ribosomal subunit protein mS37 / Large ribosomal subunit protein mL38 / Small ribosomal subunit protein uS3m / Large ribosomal subunit protein mL53 / Small ribosomal subunit protein mS39 / Large ribosomal subunit protein mL48 / Large ribosomal subunit protein bL34m / Large ribosomal subunit protein mL63 / Large ribosomal subunit protein mL45 / Large ribosomal subunit protein bL32m / Large ribosomal subunit protein bL20m / Large ribosomal subunit protein uL13m / Large ribosomal subunit protein bL9m / Large ribosomal subunit protein uL4m / Small ribosomal subunit protein mS26 / Large ribosomal subunit protein mL37 / Large ribosomal subunit protein uL18m / Large ribosomal subunit protein mL46 / Large ribosomal subunit protein mL44 / Large ribosomal subunit protein uL29m / Large ribosomal subunit protein mL65 / Large ribosomal subunit protein mL40 / Large ribosomal subunit protein bL17m / Large ribosomal subunit protein mL66 / Small ribosomal subunit protein bS22, mitochondrial / Large ribosomal subunit protein uL22m / Large ribosomal subunit protein uL16m / Large ribosomal subunit protein mL39 / Large ribosomal subunit protein bL35m / Large ribosomal subunit protein uL15m / Large ribosomal subunit protein bL36m / Large ribosomal subunit protein bL27m / Small ribosomal subunit protein mS33 / Small ribosomal subunit protein bS1m / Small ribosomal subunit protein uS17m / Small ribosomal subunit protein uS7m / Small ribosomal subunit protein uS2m / Large ribosomal subunit protein uL11m / Small ribosomal subunit protein bS16m / Small ribosomal subunit protein bS18m / Small ribosomal subunit protein mS23 / Small ribosomal subunit protein mS40 / Large ribosomal subunit protein mL42
Similarity search - Component
Biological speciesHomo sapiens (human)
MethodELECTRON MICROSCOPY / single particle reconstruction / cryo EM / Resolution: 2.9 Å
AuthorsZhu, L. / Jia, C. / Wu, M. / Li, W.
Funding support China, 2items
OrganizationGrant numberCountry
National Natural Science Foundation of China (NSFC)32171291 China
National Natural Science Foundation of China (NSFC)32371351 China
CitationJournal: To Be Published
Title: Human ribosome interactions reframe neomycin toxicity
Authors: Zhang, X. / Zhu, L. / Jia, C. / Wu, K. / Bai, Y. / Sun, S. / Zhang, Z. / Guo, L. / Hou, X. / Wu, M. / Amunts, A. / Li, W.
History
DepositionJul 19, 2025Deposition site: PDBJ / Processing site: PDBC
Revision 1.0Jul 22, 2026Provider: repository / Type: Initial release
Revision 1.0Jul 22, 2026Data content type: EM metadata / Data content type: EM metadata / Provider: repository / Type: Initial release
Revision 1.0Jul 22, 2026Data content type: FSC / Data content type: FSC / Provider: repository / Type: Initial release
Revision 1.0Jul 22, 2026Data content type: Half map / Part number: 1 / Data content type: Half map / Provider: repository / Type: Initial release
Revision 1.0Jul 22, 2026Data content type: Half map / Part number: 2 / Data content type: Half map / Provider: repository / Type: Initial release
Revision 1.0Jul 22, 2026Data content type: Image / Data content type: Image / Provider: repository / Type: Initial release
Revision 1.0Jul 22, 2026Data content type: Primary map / Data content type: Primary map / Provider: repository / Type: Initial release

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Structure visualization

Structure viewerMolecule:
MolmilJmol/JSmol

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Assembly

Deposited unit
0: Large ribosomal subunit protein bL32m
1: Large ribosomal subunit protein bL33m
2: Large ribosomal subunit protein bL34m
3: Large ribosomal subunit protein bL35m
4: Large ribosomal subunit protein bL36m
5: Large ribosomal subunit protein mL37
6: Large ribosomal subunit protein mL38
7: Large ribosomal subunit protein mL39
8: Large ribosomal subunit protein mL40
9: Large ribosomal subunit protein mL41
A: 16S mitochondrial rRNA
D: Large ribosomal subunit protein uL2m
E: Large ribosomal subunit protein uL3m
F: Large ribosomal subunit protein uL4m
H: Large ribosomal subunit protein bL9m
I: Large ribosomal subunit protein uL10m
J: Large ribosomal subunit protein uL11m
k: Large ribosomal subunit protein uL13m
L: Large ribosomal subunit protein uL14m
M: Large ribosomal subunit protein uL15m
N: Large ribosomal subunit protein uL16m
O: Large ribosomal subunit protein bL17m
P: Large ribosomal subunit protein uL18m
Q: Large ribosomal subunit protein bL19m
R: Large ribosomal subunit protein bL20m
S: Large ribosomal subunit protein bL21m
T: Large ribosomal subunit protein uL22m
U: Large ribosomal subunit protein uL23m
W: Large ribosomal subunit protein bL27m
X: Large ribosomal subunit protein bL28m
Y: Large ribosomal subunit protein uL29m
Z: Large ribosomal subunit protein uL30m
V: Large ribosomal subunit protein uL24m
b: Large ribosomal subunit protein mL43
e: Large ribosomal subunit protein mL46
g: Large ribosomal subunit protein mL49
h: Large ribosomal subunit protein mL50
i: Large ribosomal subunit protein mL51
j: Large ribosomal subunit protein mL52
n: Large ribosomal subunit protein mL53
l: Large ribosomal subunit protein mL54
m: Large ribosomal subunit protein mL55
o: Large ribosomal subunit protein mL63
q: Large ribosomal subunit protein mL64
r: Large ribosomal subunit protein mL66
AA: 12S mitochondrial rRNA
AB: Small ribosomal subunit protein uS2m
AC: Small ribosomal subunit protein uS3m
AD: Small ribosomal subunit protein uS5m
AE: Small ribosomal subunit protein bS6m
AF: Small ribosomal subunit protein uS7m
AG: Small ribosomal subunit protein uS9m
AH: Small ribosomal subunit protein uS10m
AI: Small ribosomal subunit protein uS11m
AJ: Small ribosomal subunit protein uS12m
AK: Small ribosomal subunit protein uS14m
AL: Small ribosomal subunit protein uS15m
AM: Small ribosomal subunit protein bS16m
AN: Small ribosomal subunit protein uS17m
AO: Small ribosomal subunit protein mS40
AP: Small ribosomal subunit protein bS18m
C: Small ribosomal subunit protein bS21m
AR: Small ribosomal subunit protein mS22
AS: Small ribosomal subunit protein mS23
AT: Small ribosomal subunit protein mS25
AU: Small ribosomal subunit protein mS26
AV: Small ribosomal subunit protein mS27
AW: Small ribosomal subunit protein bS1m
AX: Small ribosomal subunit protein mS29
AY: Small ribosomal subunit protein mS31
AZ: Small ribosomal subunit protein mS33
A0: Small ribosomal subunit protein mS34
A1: Small ribosomal subunit protein mS35
G: Small ribosomal subunit protein mS37
A3: Small ribosomal subunit protein mS38
A4: Small ribosomal subunit protein mS39
Az: mRNA
Aw: A/A-tRNA
Ax: P/P-tRNA
B: mitochondrial tRNAVal
a: Large ribosomal subunit protein mL42
c: Large ribosomal subunit protein mL44
d: Large ribosomal subunit protein mL45
f: Large ribosomal subunit protein mL48
p: Large ribosomal subunit protein mL62
s: Large ribosomal subunit protein mL65
hetero molecules


Theoretical massNumber of molelcules
Total (without water)2,953,058372
Polymers2,937,07286
Non-polymers15,986286
Water00
1


  • Idetical with deposited unit
  • defined by author&software
  • Evidence: electron microscopy, not applicable
TypeNameSymmetry operationNumber
identity operation1_555x,y,z1

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Components

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Large ribosomal subunit protein ... , 50 types, 50 molecules 0123456789DEFHIJkLMNOPQRSTUWXY...

#1: Protein Large ribosomal subunit protein bL32m / 39S ribosomal protein L32 / mitochondrial / L32mt / MRP-L32


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 Large ribosomal subunit protein bL33m / 39S ribosomal protein L33 / mitochondrial / L33mt / MRP-L33


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 Large ribosomal subunit protein bL34m / 39S ribosomal protein L34 / mitochondrial / L34mt / MRP-L34


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 Large ribosomal subunit protein bL35m / 39S ribosomal protein L35 / mitochondrial / L35mt / MRP-L35


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 Large ribosomal subunit protein bL36m / 39S ribosomal protein L36 / mitochondrial / L36mt / MRP-L36 / BRCA1-interacting protein 1


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 Large ribosomal subunit protein mL37 / 39S ribosomal protein L2 / mitochondrial / L2mt / MRP-L2 / 39S ribosomal protein L37 / L37mt / MRP-L37


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 Large ribosomal subunit protein mL38 / 39S ribosomal protein L38 / mitochondrial / L38mt / MRP-L38


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 Large ribosomal subunit protein mL39 / 39S ribosomal protein L39 / mitochondrial / L39mt / MRP-L39 / 39S ribosomal protein L5 / L5mt / MRP-L5


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 Large ribosomal subunit protein mL40 / 39S ribosomal protein L40 / mitochondrial / L40mt / MRP-L40 / Nuclear localization signal- ...39S ribosomal protein L40 / mitochondrial / L40mt / MRP-L40 / 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 Large ribosomal subunit protein mL41 / 39S ribosomal protein L41 / mitochondrial / L41mt / MRP-L41 / Bcl-2-interacting mitochondrial ...39S ribosomal protein L41 / mitochondrial / L41mt / MRP-L41 / Bcl-2-interacting mitochondrial ribosomal protein L41 / Cell proliferation-inducing gene 3 protein / MRP-L27 homolog


Mass: 15404.708 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q8IXM3
#12: Protein Large ribosomal subunit protein uL2m / 39S ribosomal protein L2 / mitochondrial / L2mt / MRP-L2


Mass: 33355.941 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q5T653
#13: Protein Large ribosomal subunit protein uL3m / 39S ribosomal protein L3 / mitochondrial / L3mt / MRP-L3


Mass: 38689.562 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: P09001
#14: Protein Large ribosomal subunit protein uL4m / 39S ribosomal protein L4 / mitochondrial / L4mt / MRP-L4


Mass: 34970.195 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q9BYD3
#15: Protein Large ribosomal subunit protein bL9m / 39S ribosomal protein L9 / mitochondrial / L9mt / MRP-L9


Mass: 30296.355 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q9BYD2
#16: Protein Large ribosomal subunit protein uL10m / 39S ribosomal protein L10 / mitochondrial / L10mt / MRP-L10 / 39S ribosomal protein L8 / L8mt / MRP-L8


Mass: 29322.529 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q7Z7H8
#17: Protein Large ribosomal subunit protein uL11m / 39S ribosomal protein L11 / mitochondrial / L11mt / MRP-L11


Mass: 20716.227 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q9Y3B7
#18: Protein Large ribosomal subunit protein uL13m / 39S ribosomal protein L13 / mitochondrial / L13mt / MRP-L13


Mass: 20617.828 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q9BYD1
#19: Protein Large ribosomal subunit protein uL14m / 39S ribosomal protein L14 / mitochondrial / L14mt / MRP-L14 / 39S ribosomal protein L32 / L32mt / MRP-L32


Mass: 15973.702 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q6P1L8
#20: Protein Large ribosomal subunit protein uL15m / 39S ribosomal protein L15 / mitochondrial / L15mt / MRP-L15


Mass: 33473.820 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q9P015
#21: Protein Large ribosomal subunit protein uL16m / 39S ribosomal protein L16 / mitochondrial / L16mt / MRP-L16


Mass: 28496.285 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q9NX20
#22: Protein Large ribosomal subunit protein bL17m / 39S ribosomal protein L17 / mitochondrial / L17mt / MRP-L17 / LYST-interacting protein 2


Mass: 20083.266 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q9NRX2
#23: Protein Large ribosomal subunit protein uL18m / 39S ribosomal protein L18 / mitochondrial / L18mt / MRP-L18


Mass: 20607.570 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q9H0U6
#24: Protein Large ribosomal subunit protein bL19m / 39S ribosomal protein L15 / mitochondrial / L15mt / MRP-L15 / 39S ribosomal protein L19 / L19mt / MRP-L19


Mass: 33584.996 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: P49406
#25: Protein Large ribosomal subunit protein bL20m / 39S ribosomal protein L20 / mitochondrial / L20mt / MRP-L20


Mass: 17479.654 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q9BYC9
#26: Protein Large ribosomal subunit protein bL21m / 39S ribosomal protein L21 / mitochondrial / L21mt / MRP-L21


Mass: 22847.682 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q7Z2W9
#27: Protein Large ribosomal subunit protein uL22m / 39S ribosomal protein L22 / mitochondrial / L22mt / MRP-L22 / 39S ribosomal protein L25 / L25mt / MRP-L25


Mass: 23683.732 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q9NWU5
#28: Protein Large ribosomal subunit protein uL23m / 39S ribosomal protein L23 / mitochondrial / L23mt / MRP-L23 / L23 mitochondrial-related protein / ...39S ribosomal protein L23 / mitochondrial / L23mt / MRP-L23 / L23 mitochondrial-related protein / Ribosomal protein L23-like


Mass: 17702.029 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q16540
#29: Protein Large ribosomal subunit protein bL27m / 39S ribosomal protein L27 / mitochondrial / L27mt / MRP-L27


Mass: 16102.859 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q9P0M9
#30: Protein Large ribosomal subunit protein bL28m / 39S ribosomal protein L28 / mitochondrial / L28mt / MRP-L28 / Melanoma antigen p15 / Melanoma- ...39S ribosomal protein L28 / mitochondrial / L28mt / MRP-L28 / Melanoma antigen p15 / Melanoma-associated antigen recognized by T-lymphocytes


Mass: 30202.867 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q13084
#31: Protein Large ribosomal subunit protein uL29m / 39S ribosomal protein L47 / mitochondrial / L47mt / MRP-L47 / Nasopharyngeal carcinoma metastasis- ...39S ribosomal protein L47 / mitochondrial / L47mt / MRP-L47 / 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
#32: Protein Large ribosomal subunit protein uL30m / 39S ribosomal protein L28 / mitochondrial / L28mt / MRP-L28 / 39S ribosomal protein L30 / L30mt / MRP-L30


Mass: 18582.812 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q8TCC3
#33: Protein Large ribosomal subunit protein uL24m / 39S ribosomal protein L24 / mitochondrial / L24mt / MRP-L24


Mass: 24953.875 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q96A35
#34: Protein Large ribosomal subunit protein mL43 / 39S ribosomal protein L43 / mitochondrial / L43mt / MRP-L43 / Mitochondrial ribosomal protein bMRP36a


Mass: 23352.633 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q8N983
#35: Protein Large ribosomal subunit protein mL46 / 39S ribosomal protein L46 / mitochondrial / L46mt / MRP-L46 / P2ECSL


Mass: 31748.107 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q9H2W6
#36: Protein Large ribosomal subunit protein mL49 / 39S ribosomal protein L49 / mitochondrial / L49mt / MRP-L49 / 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
#37: Protein Large ribosomal subunit protein mL50 / 39S ribosomal protein L50 / mitochondrial / L50mt / MRP-L50


Mass: 18349.943 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q8N5N7
#38: Protein Large ribosomal subunit protein mL51 / 39S ribosomal protein L51 / mitochondrial / L51mt / MRP-L51 / 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
#39: Protein Large ribosomal subunit protein mL52 / 39S ribosomal protein L52 / mitochondrial / L52mt / MRP-L52


Mass: 13682.658 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q86TS9
#40: Protein Large ribosomal subunit protein mL53 / 39S ribosomal protein L53 / mitochondrial / L53mt / MRP-L53


Mass: 12020.701 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q96EL3
#41: Protein Large ribosomal subunit protein mL54 / 39S ribosomal protein L54 / mitochondrial / L54mt / MRP-L54


Mass: 15844.178 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q6P161
#42: Protein Large ribosomal subunit protein mL55 / 39S ribosomal protein L55 / mitochondrial / L55mt / MRP-L55 / Mitochondrial large ribosomal subunit ...39S ribosomal protein L55 / mitochondrial / L55mt / MRP-L55 / Mitochondrial large ribosomal subunit protein bL31m


Mass: 15160.433 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q7Z7F7
#43: Protein Large ribosomal subunit protein mL63 / Mitochondrial ribosomal protein 63 / Mitochondrial ribosomal protein L57 / Ribosomal protein 63 / ...Mitochondrial ribosomal protein 63 / Mitochondrial ribosomal protein L57 / Ribosomal protein 63 / mitochondrial / hMRP63


Mass: 12292.333 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q9BQC6
#44: Protein Large ribosomal subunit protein mL64 / 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 / Growth arrest and DNA damage-inducible proteins-interacting protein 1 / Papillomavirus L2-interacting nuclear protein 1 / PLINP / PLINP-1 / p53-responsive gene 6 protein


Mass: 25426.895 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q8TAE8
#45: Protein Large ribosomal subunit protein mL66 / 39S ribosomal protein S18-3 / mitochondrial / MRP-S18-3 / 39S ribosomal protein S18a / MRP-S18-a / ...39S ribosomal protein S18-3 / mitochondrial / MRP-S18-3 / 39S ribosomal protein S18a / MRP-S18-a / Mrps18a / S18mt-a / Large ribosomal subunit protein bS18a


Mass: 22224.078 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q9NVS2
#81: Protein Large ribosomal subunit protein mL42 / 39S ribosomal protein L31 / mitochondrial / L31mt / MRP-L31 / 39S ribosomal protein L42 / L42mt / MRP-L42


Mass: 16691.176 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q9Y6G3
#82: Protein Large ribosomal subunit protein mL44 / 39S ribosomal protein L44 / mitochondrial / L44mt / MRP-L44


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
#83: Protein Large ribosomal subunit protein mL45 / 39S ribosomal protein L45 / mitochondrial / L45mt / MRP-L45


Mass: 35402.918 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q9BRJ2
#84: Protein Large ribosomal subunit protein mL48 / 39S ribosomal protein L48 / mitochondrial / L48mt / MRP-L48


Mass: 23970.814 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q96GC5
#85: Protein Large ribosomal subunit protein mL62 / 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 / Peptidyl-tRNA hydrolase ICT1


Mass: 23674.203 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q14197, peptidyl-tRNA hydrolase
#86: Protein Large ribosomal subunit protein mL65 / 39S ribosomal protein S30 / mitochondrial / MRP-S30 / S30mt / Large ribosomal subunit protein mS30 ...39S ribosomal protein S30 / mitochondrial / MRP-S30 / S30mt / 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

-
RNA chain , 6 types, 6 molecules AAAAzAwAxB

#11: RNA chain 16S mitochondrial rRNA


Mass: 500727.125 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: GenBank: 2756415283
#46: RNA chain 12S mitochondrial rRNA


Mass: 306218.312 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human)
#77: RNA chain mRNA


Mass: 10214.085 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human)
#78: RNA chain A/A-tRNA


Mass: 21627.838 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human)
#79: RNA chain P/P-tRNA


Mass: 22354.291 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human)
#80: RNA chain mitochondrial tRNAVal


Mass: 22989.752 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human)

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Small ribosomal subunit protein ... , 30 types, 30 molecules ABACADAEAFAGAHAIAJAKALAMANAOAPCARASATAUAVAWAXAYAZA0A1GA3A4

#47: Protein Small ribosomal subunit protein uS2m / 28S ribosomal protein S2 / mitochondrial / MRP-S2 / S2mt


Mass: 33298.238 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q9Y399
#48: Protein Small ribosomal subunit protein uS3m / 28S ribosomal protein S24 / mitochondrial / MRP-S24 / S24mt / 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
#49: Protein Small ribosomal subunit protein uS5m / 28S ribosomal protein S5 / mitochondrial / MRP-S5 / S5mt


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


Mass: 14250.588 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: P82932
#51: Protein Small ribosomal subunit protein uS7m / 28S ribosomal protein S7 / mitochondrial / MRP-S7 / S7mt / 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
#52: Protein Small ribosomal subunit protein uS9m / 28S ribosomal protein S9 / mitochondrial / MRP-S9 / S9mt


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


Mass: 23033.500 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: P82664
#54: Protein Small ribosomal subunit protein uS11m / 28S ribosomal protein S11 / mitochondrial / MRP-S11 / S11mt / Cervical cancer proto-oncogene 2 protein / HCC-2


Mass: 20663.805 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: P82912
#55: Protein Small ribosomal subunit protein uS12m / 28S ribosomal protein S12 / mitochondrial / MRP-S12 / S12mt / MT-RPS12


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


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


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


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


Mass: 14526.078 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q9Y2R5
#60: Protein Small ribosomal subunit protein mS40 / 28S ribosomal protein S18-2 / mitochondrial / MRP-S18-2 / 28S ribosomal protein S18b / MRP-S18-b / ...28S ribosomal protein S18-2 / mitochondrial / MRP-S18-2 / 28S ribosomal protein S18b / MRP-S18-b / Mrps18-b / S18mt-b / Small ribosomal subunit protein bS18b


Mass: 29440.629 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q9Y676
#61: Protein Small ribosomal subunit protein bS18m / 28S ribosomal protein S18-1 / mitochondrial / MRP-S18-1 / 28S ribosomal protein S18c / MRP-S18-c / ...28S ribosomal protein S18-1 / mitochondrial / MRP-S18-1 / 28S ribosomal protein S18c / MRP-S18-c / Mrps18-c / S18mt-c / Small ribosomal subunit protein bS18c


Mass: 15876.786 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q9Y3D5
#62: Protein Small ribosomal subunit protein bS21m / 28S ribosomal protein S21 / mitochondrial / MRP-S21 / S21mt


Mass: 10659.494 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: P82921
#63: Protein Small ribosomal subunit protein mS22 / 28S ribosomal protein S22 / mitochondrial / MRP-S22 / S22mt


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


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


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


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


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


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


Mass: 45634.406 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human)
References: UniProt: P51398, Hydrolases; Acting on acid anhydrides; Acting on GTP to facilitate cellular and subcellular movement
#70: Protein Small ribosomal subunit protein mS31 / 28S ribosomal protein S31 / mitochondrial / MRP-S31 / S31mt / Imogen 38


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


Mass: 12657.776 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q9Y291
#72: Protein Small ribosomal subunit protein mS34 / 28S ribosomal protein S34 / mitochondrial / MRP-S34 / S34mt


Mass: 25564.354 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: P82930
#73: Protein Small ribosomal subunit protein mS35 / 28S ribosomal protein S28 / mitochondrial / MRP-S28 / S28mt / 28S ribosomal protein S35 / MRP-S35 / S35mt


Mass: 36898.328 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: P82673
#74: Protein Small ribosomal subunit protein mS37 / 28S ribosomal protein S37 / mitochondrial / MRP-S37 / Coiled-coil-helix-coiled-coil-helix domain- ...28S ribosomal protein S37 / mitochondrial / MRP-S37 / Coiled-coil-helix-coiled-coil-helix domain-containing protein 1 / Nuclear protein C2360


Mass: 13393.661 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q96BP2
#75: Protein Small ribosomal subunit protein mS38 / 28S ribosomal protein S38 / mitochondrial / MRP-S38 / Aurora kinase A-interacting protein / AURKA- ...28S ribosomal protein S38 / mitochondrial / MRP-S38 / Aurora kinase A-interacting protein / AURKA-interacting protein


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


Mass: 78648.547 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human) / References: UniProt: Q96EY7

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Non-polymers , 12 types, 286 molecules

#87: Chemical ChemComp-ZN / ZINC ION


Mass: 65.409 Da / Num. of mol.: 3 / Source method: obtained synthetically / Formula: Zn
#88: Chemical...
ChemComp-K / POTASSIUM ION


Mass: 39.098 Da / Num. of mol.: 53 / Source method: obtained synthetically / Formula: K
#89: Chemical
ChemComp-SPD / SPERMIDINE / N-(2-AMINO-PROPYL)-1,4-DIAMINOBUTANE / PA(34)


Mass: 145.246 Da / Num. of mol.: 4 / Source method: obtained synthetically / Formula: C7H19N3
#90: Chemical ChemComp-PUT / 1,4-DIAMINOBUTANE / PUTRESCINE


Mass: 88.151 Da / Num. of mol.: 1 / Source method: obtained synthetically / Formula: C4H12N2
#91: Chemical...
ChemComp-MG / MAGNESIUM ION


Mass: 24.305 Da / Num. of mol.: 208 / Source method: obtained synthetically / Formula: Mg
#92: Chemical
ChemComp-NMY / NEOMYCIN / MYCIFRADIN / NEOMAS / PIMAVECORT / VONAMYCIN


Mass: 614.644 Da / Num. of mol.: 9 / Source method: obtained synthetically / Formula: C23H46N6O13 / Feature type: SUBJECT OF INVESTIGATION / Comment: antibiotic*YM
#93: Chemical ChemComp-VAL / VALINE


Type: L-peptide linking / Mass: 117.146 Da / Num. of mol.: 1 / Source method: obtained synthetically / Formula: C5H11NO2
#94: Chemical ChemComp-FES / FE2/S2 (INORGANIC) CLUSTER


Mass: 175.820 Da / Num. of mol.: 3 / Source method: obtained synthetically / Formula: Fe2S2
#95: Chemical ChemComp-NAD / NICOTINAMIDE-ADENINE-DINUCLEOTIDE


Mass: 663.425 Da / Num. of mol.: 1 / Source method: obtained synthetically / Formula: C21H27N7O14P2 / Comment: NAD*YM
#96: Chemical ChemComp-SPM / SPERMINE


Mass: 202.340 Da / Num. of mol.: 1 / Source method: obtained synthetically / Formula: C10H26N4
#97: Chemical ChemComp-ATP / ADENOSINE-5'-TRIPHOSPHATE


Mass: 507.181 Da / Num. of mol.: 1 / Source method: obtained synthetically / Formula: C10H16N5O13P3 / Comment: ATP, energy-carrying molecule*YM
#98: Chemical ChemComp-GDP / GUANOSINE-5'-DIPHOSPHATE


Type: RNA linking / Mass: 443.201 Da / Num. of mol.: 1 / Source method: obtained synthetically / Formula: C10H15N5O11P2 / Comment: GDP, energy-carrying molecule*YM

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Details

Has ligand of interestY
Has protein modificationY

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Experimental details

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Experiment

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

-
Sample preparation

ComponentName: Human mitoribosome in a non rotated state, with multiple neomycin molecules bound, featuring A/A-site and P/P-site tRNAs
Type: RIBOSOME
Entity ID: #1-#11, #72-#73, #75-#76, #46-#53, #55-#61, #63-#71, #78-#79, #77, #80, #12-#17, #19-#27, #33, #29-#32, #81-#83, #35, #84, #36-#39, #41-#43, #85, #44-#45, #86
Source: NATURAL
Molecular weightExperimental value: NO
Source (natural)Organism: Homo sapiens (human)
Buffer solutionpH: 7.5
SpecimenEmbedding applied: NO / Shadowing applied: NO / Staining applied: NO / Vitrification applied: YES
VitrificationCryogen name: ETHANE / Humidity: 100 % / Chamber temperature: 277.15 K

-
Electron microscopy imaging

Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company
MicroscopyModel: TFS KRIOS
Electron gunElectron source: FIELD EMISSION GUN / Accelerating voltage: 300 kV / Illumination mode: FLOOD BEAM
Electron lensMode: BRIGHT FIELD / Nominal defocus max: 2000 nm / Nominal defocus min: 1000 nm
Image recordingElectron dose: 50 e/Å2 / Film or detector model: TFS FALCON 4i (4k x 4k)

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Processing

EM software
IDNameVersionCategory
1cryoSPARCparticle selection
2PHENIX1.21.2_5419:model refinement
13cryoSPARC3D reconstruction
CTF correctionType: NONE
3D reconstructionResolution: 2.9 Å / Resolution method: FSC 0.143 CUT-OFF / Num. of particles: 47726 / Symmetry type: POINT
Refine LS restraints
Refine-IDTypeDev idealNumber
ELECTRON MICROSCOPYf_bond_d0.003120143
ELECTRON MICROSCOPYf_angle_d0.515171279
ELECTRON MICROSCOPYf_dihedral_angle_d18.12336111
ELECTRON MICROSCOPYf_chiral_restr0.03520278
ELECTRON MICROSCOPYf_plane_restr0.00415228

+
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