[English] 日本語
Yorodumi
- EMDB-11278: Human mitochondrial ribosome in complex with OXA1L, mRNA, A/A tRN... -

+
Open data


ID or keywords:

Loading...

-
Basic information

Entry
Database: EMDB / ID: EMD-11278
TitleHuman mitochondrial ribosome in complex with OXA1L, mRNA, A/A tRNA, P/P tRNA and nascent polypeptide
Map data
SampleTranslating ribosome with insertase
  • Large subunit of ribosome
  • Small subunit of ribosome
  • OXA1L insertase
  • (nucleic-acidNucleic acid) x 6
  • (39S ribosomal protein ...) x 48
  • Ribosomal protein 63, mitochondrialRibosome
  • Peptidyl-tRNA hydrolase ICT1, mitochondrial
  • Growth arrest and DNA damage-inducible proteins-interacting protein 1
  • (28S ribosomal protein ...) x 27
  • Coiled-coil-helix-coiled-coil-helix domain-containing protein 1
  • Aurora kinase A-interacting protein
  • Pentatricopeptide repeat domain-containing protein 3, mitochondrial
  • Mitochondrial inner membrane protein OXA1LInner mitochondrial membrane
  • Nascent polypeptide
  • (ligand) x 8
Function / homology
Function and homology information


protein insertion into mitochondrial inner membrane from matrix / membrane insertase activity / mitochondrial cytochrome c oxidase assembly / rRNA import into mitochondrion / mitochondrial ribosome assembly / negative regulation of oxidoreductase activity / mitochondrial ribosome binding / mitochondrial transcription / mitochondrial translational termination / translation release factor activity, codon nonspecific ...protein insertion into mitochondrial inner membrane from matrix / membrane insertase activity / mitochondrial cytochrome c oxidase assembly / rRNA import into mitochondrion / mitochondrial ribosome assembly / negative regulation of oxidoreductase activity / mitochondrial ribosome binding / mitochondrial transcription / mitochondrial translational termination / translation release factor activity, codon nonspecific / mitochondrial translational elongation / positive regulation of mitochondrial translation / mitochondrial proton-transporting ATP synthase complex assembly / integral component of mitochondrial membrane / mitochondrial ribosome / mitochondrial small ribosomal subunit / mitochondrial respirasome / aminoacyl-tRNA hydrolase / Hydrolases; Acting on ester bonds; Endoribonucleases producing 5'-phosphomonoesters / integral component of mitochondrial inner membrane / aminoacyl-tRNA hydrolase activity / ribonuclease III activity / mitochondrial translation / mitochondrial respiratory chain complex I assembly / primary miRNA processing / negative regulation of mitotic nuclear division / production of siRNA involved in RNA interference / mitochondrial large ribosomal subunit / pre-miRNA processing / negative regulation of ATPase activity / protein insertion into membrane / regulation of cell cycle => GO:0051726 / positive regulation of proteolysis / ribosomal small subunit binding / RNA processing / anatomical structure morphogenesis / aerobic respiration / cellular response to leukemia inhibitory factor / ribosome assembly / mitochondrial membrane / apoptotic signaling pathway / fibrillar center / ribosomal small subunit assembly / maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) / mRNA 5'-UTR binding / small ribosomal subunit rRNA binding / protein tetramerization / DNA damage response, detection of DNA damage / large ribosomal subunit rRNA binding / cell population proliferation / mRNA processing / large ribosomal subunit / ribosomal large subunit assembly / regulation of translation / 5S rRNA binding / double-stranded RNA binding / ribosome biogenesis / ribonucleoprotein complex / cell junction / cytosolic small ribosomal subunit / small ribosomal subunit / protein-containing complex assembly / mitochondrial inner membrane / negative regulation of translation / tRNA binding / ribosome / rRNA binding / nuclear body / nuclear membrane / hydrolase activity / go:0055114: / structural constituent of ribosome / mitochondrial matrix / cell cycle / translation / mRNA binding / intracellular membrane-bounded organelle / protein domain specific binding / nucleotide binding / GTP binding / apoptotic process / nucleolus / viral process / positive regulation of transcription, DNA-templated / protein homodimerization activity / protein-containing complex / mitochondrion / RNA binding / extracellular space / nucleoplasm / plasma membrane / nucleus / cytosol / cytoplasm
Ribosomal protein 63, mitochondrial / Ribosomal protein L13, bacterial-type / Ribosomal protein S15, bacterial-type / Ribosomal protein S5, C-terminal / Ribosomal protein L18 / Ribosomal protein S12, bacterial-type / Ribosomal protein S2, bacteria/mitochondria/plastid / Ribosomal protein L22, bacterial/chloroplast-type / Ribosomal protein L15, bacterial-type / Ribosomal protein L20 ...Ribosomal protein 63, mitochondrial / Ribosomal protein L13, bacterial-type / Ribosomal protein S15, bacterial-type / Ribosomal protein S5, C-terminal / Ribosomal protein L18 / Ribosomal protein S12, bacterial-type / Ribosomal protein S2, bacteria/mitochondria/plastid / Ribosomal protein L22, bacterial/chloroplast-type / Ribosomal protein L15, bacterial-type / Ribosomal protein L20 / Ribosomal protein L13 / KOW / Ribosomal protein L24 / Ribosomal protein L24/L26, conserved site / Ribosomal protein L30, bacterial-type / Ribosomal protein S12/S23 / Ribosomal protein L11, bacterial-type / Tim44-like domain / Ribosomal protein L49/IMG2 / Ribosomal protein/NADH dehydrogenase domain / Ribosomal protein S29, mitochondrial / Phosphatidylethanolamine-binding protein / Ribosomal protein L7/L12, oligomerisation / TGS / Pentatricopeptide repeat / Translation protein, beta-barrel domain superfamily / Ribosomal protein S18 / Ribosomal protein L36 / Ribosomal protein S6 / Ribosomal protein S15 / Ribosomal protein L3 / Ribosomal protein S9 / Ribosomal protein S5 / Ribosomal protein L11/L12 / Ribosomal protein L22/L17 / Ribosomal protein S14 / Ribosomal protein L27 / Ribosomal protein L32p / Ribosomal protein L33 / Membrane insertase YidC/ALB3/OXA1/COX18 / Ribosomal protein L21 / Ribosomal protein L10P / Ribosomal protein L19 / Ribosomal protein S2 / Ribosomal protein S21 / Ribosomal protein S11 / Ribosomal protein L4/L1e / Ribosomal protein L2 / Translation protein SH3-like domain superfamily / Ribosomal protein L9/RNase H1, N-terminal / Peptide chain release factor class I / Ribosomal protein L27/L41, mitochondrial / Ribosomal protein L9, N-terminal / Ribosomal S11, conserved site / Ribosomal protein S2, conserved site / Threonyl/alanyl tRNA synthetase, class II-like, putative editing domain superfamily / Ribosomal protein S5, N-terminal, conserved site / Ribosomal protein S18, conserved site / Ribosomal protein L50, mitochondria / Growth arrest/ DNA-damage-inducible protein-interacting protein 1 / Ribosomal protein L55, mitochondrial / Ribosomal protein L28/L40, mitochondrial / Ribosomal protein L30, ferredoxin-like fold domain / 28S ribosomal protein S27, mitochondrial / Ribosomal protein L35, mitochondrial / 39S ribosomal protein L42, mitochondrial / Ribosomal protein S24/S35, mitochondrial, conserved domain / Ribosomal protein S23/S29, mitochondrial / Ribosomal protein L51, mitochondrial / Ribosomal protein S22, mitochondrial / Ribosomal protein S28, mitochondrial / Ribosomal protein S23, mitochondrial / Ribosomal protein L53, mitochondrial / Ribosomal protein L10e/L16 / NUDIX hydrolase-like domain superfamily / S15/NS1, RNA-binding / Ribosomal protein L23/L15e core domain superfamily / Cysteine alpha-hairpin motif superfamily / CHCH / Ribosomal protein L47, mitochondrial / Ribosomal protein L37/S30 / Zinc-binding ribosomal protein / Tetratricopeptide-like helical domain superfamily / Nucleic acid-binding, OB-fold / Beta-grasp domain superfamily / TGS-like / Nucleotide-binding alpha-beta plait domain superfamily / 50S ribosomal protein uL4 / Ribosomal protein L2, domain 2 / Ribosomal protein L25/L23 / Domain of unknown function DUF1713 / Ribosomal protein S27/S33, mitochondrial / Ribosomal protein S5, N-terminal / Ribosomal protein L7/L12, C-terminal / Ribosomal protein L37, mitochondrial / Translation elongation factor EF1B/ribosomal protein S6 / Ribosomal protein L7/L12, C-terminal/adaptor protein ClpS-like / Double-stranded RNA-binding domain / Ribosomal protein S5 domain 2-type fold, subgroup / Ribosomal protein L17
28S ribosomal protein S18b, mitochondrial / 39S ribosomal protein L9, mitochondrial / 39S ribosomal protein L47, mitochondrial / 39S ribosomal protein L44, mitochondrial / 39S ribosomal protein L46, mitochondrial / 39S ribosomal protein L18, mitochondrial / 39S ribosomal protein L37, mitochondrial / 28S ribosomal protein S26, mitochondrial / 39S ribosomal protein L4, mitochondrial / 39S ribosomal protein L13, mitochondrial ...28S ribosomal protein S18b, mitochondrial / 39S ribosomal protein L9, mitochondrial / 39S ribosomal protein L47, mitochondrial / 39S ribosomal protein L44, mitochondrial / 39S ribosomal protein L46, mitochondrial / 39S ribosomal protein L18, mitochondrial / 39S ribosomal protein L37, mitochondrial / 28S ribosomal protein S26, mitochondrial / 39S ribosomal protein L4, mitochondrial / 39S ribosomal protein L13, mitochondrial / 39S ribosomal protein L40, mitochondrial / 39S ribosomal protein L20, mitochondrial / 39S ribosomal protein L32, mitochondrial / 39S ribosomal protein L45, mitochondrial / Ribosomal protein 63, mitochondrial / 39S ribosomal protein L34, mitochondrial / 39S ribosomal protein L48, mitochondrial / Pentatricopeptide repeat domain-containing protein 3, mitochondrial / 39S ribosomal protein S30, mitochondrial / 39S ribosomal protein L17, mitochondrial / 28S ribosomal protein S23, mitochondrial / 28S ribosomal protein S28, mitochondrial / 28S ribosomal protein S18c, mitochondrial / 28S ribosomal protein S24, mitochondrial / 28S ribosomal protein S16, mitochondrial / 39S ribosomal protein L11, mitochondrial / 28S ribosomal protein S2, mitochondrial / 28S ribosomal protein S7, mitochondrial / 28S ribosomal protein S17, mitochondrial / 28S ribosomal protein S33, mitochondrial / 39S ribosomal protein S18a, mitochondrial / 39S ribosomal protein L27, mitochondrial / 39S ribosomal protein L36, mitochondrial / 39S ribosomal protein L15, mitochondrial / 39S ribosomal protein L35, mitochondrial / 39S ribosomal protein L39, mitochondrial / 39S ribosomal protein L16, mitochondrial / 39S ribosomal protein L22, mitochondrial / Aurora kinase A-interacting protein / 39S ribosomal protein L53, mitochondrial / 39S ribosomal protein L3, mitochondrial / 39S ribosomal protein L38, mitochondrial / 28S ribosomal protein S35, mitochondrial / 28S ribosomal protein S9, mitochondrial / 28S ribosomal protein S6, mitochondrial / 28S ribosomal protein S34, mitochondrial / 28S ribosomal protein S21, mitochondrial / 28S ribosomal protein S15, mitochondrial / 28S ribosomal protein S11, mitochondrial / 28S ribosomal protein S5, mitochondrial / 28S ribosomal protein S10, mitochondrial / 39S ribosomal protein L49, mitochondrial / 28S ribosomal protein S25, mitochondrial / 28S ribosomal protein S22, mitochondrial / 39S ribosomal protein L12, mitochondrial / 28S ribosomal protein S29, mitochondrial / 39S ribosomal protein L19, mitochondrial / 39S ribosomal protein L33, mitochondrial / 28S ribosomal protein S14, mitochondrial / 28S ribosomal protein S12, mitochondrial / 39S ribosomal protein L28, mitochondrial / Peptidyl-tRNA hydrolase ICT1, mitochondrial / Coiled-coil-helix-coiled-coil-helix domain-containing protein 1 / 39S ribosomal protein L41, mitochondrial / 39S ribosomal protein L24, mitochondrial / 28S ribosomal protein S31, mitochondrial / 28S ribosomal protein S27, mitochondrial / 39S ribosomal protein L30, mitochondrial / Growth arrest and DNA damage-inducible proteins-interacting protein 1 / 39S ribosomal protein L43, mitochondrial / 39S ribosomal protein L50, mitochondrial / 39S ribosomal protein L52, mitochondrial / Mitochondrial inner membrane protein OXA1L / 39S ribosomal protein L10, mitochondrial / 39S ribosomal protein L55, mitochondrial / 39S ribosomal protein L21, mitochondrial / 39S ribosomal protein L14, mitochondrial / 39S ribosomal protein L54, mitochondrial / 39S ribosomal protein L2, mitochondrial / 39S ribosomal protein L51, mitochondrial / 39S ribosomal protein L23, mitochondrial / 39S ribosomal protein L42, mitochondrial
Biological speciesHomo sapiens (human) / Human (human)
Methodsingle particle reconstruction / cryo EM / Resolution: 2.89 Å
AuthorsItoh Y / Andrell J / Amunts A
Funding support Sweden, 1 items
OrganizationGrant numberCountry
European Research Council (ERC) Sweden
CitationJournal: Science / Year: 2021
Title: Mechanism of membrane-tethered mitochondrial protein synthesis.
Authors: Yuzuru Itoh / Juni Andréll / Austin Choi / Uwe Richter / Priyanka Maiti / Robert B Best / Antoni Barrientos / Brendan J Battersby / Alexey Amunts /
Abstract: Mitochondrial ribosomes (mitoribosomes) are tethered to the mitochondrial inner membrane to facilitate the cotranslational membrane insertion of the synthesized proteins. We report cryo-electron ...Mitochondrial ribosomes (mitoribosomes) are tethered to the mitochondrial inner membrane to facilitate the cotranslational membrane insertion of the synthesized proteins. We report cryo-electron microscopy structures of human mitoribosomes with nascent polypeptide, bound to the insertase oxidase assembly 1-like (OXA1L) through three distinct contact sites. OXA1L binding is correlated with a series of conformational changes in the mitoribosomal large subunit that catalyze the delivery of newly synthesized polypeptides. The mechanism relies on the folding of mL45 inside the exit tunnel, forming two specific constriction sites that would limit helix formation of the nascent chain. A gap is formed between the exit and the membrane, making the newly synthesized proteins accessible. Our data elucidate the basis by which mitoribosomes interact with the OXA1L insertase to couple protein synthesis and membrane delivery.
Validation ReportSummary, Full report, XML, About validation report
History
DepositionJul 1, 2020-
Header (metadata) releaseJan 13, 2021-
Map releaseJan 13, 2021-
UpdateMar 3, 2021-
Current statusMar 3, 2021Processing site: PDBe / Status: Released

-
Structure visualization

Movie
  • Surface view with section colored by density value
  • Surface level: 3
  • Imaged by UCSF Chimera
  • Download
  • Surface view colored by height
  • Surface level: 3
  • Imaged by UCSF Chimera
  • Download
  • Surface view with fitted model
  • Atomic models: PDB-6zm5
  • Surface level: 3
  • Imaged by UCSF Chimera
  • Download
Movie viewer
Structure viewerEM map:
SurfViewMolmilJmol/JSmol
Supplemental images

Downloads & links

-
Map

FileDownload / File: emd_11278.map.gz / Format: CCP4 / Size: 600.7 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesX (Sec.)Y (Row.)Z (Col.)
0.83 Å/pix.
x 540 pix.
= 448.2 Å
0.83 Å/pix.
x 540 pix.
= 448.2 Å
0.83 Å/pix.
x 540 pix.
= 448.2 Å

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 0.83 Å
Density
Contour LevelBy AUTHOR: 3.0 / Movie #1: 3
Minimum - Maximum-22.326777 - 42.749557
Average (Standard dev.)0.0042639575 (±1.0917519)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderZYX
Origin000
Dimensions540540540
Spacing540540540
CellA=B=C: 448.19998 Å
α=β=γ: 90.0 °

CCP4 map header:

modeImage stored as Reals
Å/pix. X/Y/Z0.830.830.83
M x/y/z540540540
origin x/y/z0.0000.0000.000
length x/y/z448.200448.200448.200
α/β/γ90.00090.00090.000
start NX/NY/NZ000
NX/NY/NZ540540540
MAP C/R/S321
start NC/NR/NS000
NC/NR/NS540540540
D min/max/mean-22.32742.7500.004

-
Supplemental data

-
Segmentation: #1

Fileemd_11278_msk_1.map
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

-
Additional map: Combined map of five local-masked refined maps without sharpening.

Fileemd_11278_additional_1.map
AnnotationCombined map of five local-masked refined maps without sharpening.
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

-
Half map: Local-masked refined map using the mask covering the...

Fileemd_11278_half_map_1.map
AnnotationLocal-masked refined map using the mask covering the LSU-core and the insertase.
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

-
Half map: Local-masked refined map using the mask covering the...

Fileemd_11278_half_map_2.map
AnnotationLocal-masked refined map using the mask covering the LSU-core and the insertase.
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

-
Sample components

+
Entire Translating ribosome with insertase

EntireName: Translating ribosome with insertase
Details: Mitochondrial ribosome in complex with OXA1L, mRNA, A/A tRNA, P/P tRNA and nascent polypeptide
Number of components: 101

+
Component #1: protein, Translating ribosome with insertase

ProteinName: Translating ribosome with insertase
Details: Mitochondrial ribosome in complex with OXA1L, mRNA, A/A tRNA, P/P tRNA and nascent polypeptide
Recombinant expression: No
MassTheoretical: 2 MDa
SourceSpecies: Homo sapiens (human)

+
Component #2: protein, Large subunit of ribosome

ProteinName: Large subunit of ribosome / Recombinant expression: No
SourceSpecies: Homo sapiens (human)

+
Component #3: protein, Small subunit of ribosome

ProteinName: Small subunit of ribosome / Recombinant expression: No
SourceSpecies: Homo sapiens (human)

+
Component #4: protein, OXA1L insertase

ProteinName: OXA1L insertase / Recombinant expression: No
SourceSpecies: Homo sapiens (human)

+
Component #5: nucleic-acid, 16S mitochondrial rRNA

nucleic acidName: 16S mitochondrial rRNA / Class: RNA / Structure: OTHER / Synthetic: No
Sequence: GCUAAACCUA GCCCCAAACC CACUCCACCU UACUACCAGA CAACCUUAGC CAAACCAUUU ACCCAAAUAA AGUAUAGGCG AUAGAAAUUG AAACCUGGCG CAAUAGAUAU AGUACCGCAA GGGAAAGAUG AAAAAUUAUA ACCAAGCAUA AUAUAGCAAG GACUAACCCC ...Sequence:
GCUAAACCUA GCCCCAAACC CACUCCACCU UACUACCAGA CAACCUUAGC CAAACCAUUU ACCCAAAUAA AGUAUAGGCG AUAGAAAUUG AAACCUGGCG CAAUAGAUAU AGUACCGCAA GGGAAAGAUG AAAAAUUAUA ACCAAGCAUA AUAUAGCAAG GACUAACCCC UAUACCUUCU GCAUAAUGAA UUAACUAGAA AUAACUUUGC AAGGAGAGCC AAAGCUAAGA CCCCCGAAAC CAGACGAGCU ACCUAAGAAC AGCUAAAAGA GCACACCCGU CUAUGUAGCA AAAUAGUGGG AAGAUUUAUA GGUAGAGGCG ACAAACCUAC CGAGCCUGGU GAUAGCUGGU UGUCCAAGAU AGAAUCUUAG UUCAACUUUA AAUUUGCCCA CAGAACCCUC UAAAUCCCCU UGUAAAUUUA ACUGUUAGUC CAAAGAGGAA CAGCUCUUUG GACACUAGGA AAAAACCUUG UAGAGAGAGU AAAAAAUUUA ACACCCAUAG UAGGCCUAAA AGCAGCCACC AAUUAAGAAA GCGUUCAAGC UCAACACCCA CUACCUAAAA AAUCCCAAAC AUAUAACUGA ACUCCUCACA CCCAAUUGGA CCAAUCUAUC ACCCUAUAGA AGAACUAAUG UUAGUAUAAG UAACAUGAAA ACAUUCUCCU CCGCAUAAGC CUGCGUCAGA UUAAAACACU GAACUGACAA UUAACAGCCC AAUAUCUACA AUCAACCAAC AAGUCAUUAU UACCCUCACU GUCAACCCAA CACAGGCAUG CUCAUAAGGA AAGGUUAAAA AAAGUAAAAG GAACUCGGCA AAUCUUACCC CGCCUGUUUA CCAAAAACAU CACCUCUAGC AUCACCAGUA UUAGAGGCAC CGCCUGCCCA GUGACACAUG UUUAACGGCC GCGGUACCCU AACCGUGCAA AGGUAGCAUA AUCACUUGUU CCUUAAAUAG GGACCUGUAU GAAUGGCUCC ACGAGGGUUC AGCUGUCUCU UACUUUUAAC CAGUGAAAUU GACCUGCCCG UGAAGAGGCG GGCAUAACAC AGCAAGACGA GAAGACCCUA UGGAGCUUUA AUUUAUUAAU GCAAACAGUA CCUAACAAAC CCACAGGUCC UAAACUACCA AACCUGCAUU AAAAAUUUCG GUUGGGGCGA CCUCGGAGCA GAACCCAACC UCCGAGCAGU ACAUGCUAAG ACUUCACCAG UCAAAGCGAA CUACUAUACU CAAUUGAUCC AAUAACUUGA CCAACGGAAC AAGUUACCCU AGGGAUAACA GCGCAAUCCU AUUCUAGAGU CCAUAUCAAC AAUAGGGUUU ACGACCUCGA UGUUGGAUCA GGACAUCCCG AUGGUGCAGC CGCUAUUAAA GGUUCGUUUG UUCAACGAUU AAAGUCCUAC GUGAUCUGAG UUCAGACCGG AGUAAUCCAG GUCGGUUUCU AUCUACUUUC AAAUUCCUCC CUGUACGAAA GGACAAGAGA AAUAAGGCCU ACUUCACAAA GCGCCUUCCC CCGUAAAUGA UAUCAUCUCA ACUUAGUAUU AUACCCACAC CCACCCAAGA ACAGGGUUUG U
MassTheoretical: 500.671 kDa
SourceSpecies: Human (human)

+
Component #6: nucleic-acid, mitochondrial tRNAVal

nucleic acidName: mitochondrial tRNAVal / Class: RNA / Structure: OTHER / Synthetic: No
Sequence:
CAGAGUGUAG CUUAACACAA AGCACCCAAC UUACACUUAG GAGAUUUCAA CUUAACUUGA CCGCUCUGAC CA
MassTheoretical: 22.961699 kDa
SourceSpecies: Human (human)

+
Component #7: protein, 39S ribosomal protein L2, mitochondrial

ProteinName: 39S ribosomal protein L2, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 33.355941 kDa
SourceSpecies: Human (human)

+
Component #8: protein, 39S ribosomal protein L3, mitochondrial

ProteinName: 39S ribosomal protein L3, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 38.689562 kDa
SourceSpecies: Human (human)

+
Component #9: protein, 39S ribosomal protein L4, mitochondrial

ProteinName: 39S ribosomal protein L4, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 34.970195 kDa
SourceSpecies: Human (human)

+
Component #10: protein, 39S ribosomal protein L9, mitochondrial

ProteinName: 39S ribosomal protein L9, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 30.296355 kDa
SourceSpecies: Human (human)

+
Component #11: protein, 39S ribosomal protein L10, mitochondrial

ProteinName: 39S ribosomal protein L10, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 29.322529 kDa
SourceSpecies: Human (human)

+
Component #12: protein, 39S ribosomal protein L11, mitochondrial

ProteinName: 39S ribosomal protein L11, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 20.716227 kDa
SourceSpecies: Human (human)

+
Component #13: protein, 39S ribosomal protein L13, mitochondrial

ProteinName: 39S ribosomal protein L13, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 20.633824 kDa
SourceSpecies: Human (human)

+
Component #14: protein, 39S ribosomal protein L14, mitochondrial

ProteinName: 39S ribosomal protein L14, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 15.973702 kDa
SourceSpecies: Human (human)

+
Component #15: protein, 39S ribosomal protein L15, mitochondrial

ProteinName: 39S ribosomal protein L15, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 33.47382 kDa
SourceSpecies: Human (human)

+
Component #16: protein, 39S ribosomal protein L16, mitochondrial

ProteinName: 39S ribosomal protein L16, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 28.496285 kDa
SourceSpecies: Human (human)

+
Component #17: protein, 39S ribosomal protein L17, mitochondrial

ProteinName: 39S ribosomal protein L17, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 20.083266 kDa
SourceSpecies: Human (human)

+
Component #18: protein, 39S ribosomal protein L18, mitochondrial

ProteinName: 39S ribosomal protein L18, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 20.60757 kDa
SourceSpecies: Human (human)

+
Component #19: protein, 39S ribosomal protein L19, mitochondrial

ProteinName: 39S ribosomal protein L19, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 33.584996 kDa
SourceSpecies: Human (human)

+
Component #20: protein, 39S ribosomal protein L20, mitochondrial

ProteinName: 39S ribosomal protein L20, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 17.479654 kDa
SourceSpecies: Human (human)

+
Component #21: protein, 39S ribosomal protein L21, mitochondrial

ProteinName: 39S ribosomal protein L21, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 22.847682 kDa
SourceSpecies: Human (human)

+
Component #22: protein, 39S ribosomal protein L22, mitochondrial

ProteinName: 39S ribosomal protein L22, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 23.683732 kDa
SourceSpecies: Human (human)

+
Component #23: protein, 39S ribosomal protein L23, mitochondrial

ProteinName: 39S ribosomal protein L23, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 17.718029 kDa
SourceSpecies: Human (human)

+
Component #24: protein, 39S ribosomal protein L24, mitochondrial

ProteinName: 39S ribosomal protein L24, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 24.953875 kDa
SourceSpecies: Human (human)

+
Component #25: protein, 39S ribosomal protein L27, mitochondrial

ProteinName: 39S ribosomal protein L27, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 16.102859 kDa
SourceSpecies: Human (human)

+
Component #26: protein, 39S ribosomal protein L28, mitochondrial

ProteinName: 39S ribosomal protein L28, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 30.202867 kDa
SourceSpecies: Human (human)

+
Component #27: protein, 39S ribosomal protein L47, mitochondrial

ProteinName: 39S ribosomal protein L47, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 29.508535 kDa
SourceSpecies: Human (human)

+
Component #28: protein, 39S ribosomal protein L30, mitochondrial

ProteinName: 39S ribosomal protein L30, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 18.582812 kDa
SourceSpecies: Human (human)

+
Component #29: protein, 39S ribosomal protein L32, mitochondrial

ProteinName: 39S ribosomal protein L32, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 21.437799 kDa
SourceSpecies: Human (human)

+
Component #30: protein, 39S ribosomal protein L33, mitochondrial

ProteinName: 39S ribosomal protein L33, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 7.635204 kDa
SourceSpecies: Human (human)

+
Component #31: protein, 39S ribosomal protein L34, mitochondrial

ProteinName: 39S ribosomal protein L34, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 10.183913 kDa
SourceSpecies: Human (human)

+
Component #32: protein, 39S ribosomal protein L35, mitochondrial

ProteinName: 39S ribosomal protein L35, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 21.558488 kDa
SourceSpecies: Human (human)

+
Component #33: protein, 39S ribosomal protein L36, mitochondrial

ProteinName: 39S ribosomal protein L36, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 11.809301 kDa
SourceSpecies: Human (human)

+
Component #34: protein, 39S ribosomal protein L37, mitochondrial

ProteinName: 39S ribosomal protein L37, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 48.183344 kDa
SourceSpecies: Human (human)

+
Component #35: protein, 39S ribosomal protein L38, mitochondrial

ProteinName: 39S ribosomal protein L38, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 44.65943 kDa
SourceSpecies: Human (human)

+
Component #36: protein, 39S ribosomal protein L39, mitochondrial

ProteinName: 39S ribosomal protein L39, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 38.764785 kDa
SourceSpecies: Human (human)

+
Component #37: protein, 39S ribosomal protein L40, mitochondrial

ProteinName: 39S ribosomal protein L40, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 24.534422 kDa
SourceSpecies: Human (human)

+
Component #38: protein, 39S ribosomal protein L41, mitochondrial

ProteinName: 39S ribosomal protein L41, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 15.404708 kDa
SourceSpecies: Human (human)

+
Component #39: protein, 39S ribosomal protein L42, mitochondrial

ProteinName: 39S ribosomal protein L42, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 16.691176 kDa
SourceSpecies: Human (human)

+
Component #40: protein, 39S ribosomal protein L43, mitochondrial

ProteinName: 39S ribosomal protein L43, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 23.368631 kDa
SourceSpecies: Human (human)

+
Component #41: protein, 39S ribosomal protein L44, mitochondrial

ProteinName: 39S ribosomal protein L44, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 37.583312 kDa
SourceSpecies: Human (human)

+
Component #42: protein, 39S ribosomal protein L45, mitochondrial

ProteinName: 39S ribosomal protein L45, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 35.402918 kDa
SourceSpecies: Human (human)

+
Component #43: protein, 39S ribosomal protein L46, mitochondrial

ProteinName: 39S ribosomal protein L46, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 31.748107 kDa
SourceSpecies: Human (human)

+
Component #44: protein, 39S ribosomal protein L48, mitochondrial

ProteinName: 39S ribosomal protein L48, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 23.970814 kDa
SourceSpecies: Human (human)

+
Component #45: protein, 39S ribosomal protein L49, mitochondrial

ProteinName: 39S ribosomal protein L49, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 19.225043 kDa
SourceSpecies: Human (human)

+
Component #46: protein, 39S ribosomal protein L50, mitochondrial

ProteinName: 39S ribosomal protein L50, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 18.349943 kDa
SourceSpecies: Human (human)

+
Component #47: protein, 39S ribosomal protein L51, mitochondrial

ProteinName: 39S ribosomal protein L51, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 15.125917 kDa
SourceSpecies: Human (human)

+
Component #48: protein, 39S ribosomal protein L52, mitochondrial

ProteinName: 39S ribosomal protein L52, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 13.682658 kDa
SourceSpecies: Human (human)

+
Component #49: protein, 39S ribosomal protein L53, mitochondrial

ProteinName: 39S ribosomal protein L53, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 12.036701 kDa
SourceSpecies: Human (human)

+
Component #50: protein, 39S ribosomal protein L54, mitochondrial

ProteinName: 39S ribosomal protein L54, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 15.844178 kDa
SourceSpecies: Human (human)

+
Component #51: protein, 39S ribosomal protein L55, mitochondrial

ProteinName: 39S ribosomal protein L55, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 15.160433 kDa
SourceSpecies: Human (human)

+
Component #52: protein, Ribosomal protein 63, mitochondrial

ProteinName: Ribosomal protein 63, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 12.292333 kDa
SourceSpecies: Human (human)

+
Component #53: protein, Peptidyl-tRNA hydrolase ICT1, mitochondrial

ProteinName: Peptidyl-tRNA hydrolase ICT1, mitochondrial / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 23.674203 kDa
SourceSpecies: Human (human)

+
Component #54: protein, Growth arrest and DNA damage-inducible proteins-interact...

ProteinName: Growth arrest and DNA damage-inducible proteins-interacting protein 1
Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 25.426895 kDa
SourceSpecies: Human (human)

+
Component #55: protein, 39S ribosomal protein S18a, mitochondrial

ProteinName: 39S ribosomal protein S18a, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 22.224078 kDa
SourceSpecies: Human (human)

+
Component #56: protein, 39S ribosomal protein S30, mitochondrial

ProteinName: 39S ribosomal protein S30, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 50.429578 kDa
SourceSpecies: Human (human)

+
Component #57: protein, 39S ribosomal protein L12, mitochondrial

ProteinName: 39S ribosomal protein L12, mitochondrialRibosome / Number of Copies: 6 / Recombinant expression: No
MassTheoretical: 21.378164 kDa
SourceSpecies: Human (human)

+
Component #58: nucleic-acid, 12S mitochondrial rRNA

nucleic acidName: 12S mitochondrial rRNA / Class: RNA / Structure: OTHER / Synthetic: No
Sequence: AUAGGUUUGG UCCUAGCCUU UCUAUUAGCU CUUAGUAAGA UUACACAUGC AAGCAUCCCC GUUCCAGUGA GUUCACCCUC UAAAUCACCA CGAUCAAAAG GGACAAGCAU CAAGCACGCA GCAAUGCAGC UCAAAACGCU UAGCCUAGCC ACACCCCCAC GGGAAACAGC ...Sequence:
AUAGGUUUGG UCCUAGCCUU UCUAUUAGCU CUUAGUAAGA UUACACAUGC AAGCAUCCCC GUUCCAGUGA GUUCACCCUC UAAAUCACCA CGAUCAAAAG GGACAAGCAU CAAGCACGCA GCAAUGCAGC UCAAAACGCU UAGCCUAGCC ACACCCCCAC GGGAAACAGC AGUGAUUAAC CUUUAGCAAU AAACGAAAGU UUAACUAAGC UAUACUAACC CCAGGGUUGG UCAAUUUCGU GCCAGCCACC GCGGUCACAC GAUUAACCCA AGUCAAUAGA AGCCGGCGUA AAGAGUGUUU UAGAUCACCC CCUCCCCAAU AAAGCUAAAA CUCACCUGAG UUGUAAAAAA CUCCAGUUGA CACAAAAUAG ACUACGAAAG UGGCUUUAAC AUAUCUGAAC ACACAAUAGC UAAGACCCAA ACUGGGAUUA GAUACCCCAC UAUGCUUAGC CCUAAACCUC AACAGUUAAA UCAACAAAAC UGCUCGCCAG AACACUACGA GCCACAGCUU AAAACUCAAA GGACCUGGCG GUGCUUCAUA UCCCUCUAGA GGAGCCUGUU CUGUAAUCGA UAAACCCCGA UCAACCUCAC CACCUCUUGC UCAGCCUAUA UACCGCCAUC UUCAGCAAAC CCUGAUGAAG GCUACAAAGU AAGCGCAAGU ACCCACGUAA AGACGUUAGG UCAAGGUGUA GCCCAUGAGG UGGCAAGAAA UGGGCUACAU UUUCUACCCC AGAAAACUAC GAUAGCCCUU AUGAAACUUA AGGGUCGAAG GUGGAUUUAG CAGUAAACUG AGAGUAGAGU GCUUAGUUGA ACAGGGCCCU GAAGCGCGUA CACACCGCCC GUCACCCUCC UCAAGUAUAC UUCAAAGGAC AUUUAACUAA AACCCCUACG CAUUUAUAUA GAGGAGACAA GUCGUAACAU GGUAAGUGUA CUGGAAAGUG CACUUGGACG AACC
MassTheoretical: 306.120094 kDa
SourceSpecies: Human (human)

+
Component #59: protein, 28S ribosomal protein S2, mitochondrial

ProteinName: 28S ribosomal protein S2, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 33.298238 kDa
SourceSpecies: Human (human)

+
Component #60: protein, 28S ribosomal protein S24, mitochondrial

ProteinName: 28S ribosomal protein S24, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 19.046164 kDa
SourceSpecies: Human (human)

+
Component #61: protein, 28S ribosomal protein S5, mitochondrial

ProteinName: 28S ribosomal protein S5, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 48.094594 kDa
SourceSpecies: Human (human)

+
Component #62: protein, 28S ribosomal protein S6, mitochondrial

ProteinName: 28S ribosomal protein S6, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 14.250588 kDa
SourceSpecies: Human (human)

+
Component #63: protein, 28S ribosomal protein S7, mitochondrial

ProteinName: 28S ribosomal protein S7, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 28.186154 kDa
SourceSpecies: Human (human)

+
Component #64: protein, 28S ribosomal protein S9, mitochondrial

ProteinName: 28S ribosomal protein S9, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 45.909859 kDa
SourceSpecies: Human (human)

+
Component #65: protein, 28S ribosomal protein S10, mitochondrial

ProteinName: 28S ribosomal protein S10, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 23.0335 kDa
SourceSpecies: Human (human)

+
Component #66: protein, 28S ribosomal protein S11, mitochondrial

ProteinName: 28S ribosomal protein S11, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 20.649779 kDa
SourceSpecies: Human (human)

+
Component #67: protein, 28S ribosomal protein S12, mitochondrial

ProteinName: 28S ribosomal protein S12, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 15.200947 kDa
SourceSpecies: Human (human)

+
Component #68: protein, 28S ribosomal protein S14, mitochondrial

ProteinName: 28S ribosomal protein S14, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 15.168788 kDa
SourceSpecies: Human (human)

+
Component #69: protein, 28S ribosomal protein S15, mitochondrial

ProteinName: 28S ribosomal protein S15, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 29.903293 kDa
SourceSpecies: Human (human)

+
Component #70: protein, 28S ribosomal protein S16, mitochondrial

ProteinName: 28S ribosomal protein S16, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 15.371899 kDa
SourceSpecies: Human (human)

+
Component #71: protein, 28S ribosomal protein S17, mitochondrial

ProteinName: 28S ribosomal protein S17, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 14.526078 kDa
SourceSpecies: Human (human)

+
Component #72: protein, 28S ribosomal protein S18b, mitochondrial

ProteinName: 28S ribosomal protein S18b, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 29.440629 kDa
SourceSpecies: Human (human)

+
Component #73: protein, 28S ribosomal protein S18c, mitochondrial

ProteinName: 28S ribosomal protein S18c, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 15.876786 kDa
SourceSpecies: Human (human)

+
Component #74: protein, 28S ribosomal protein S21, mitochondrial

ProteinName: 28S ribosomal protein S21, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 10.675494 kDa
SourceSpecies: Human (human)

+
Component #75: protein, 28S ribosomal protein S22, mitochondrial

ProteinName: 28S ribosomal protein S22, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 41.337316 kDa
SourceSpecies: Human (human)

+
Component #76: protein, 28S ribosomal protein S23, mitochondrial

ProteinName: 28S ribosomal protein S23, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 21.805664 kDa
SourceSpecies: Human (human)

+
Component #77: protein, 28S ribosomal protein S25, mitochondrial

ProteinName: 28S ribosomal protein S25, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 20.146428 kDa
SourceSpecies: Human (human)

+
Component #78: protein, 28S ribosomal protein S26, mitochondrial

ProteinName: 28S ribosomal protein S26, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 24.25982 kDa
SourceSpecies: Human (human)

+
Component #79: protein, 28S ribosomal protein S27, mitochondrial

ProteinName: 28S ribosomal protein S27, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 47.669262 kDa
SourceSpecies: Human (human)

+
Component #80: protein, 28S ribosomal protein S28, mitochondrial

ProteinName: 28S ribosomal protein S28, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 20.878846 kDa
SourceSpecies: Human (human)

+
Component #81: protein, 28S ribosomal protein S29, mitochondrial

ProteinName: 28S ribosomal protein S29, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 45.634406 kDa
SourceSpecies: Human (human)

+
Component #82: protein, 28S ribosomal protein S31, mitochondrial

ProteinName: 28S ribosomal protein S31, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 45.391473 kDa
SourceSpecies: Human (human)

+
Component #83: protein, 28S ribosomal protein S33, mitochondrial

ProteinName: 28S ribosomal protein S33, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 12.657776 kDa
SourceSpecies: Human (human)

+
Component #84: protein, 28S ribosomal protein S34, mitochondrial

ProteinName: 28S ribosomal protein S34, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 25.695549 kDa
SourceSpecies: Human (human)

+
Component #85: protein, 28S ribosomal protein S35, mitochondrial

ProteinName: 28S ribosomal protein S35, mitochondrialRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 36.898328 kDa
SourceSpecies: Human (human)

+
Component #86: protein, Coiled-coil-helix-coiled-coil-helix domain-containing pr...

ProteinName: Coiled-coil-helix-coiled-coil-helix domain-containing protein 1
Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 13.409661 kDa
SourceSpecies: Human (human)

+
Component #87: protein, Aurora kinase A-interacting protein

ProteinName: Aurora kinase A-interacting protein / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 22.395326 kDa
SourceSpecies: Human (human)

+
Component #88: protein, Pentatricopeptide repeat domain-containing protein 3, mi...

ProteinName: Pentatricopeptide repeat domain-containing protein 3, mitochondrial
Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 78.648547 kDa
SourceSpecies: Human (human)

+
Component #89: protein, Mitochondrial inner membrane protein OXA1L

ProteinName: Mitochondrial inner membrane protein OXA1LInner mitochondrial membrane
Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 48.602688 kDa
SourceSpecies: Human (human)

+
Component #90: protein, Nascent polypeptide

ProteinName: Nascent polypeptide / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 2.292505 kDa
SourceSpecies: Human (human)

+
Component #91: nucleic-acid, A-site tRNA with aminoacylation

nucleic acidName: A-site tRNA with aminoacylation / Class: RNA
Details: Mixture of any mitochondrial tRNAs. Each residue was assigned as either A, U, G, or C, based on the density and conservation.
Structure: OTHER / Synthetic: No
Sequence:
UGGUAUAUAG UUUAAACAAA ACGAAUGAUU UCGACUCAUU AAAUUAUGAU AAUCAUAUUU ACCAACCA
MassTheoretical: 21.682877 kDa
SourceSpecies: Human (human)

+
Component #92: nucleic-acid, P-site tRNA

nucleic acidName: P-site tRNA / Class: RNA
Details: Mixture of any mitochondrial tRNAs. Each residue was assigned as either A, U, G, or C, based on the density and conservation.
Structure: OTHER / Synthetic: No
Sequence:
UAGGGAAUAG UUUAAAAAAC AGCUGACUUU CAAUCAGCAG AUGGAGGUUC AAUUCCUCCU UCCCUAACCA
MassTheoretical: 22.369307 kDa
SourceSpecies: Human (human)

+
Component #93: nucleic-acid, mRNA

nucleic acidName: mRNAMessenger RNA / Class: RNA
Details: Mixture of any mitochondrial mRNAs. Each residue was assigned as either A, U, G, or C, based on the density and conservation.
Structure: OTHER / Synthetic: No
Sequence:
UUUAAGAACG UGUUUAUUU
MassTheoretical: 6.00353 kDa
SourceSpecies: Human (human)

+
Component #94: ligand, MAGNESIUM ION

LigandName: MAGNESIUM ION / Number of Copies: 189 / Recombinant expression: No
MassTheoretical: 2.430505 MDa

+
Component #95: ligand, POTASSIUM ION

LigandName: POTASSIUM IONPotassium / Number of Copies: 44 / Recombinant expression: No
MassTheoretical: 3.909805 MDa

+
Component #96: ligand, ZINC ION

LigandName: ZINC ION / Number of Copies: 3 / Recombinant expression: No
MassTheoretical: 6.540905 MDa

+
Component #97: ligand, FE2/S2 (INORGANIC) CLUSTER

LigandName: FE2/S2 (INORGANIC) CLUSTER / Number of Copies: 3 / Recombinant expression: No
MassTheoretical: 0.17582 kDa

+
Component #98: ligand, ADENOSINE-5'-TRIPHOSPHATE

LigandName: ADENOSINE-5'-TRIPHOSPHATE / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 0.507181 kDa

+
Component #99: ligand, GUANOSINE-5'-TRIPHOSPHATE

LigandName: GUANOSINE-5'-TRIPHOSPHATEGuanosine triphosphate / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 0.52318 kDa

+
Component #100: ligand, ALANINE

LigandName: ALANINE / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 8.909305 MDa

+
Component #101: ligand, water

LigandName: water / Number of Copies: 470 / Recombinant expression: No
MassTheoretical: 1.801505 MDa

-
Experimental details

-
Sample preparation

SpecimenSpecimen state: Particle / Method: cryo EM
Sample solutionpH: 7.5
VitrificationInstrument: FEI VITROBOT MARK IV / Cryogen name: ETHANE / Temperature: 277 K / Humidity: 100 %

-
Electron microscopy imaging

Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company
ImagingMicroscope: FEI TITAN KRIOS
Electron gunElectron source: FIELD EMISSION GUN / Accelerating voltage: 300 kV / Electron dose: 30 e/Å2 / Illumination mode: FLOOD BEAM
LensMagnification: 165000 X (nominal) / Cs: 2.7 mm / Imaging mode: BRIGHT FIELD / Energy filter: GIF Quantum LS
Specimen HolderModel: FEI TITAN KRIOS AUTOGRID HOLDER
CameraDetector: GATAN K2 SUMMIT (4k x 4k)

-
Image acquisition

Image acquisitionNumber of digital images: 19655

-
Image processing

ProcessingMethod: single particle reconstruction / Applied symmetry: C1 (asymmetric) / Number of projections: 30744
3D reconstructionSoftware: RELION / Resolution: 2.89 Å / Resolution method: FSC 0.143 CUT-OFF
FSC plot (resolution estimation)

-
Atomic model buiding

Modeling #1Target criteria: Correlation coefficient / Refinement space: REAL
Input PDB model: 3J9M, 5OOL, 6RW4
Overall bvalue: 44
Output model

+
About Yorodumi

-
News

-
Aug 12, 2020. New: Covid-19 info

New: Covid-19 info

  • New page: Covid-19 featured information page in EM Navigator

Related info.:Covid-19 info / Mar 5, 2020. Novel coronavirus structure data

-
Mar 5, 2020. Novel coronavirus structure data

Novel coronavirus structure data

Related info.:Yorodumi Speices / Aug 12, 2020. New: Covid-19 info

External links:COVID-19 featured content - PDBj / Molecule of the Month (242):Coronavirus Proteases

+
Jan 31, 2019. EMDB accession codes are about to change! (news from PDBe EMDB page)

EMDB accession codes are about to change! (news from PDBe EMDB page)

  • The allocation of 4 digits for EMDB accession codes will soon come to an end. Whilst these codes will remain in use, new EMDB accession codes will include an additional digit and will expand incrementally as the available range of codes is exhausted. The current 4-digit format prefixed with “EMD-” (i.e. EMD-XXXX) will advance to a 5-digit format (i.e. EMD-XXXXX), and so on. It is currently estimated that the 4-digit codes will be depleted around Spring 2019, at which point the 5-digit format will come into force. (see PDBe EMDB page)
  • The EM Navigator/Yorodumi systems omit the EMD- prefix.

Related info.:Q: What is "EMD"? / ID/Accession-code notation in Yorodumi/EM Navigator

External links:EMDB at PDBe / Contact to PDBj

+
Jul 12, 2017. Major update of PDB

Major update of PDB

  • wwPDB released updated PDB data conforming to the new PDBx/mmCIF dictionary. This is a major update changing the version number from 4 to 5, and with Remediation, in which all the entries are updated. See below links for details.
  • In this update, many items about electron microscopy experimental information are reorganized (e.g. em_software). Now, EM Navigator and Yorodumi are based on the updated data.

External links:wwPDB Remediation / Enriched Model Files Conforming to OneDep Data Standards Now Available in the PDB FTP Archive

+
Jun 16, 2017. Omokage search with filter

Omokage search with filter

  • Result of Omokage search can be filtered by keywords and the database types

Related info.:Omokage search

Read more

-
Yorodumi

Thousand views of thousand structures

  • Yorodumi is a browser for structure data from EMDB, PDB, SASBDB, etc.
  • This page is also the successor to EM Navigator detail page, and also detail information page/front-end page for Omokage search.

Related info.:EMDB / PDB / SASBDB / Comparison of 3 databanks / Yorodumi Search / Aug 31, 2016. New EM Navigator & Yorodumi / Yorodumi Papers / Jmol/JSmol / Function and homology information / Changes in new EM Navigator and Yorodumi

Read more