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Protein Structures and Oligomeric States

Enter a protein name, UniProt accession or PDB ID. Name searches ask you to confirm the protein identity before related structures are queried.

Current Protein Identity：E7ESL0 New Search
21PDB entries
21Biological assembly
21chain/assembly records
Main Difference Dimensions in This Set
Different assembly state Different ligand/ion Different experimental conditions Different structure-quality metrics

Difference tags compare only the current result set; every original PDB and assembly record remains separate.

Related-Structure Differences

Each row represents one biological assembly in one PDB entry; multiple monomers of the same protein are listed separately.

PDB Entry Assembly / Oligomeric State Construct Mutations and Modifications Ligands, Ions and Non-polymers Experimental Method Experimental Conditions Structure Quality
3J7Y Structure of the large ribosomal subunit from human mitochondria Deposited 2014-08-26 Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 51-meric（51） Consistent with all polymers
Chain T 1–212（212 aa）
Not recorded AMP ADENOSINE MONOPHOSPHATE × 1 MG MAGNESIUM ION × 66 ZN ZINC ION × 3 ELECTRON MICROSCOPY
cryo-EM buffer 20 mM HEPES-KOH, pH 7.45, 100 mM potassium chloride, 20 mM magnesium acetate, 2 mM DTT；pH 7.45；20 mM HEPES-KOH, pH 7.45, 100 mM potassium chloride, 20 mM magnesium acetate, 2 mM DTT
cryo-EM vitrification conditions 90 K；Cryogen ETHANE；Blot 2.5 seconds before plunging into liquid ethane (FEI VITROBOT MARK II).
Resolution 3.40 Å
3J9M Structure of the human mitochondrial ribosome (class 1) Deposited 2015-02-08 Assembly 1 Protein–RNA Heteromer；Protein × 81 PDB declaration: 85-meric（85） Consistent with all polymers
Chain T 1–212（212 aa）
Not recorded MG MAGNESIUM ION × 127 ZN ZINC ION × 7 GDP GUANOSINE-5'-DIPHOSPHATE × 1 ELECTRON MICROSCOPY
cryo-EM buffer 20 mM HEPES-KOH, pH 7.45, 100 mM KCl, 20 mM MgOAc, 2 mM DTT；pH 7.45；20 mM HEPES-KOH, pH 7.45, 100 mM KCl, 20 mM MgOAc, 2 mM DTT
cryo-EM vitrification conditions Blot 2.5 seconds before plunging；90 K；Cryogen ETHANE；Blot 2.5 seconds before plunging into liquid ethane (FEI VITROBOT MARK II).
Resolution 3.50 Å
6I9R Large subunit of the human mitochondrial ribosome in complex with Virginiamycin M and Quinupristin Deposited 2018-11-25 Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 53-meric（53） Consistent with all polymers
Chain T 1–212（212 aa）
Not recorded ZN ZINC ION × 3 MG MAGNESIUM ION × 134 H8T Virginiamycin M × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.90 Å
6VLZ Structure of the human mitochondrial ribosome-EF-G1 complex (ClassI) Deposited 2020-01-27 Assembly 1 Other combination Heteromer；Protein × 85 PDB declaration: 90-meric（90） Consistent with all polymers
Chain T 1–212（212 aa）
Not recorded MG MAGNESIUM ION × 130 ZN ZINC ION × 7 GDP GUANOSINE-5'-DIPHOSPHATE × 1 GCP PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 2.97 Å
6VMI Structure of the human mitochondrial ribosome-EF-G1 complex (ClassIII) Deposited 2020-01-28 Assembly 1 Other combination Heteromer；Protein × 85 PDB declaration: 91-meric（91） Consistent with all polymers
Chain T 1–212（212 aa）
Not recorded MG MAGNESIUM ION × 130 ZN ZINC ION × 7 GDP GUANOSINE-5'-DIPHOSPHATE × 1 GCP PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 2.96 Å
6ZS9 Human mitochondrial ribosome in complex with ribosome recycling factor Deposited 2020-07-15 Assembly 1 Protein–RNA Heteromer；Protein × 88 PDB declaration: 91-meric（91） Consistent with all polymers
Chain XT 1–212（212 aa）
Not recorded ZN ZINC ION × 7 MG MAGNESIUM ION × 195 DOL 5-(2-DIETHYLAMINO-ETHANESULFONYL)-21-HYDROXY-10-ISOPROPYL-11,19-DIMETHYL-9,26-DIOXA-3,15,28-TRIAZA-TRICYCLO[23.2.1.00,255]OCTACOSA-1(27),12,17,19,25(28)-PENTAENE-2,8,14,23-TETRAONE × 1 GTP GUANOSINE-5'-TRIPHOSPHATE × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.00 Å
7A5H Structure of the split human mitoribosomal large subunit with rescue factors mtRF-R and MTRES1 Deposited 2020-08-21 Assembly 1 Protein–RNA Heteromer；Protein × 56 PDB declaration: 59-meric（59） Consistent with all polymers
Chain T 1–212（212 aa）
Not recorded MG MAGNESIUM ION × 92 ZN ZINC ION × 2 PNS 4'-PHOSPHOPANTETHEINE × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.30 Å
7A5I Structure of the human mitoribosome with A- P-and E-site mt-tRNAs Deposited 2020-08-21 Assembly 1 Protein–RNA Heteromer；Protein × 83 PDB declaration: 90-meric（90） Consistent with all polymers
Chain T3 1–212（212 aa）
Not recorded MG MAGNESIUM ION × 127 ZN ZINC ION × 7 CL CHLORIDE ION × 1 GDP GUANOSINE-5'-DIPHOSPHATE × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.70 Å
7A5J Structure of the split human mitoribosomal large subunit with P-and E-site mt-tRNAs Deposited 2020-08-21 Assembly 1 Protein–RNA Heteromer；Protein × 59 PDB declaration: 63-meric（63） Consistent with all polymers
Chain T 1–212（212 aa）
Not recorded MG MAGNESIUM ION × 92 ZN ZINC ION × 3 CL CHLORIDE ION × 2 NA SODIUM ION × 4 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.10 Å
7A5K Structure of the human mitoribosome in the post translocation state bound to mtEF-G1 Deposited 2020-08-21 Assembly 1 Protein–RNA Heteromer；Protein × 86 PDB declaration: 93-meric（93） Consistent with all polymers
Chain T3 1–212（212 aa）
Not recorded GCP PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER × 1 MG MAGNESIUM ION × 128 SPD SPERMIDINE × 1 ZN ZINC ION × 7 GDP GUANOSINE-5'-DIPHOSPHATE × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.70 Å
7L08 Cryo-EM structure of the human 55S mitoribosome-RRFmt complex. Deposited 2020-12-11 Assembly 1 Protein–RNA Heteromer；Protein × 84 PDB declaration: 87-meric（87） Consistent with all polymers
Chain T 1–212（212 aa）
Not recorded MG MAGNESIUM ION × 127 ZN ZINC ION × 7 GDP GUANOSINE-5'-DIPHOSPHATE × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.49 Å
7L20 Cryo-EM structure of the human 39S mitoribosomal subunit in complex with RRFmt and EF-G2mt. Deposited 2020-12-15 Assembly 1 Protein–RNA Heteromer；Protein × 55 PDB declaration: 57-meric（57） Consistent with all polymers
Chain T 1–212（212 aa）
Not recorded MG MAGNESIUM ION × 102 ZN ZINC ION × 3 GCP PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.15 Å
7O9K Human mitochondrial ribosome large subunit assembly intermediate with MTERF4-NSUN4, MRM2, MTG1, the MALSU module, GTPBP5 and mtEF-Tu Deposited 2021-04-16 Assembly 1 Protein–RNA Heteromer；Protein × 67 PDB declaration: 69-meric（69） Consistent with all polymers
Chain T 1–212（212 aa）
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 93 SAM S-ADENOSYLMETHIONINE × 1 GDP GUANOSINE-5'-DIPHOSPHATE × 2 GTP GUANOSINE-5'-TRIPHOSPHATE × 1 SAH S-ADENOSYL-L-HOMOCYSTEINE × 1 PNS 4'-PHOSPHOPANTETHEINE × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.10 Å
7O9M Human mitochondrial ribosome large subunit assembly intermediate with MTERF4-NSUN4, MRM2, MTG1 and the MALSU module Deposited 2021-04-16 Assembly 1 Protein–RNA Heteromer；Protein × 64 PDB declaration: 66-meric（66） Consistent with all polymers
Chain T 1–212（212 aa）
Not recorded MG MAGNESIUM ION × 104 GDP GUANOSINE-5'-DIPHOSPHATE × 1 ZN ZINC ION × 2 SAM S-ADENOSYLMETHIONINE × 1 PNS 4'-PHOSPHOPANTETHEINE × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 2.60 Å
8K2A Cryo-EM structure of the human 55S mitoribosome with Tigecycline Deposited 2023-07-12 Assembly 1 Protein–RNA Heteromer；Protein × 80 PDB declaration: 83-meric（83） Consistent with all polymers
Chain LV 1–212（212 aa）
Not recorded MG MAGNESIUM ION × 145 T1C TIGECYCLINE × 4 ZN ZINC ION × 7 GDP GUANOSINE-5'-DIPHOSPHATE × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 2.90 Å
8K2B Cryo-EM structure of the human 39S mitoribosome with Tigecycline Deposited 2023-07-12 Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 55-meric（55） Consistent with all polymers
Chain LV 1–212（212 aa）
Not recorded MG MAGNESIUM ION × 95 T1C TIGECYCLINE × 1 ZN ZINC ION × 3 PNS 4'-PHOSPHOPANTETHEINE × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.40 Å
8XT0 Cryo-EM structure of the human 55S mitoribosome with 5um Tigecycline Deposited 2024-01-10 Assembly 1 Protein–RNA Heteromer；Protein × 80 PDB declaration: 83-meric（83） Consistent with all polymers
Chain LV 1–212（212 aa）
Not recorded MG MAGNESIUM ION × 145 T1C TIGECYCLINE × 3 ZN ZINC ION × 7 GDP GUANOSINE-5'-DIPHOSPHATE × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.20 Å
8XT1 Cryo-EM structure of the human 39S mitoribosome with 5uM Tigecycline Deposited 2024-01-10 Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 52-meric（52） Consistent with all polymers
Chain LV 1–212（212 aa）
Not recorded MG MAGNESIUM ION × 95 T1C TIGECYCLINE × 1 ZN ZINC ION × 3 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.10 Å
8XT2 Cryo-EM structure of the human 55S mitoribosome with 10uM Tigecycline Deposited 2024-01-10 Assembly 1 Protein–RNA Heteromer；Protein × 80 PDB declaration: 83-meric（83） Consistent with all polymers
Chain LV 1–212（212 aa）
Not recorded MG MAGNESIUM ION × 145 T1C TIGECYCLINE × 3 ZN ZINC ION × 7 GDP GUANOSINE-5'-DIPHOSPHATE × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.30 Å
8XT3 Cryo-EM structure of the human 39S mitoribosome with 10uM Tigecycline Deposited 2024-01-10 Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 52-meric（52） Consistent with all polymers
Chain LV 1–212（212 aa）
Not recorded MG MAGNESIUM ION × 95 T1C TIGECYCLINE × 1 ZN ZINC ION × 3 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.10 Å
9CN3 Human 39S mitoribosome in complex with antibiotic Linezolid Deposited 2024-07-15 Assembly 1 Protein–RNA Heteromer；Protein × 54 PDB declaration: 56-meric（56） Consistent with all polymers
Chain T 1–212（212 aa）
Not recorded ZN ZINC ION × 3 MG MAGNESIUM ION × 102 ZLD N-{[(5S)-3-(3-fluoro-4-morpholin-4-ylphenyl)-2-oxo-1,3-oxazolidin-5-yl]methyl}acetamide × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 2.62 Å

This page presents structural evidence recorded in PDB/mmCIF.“No recorded non-water small molecule” does not prove that the experimental sample was ligand-free; experimental conditions belong to the PDB experiment, while ligands and copy counts are shown for each biological assembly.