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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：O14561 New Search
42PDB entries
44Biological assembly
52chain/assembly records
Main Difference Dimensions in This Set
Different construct Different mutation/modification Different assembly state Different ligand/ion Different experimental method 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
2DNW Solution structure of RSGI RUH-059, an ACP domain of acyl carrier protein, mitochondrial [Precursor] from human cDNA Deposited 2006-04-26 Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count
Chain A 69–156（88 aa） Fragment：acyl carrier protein
Not recorded No recorded non-water small molecule SOLUTION NMR
NMR measurement conditions pH 7；298 K；Ionic strength (raw mmCIF value) 120mM；Pressure ambient
NMR sample composition 0.91mM RSGI RUH-059 U-15N, 13C; 20mM d-Tris-HCl; 1mM d-DTT; 0.02% NaN3; 10% D2O, 90% H2O | 90% H2O/10% D2O
Resolution not provided
5OOL Structure of a native assembly intermediate of the human mitochondrial ribosome with unfolded interfacial rRNA Deposited 2017-08-08 Assembly 1 Protein–RNA Heteromer；Protein × 54 PDB declaration: 56-meric（56） Consistent with all polymers
Chain w 1–156（156 aa）
Not recorded MG MAGNESIUM ION × 92 ZN ZINC ION × 3 PNS 4'-PHOSPHOPANTETHEINE × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.45；2 mM Synercid (Santa Cruz Biotechnology, Inc) was added to reduce preferential orientation.
cryo-EM vitrification conditions Cryogen ETHANE；Sample incubated for 30 s prior to freezing.
Resolution 3.06 Å
5OOM Structure of a native assembly intermediate of the human mitochondrial ribosome with unfolded interfacial rRNA Deposited 2017-08-08 Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 55-meric（55） Consistent with all polymers
Chain w 1–156（156 aa）
Not recorded MG MAGNESIUM ION × 49 ZN ZINC ION × 2 PNS 4'-PHOSPHOPANTETHEINE × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.45；2 mM Synercid (Santa Cruz Biotechnology, Inc) was added to reduce preferential orientation.
cryo-EM vitrification conditions Cryogen ETHANE；Sample incubated for 30 s prior to freezing.
Resolution 3.03 Å
5XTB Cryo-EM structure of human respiratory complex I matrix arm Deposited 2017-06-18 Assembly 1 Protein heterocomplex Heteromer；Protein × 18 PDB declaration: octadecameric（18） Consistent with protein count
Chain G 72–156（85 aa）
Not recorded SF4 IRON/SULFUR CLUSTER × 6 FMN FLAVIN MONONUCLEOTIDE × 1 8Q1 S-[2-({N-[(2R)-2-hydroxy-3,3-dimethyl-4-(phosphonooxy)butanoyl]-beta-alanyl}amino)ethyl] dodecanethioate × 1 NDP NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE × 1 FES FE2/S2 (INORGANIC) CLUSTER × 2 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.40 Å
5XTC Cryo-EM structure of human respiratory complex I transmembrane arm Deposited 2017-06-19 Assembly 1 Protein heterocomplex Heteromer；Protein × 29 PDB declaration: 29-meric（29） Consistent with protein count
Chain X 72–156（85 aa）
Not recorded PLX (9R,11S)-9-({[(1S)-1-HYDROXYHEXADECYL]OXY}METHYL)-2,2-DIMETHYL-5,7,10-TRIOXA-2LAMBDA~5~-AZA-6LAMBDA~5~-PHOSPHAOCTACOSANE-6,6,11-TRIOL × 9 CDL CARDIOLIPIN × 5 PEE 1,2-dioleoyl-sn-glycero-3-phosphoethanolamine × 4 8Q1 S-[2-({N-[(2R)-2-hydroxy-3,3-dimethyl-4-(phosphonooxy)butanoyl]-beta-alanyl}amino)ethyl] dodecanethioate × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.70 Å
5XTD Cryo-EM structure of human respiratory complex I Deposited 2017-06-19 Assembly 1 Protein heterocomplex Heteromer；Protein × 45 PDB declaration: 45-meric（45） Consistent with protein count
Chain G 72–156（85 aa）
Chain X 72–156（85 aa）
Not recorded SF4 IRON/SULFUR CLUSTER × 6 FMN FLAVIN MONONUCLEOTIDE × 1 PLX (9R,11S)-9-({[(1S)-1-HYDROXYHEXADECYL]OXY}METHYL)-2,2-DIMETHYL-5,7,10-TRIOXA-2LAMBDA~5~-AZA-6LAMBDA~5~-PHOSPHAOCTACOSANE-6,6,11-TRIOL × 9 8Q1 S-[2-({N-[(2R)-2-hydroxy-3,3-dimethyl-4-(phosphonooxy)butanoyl]-beta-alanyl}amino)ethyl] dodecanethioate × 2 NDP NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE × 1 FES FE2/S2 (INORGANIC) CLUSTER × 2 CDL CARDIOLIPIN × 5 PEE 1,2-dioleoyl-sn-glycero-3-phosphoethanolamine × 4 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.70 Å
5XTH Cryo-EM structure of human respiratory supercomplex I1III2IV1 Deposited 2017-06-19 Assembly 1 Protein heterocomplex Heteromer；Protein × 80 PDB declaration: 80-meric（80） Consistent with protein count
Chain G 72–156（85 aa） Fragment：UNP RESIDUES 72-156
Chain X 72–156（85 aa） Fragment：UNP RESIDUES 72-156
Not recorded SF4 IRON/SULFUR CLUSTER × 6 FMN FLAVIN MONONUCLEOTIDE × 1 PLX (9R,11S)-9-({[(1S)-1-HYDROXYHEXADECYL]OXY}METHYL)-2,2-DIMETHYL-5,7,10-TRIOXA-2LAMBDA~5~-AZA-6LAMBDA~5~-PHOSPHAOCTACOSANE-6,6,11-TRIOL × 12 8Q1 S-[2-({N-[(2R)-2-hydroxy-3,3-dimethyl-4-(phosphonooxy)butanoyl]-beta-alanyl}amino)ethyl] dodecanethioate × 2 NDP NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE × 1 FES FE2/S2 (INORGANIC) CLUSTER × 4 CDL CARDIOLIPIN × 14 PEE 1,2-dioleoyl-sn-glycero-3-phosphoethanolamine × 10 CU COPPER (II) ION × 3 MG MAGNESIUM ION × 1 HEA HEME-A × 2 ZN ZINC ION × 1 HEC HEME C × 2 HEM PROTOPORPHYRIN IX CONTAINING FE × 4 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.90 Å
5XTI Cryo-EM architecture of human respiratory chain megacomplex-I2III2IV2 Deposited 2017-06-19 Assembly 1 Protein heterocomplex Heteromer；Protein × 138 PDB declaration: 138-meric（138） Consistent with protein count
Chain BG 72–156（85 aa） Fragment：UNP RESIDUES 72-196
Chain BX 72–156（85 aa） Fragment：UNP RESIDUES 72-196
Chain G 72–156（85 aa） Fragment：UNP RESIDUES 72-196
Chain X 72–156（85 aa） Fragment：UNP RESIDUES 72-196
Not recorded SF4 IRON/SULFUR CLUSTER × 12 FMN FLAVIN MONONUCLEOTIDE × 2 PLX (9R,11S)-9-({[(1S)-1-HYDROXYHEXADECYL]OXY}METHYL)-2,2-DIMETHYL-5,7,10-TRIOXA-2LAMBDA~5~-AZA-6LAMBDA~5~-PHOSPHAOCTACOSANE-6,6,11-TRIOL × 21 8Q1 S-[2-({N-[(2R)-2-hydroxy-3,3-dimethyl-4-(phosphonooxy)butanoyl]-beta-alanyl}amino)ethyl] dodecanethioate × 4 NDP NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE × 2 FES FE2/S2 (INORGANIC) CLUSTER × 6 CDL CARDIOLIPIN × 19 PEE 1,2-dioleoyl-sn-glycero-3-phosphoethanolamine × 14 CU COPPER (II) ION × 6 MG MAGNESIUM ION × 2 HEA HEME-A × 4 ZN ZINC ION × 2 HEC HEME C × 2 HEM PROTOPORPHYRIN IX CONTAINING FE × 4 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 17.40 Å
6ODD Crystal structure of the human complex ACP-ISD11 Deposited 2019-03-26 Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric（4） Consistent with protein count
Chain A 72–156（85 aa）
Not recorded 8Q1 S-[2-({N-[(2R)-2-hydroxy-3,3-dimethyl-4-(phosphonooxy)butanoyl]-beta-alanyl}amino)ethyl] dodecanethioate × 2 CA CALCIUM ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；293 K；The drop was a 1:1 mix of protein (in 10 mM Tris buffer, 25 mM NaCl, pH 7.5) and reservoir solution (0.1 M Tris pH 9.1, 0.1 M CaCl2, 23% tert-butanol)
Resolution 2.00 Å R-free 0.216
6ODD Crystal structure of the human complex ACP-ISD11 Deposited 2019-03-26 Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain A 72–156（85 aa）
Not recorded 8Q1 S-[2-({N-[(2R)-2-hydroxy-3,3-dimethyl-4-(phosphonooxy)butanoyl]-beta-alanyl}amino)ethyl] dodecanethioate × 1 CA CALCIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；293 K；The drop was a 1:1 mix of protein (in 10 mM Tris buffer, 25 mM NaCl, pH 7.5) and reservoir solution (0.1 M Tris pH 9.1, 0.1 M CaCl2, 23% tert-butanol)
Resolution 2.00 Å R-free 0.216
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 w 1–156（156 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
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 w 1–156（156 aa）
Non-standard monomer：Yes (specific site not provided by mmCIF) 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
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 w 1–156（156 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 w 1–156（156 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
7ODR State A of the human mitoribosomal large subunit assembly intermediate Deposited 2021-04-30 Assembly 1 Protein–RNA Heteromer；Protein × 55 PDB declaration: 57-meric（57） Consistent with all polymers
Chain w 1–156（156 aa）
Not recorded PM8 S-(2-{[N-(2-HYDROXY-4-{[HYDROXY(OXIDO)PHOSPHINO]OXY}-3,3-DIMETHYLBUTANOYL)-BETA-ALANYL]AMINO}ETHYL) DECANETHIOATE × 1 SAM S-ADENOSYLMETHIONINE × 1 ZN ZINC ION × 2 MG MAGNESIUM ION × 97 K POTASSIUM ION × 2 FES FE2/S2 (INORGANIC) CLUSTER × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.6
cryo-EM vitrification conditions Cryogen ETHANE-PROPANE；4 uL of the sample was blotted for 2-6 sec before plunging
Resolution 2.90 Å
7ODS State B of the human mitoribosomal large subunit assembly intermediate Deposited 2021-04-30 Assembly 1 Protein–RNA Heteromer；Protein × 56 PDB declaration: 58-meric（58） Consistent with all polymers
Chain w 1–156（156 aa）
Not recorded PM8 S-(2-{[N-(2-HYDROXY-4-{[HYDROXY(OXIDO)PHOSPHINO]OXY}-3,3-DIMETHYLBUTANOYL)-BETA-ALANYL]AMINO}ETHYL) DECANETHIOATE × 1 SAM S-ADENOSYLMETHIONINE × 1 ZN ZINC ION × 2 MG MAGNESIUM ION × 88 K POTASSIUM ION × 8 N ANY 5'-MONOPHOSPHATE NUCLEOTIDE × 1 FES FE2/S2 (INORGANIC) CLUSTER × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.6
cryo-EM vitrification conditions Cryogen ETHANE-PROPANE；4 uL of the sample was blotted for 2-6 sec before plunging
Resolution 3.10 Å
7ODT State C of the human mitoribosomal large subunit assembly intermediate Deposited 2021-04-30 Assembly 1 Protein–RNA Heteromer；Protein × 56 PDB declaration: 58-meric（58） Consistent with all polymers
Chain w 1–156（156 aa）
Not recorded GDP GUANOSINE-5'-DIPHOSPHATE × 1 MG MAGNESIUM ION × 95 PM8 S-(2-{[N-(2-HYDROXY-4-{[HYDROXY(OXIDO)PHOSPHINO]OXY}-3,3-DIMETHYLBUTANOYL)-BETA-ALANYL]AMINO}ETHYL) DECANETHIOATE × 1 SAM S-ADENOSYLMETHIONINE × 1 ZN ZINC ION × 2 K POTASSIUM ION × 10 FES FE2/S2 (INORGANIC) CLUSTER × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.6
cryo-EM vitrification conditions Cryogen ETHANE-PROPANE；4 uL of the sample was blotted for 2-6 sec before plunging
Resolution 3.10 Å
7OF0 Structure of a human mitochondrial ribosome large subunit assembly intermediate in complex with MTERF4-NSUN4 (dataset1). Deposited 2021-05-04 Assembly 1 Protein–RNA Heteromer；Protein × 54 PDB declaration: 56-meric（56） Consistent with all polymers
Chain w 1–156（156 aa）
Not recorded ZN ZINC ION × 3 MG MAGNESIUM ION × 61 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 2.20 Å
7OF2 Structure of a human mitochondrial ribosome large subunit assembly intermediate in complex with GTPBP6. Deposited 2021-05-04 Assembly 1 Protein–RNA Heteromer；Protein × 54 PDB declaration: 56-meric（56） Consistent with all polymers
Chain w 1–156（156 aa）
Not recorded ZN ZINC ION × 3 MG MAGNESIUM ION × 85 GTP GUANOSINE-5'-TRIPHOSPHATE × 3 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 2.70 Å
7OF3 Structure of a human mitochondrial ribosome large subunit assembly intermediate in complex with MTERF4-NSUN4 (dataset2). Deposited 2021-05-04 Assembly 1 Protein–RNA Heteromer；Protein × 54 PDB declaration: 56-meric（56） Consistent with all polymers
Chain w 1–156（156 aa）
Not recorded ZN ZINC ION × 3 MG MAGNESIUM ION × 58 GTP GUANOSINE-5'-TRIPHOSPHATE × 2 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 2.70 Å
7OF5 Structure of a human mitochondrial ribosome large subunit assembly intermediate in complex with MTERF4-NSUN4 and GTPBP5 (dataset2). Deposited 2021-05-04 Assembly 1 Protein–RNA Heteromer；Protein × 55 PDB declaration: 57-meric（57） Consistent with all polymers
Chain w 1–156（156 aa）
Not recorded ZN ZINC ION × 3 MG MAGNESIUM ION × 70 GTP GUANOSINE-5'-TRIPHOSPHATE × 2 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 2.90 Å
7OF7 Structure of a human mitochondrial ribosome large subunit assembly intermediate in complex with MTERF4-NSUN4 and GTPBP5 (dataset1). Deposited 2021-05-04 Assembly 1 Protein–RNA Heteromer；Protein × 55 PDB declaration: 57-meric（57） Consistent with all polymers
Chain w 1–156（156 aa）
Not recorded ZN ZINC ION × 3 MG MAGNESIUM ION × 74 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 2.50 Å
7OI6 Cryo-EM structure of late human 39S mitoribosome assembly intermediates, state 1 Deposited 2021-05-11 Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 52-meric（52） Consistent with all polymers
Chain w 1–156（156 aa）
Not recorded MG MAGNESIUM ION × 48 ZN ZINC ION × 1 PNS 4'-PHOSPHOPANTETHEINE × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 5.70 Å
7OI7 Cryo-EM structure of late human 39S mitoribosome assembly intermediates, state 2 Deposited 2021-05-11 Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 54-meric（54） Consistent with all polymers
Chain w 1–156（156 aa）
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 49 PNS 4'-PHOSPHOPANTETHEINE × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.50 Å
7OI8 Cryo-EM structure of late human 39S mitoribosome assembly intermediates, state 3A Deposited 2021-05-11 Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 55-meric（55） Consistent with all polymers
Chain w 1–156（156 aa）
Not recorded MG MAGNESIUM ION × 49 ZN ZINC ION × 2 PNS 4'-PHOSPHOPANTETHEINE × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.50 Å
7OI9 Cryo-EM structure of late human 39S mitoribosome assembly intermediates, state 3B Deposited 2021-05-11 Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 54-meric（54） Consistent with all polymers
Chain w 1–156（156 aa）
Not recorded MG MAGNESIUM ION × 49 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
7OIC Cryo-EM structure of late human 39S mitoribosome assembly intermediates, state 4 Deposited 2021-05-11 Assembly 1 Protein–RNA Heteromer；Protein × 55 PDB declaration: 58-meric（58） Consistent with all polymers
Chain w 1–156（156 aa）
Not recorded MG MAGNESIUM ION × 76 ZN ZINC ION × 3 PNS 4'-PHOSPHOPANTETHEINE × 1 SAM S-ADENOSYLMETHIONINE × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.10 Å
7OID Cryo-EM structure of late human 39S mitoribosome assembly intermediates, state 5A Deposited 2021-05-11 Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 56-meric（56） Consistent with all polymers
Chain w 1–156（156 aa）
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 2 PNS 4'-PHOSPHOPANTETHEINE × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.70 Å
7OIE Cryo-EM structure of late human 39S mitoribosome assembly intermediates, state 5B Deposited 2021-05-11 Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 55-meric（55） Consistent with all polymers
Chain w 1–156（156 aa）
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 2 PNS 4'-PHOSPHOPANTETHEINE × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.50 Å
7PD3 Structure of the human mitoribosomal large subunit in complex with NSUN4.MTERF4.GTPBP7 and MALSU1.L0R8F8.mt-ACP Deposited 2021-08-04 Assembly 1 Protein–RNA Heteromer；Protein × 58 PDB declaration: 60-meric（60） Consistent with all polymers
Chain w 1–156（156 aa）
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 91 PNS 4'-PHOSPHOPANTETHEINE × 1 SAM S-ADENOSYLMETHIONINE × 1 GCP PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER × 2 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.40 Å
7PO4 Assembly intermediate of human mitochondrial ribosome large subunit (largely unfolded rRNA with MALSU1, L0R8F8 and ACP) Deposited 2021-09-08 Assembly 1 Protein–RNA Heteromer；Protein × 58 PDB declaration: 60-meric（60） Consistent with all polymers
Chain zc 1–156（156 aa）
Not recorded MG MAGNESIUM ION × 35 K POTASSIUM ION × 8 ZN ZINC ION × 1 FES FE2/S2 (INORGANIC) CLUSTER × 1 8Q1 S-[2-({N-[(2R)-2-hydroxy-3,3-dimethyl-4-(phosphonooxy)butanoyl]-beta-alanyl}amino)ethyl] dodecanethioate × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 2.56 Å
7QH6 Cryo-EM structure of the human mtLSU assembly intermediate upon MRM2 depletion - class 1 Deposited 2021-12-10 Assembly 1 Protein–RNA Heteromer；Protein × 44 PDB declaration: 46-meric（46） Consistent with all polymers
Chain w 1–156（156 aa）
Not recorded ZN ZINC ION × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.08 Å
7QH7 Cryo-EM structure of the human mtLSU assembly intermediate upon MRM2 depletion - class 4 Deposited 2021-12-10 Assembly 1 Protein–RNA Heteromer；Protein × 47 PDB declaration: 49-meric（49） Consistent with all polymers
Chain w 74–152（79 aa）
Not recorded MG MAGNESIUM ION × 50 ZN ZINC ION × 3 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 2.89 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 w 1–156（156 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
8PK0 human mitoribosomal large subunit assembly intermediate 1 with GTPBP10-GTPBP7 Deposited 2023-06-23 Assembly 1 Protein–RNA Heteromer；Protein × 56 PDB declaration: 58-meric（58） Consistent with all polymers
Chain w 1–156（156 aa）
Not recorded ZN ZINC ION × 1 PM8 S-(2-{[N-(2-HYDROXY-4-{[HYDROXY(OXIDO)PHOSPHINO]OXY}-3,3-DIMETHYLBUTANOYL)-BETA-ALANYL]AMINO}ETHYL) DECANETHIOATE × 1 SAM S-ADENOSYLMETHIONINE × 1 GNP PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER × 2 MG MAGNESIUM ION × 96 K POTASSIUM ION × 10 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.6
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.03 Å
8QSJ Human mitoribosomal large subunit assembly intermediate 2 with GTPBP7 Deposited 2023-10-10 Assembly 1 Protein–RNA Heteromer；Protein × 56 PDB declaration: 58-meric（58） Consistent with all polymers
Chain w 1–156（156 aa）
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 38 FES FE2/S2 (INORGANIC) CLUSTER × 1 PM8 S-(2-{[N-(2-HYDROXY-4-{[HYDROXY(OXIDO)PHOSPHINO]OXY}-3,3-DIMETHYLBUTANOYL)-BETA-ALANYL]AMINO}ETHYL) DECANETHIOATE × 1 SAM S-ADENOSYLMETHIONINE × 1 GNP PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.6
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.00 Å
8QU5 mt-LSU assembly intermediate in GTPBP8 knock-out cells, state 2 Deposited 2023-10-13 Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 55-meric（55） Consistent with all polymers
Chain w 1–156（156 aa）
Not recorded ZN ZINC ION × 2 MG MAGNESIUM ION × 48 PNS 4'-PHOSPHOPANTETHEINE × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 2.42 Å
9CWT Human kidney respiratory complex I Deposited 2024-07-30 Assembly 1 Protein heterocomplex Heteromer；Protein × 45 PDB declaration: 45-meric（45） Consistent with protein count
Chain G 1–156（156 aa）
Chain X 1–156（156 aa）
Not recorded SF4 IRON/SULFUR CLUSTER × 6 FMN FLAVIN MONONUCLEOTIDE × 1 ZMP S-[2-({N-[(2S)-2-hydroxy-3,3-dimethyl-4-(phosphonooxy)butanoyl]-beta-alanyl}amino)ethyl] tetradecanethioate × 1 NDP NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE × 1 FES FE2/S2 (INORGANIC) CLUSTER × 2 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.44 Å
9I4I High resolution Cryo-EM structure of human complex I in mitochondria Deposited 2025-01-24 Assembly 1 Protein heterocomplex Heteromer；Protein × 45 PDB declaration: 45-meric（45） Consistent with protein count
Chain H 1–156（156 aa）
Chain X 1–156（156 aa）
Not recorded PEE 1,2-dioleoyl-sn-glycero-3-phosphoethanolamine × 7 CDL CARDIOLIPIN × 6 8Q1 S-[2-({N-[(2R)-2-hydroxy-3,3-dimethyl-4-(phosphonooxy)butanoyl]-beta-alanyl}amino)ethyl] dodecanethioate × 2 PLX (9R,11S)-9-({[(1S)-1-HYDROXYHEXADECYL]OXY}METHYL)-2,2-DIMETHYL-5,7,10-TRIOXA-2LAMBDA~5~-AZA-6LAMBDA~5~-PHOSPHAOCTACOSANE-6,6,11-TRIOL × 7 DGT 2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE × 1 MG MAGNESIUM ION × 1 SF4 IRON/SULFUR CLUSTER × 6 FMN FLAVIN MONONUCLEOTIDE × 1 NDP NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE × 1 FES FE2/S2 (INORGANIC) CLUSTER × 2 ZN ZINC ION × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 2.63 Å
9N50 Crosslinked Crystal Structure of Human Mitochondrial Ketosynthase, OXSM, and Crosslinker-crypto Human Mitochondrial Acyl Carrier Protein, C8aBr-mACP Deposited 2025-02-03 Assembly 1 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric（3） Consistent with protein count
Chain C 69–156（88 aa）
Not recorded A1BMZ N~3~-[(2R)-2-hydroxy-3,3-dimethyl-4-(phosphonooxy)butanoyl]-N-(2-octanamidoethyl)-beta-alaninamide × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；293 K；0.5 M ammonium sulfate, 1 M lithium sulfate, and 0.1 M sodium citrate pH 5.6
Resolution 2.50 Å
9N51 Crosslinked Crystal Structure of Human Mitochondrial Ketosynthase, OXSM, and Crosslinker-crypto Human Mitochondrial Acyl Carrier Protein, C8Cl-mACP Deposited 2025-02-03 Assembly 1 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric（3） Consistent with protein count
Chain C 69–156（88 aa）
Not recorded A1BMZ N~3~-[(2R)-2-hydroxy-3,3-dimethyl-4-(phosphonooxy)butanoyl]-N-(2-octanamidoethyl)-beta-alaninamide × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；293 K；0.5 M ammonium sulfate, 1 M lithium sulfate, and 0.1 M sodium citrate pH 5.6
Resolution 2.31 Å R-free 0.273
9N51 Crosslinked Crystal Structure of Human Mitochondrial Ketosynthase, OXSM, and Crosslinker-crypto Human Mitochondrial Acyl Carrier Protein, C8Cl-mACP Deposited 2025-02-03 Assembly 2 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric（3） Consistent with protein count
Chain F 69–156（88 aa）
Not recorded A1BMZ N~3~-[(2R)-2-hydroxy-3,3-dimethyl-4-(phosphonooxy)butanoyl]-N-(2-octanamidoethyl)-beta-alaninamide × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；293 K；0.5 M ammonium sulfate, 1 M lithium sulfate, and 0.1 M sodium citrate pH 5.6
Resolution 2.31 Å R-free 0.273
9PRA In Situ Structure of the Human Mitoribosome Large Subunit 39S in Complex with EF-Tu Deposited 2025-07-23 Assembly 1 Protein–RNA Heteromer；Protein × 64 PDB declaration: 66-meric（66） Consistent with all polymers
Chain Af 1–156（156 aa）
Non-standard monomer：Yes (specific site not provided by mmCIF) ZN ZINC ION × 2 K POTASSIUM ION × 36 MG MAGNESIUM ION × 141 FES FE2/S2 (INORGANIC) CLUSTER × 1 SPD SPERMIDINE × 2 PUT 1,4-DIAMINOBUTANE × 1 VAL VALINE × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 2.83 Å
9TI4 High resolution Cryo-EM structure of human complex I in mitochondria Deposited 2025-12-04 Assembly 1 Protein heterocomplex Heteromer；Protein × 45 PDB declaration: 45-meric（45） Consistent with protein count
Chain H 72–156（85 aa）
Chain X 72–156（85 aa）
Not recorded SF4 IRON/SULFUR CLUSTER × 6 FMN FLAVIN MONONUCLEOTIDE × 1 PEE 1,2-dioleoyl-sn-glycero-3-phosphoethanolamine × 7 8Q1 S-[2-({N-[(2R)-2-hydroxy-3,3-dimethyl-4-(phosphonooxy)butanoyl]-beta-alanyl}amino)ethyl] dodecanethioate × 2 NDP NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE × 1 FES FE2/S2 (INORGANIC) CLUSTER × 2 PLX (9R,11S)-9-({[(1S)-1-HYDROXYHEXADECYL]OXY}METHYL)-2,2-DIMETHYL-5,7,10-TRIOXA-2LAMBDA~5~-AZA-6LAMBDA~5~-PHOSPHAOCTACOSANE-6,6,11-TRIOL × 7 ZN ZINC ION × 1 CDL CARDIOLIPIN × 6 DGT 2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE × 1 MG MAGNESIUM ION × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4；25 mM HEPES-KOH pH=7.5, 50 mM KCl, 20 mM Mg(OAc)2, 0.01% (v/v) Lauryl Maltose Neopentyl Glycol (LMNG), 0.001 % cardiolipin, 0.001 % glycol-diosgenin (GDN, Sigma-Aldrich), 0.1mM DTT
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 2.66 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.