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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：Q7Z6M4 New Search
15PDB entries
19Biological assembly
22chain/assembly records
Main Difference Dimensions in This Set
Different construct 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
4FP9 Human MTERF4-NSUN4 protein complex Deposited 2012-06-21 Assembly 1 Protein heterocomplex Heteromer；Protein × 8 PDB declaration: octameric（8） Consistent with protein count
Chain B 47–381（335 aa）
Chain E 47–381（335 aa）
Chain G 47–381（335 aa）
Chain H 47–381（335 aa）
Not recorded SAM S-ADENOSYLMETHIONINE × 4 SO4 SULFATE ION × 8 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION；pH 5.5；294 K；100 mM Bis-Tris [pH 5.5], 400 mM ammonium sulfate, 20-22 % (w/v) polyethylene glycol 3350, and 2 mM dithiothreitol, VAPOR DIFFUSION, temperature 294K
Resolution 2.90 Å R-free 0.246
4FP9 Human MTERF4-NSUN4 protein complex Deposited 2012-06-21 Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain B 47–381（335 aa）
Not recorded SAM S-ADENOSYLMETHIONINE × 1 SO4 SULFATE ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION；pH 5.5；294 K；100 mM Bis-Tris [pH 5.5], 400 mM ammonium sulfate, 20-22 % (w/v) polyethylene glycol 3350, and 2 mM dithiothreitol, VAPOR DIFFUSION, temperature 294K
Resolution 2.90 Å R-free 0.246
4FP9 Human MTERF4-NSUN4 protein complex Deposited 2012-06-21 Assembly 3 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain E 47–381（335 aa）
Not recorded SAM S-ADENOSYLMETHIONINE × 1 SO4 SULFATE ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION；pH 5.5；294 K；100 mM Bis-Tris [pH 5.5], 400 mM ammonium sulfate, 20-22 % (w/v) polyethylene glycol 3350, and 2 mM dithiothreitol, VAPOR DIFFUSION, temperature 294K
Resolution 2.90 Å R-free 0.246
4FP9 Human MTERF4-NSUN4 protein complex Deposited 2012-06-21 Assembly 4 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain G 47–381（335 aa）
Not recorded SAM S-ADENOSYLMETHIONINE × 1 SO4 SULFATE ION × 3 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION；pH 5.5；294 K；100 mM Bis-Tris [pH 5.5], 400 mM ammonium sulfate, 20-22 % (w/v) polyethylene glycol 3350, and 2 mM dithiothreitol, VAPOR DIFFUSION, temperature 294K
Resolution 2.90 Å R-free 0.246
4FP9 Human MTERF4-NSUN4 protein complex Deposited 2012-06-21 Assembly 5 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain H 47–381（335 aa）
Not recorded SAM S-ADENOSYLMETHIONINE × 1 SO4 SULFATE ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION；pH 5.5；294 K；100 mM Bis-Tris [pH 5.5], 400 mM ammonium sulfate, 20-22 % (w/v) polyethylene glycol 3350, and 2 mM dithiothreitol, VAPOR DIFFUSION, temperature 294K
Resolution 2.90 Å R-free 0.246
4FZV Crystal structure of the human MTERF4:NSUN4:SAM ternary complex Deposited 2012-07-08 Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain B 92–330（239 aa）
Not recorded SAM S-ADENOSYLMETHIONINE × 1 FMT FORMIC ACID × 1 EDO 1,2-ETHANEDIOL × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 5.5；298 K；0.15 M magnesium formate, 50 mM Bis-Tris, pH 5.5, VAPOR DIFFUSION, HANGING DROP, temperature 298.0K
Resolution 2.00 Å R-free 0.190
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 A2 1–381（381 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 A2 1–381（381 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 y 1–381（381 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 y 1–381（381 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 y 1–381（381 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 G 1–381（381 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
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 G 1–381（381 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 G 1–381（381 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 G 1–381（381 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
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 y 1–381（381 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
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 y 1–381（381 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
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 y 1–381（381 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 y 1–381（381 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

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.