Uniprot accession / id : (Q9D7N3)
 
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Entry Information
Entry status  (1)
REL
(4)
 
Experimental methods  (1)
Electron Microscopy
(4)
 
Authors  (8)
Amunts A
(4)
Atanassov I
(4)
Cipullo M
(4)
Itoh Y
(4)
Khawaja A
(4)
Laptev I
(4)
Rorbach J
(4)
Sergiev P
(4)
 
Homo / hetero assembly  (1)
hetero
(4)
 
Assembly composition  (1)
RNA/protein complex
(4)
 
Assembly polymer count  (2)
31-mer
(2)
32-mer
(2)
 
Resolution distribution
3.0 - 3.5
(4)
 
Release year distribution
2020 - 2025
(4)
 
Journal  (1)
Nature
(4)
 
Macromolecules
Organism superkingdom  (1)
Eukaryota
(4)
 
Organism name  (1)
Mus musculus
(4)
 
Molecule name  (144)
28S ribosomal protein S10, mitochondrial
(4)
28S ribosomal protein S11, mitochondrial
(4)
28S ribosomal protein S12, mitochondrial
(4)
28S ribosomal protein S14, mitochondrial
(4)
28S ribosomal protein S15, mitochondrial
(4)
28S ribosomal protein S16, mitochondrial
(4)
28S ribosomal protein S17, mitochondrial
(4)
28S ribosomal protein S18-1, mitochondrial
(4)
28S ribosomal protein S18-2, mitochondrial
(4)
28S ribosomal protein S18b, mitochondrial
(4)
28S ribosomal protein S18c, mitochondrial
(4)
28S ribosomal protein S2, mitochondrial
(4)
28S ribosomal protein S21, mitochondrial
(4)
28S ribosomal protein S22, mitochondrial
(4)
28S ribosomal protein S23, mitochondrial
(4)
28S ribosomal protein S24, mitochondrial
(4)
28S ribosomal protein S25, mitochondrial
(4)
28S ribosomal protein S26, mitochondrial
(4)
28S ribosomal protein S27, mitochondrial
(4)
28S ribosomal protein S28, mitochondrial
(4)
28S ribosomal protein S29, mitochondrial
(4)
28S ribosomal protein S31, mitochondrial
(4)
28S ribosomal protein S33, mitochondrial
(4)
28S ribosomal protein S34, mitochondrial
(4)
28S ribosomal protein S35, mitochondrial
(4)
28S ribosomal protein S38, mitochondrial
(4)
28S ribosomal protein S39, mitochondrial
(4)
28S ribosomal protein S5, mitochondrial
(4)
28S ribosomal protein S6, mitochondrial
(4)
28S ribosomal protein S7, mitochondrial
(4)
28S ribosomal protein S9, mitochondrial
(4)
AURKA-interacting protein
(4)
Aurora kinase A-interacting protein
(4)
DAP-3
(4)
Death-associated protein 3
(4)
Ganglioside-induced differentiation-associated-protein 3
(4)
Imogen 38
(4)
MRP-S10
(4)
MRP-S11
(4)
MRP-S12
(4)
MRP-S14
(4)
MRP-S15
(4)
MRP-S16
(4)
MRP-S17
(4)
MRP-S18-1
(4)
MRP-S18-2
(4)
MRP-S18-b
(4)
MRP-S18-c
(4)
MRP-S2
(4)
MRP-S21
(4)
MRP-S22
(4)
MRP-S23
(4)
MRP-S24
(4)
MRP-S25
(4)
MRP-S26
(4)
MRP-S27
(4)
MRP-S28
(4)
MRP-S29
(4)
MRP-S31
(4)
MRP-S33
(4)
MRP-S34
(4)
MRP-S35
(4)
MRP-S38
(4)
MRP-S39
(4)
MRP-S5
(4)
MRP-S6
(4)
MRP-S7
(4)
MRP-S9
(4)
MT-RPS12
(4)
Mitochondrial ribosomal protein S27
(4)
Mrps18-b
(4)
Mrps18-c
(4)
Pentatricopeptide repeat domain-containing protein 3, mitochondrial
(4)
S10mt
(4)
S11mt
(4)
S12mt
(4)
S14mt
(4)
S15mt
(4)
S16mt
(4)
S17mt
(4)
S18mt-b
(4)
S18mt-c
(4)
S21mt
(4)
S22mt
(4)
S23mt
(4)
S24mt
(4)
S25mt
(4)
S26mt
(4)
S27mt
(4)
S28mt
(4)
S29mt
(4)
S2mt
(4)
S31mt
(4)
S33mt
(4)
S34mt
(4)
S35mt
(4)
S5mt
(4)
S6mt
(4)
S7mt
(4)
S9mt
(4)
 
More...
 
Molecule type  (1)
Protein
(4)
 
Gene names  (51)
Aip
(4)
Akip
(4)
Aurkaip1
(4)
Dap3
(4)
Gdap3
(4)
Imogn38
(4)
Mrps10
(4)
Mrps11
(4)
Mrps12
(4)
Mrps14
(4)
Mrps15
(4)
Mrps16
(4)
Mrps17
(4)
Mrps18b
(4)
Mrps18c
(4)
Mrps2
(4)
Mrps21
(4)
Mrps22
(4)
Mrps23
(4)
Mrps24
(4)
Mrps25
(4)
Mrps26
(4)
Mrps27
(4)
Mrps28
(4)
Mrps29
(4)
Mrps31
(4)
Mrps33
(4)
Mrps34
(4)
Mrps35
(4)
Mrps38
(4)
Mrps39
(4)
Mrps5
(4)
Mrps6
(4)
Mrps7
(4)
Mrps9
(4)
Ptcd3
(4)
Rpms12
(4)
Rpms15
(4)
Rpms16
(4)
Rpms17
(4)
Rpms21
(4)
Rpms22
(4)
Rpms25
(4)
Rpms6
(4)
Tce2
(4)
Rbfa
(3)
Chchd1
(1)
Mett5d1
(1)
Mettl15
(1)
Mrps37
(1)
Tfb1m
(1)
 
Interacting Molecules  (34)
12S mitochondrial rRNA
(4)
Small ribosomal subunit protein bS16m
(4)
Small ribosomal subunit protein bS18m
(4)
Small ribosomal subunit protein bS1m
(4)
Small ribosomal subunit protein bS21m
(4)
Small ribosomal subunit protein bS6m
(4)
Small ribosomal subunit protein mS22
(4)
Small ribosomal subunit protein mS23
(4)
Small ribosomal subunit protein mS25
(4)
Small ribosomal subunit protein mS26
(4)
Small ribosomal subunit protein mS27
(4)
Small ribosomal subunit protein mS29
(4)
Small ribosomal subunit protein mS31
(4)
Small ribosomal subunit protein mS33
(4)
Small ribosomal subunit protein mS34
(4)
Small ribosomal subunit protein mS35
(4)
Small ribosomal subunit protein mS38
(4)
Small ribosomal subunit protein mS39
(4)
Small ribosomal subunit protein mS40
(4)
Small ribosomal subunit protein uS10m
(4)
Small ribosomal subunit protein uS11m
(4)
Small ribosomal subunit protein uS12m
(4)
Small ribosomal subunit protein uS14m
(4)
Small ribosomal subunit protein uS15m
(4)
Small ribosomal subunit protein uS17m
(4)
Small ribosomal subunit protein uS2m
(4)
Small ribosomal subunit protein uS3m
(4)
Small ribosomal subunit protein uS5m
(4)
Small ribosomal subunit protein uS7m
(4)
Small ribosomal subunit protein uS9m
(4)
Putative ribosome-binding factor A, mitochondrial
(3)
12S rRNA N(4)-cytidine methyltransferase METTL15
(1)
Dimethyladenosine transferase 1, mitochondrial
(1)
Small ribosomal subunit protein mS37
(1)
 
Interacting ligands  (6)
ATP : ADENOSINE-5'-TRIPHOSPHATE
(4)
FES : FE2/S2 (INORGANIC) CLUSTER
(4)
MG : MAGNESIUM ION
(4)
ZN : ZINC ION
(4)
K : POTASSIUM ION
(2)
SAH : S-ADENOSYL-L-HOMOCYSTEINE
(1)
 
Function and Biology
Biological function  (15)
RNA binding
(4)
molecular_function
(4)
protein binding
(4)
protein domain specific binding
(4)
rRNA binding
(4)
ribosomal small subunit binding
(4)
structural constituent of ribosome
(4)
tRNA binding
(4)
ubiquitin-protein transferase activity
(4)
methyltransferase activity
(2)
transferase activity
(2)
DNA binding
(1)
S-adenosyl-L-methionine binding
(1)
rRNA (adenine-N6,N6-)-dimethyltransferase activity
(1)
rRNA (cytosine-N4-)-methyltransferase activity
(1)
 
Biological process  (14)
apoptotic mitochondrial changes
(4)
apoptotic process
(4)
cell population proliferation
(4)
mitochondrial ribosome assembly
(4)
mitochondrial translation
(4)
positive regulation of proteolysis
(4)
protein ubiquitination
(4)
regulation of translation
(4)
translation
(4)
rRNA processing
(3)
methylation
(2)
rRNA base methylation
(1)
rRNA methylation
(1)
rRNA modification
(1)
 
Biological cell component  (21)
anaphase-promoting complex
(4)
cell junction
(4)
cytoplasm
(4)
cytosol
(4)
intracellular membrane-bounded organelle
(4)
mitochondrial inner membrane
(4)
mitochondrial matrix
(4)
mitochondrial ribosome
(4)
mitochondrial small ribosomal subunit
(4)
mitochondrion
(4)
nuclear membrane
(4)
nucleolus
(4)
nucleoplasm
(4)
nucleus
(4)
plasma membrane
(4)
ribonucleoprotein complex
(4)
ribosome
(4)
small ribosomal subunit
(4)
cellular_component
(3)
fibrillar center
(1)
mitochondrial nucleoid
(1)
 
Sequence and Structure classification
Pfam accession / name  (35)
PF00164 : Ribosom_S12_S23
(4)
PF00177 : Ribosomal_S7
(4)
PF00253 : Ribosomal_S14
(4)
PF00312 : Ribosomal_S15
(4)
PF00318 : Ribosomal_S2
(4)
PF00333 : Ribosomal_S5
(4)
PF00338 : Ribosomal_S10
(4)
PF00366 : Ribosomal_S17
(4)
PF00380 : Ribosomal_S9
(4)
PF00411 : Ribosomal_S11
(4)
PF00886 : Ribosomal_S16
(4)
PF01084 : Ribosomal_S18
(4)
PF01165 : Ribosomal_S21
(4)
PF01250 : Ribosomal_S6
(4)
PF03719 : Ribosomal_S5_C
(4)
PF05047 : L51_S25_CI-B8
(4)
PF08213 : COX24_C
(4)
PF08293 : MRP-S33
(4)
PF10037 : MRP-S27
(4)
PF10213 : MRP-S28
(4)
PF10236 : DAP3
(4)
PF10245 : MRP-S22
(4)
PF10246 : MRP-S35
(4)
PF10484 : MRP-S23
(4)
PF13812 : PPR_3
(4)
PF14943 : MRP-S26
(4)
PF14955 : MRP-S24
(4)
PF15433 : MRP-S31
(4)
PF16053 : MRP-S34
(4)
PF21251 : Ribosomal_uS5m_N
(4)
PF22330 : Rib_mS39_PPR
(4)
PF02033 : RBFA
(3)
PF00398 : RrnaAD
(1)
PF01795 : Methyltransf_5
(1)
PF06747 : CHCH
(1)
 
Experimental Information
EM microscope model  (1)
FEI TITAN KRIOS
(4)
 
EM detector name  (1)
GATAN K2 SUMMIT (4k x 4k)
(4)
 
Representative Structures
Representative Structures
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Entries 1 to 4 of 4
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Assembly intermediate of mouse mitochondrial ribosome small subunit without mS37 in complex with RbfA inward conformation
Itoh Y, Khawaja A, Laptev I, Sergiev P, Rorbach J, Amunts A
Nature (2022) [PMID: 35676484  ]
Source organism: Mus musculus  
Assembly composition: RNA/protein complex
Bound ligands: K    K    MG    FES    ZN    ZN    ATP    MG    ATP    FES   
Modified residues: 5F0    AYA    AYA   
PDBe complex ID: PDB-CPX-289402 (Preferred)   search this ID
PDBe-KB: Q9CQV5    Q80X85    Q8BK72    Q9JIK9    Q9DCA2    Q99N84    (view 24 more)
Electron Microscopy
3.06Å resolution
Released: 15 Jun 2022
Model geometry
Fit model/data
Data not analysed
7pnu
7pnu
7pnu
Assembly intermediate of mouse mitochondrial ribosome small subunit without mS37 in complex with RbfA and Tfb1m
Itoh Y, Khawaja A, Laptev I, Sergiev P, Rorbach J, Amunts A
Nature (2022) [PMID: 35676484  ]
Source organism: Mus musculus  
Assembly composition: RNA/protein complex
Bound ligands: K    K    MG    FES    ZN    ZN    ATP    MG    ATP    FES   
Modified residues: 5F0    AYA    AYA   
PDBe complex ID: PDB-CPX-289400 (Preferred)   search this ID
PDBe-KB: Q9CQV5    Q80X85    Q8BK72    Q9JIK9    Q9DCA2    Q99N84    (view 25 more)
Electron Microscopy
3.19Å resolution
Released: 15 Jun 2022
Model geometry
Fit model/data
Data not analysed
7pnt
7pnt
7pnt
Mouse mitochondrial ribosome small subunit lacking m5U modification
Itoh Y, Khawaja A, Laptev I, Sergiev P, Rorbach J, Amunts A
Nature (2022) [PMID: 35676484  ]
Source organism: Mus musculus  
Assembly composition: RNA/protein complex
Bound ligands: K    K    MG    FES    ZN    ZN    ATP    MG    ATP    FES   
Modified residues: 5MC    5F0    5MC    MA6    AYA    AYA    B8T    MA6   
Assembly name: Small ribosomal protein (Preferred)   search this complex
PDBe complex ID: PDB-CPX-289403 (Preferred)   search this ID
PDBe-KB: Q9CQV5    Q80X85    Q8BK72    Q9JIK9    Q9DCA2    Q99N84    (view 24 more)
Electron Microscopy
3.09Å resolution
Released: 15 Jun 2022
Model geometry
Fit model/data
Data not analysed
7pnw
7pnw
7pnw
Assembly intermediate of mouse mitochondrial ribosome small subunit without mS37 in complex with RbfA and Mettl15
Itoh Y, Khawaja A, Laptev I, Sergiev P, Rorbach J, Amunts A
Nature (2022) [PMID: 35676484  ]
Source organism: Mus musculus  
Assembly composition: RNA/protein complex
Bound ligands: K    K    MG    FES    ZN    SAH    ZN    ATP    MG    SAH    ATP    FES   
Modified residues: 5MC    5F0    5MC    MA6    AYA    AYA    B8T    MA6   
PDBe complex ID: PDB-CPX-289401 (Preferred)   search this ID
PDBe-KB: Q9CQV5    Q80X85    Q8BK72    Q9JIK9    Q9DCA2    Q99N84    (view 25 more)
Electron Microscopy
3.06Å resolution
Released: 15 Jun 2022
Model geometry
Fit model/data
Data not analysed
7pnv
7pnv
7pnv
Entries 1 to 4 of 4
Entries 1 to 4 of 4