6HMA | pdb_00006hma

Improved model derived from cryo-EM map of Staphylococcus aureus large ribosomal subunit


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.65 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

Improved model derived from cryo-EM map of Staphylococcus aureus large ribosomal subunit

Eyal, Z.Cimicata, G.

To be published.

Macromolecules

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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L2274Staphylococcus aureusMutation(s): 0 
UniProt
Find proteins for P60430 (Staphylococcus aureus (strain NCTC 8325 / PS 47))
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L3215Staphylococcus aureusMutation(s): 0 
UniProt
Find proteins for Q2FW06 (Staphylococcus aureus (strain NCTC 8325 / PS 47))
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UniProt GroupQ2FW06
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L4206Staphylococcus aureusMutation(s): 0 
UniProt
Find proteins for Q2FW07 (Staphylococcus aureus (strain NCTC 8325 / PS 47))
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Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L5158Staphylococcus aureusMutation(s): 0 
UniProt
Find proteins for Q2FW18 (Staphylococcus aureus (strain NCTC 8325 / PS 47))
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UniProt GroupQ2FW18
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Entity ID: 7
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L6175Staphylococcus aureusMutation(s): 0 
UniProt
Find proteins for Q2FW21 (Staphylococcus aureus (strain NCTC 8325 / PS 47))
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Entity ID: 8
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L13145Staphylococcus aureusMutation(s): 0 
UniProt
Find proteins for Q2FW38 (Staphylococcus aureus (strain NCTC 8325 / PS 47))
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Entity ID: 9
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L14122Staphylococcus aureusMutation(s): 0 
UniProt
Find proteins for Q2FW16 (Staphylococcus aureus (strain NCTC 8325 / PS 47))
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Entity ID: 10
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L15146Staphylococcus aureusMutation(s): 0 
UniProt
Find proteins for P0A0F8 (Staphylococcus aureus (strain NCTC 8325 / PS 47))
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Entity ID: 11
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L16137Staphylococcus aureusMutation(s): 0 
UniProt
Find proteins for Q2FW13 (Staphylococcus aureus (strain NCTC 8325 / PS 47))
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Entity ID: 12
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L17120Staphylococcus aureusMutation(s): 0 
UniProt
Find proteins for Q2FW33 (Staphylococcus aureus (strain NCTC 8325 / PS 47))
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Entity ID: 13
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L18119Staphylococcus aureusMutation(s): 0 
UniProt
Find proteins for Q2FW22 (Staphylococcus aureus (strain NCTC 8325 / PS 47))
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Entity ID: 14
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L19116Staphylococcus aureusMutation(s): 0 
UniProt
Find proteins for Q2FZ42 (Staphylococcus aureus (strain NCTC 8325 / PS 47))
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Entity ID: 15
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L20116Staphylococcus aureusMutation(s): 0 
UniProt
Find proteins for Q2FXQ1 (Staphylococcus aureus (strain NCTC 8325 / PS 47))
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Entity ID: 16
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L21102Staphylococcus aureusMutation(s): 0 
UniProt
Find proteins for Q2FXS8 (Staphylococcus aureus (strain NCTC 8325 / PS 47))
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Entity ID: 17
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L22112Staphylococcus aureusMutation(s): 0 
UniProt
Find proteins for Q2FW11 (Staphylococcus aureus (strain NCTC 8325 / PS 47))
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Entity ID: 18
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L2389Staphylococcus aureusMutation(s): 0 
UniProt
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Entity ID: 19
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L24103Staphylococcus aureusMutation(s): 0 
UniProt
Find proteins for Q2FW17 (Staphylococcus aureus (strain NCTC 8325 / PS 47))
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Entity ID: 20
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L2594Staphylococcus aureusMutation(s): 0 
UniProt
Find proteins for Q2FJE0 (Staphylococcus aureus (strain USA300))
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Entity ID: 21
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L2779Staphylococcus aureusMutation(s): 0 
UniProt
Find proteins for Q2FXT0 (Staphylococcus aureus (strain NCTC 8325 / PS 47))
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Entity ID: 22
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L2849Staphylococcus aureusMutation(s): 0 
UniProt
Find proteins for Q2FZ60 (Staphylococcus aureus (strain NCTC 8325 / PS 47))
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Entity ID: 23
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L2967Staphylococcus aureusMutation(s): 0 
UniProt
Find proteins for Q2FW14 (Staphylococcus aureus (strain NCTC 8325 / PS 47))
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Entity ID: 24
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L3058Staphylococcus aureusMutation(s): 0 
UniProt
Find proteins for P0A0G2 (Staphylococcus aureus (strain NCTC 8325 / PS 47))
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Entity ID: 25
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L32Y [auth Z]48Staphylococcus aureusMutation(s): 0 
UniProt
Find proteins for Q2FZF1 (Staphylococcus aureus (strain NCTC 8325 / PS 47))
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Entity ID: 26
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L33Z [auth 1]47Staphylococcus aureusMutation(s): 0 
UniProt
Find proteins for Q2FYU6 (Staphylococcus aureus (strain NCTC 8325 / PS 47))
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Entity ID: 27
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L34AA [auth 2]43Staphylococcus aureusMutation(s): 0 
UniProt
Find proteins for Q2FUQ0 (Staphylococcus aureus (strain NCTC 8325 / PS 47))
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Entity ID: 28
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L35BA [auth 3]64Staphylococcus aureusMutation(s): 0 
UniProt
Find proteins for Q2FXQ0 (Staphylococcus aureus (strain NCTC 8325 / PS 47))
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Entity ID: 29
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L36CA [auth 4]37Staphylococcus aureusMutation(s): 0 
UniProt
Find proteins for Q2FW29 (Staphylococcus aureus (strain NCTC 8325 / PS 47))
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Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
MG
Query on MG

Download Ideal Coordinates CCD File 
AB [auth A]
AC [auth A]
AD [auth A]
AE [auth A]
AF [auth A]
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.65 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2018-11-14
    Type: Initial release
  • Version 1.1: 2020-05-27
    Changes: Database references
  • Version 1.2: 2024-11-13
    Changes: Data collection, Database references, Structure summary
  • Version 1.3: 2025-03-12
    Changes: Data collection