2A18 | pdb_00002a18

carboxysome shell protein ccmK4, crystal form 2


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.28 Å
  • R-Value Free: 
    0.222 (Depositor), 0.221 (DCC) 
  • R-Value Work: 
    0.203 (Depositor), 0.202 (DCC) 
  • R-Value Observed: 
    0.204 (Depositor) 

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Validation slider image for 2A18

This is version 1.4 of the entry. See complete history

Literature

Protein structures forming the shell of primitive bacterial organelles

Kerfeld, C.A.Sawaya, M.R.Tanaka, S.Nguyen, C.V.Phillips, M.Beeby, M.Yeates, T.O.

(2005) Science 309: 936-938

  • DOI: https://doi.org/10.1126/science.1113397
  • Primary Citation Related Structures: 
    2A10, 2A18, 2A1B

  • PubMed Abstract: 

    Bacterial microcompartments are primitive organelles composed entirely of protein subunits. Genomic sequence databases reveal the widespread occurrence of microcompartments across diverse microbes. The prototypical bacterial microcompartment is the carboxysome, a protein shell for sequestering carbon fixation reactions. We report three-dimensional crystal structures of multiple carboxysome shell proteins, revealing a hexameric unit as the basic microcompartment building block and showing how these hexamers assemble to form flat facets of the polyhedral shell. The structures suggest how molecular transport across the shell may be controlled and how structural variations might govern the assembly and architecture of these subcellular compartments.


  • Organizational Affiliation
    • Molecular Biology Institute, University of California, Los Angeles (UCLA), Box 951570, Los Angeles, CA 90095, USA.

Macromolecule Content 

  • Total Structure Weight: 40.42 kDa 
  • Atom Count: 2,408 
  • Modeled Residue Count: 312 
  • Deposited Residue Count: 375 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Carbon dioxide concentrating mechanism protein ccmK homolog 4
A, B, C
125Synechocystis sp. PCC 6803Mutation(s): 0 
Gene Names: ccmK4
UniProt
Find proteins for P73407 (Synechocystis sp. (strain ATCC 27184 / PCC 6803 / Kazusa))
Explore P73407 
Go to UniProtKB:  P73407
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP73407
Sequence Annotations
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.28 Å
  • R-Value Free:  0.222 (Depositor), 0.221 (DCC) 
  • R-Value Work:  0.203 (Depositor), 0.202 (DCC) 
  • R-Value Observed: 0.204 (Depositor) 
Space Group: P 21 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 70.549α = 90
b = 125.04β = 90
c = 32.521γ = 90
Software Package:
Software NamePurpose
Blu-Icedata collection
SCALEPACKdata scaling
PHASERphasing
REFMACrefinement

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2005-08-09
    Type: Initial release
  • Version 1.1: 2008-04-30
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Advisory, Derived calculations, Source and taxonomy, Version format compliance
  • Version 1.3: 2017-10-11
    Changes: Refinement description
  • Version 1.4: 2023-08-23
    Changes: Data collection, Database references, Derived calculations, Refinement description