3RGI | pdb_00003rgi

Trans-acting transferase from Disorazole synthase


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.51 Å
  • R-Value Free: 
    0.182 (Depositor), 0.193 (DCC) 
  • R-Value Work: 
    0.162 (Depositor), 0.175 (DCC) 
  • R-Value Observed: 
    0.163 (Depositor) 

Starting Model: experimental
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This is version 1.2 of the entry. See complete history

Literature

Structure and Mechanism of the trans-Acting Acyltransferase from the Disorazole Synthase.

Wong, F.T.Jin, X.Mathews, I.I.Cane, D.E.Khosla, C.

(2011) Biochemistry 50: 6539-6548

  • DOI: https://doi.org/10.1021/bi200632j
  • Primary Citation Related Structures: 
    3RGI, 3SBM

  • PubMed Abstract: 

    The 1.51 Å resolution X-ray crystal structure of the trans-acyltransferase (AT) from the "AT-less" disorazole synthase (DSZS) and that of its acetate complex at 1.35 Å resolution are reported. Separately, comprehensive alanine-scanning mutagenesis of one of its acyl carrier protein substrates (ACP1 from DSZS) led to the identification of a conserved Asp45 residue on the ACP, which contributes to the substrate specificity of this unusual enzyme. Together, these experimental findings were used to derive a model for the selective association of the DSZS AT and its ACP substrate. With a goal of structurally characterizing the AT-ACP interface, a strategy was developed for covalently cross-linking the active site Ser → Cys mutant of the DSZS AT to its ACP substrate and for purifying the resulting AT-ACP complex to homogeneity. The S86C DSZS AT mutant was found to be functional, albeit with a transacylation efficiency 200-fold lower than that of its wild-type counterpart. Our findings provide new insights as well as new opportunities for high-resolution analysis of an important protein-protein interface in polyketide synthases.


  • Organizational Affiliation
    • Department of Chemical Engineering, Department of Chemistry, and §Department of Biochemistry, Stanford University , Stanford, California 94305, United States.

Macromolecule Content 

  • Total Structure Weight: 31.07 kDa 
  • Atom Count: 2,456 
  • Modeled Residue Count: 282 
  • Deposited Residue Count: 286 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
DisD protein286Sorangium cellulosumMutation(s): 0 
Gene Names: dszDdisD
EC: 2.3.1.39
UniProt
Find proteins for Q4U443 (Sorangium cellulosum)
Explore Q4U443 
Go to UniProtKB:  Q4U443
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ4U443
Sequence Annotations
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.51 Å
  • R-Value Free:  0.182 (Depositor), 0.193 (DCC) 
  • R-Value Work:  0.162 (Depositor), 0.175 (DCC) 
  • R-Value Observed: 0.163 (Depositor) 
Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 43.43α = 90
b = 54.14β = 90
c = 121.41γ = 90
Software Package:
Software NamePurpose
Blu-Icedata collection
MOLREPphasing
REFMACrefinement
XDSdata reduction
XSCALEdata scaling

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2011-07-13
    Type: Initial release
  • Version 1.1: 2011-08-10
    Changes: Database references
  • Version 1.2: 2023-09-13
    Changes: Data collection, Database references, Refinement description