4IUS | pdb_00004ius

GCN5-related N-acetyltransferase from Kribbella flavida.

• PDB DOI: https://doi.org/10.2210/pdb4IUS/pdb

• Classification: TRANSFERASE
• Organism(s): Kribbella flavida DSM 17836
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): Yes 


• Deposited: 2013-01-21 Released: 2013-01-30 
• Deposition Author(s): Osipiuk, J., Chhor, G., Endres, M., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.30 Å
• R-Value Free: 
  0.156 (Depositor), 0.154 (DCC) 
• R-Value Work: 
  0.128 (Depositor), 0.125 (DCC) 
• R-Value Observed: 
  0.130 (Depositor) 

Literature

GCN5-related N-acetyltransferase from Kribbella flavida.

Osipiuk, J., Chhor, G., Endres, M., Joachimiak, A.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 27.76 kDa 
• Atom Count: 2,415 
• Modeled Residue Count: 257 
• Deposited Residue Count: 261 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
GCN5-related N-acetyltransferase	A	261	Kribbella flavida DSM 17836	Mutation(s): 1  Gene Names: Kfla_0359 EC: 2.3.1.128
UniProt
Find proteins for D2PUG5 (Kribbella flavida (strain DSM 17836 / JCM 10339 / NBRC 14399)) Explore D2PUG5  Go to UniProtKB:  D2PUG5

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
MLI	B [auth A]	MALONATE ION C3 H2 O4 OFOBLEOULBTSOW-UHFFFAOYSA-L
SO4	C [auth A], D [auth A]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
EDO	E [auth A], F [auth A]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE	A	L-PEPTIDE LINKING	C5 H11 N O2 Se		MET

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.30 Å
• R-Value Free:  0.156 (Depositor), 0.154 (DCC) 
• R-Value Work:  0.128 (Depositor), 0.125 (DCC) 
• R-Value Observed: 0.130 (Depositor) 

Diffraction Data: https://doi.org/10.18430/M34IUS

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 39.993	α = 90
b = 55.812	β = 90
c = 104.702	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
REFMAC	refinement
PDB_EXTRACT	data extraction
SBC-Collect	data collection
HKL-3000	data reduction
HKL-3000	data scaling
SHELXD	phasing
MLPHARE	phasing
DM	phasing
SOLVE	phasing
RESOLVE	phasing
HKL-3000	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2013-01-30 
Deposition Author(s): Osipiuk, J., Chhor, G., Endres, M., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)

Revision History  

• Version 1.0: 2013-01-30
  Type: Initial release
  
• Version 1.1: 2017-11-15
  Changes: Refinement description
• Version 1.2: 2024-11-06
  Changes: Data collection, Database references, Derived calculations, Structure summary