2JDJ

crystal structure of HapK from Hahella chejuensis

• PDB DOI: https://doi.org/10.2210/pdb2JDJ/pdb

• Classification: BIOSYNTHETIC PROTEIN
• Organism(s): Hahella chejuensis
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2007-01-10 Released: 2007-09-11 
• Deposition Author(s): Kang, B.S., Cho, H.J., Kim, K.J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 0.223 
• R-Value Work: 0.189 
• R-Value Observed: 0.191 

Literature

Structural Insight of the Role of the Hahella Chejuensis Hapk Protein in Prodigiosin Biosynthesis.

Cho, H.J., Kim, K., Kim, M.H., Kang, B.S.

(2008) Proteins 70: 257

• PubMed: 17729271 
• DOI: https://doi.org/10.1002/prot.21582
• Primary Citation of Related Structures:  
  2JDJ

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Organizational Affiliation: 

School of Life Science and Biotechnology, Kyungpook National University, Daegu 702-701, Korea.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 generated by PQS (software)

Biological Assembly 2  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 2 generated by PQS (software)

Macromolecule Content

• Total Structure Weight: 24.4 kDa 
• Atom Count: 1,860 
• Modelled Residue Count: 210 
• Deposited Residue Count: 210 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
REDY-LIKE PROTEIN	A, B	105	Hahella chejuensis	Mutation(s): 0
UniProt
Find proteins for Q2S9J0 (Hahella chejuensis (strain KCTC 2396)) Explore Q2S9J0  Go to UniProtKB:  Q2S9J0

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SO4	C [auth A], D [auth A], H [auth B], I [auth B]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
GOL	G [auth A], L [auth B]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N
IPA	E [auth A], F [auth A], J [auth B], K [auth B]	ISOPROPYL ALCOHOL C3 H8 O KFZMGEQAYNKOFK-UHFFFAOYSA-N

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

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 0.223 
• R-Value Work: 0.189 
• R-Value Observed: 0.191 
• Space Group: P 3₂ 1 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 58.306	α = 90
b = 58.306	β = 90
c = 137.882	γ = 120

Software Package:

Software Name	Purpose
REFMAC	refinement
HKL-2000	data reduction
HKL-2000	data scaling
SOLVE	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2007-09-11 
Deposition Author(s): Kang, B.S., Cho, H.J., Kim, K.J.

Revision History  

• Version 1.0: 2007-09-11
  Type: Initial release
  
• Version 1.1: 2011-05-08
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2024-10-16
  Changes: Data collection, Database references, Derived calculations, Other, Structure summary