3DCP

Crystal structure of the putative histidinol phosphatase hisK from Listeria monocytogenes. Northeast Structural Genomics Consortium target LmR141.

• PDB DOI: https://doi.org/10.2210/pdb3DCP/pdb

• Classification: HYDROLASE
• Organism(s): Listeria monocytogenes serotype 4b str. H7858
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2008-06-04 Released: 2008-07-29 
• Deposition Author(s): Vorobiev, S.M., Su, M., Seetharaman, J., Zhao, L., Mao, L., Foote, E.L., Xiao, R., Nair, R., Baran, M.C., Acton, T.B., Rost, B., Montelione, G.T., Hunt, J.F., Tong, L., Northeast Structural Genomics Consortium (NESG)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free: 0.212 
• R-Value Work: 0.193 
• R-Value Observed: 0.193 

Re-refinement Note

A newer entry is available that reflects an alternative modeling of the original data: 6NLR

Literature

Crystal structure of the putative histidinol phosphatase hisK from Listeria monocytogenes.

Vorobiev, S.M., Su, M., Seetharaman, J., Zhao, L., Mao, L., Foote, E.L., Xiao, R., Nair, R., Baran, M.C., Acton, T.B., Rost, B., Montelione, G.T., Hunt, J.F., Tong, L.

To be published.

Biological Assembly 1  

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

Biological assembly 1 generated by PISA (software)

Biological Assembly 2  

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

Biological assembly 2 assigned by authors.

Biological Assembly Evidence: gel filtration, light scattering

Biological Assembly 3  

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

Biological assembly 3 assigned by authors.

Biological Assembly Evidence: gel filtration, light scattering

Macromolecule Content

• Total Structure Weight: 99.07 kDa 
• Atom Count: 7,277 
• Modelled Residue Count: 821 
• Deposited Residue Count: 849 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Histidinol-phosphatase	A, B, C	283	Listeria monocytogenes serotype 4b str. H7858	Mutation(s): 0  Gene Names: hisK, LMOh7858_0629 EC: 3.1.3.15

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ZN	D [auth A], G [auth B], J [auth C]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N
FE	E [auth A], F [auth A], H [auth B], I [auth B], K [auth C], L [auth C]	FE (III) ION Fe VTLYFUHAOXGGBS-UHFFFAOYSA-N

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

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free: 0.212 
• R-Value Work: 0.193 
• R-Value Observed: 0.193 
• Space Group: P 6₄

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 191.278	α = 90
b = 191.278	β = 90
c = 48.051	γ = 120

Software Package:

Software Name	Purpose
CNS	refinement
Blu-Ice	data collection
HKL-2000	data reduction
HKL-2000	data scaling
SHELXDE	phasing
RESOLVE	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2008-07-29 
Deposition Author(s): Vorobiev, S.M., Su, M., Seetharaman, J., Zhao, L., Mao, L., Foote, E.L., Xiao, R., Nair, R., Baran, M.C., Acton, T.B., Rost, B., Montelione, G.T., Hunt, J.F., Tong, L., Northeast Structural Genomics Consortium (NESG)

Revision History  

• Version 1.0: 2008-07-29
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2017-10-25
  Changes: Author supporting evidence
• Version 1.3: 2024-10-30
  Changes: Data collection, Database references, Derived calculations, Structure summary