4KAJ | pdb_00004kaj

X-Ray Structure of the complex of Haloalkane dehalogenase HaloTag7 with HALTS, Northeast Structural Genomics Consortium (NESG) Target OR151

• PDB DOI: https://doi.org/10.2210/pdb4KAJ/pdb

• Classification: HYDROLASE
• Organism(s): Rhodococcus sp. (in: high G+C Gram-positive bacteria)
• Mutation(s): Yes 


• Deposited: 2013-04-22 Released: 2013-06-05 
• Deposition Author(s): Kuzin, A., Lew, S., Neklesa, T.K., Noblin, D., Seetharaman, J., Maglaqui, M., Xiao, R., Kohan, E., Wang, H., Everett, J.K., Acton, T.B., Kornhaber, G., Montelione, G.T., Crews, C.M., Hunt, J.F., Tong, L., Northeast Structural Genomics Consortium (NESG)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.95 Å
• R-Value Free: 
  0.201 (Depositor), 0.200 (DCC) 
• R-Value Work: 
  0.167 (Depositor), 0.167 (DCC) 
• R-Value Observed: 
  0.169 (Depositor) 

Starting Model: experimental

Literature

Northeast Structural Genomics Consortium Target OR151

Kuzin, A., Lew, S., Neklesa, T.K., Noblin, D., Seetharaman, J., Maglaqui, M., Xiao, R., Kohan, E., Wang, H., Everett, J.K., Acton, T.B., Kornhaber, G., Montelione, G.T., Crews, C.M., Hunt, J.F., Tong, L.

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: 35.93 kDa 
• Atom Count: 2,692 
• Modeled Residue Count: 300 
• Deposited Residue Count: 307 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
PENTAETHYLENE GLYCOL	A	307	Rhodococcus sp. (in: high G+C Gram-positive bacteria)	Mutation(s): 21  Gene Names: dhaA EC: 3.8.1.5
UniProt
Find proteins for P0A3G3 (Rhodococcus sp) Explore P0A3G3  Go to UniProtKB:  P0A3G3

Small Molecules

Ligands 5 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
1Q9	B [auth A]	N-(2-ethoxy-3,5-dimethylbenzyl)-1H-tetrazol-5-amine C12 H17 N5 O WHEQZFWVEMEFGH-UHFFFAOYSA-N
GOL	I [auth A]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N
EDO	G [auth A], H [auth A]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N
MN	C [auth A], E [auth A]	MANGANESE (II) ION Mn WAEMQWOKJMHJLA-UHFFFAOYSA-N
NA	D [auth A], F [auth A]	SODIUM ION Na FKNQFGJONOIPTF-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: 1.95 Å
• R-Value Free:  0.201 (Depositor), 0.200 (DCC) 
• R-Value Work:  0.167 (Depositor), 0.167 (DCC) 
• R-Value Observed: 0.169 (Depositor) 

Space Group: P 4₃ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 63.026	α = 90
b = 63.026	β = 90
c = 164.073	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
PDB_EXTRACT	data extraction
ADSC	data collection
HKL-2000	data reduction
SCALEPACK	data scaling
BALBES	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2013-06-05 
Deposition Author(s): Kuzin, A., Lew, S., Neklesa, T.K., Noblin, D., Seetharaman, J., Maglaqui, M., Xiao, R., Kohan, E., Wang, H., Everett, J.K., Acton, T.B., Kornhaber, G., Montelione, G.T., Crews, C.M., Hunt, J.F., Tong, L., Northeast Structural Genomics Consortium (NESG)

Revision History  

• Version 1.0: 2013-06-05
  Type: Initial release
  
• Version 1.1: 2023-09-20
  Changes: Data collection, Database references, Derived calculations, Refinement description
• Version 1.2: 2023-12-06
  Changes: Data collection
• Version 1.3: 2024-11-06
  Changes: Structure summary