Chlorine in PDB 2g8f: B. Halodurans Rnase H Catalytic Domain E188A Mutant in Complex with MG2+ and Rna/Dna Hybrid (Non-P Nick at the Active Site)

Enzymatic activity of B. Halodurans Rnase H Catalytic Domain E188A Mutant in Complex with MG2+ and Rna/Dna Hybrid (Non-P Nick at the Active Site)

All present enzymatic activity of B. Halodurans Rnase H Catalytic Domain E188A Mutant in Complex with MG2+ and Rna/Dna Hybrid (Non-P Nick at the Active Site):
3.1.26.4;

Protein crystallography data

The structure of B. Halodurans Rnase H Catalytic Domain E188A Mutant in Complex with MG2+ and Rna/Dna Hybrid (Non-P Nick at the Active Site), PDB code: 2g8f was solved by M.Nowotny, W.Yang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

*Resolution Low / High (Å)*	30.00 / 1.65
*Space group*	C 1 2 1
*Cell size a, b, c (Å), α, β, γ (°)*	82.072, 36.858, 61.796, 90.00, 96.47, 90.00
*R / R_free (%)*	18.2 / n/a

Other elements in 2g8f:

The structure of B. Halodurans Rnase H Catalytic Domain E188A Mutant in Complex with MG2+ and Rna/Dna Hybrid (Non-P Nick at the Active Site) also contains other interesting chemical elements:

Magnesium

(Mg)

2 atoms

Chlorine Binding Sites:

The binding sites of Chlorine atom in the B. Halodurans Rnase H Catalytic Domain E188A Mutant in Complex with MG2+ and Rna/Dna Hybrid (Non-P Nick at the Active Site) (pdb code 2g8f). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total only one binding site of Chlorine was determined in the B. Halodurans Rnase H Catalytic Domain E188A Mutant in Complex with MG2+ and Rna/Dna Hybrid (Non-P Nick at the Active Site), PDB code: 2g8f:

Chlorine binding site 1 out of 1 in 2g8f

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Chlorine Binding Sites List in 2g8f

Chlorine binding site 1 out of 1 in the B. Halodurans Rnase H Catalytic Domain E188A Mutant in Complex with MG2+ and Rna/Dna Hybrid (Non-P Nick at the Active Site)

Mono view

Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of B. Halodurans Rnase H Catalytic Domain E188A Mutant in Complex with MG2+ and Rna/Dna Hybrid (Non-P Nick at the Active Site) within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
A:Cl401 b:14.2 occ:1.00	OH	A:TYR83	3.1	11.9	1.0
	O	A:HOH448	3.1	21.6	1.0
	O	A:HOH418	3.2	11.9	1.0
	O	A:HOH406	3.3	13.0	1.0
	CE2	A:TYR83	3.8	10.3	1.0
	CZ	A:TYR83	3.9	10.8	1.0
	O	A:HOH437	3.9	27.6	1.0
	CD2	A:LEU161	4.1	12.9	1.0
	CD2	A:LEU111	4.1	10.1	1.0
	CD1	A:LEU111	4.2	12.7	1.0
	CB	A:LEU161	4.2	10.8	1.0
	CB	A:LEU111	4.2	9.9	1.0
	CD1	A:LEU161	4.2	13.3	1.0
	CG	A:LEU111	4.4	10.9	1.0
	CG	A:LEU161	4.4	14.1	1.0
	O	A:HOH491	4.5	18.5	1.0
	CD	A:ARG97	4.5	12.9	1.0
	O	A:HOH425	4.7	21.5	1.0
	NH1	A:ARG97	4.8	16.3	1.0
	O	A:LEU111	4.8	8.8	1.0

Reference:

M.Nowotny, W.Yang. Stepwise Analyses of Metal Ions in Rnase H Catalysis From Substrate Destabilization to Product Release. Embo J. V. 25 1924 2006.
ISSN: ISSN 0261-4189
PubMed: 16601679
DOI: 10.1038/SJ.EMBOJ.7601076

Page generated: Thu Jul 10 22:18:58 2025

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