Iodine in PDB 6doj: Crystal Structure of Bacillus Halodurans Ribonuclease H1 in Complex with An Rna/Dna Hybrid: Reaction in 2 Mm MG2+ and 5 Mm K+ For 120 S at 21 C

Enzymatic activity of Crystal Structure of Bacillus Halodurans Ribonuclease H1 in Complex with An Rna/Dna Hybrid: Reaction in 2 Mm MG2+ and 5 Mm K+ For 120 S at 21 C

All present enzymatic activity of Crystal Structure of Bacillus Halodurans Ribonuclease H1 in Complex with An Rna/Dna Hybrid: Reaction in 2 Mm MG2+ and 5 Mm K+ For 120 S at 21 C:
3.1.26.4;

Protein crystallography data

The structure of Crystal Structure of Bacillus Halodurans Ribonuclease H1 in Complex with An Rna/Dna Hybrid: Reaction in 2 Mm MG2+ and 5 Mm K+ For 120 S at 21 C, PDB code: 6doj was solved by N.L.Samara, W.Yang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

*Resolution Low / High (Å)*	20.02 / 1.40
*Space group*	C 1 2 1
*Cell size a, b, c (Å), α, β, γ (°)*	81.873, 37.361, 62.275, 90.00, 96.71, 90.00
*R / R_free (%)*	14.5 / 18.5

Other elements in 6doj:

The structure of Crystal Structure of Bacillus Halodurans Ribonuclease H1 in Complex with An Rna/Dna Hybrid: Reaction in 2 Mm MG2+ and 5 Mm K+ For 120 S at 21 C also contains other interesting chemical elements:

Magnesium	(Mg)	2 atoms
Potassium	(K)	1 atom

Iodine Binding Sites:

The binding sites of Iodine atom in the Crystal Structure of Bacillus Halodurans Ribonuclease H1 in Complex with An Rna/Dna Hybrid: Reaction in 2 Mm MG2+ and 5 Mm K+ For 120 S at 21 C (pdb code 6doj). This binding sites where shown within 5.0 Angstroms radius around Iodine atom.
In total only one binding site of Iodine was determined in the Crystal Structure of Bacillus Halodurans Ribonuclease H1 in Complex with An Rna/Dna Hybrid: Reaction in 2 Mm MG2+ and 5 Mm K+ For 120 S at 21 C, PDB code: 6doj:

Iodine binding site 1 out of 1 in 6doj

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Iodine Binding Sites List in 6doj

Iodine binding site 1 out of 1 in the Crystal Structure of Bacillus Halodurans Ribonuclease H1 in Complex with An Rna/Dna Hybrid: Reaction in 2 Mm MG2+ and 5 Mm K+ For 120 S at 21 C

Mono view

Stereo pair view

A full contact list of Iodine with other atoms in the I binding site number 1 of Crystal Structure of Bacillus Halodurans Ribonuclease H1 in Complex with An Rna/Dna Hybrid: Reaction in 2 Mm MG2+ and 5 Mm K+ For 120 S at 21 C within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
A:I204 b:51.6 occ:0.25	O	A:HOH467	2.9	36.4	0.8
	HG2	A:PRO177	2.9	27.7	1.0
	O	A:HOH463	3.0	32.9	1.0
	HD11	A:LEU179	3.1	26.3	1.0
	HG3	A:PRO128	3.2	28.4	1.0
	HB3	A:PRO128	3.3	24.6	1.0
	HB2	A:PRO177	3.3	28.3	1.0
	HD21	A:LEU179	3.6	34.1	1.0
	CD1	A:ILE64	3.7	43.7	1.0
	CG	A:PRO177	3.7	23.1	1.0
	HB3	A:PRO177	3.7	28.3	1.0
	CB	A:PRO177	3.7	23.6	1.0
	CG	A:PRO128	4.0	23.7	1.0
	CB	A:PRO128	4.0	20.5	1.0
	CD1	A:LEU179	4.1	21.9	1.0
	HG3	A:PRO177	4.2	27.7	1.0
	O	A:HOH468	4.3	56.3	1.0
	HD3	A:PRO128	4.4	21.1	1.0
	HB2	A:PRO128	4.4	24.6	1.0
	CD2	A:LEU179	4.4	28.4	1.0
	HD13	A:LEU179	4.5	26.3	1.0
	HD2	A:PRO177	4.6	24.1	1.0
	HD12	A:LEU179	4.6	26.3	1.0
	HG2	A:PRO128	4.7	28.4	1.0
	HG	A:LEU179	4.7	25.7	1.0
	CG	A:LEU179	4.7	21.4	1.0
	HD22	A:LEU179	4.8	34.1	1.0
	CD	A:PRO128	4.8	17.6	1.0
	CD	A:PRO177	4.8	20.1	1.0

Reference:

N.L.Samara, W.Yang. Cation Trafficking Propels Rna Hydrolysis. Nat. Struct. Mol. Biol. V. 25 715 2018.
ISSN: ESSN 1545-9985
PubMed: 30076410
DOI: 10.1038/S41594-018-0099-4

Page generated: Sun Aug 11 22:55:43 2024

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