Chlorine in PDB 7m0d: Pre-Catalytic Quaternary Complex of Dna Polymerase Lambda with Bound Complementary Dsb Substrate and Incoming Dumpnpp

Enzymatic activity of Pre-Catalytic Quaternary Complex of Dna Polymerase Lambda with Bound Complementary Dsb Substrate and Incoming Dumpnpp

All present enzymatic activity of Pre-Catalytic Quaternary Complex of Dna Polymerase Lambda with Bound Complementary Dsb Substrate and Incoming Dumpnpp:
2.7.7.7;

Protein crystallography data

The structure of Pre-Catalytic Quaternary Complex of Dna Polymerase Lambda with Bound Complementary Dsb Substrate and Incoming Dumpnpp, PDB code: 7m0d was solved by A.M.Kaminski, K.Bebenek, L.C.Pedersen, T.A.Kunkel, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

*Resolution Low / High (Å)*	41.78 / 1.80
*Space group*	P 2₁ 2₁ 2
*Cell size a, b, c (Å), α, β, γ (°)*	95.442, 151.989, 86.473, 90, 90, 90
*R / R_free (%)*	16.4 / 18.9

Other elements in 7m0d:

The structure of Pre-Catalytic Quaternary Complex of Dna Polymerase Lambda with Bound Complementary Dsb Substrate and Incoming Dumpnpp also contains other interesting chemical elements:

Magnesium	(Mg)	2 atoms
Sodium	(Na)	5 atoms
Potassium	(K)	6 atoms

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Pre-Catalytic Quaternary Complex of Dna Polymerase Lambda with Bound Complementary Dsb Substrate and Incoming Dumpnpp (pdb code 7m0d). 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 Pre-Catalytic Quaternary Complex of Dna Polymerase Lambda with Bound Complementary Dsb Substrate and Incoming Dumpnpp, PDB code: 7m0d:

Chlorine binding site 1 out of 1 in 7m0d

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Chlorine Binding Sites List in 7m0d

Chlorine binding site 1 out of 1 in the Pre-Catalytic Quaternary Complex of Dna Polymerase Lambda with Bound Complementary Dsb Substrate and Incoming Dumpnpp

Mono view

Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Pre-Catalytic Quaternary Complex of Dna Polymerase Lambda with Bound Complementary Dsb Substrate and Incoming Dumpnpp within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
B:Cl708 b:25.9 occ:0.70	N	B:SER445	3.3	20.7	1.0
	O	B:HOH999	3.3	35.0	1.0
	OG	B:SER445	3.3	43.7	1.0
	NE2	B:GLN471	3.3	26.4	1.0
	CA	B:GLY442	3.6	23.4	1.0
	CB	B:SER445	3.7	27.0	1.0
	CB	B:PHE444	3.7	19.7	1.0
	O	B:HOH832	3.7	18.6	1.0
	C	B:GLY442	3.8	27.1	1.0
	O	B:GLY442	3.8	27.6	1.0
	N	B:GLY442	4.0	18.4	1.0
	N	B:PHE444	4.0	19.2	1.0
	CA	B:SER445	4.1	21.5	1.0
	C	B:PHE444	4.2	18.6	1.0
	CA	B:PHE444	4.2	18.3	1.0
	CD	B:GLN471	4.3	26.3	1.0
	NE	A:ARG441	4.3	59.8	1.0
	OE1	B:GLN471	4.4	26.8	1.0
	N	B:ILE443	4.4	20.9	1.0
	CD2	B:PHE444	4.5	21.3	1.0
	CG	B:PHE444	4.6	19.7	1.0
	C	B:ILE443	4.8	20.3	1.0
	OE1	B:GLU465	4.9	38.8	1.0

Reference:

A.M.Kaminski, K.Bebenek, T.A.Kunkel, L.C.Pedersen. Comprehensive Structural Survey of Dna Double-Strand Break Synapsis By Dna Polymerase Lambda To Be Published.

Page generated: Sun Jul 13 03:58:30 2025

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