Sodium in PDB 3uq2: Crystal Structure of the Post-Catalytic Product Complex of Polymerase Lambda with An Rcmp Inserted Opposite A Templating G and Damp Inserted Opposite A Templating T at the Primer Terminus.

Enzymatic activity of Crystal Structure of the Post-Catalytic Product Complex of Polymerase Lambda with An Rcmp Inserted Opposite A Templating G and Damp Inserted Opposite A Templating T at the Primer Terminus.

All present enzymatic activity of Crystal Structure of the Post-Catalytic Product Complex of Polymerase Lambda with An Rcmp Inserted Opposite A Templating G and Damp Inserted Opposite A Templating T at the Primer Terminus.:
2.7.7.7;

Protein crystallography data

The structure of Crystal Structure of the Post-Catalytic Product Complex of Polymerase Lambda with An Rcmp Inserted Opposite A Templating G and Damp Inserted Opposite A Templating T at the Primer Terminus., PDB code: 3uq2 was solved by R.A.Gosavi, A.F.Moon, T.A.Kunkel, L.C.Pedersen, K.Bebenek, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

*Resolution Low / High (Å)*	27.13 / 2.25
*Space group*	P 2₁ 2₁ 2₁
*Cell size a, b, c (Å), α, β, γ (°)*	55.286, 62.002, 141.470, 90.00, 90.00, 90.00
*R / R_free (%)*	21.1 / 25.4

Other elements in 3uq2:

Magnesium

(Mg)

1 atom

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of the Post-Catalytic Product Complex of Polymerase Lambda with An Rcmp Inserted Opposite A Templating G and Damp Inserted Opposite A Templating T at the Primer Terminus. (pdb code 3uq2). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total only one binding site of Sodium was determined in the Crystal Structure of the Post-Catalytic Product Complex of Polymerase Lambda with An Rcmp Inserted Opposite A Templating G and Damp Inserted Opposite A Templating T at the Primer Terminus., PDB code: 3uq2:

Sodium binding site 1 out of 1 in 3uq2

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Sodium Binding Sites List in 3uq2

Sodium binding site 1 out of 1 in the Crystal Structure of the Post-Catalytic Product Complex of Polymerase Lambda with An Rcmp Inserted Opposite A Templating G and Damp Inserted Opposite A Templating T at the Primer Terminus.

Mono view

Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Crystal Structure of the Post-Catalytic Product Complex of Polymerase Lambda with An Rcmp Inserted Opposite A Templating G and Damp Inserted Opposite A Templating T at the Primer Terminus. within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
A:Na3 b:35.9 occ:1.00	OP1	P:DA5	2.3	37.7	1.0
	O	A:ALA344	2.3	37.3	1.0
	O	A:ILE341	2.5	33.5	1.0
	O	A:SER339	2.5	35.4	1.0
	O	P:HOH50	2.7	52.3	1.0
	C	A:ILE341	3.4	34.1	1.0
	P	P:DA5	3.4	37.6	1.0
	C	A:ALA344	3.4	40.5	1.0
	C	A:SER339	3.4	36.9	1.0
	OP2	P:DA5	3.6	35.3	1.0
	N	A:ALA344	3.6	35.0	1.0
	N	A:GLY343	3.9	35.6	1.0
	CA	A:TRP342	3.9	36.6	1.0
	N	A:TRP342	4.0	36.4	1.0
	N	A:ILE341	4.0	29.9	1.0
	CA	A:ALA344	4.1	36.8	1.0
	CA	A:SER339	4.1	42.2	1.0
	C	A:TRP342	4.2	39.4	1.0
	C	A:ASN340	4.2	33.0	1.0
	O	A:HOH77	4.3	55.6	1.0
	N	A:ASN340	4.3	36.9	1.0
	O3'	P:DT4	4.3	32.5	1.0
	CA	A:ILE341	4.4	32.7	1.0
	N	A:GLY345	4.4	38.4	1.0
	CA	A:ASN340	4.4	31.1	1.0
	O5'	P:DA5	4.6	35.6	1.0
	C	A:GLY343	4.6	37.0	1.0
	CB	A:ALA344	4.7	29.3	1.0
	CB	A:SER339	4.7	46.0	1.0
	CA	A:GLY345	4.7	35.3	1.0
	O	A:ASN340	4.8	37.2	1.0
	CA	A:GLY343	4.8	32.4	1.0

Reference:

R.A.Gosavi, A.F.Moon, T.A.Kunkel, L.C.Pedersen, K.Bebenek. The Catalytic Cycle For Ribonucleotide Incorporation By Human Dna Pol Lambda Nucleic Acids Res. V. 40 7518 2012.
ISSN: ISSN 0305-1048
PubMed: 22584622
DOI: 10.1093/NAR/GKS413

Page generated: Mon Oct 7 13:31:25 2024

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