Manganese in PDB 6fbh: Klentaq Dna Polymerase Processing A Modified Primer - Bearing the Modification Upstream at the Sixth Primer Nucleotide.

All present enzymatic activity of Klentaq Dna Polymerase Processing A Modified Primer - Bearing the Modification Upstream at the Sixth Primer Nucleotide.:
2.7.7.7;

The structure of Klentaq Dna Polymerase Processing A Modified Primer - Bearing the Modification Upstream at the Sixth Primer Nucleotide., PDB code: 6fbh was solved by H.M.Kropp, K.Diederichs, A.Marx, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	47.50 / 1.80
Space group	P 31 2 1
Cell size a, b, c (Å), α, β, γ (°)	109.706, 109.706, 91.292, 90.00, 90.00, 120.00
R / Rfree (%)	19.6 / 22.3

The binding sites of Manganese atom in the Klentaq Dna Polymerase Processing A Modified Primer - Bearing the Modification Upstream at the Sixth Primer Nucleotide. (pdb code 6fbh). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 2 binding sites of Manganese where determined in the Klentaq Dna Polymerase Processing A Modified Primer - Bearing the Modification Upstream at the Sixth Primer Nucleotide., PDB code: 6fbh:
Jump to Manganese binding site number: 1; 2;

Manganese binding site 1 out of 2 in the Klentaq Dna Polymerase Processing A Modified Primer - Bearing the Modification Upstream at the Sixth Primer Nucleotide.


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Klentaq Dna Polymerase Processing A Modified Primer - Bearing the Modification Upstream at the Sixth Primer Nucleotide. within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn901 b:41.3 occ:1.00 O A:HOH1045 1.8 37.4 1.0 OD1 A:ASP785 2.1 50.5 1.0 O A:HOH1036 2.1 34.6 1.0 O1A A:XG4904 2.2 37.4 1.0 OD2 A:ASP610 2.2 51.3 1.0 O3' B:DC112 2.3 49.7 1.0 CG A:ASP785 3.1 45.1 1.0 CG A:ASP610 3.1 46.2 1.0 PA A:XG4904 3.3 40.0 1.0 C3' B:DC112 3.4 47.0 1.0 OD2 A:ASP785 3.4 52.7 1.0 H3' B:DC112 3.4 56.4 1.0 OD1 A:ASP610 3.4 56.3 1.0 HB2 A:GLU786 3.5 53.1 1.0 MN A:MN902 3.6 38.9 0.9 O2A A:XG4904 3.6 38.4 1.0 H5' A:XG4904 3.6 42.9 1.0 H5'' B:DC112 3.7 56.1 1.0 O5' A:XG4904 3.8 36.7 1.0 O A:HOH1164 3.9 46.0 1.0 H A:ASP785 4.0 42.4 1.0 H5'A A:XG4904 4.0 42.9 1.0 HZ2 A:LYS831 4.0 78.7 1.0 C5' A:XG4904 4.1 35.7 1.0 HB3 A:GLU786 4.1 53.1 1.0 C4' B:DC112 4.2 46.6 1.0 H4' B:DC112 4.2 55.9 1.0 CB A:GLU786 4.2 44.2 1.0 HZ3 A:LYS831 4.2 78.7 1.0 OE1 A:GLU786 4.3 46.8 1.0 C5' B:DC112 4.3 46.8 1.0 O A:VAL783 4.3 36.6 1.0 CB A:ASP785 4.4 39.6 1.0 CB A:ASP610 4.5 40.0 1.0 C A:ASP785 4.5 36.8 1.0 NZ A:LYS831 4.5 65.6 1.0 HB2 A:ASP610 4.5 48.0 1.0 C2' B:DC112 4.6 44.2 1.0 O A:ASP785 4.6 37.2 1.0 N A:ASP785 4.7 35.3 1.0 N3A A:XG4904 4.7 40.3 1.0 H2'' B:DC112 4.7 53.1 1.0 O3G A:XG4904 4.7 39.1 1.0 HB3 A:ASP785 4.7 47.5 1.0 CA A:ASP785 4.7 37.3 1.0 N A:GLU786 4.8 38.1 1.0 HZ1 A:LYS831 4.8 78.7 1.0 O5' B:DC112 4.8 44.3 1.0 H2' B:DC112 4.9 53.1 1.0 HA A:ASP610 4.9 47.7 1.0

Manganese binding site 2 out of 2 in the Klentaq Dna Polymerase Processing A Modified Primer - Bearing the Modification Upstream at the Sixth Primer Nucleotide.


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 2 of Klentaq Dna Polymerase Processing A Modified Primer - Bearing the Modification Upstream at the Sixth Primer Nucleotide. within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn902 b:38.9 occ:0.92 O3G A:XG4904 2.0 39.1 1.0 OD2 A:ASP785 2.1 52.7 1.0 OD1 A:ASP610 2.2 56.3 1.0 O A:TYR611 2.2 61.7 1.0 O1B A:XG4904 2.2 39.2 1.0 O1A A:XG4904 2.3 37.4 1.0 PB A:XG4904 3.1 40.6 1.0 H5'A A:XG4904 3.1 42.9 1.0 CG A:ASP785 3.2 45.1 1.0 CG A:ASP610 3.2 46.2 1.0 PA A:XG4904 3.4 40.0 1.0 PG A:XG4904 3.4 44.2 1.0 C A:TYR611 3.4 51.4 1.0 N3A A:XG4904 3.4 40.3 1.0 MN A:MN901 3.6 41.3 1.0 O3B A:XG4904 3.6 42.1 1.0 OD1 A:ASP785 3.6 50.5 1.0 OD2 A:ASP610 3.6 51.3 1.0 H A:GLN613 3.8 55.8 1.0 O A:HOH1128 3.9 42.8 1.0 O A:HOH1164 3.9 46.0 1.0 HA A:SER612 4.0 59.5 1.0 HG22 A:ILE614 4.0 53.3 1.0 H A:ILE614 4.0 52.5 1.0 C5' A:XG4904 4.0 35.7 1.0 N A:TYR611 4.1 42.9 1.0 HB2 A:TYR611 4.2 53.5 1.0 O5' A:XG4904 4.2 36.7 1.0 CA A:TYR611 4.3 46.0 1.0 H5' A:XG4904 4.3 42.9 1.0 H A:TYR611 4.3 51.5 1.0 HB A:ILE614 4.3 54.1 1.0 N A:GLN613 4.3 46.5 1.0 O2G A:XG4904 4.3 42.2 1.0 HN3A A:XG4904 4.3 48.4 1.0 O1G A:XG4904 4.3 45.4 1.0 C A:ASP610 4.4 41.3 1.0 N A:SER612 4.4 49.1 1.0 O A:HOH1045 4.4 37.4 1.0 O2B A:XG4904 4.5 39.7 1.0 CB A:ASP785 4.5 39.6 1.0 CA A:SER612 4.5 49.5 1.0 HB2 A:ASP785 4.5 47.5 1.0 CB A:ASP610 4.5 40.0 1.0 O2A A:XG4904 4.5 38.4 1.0 C A:SER612 4.6 47.9 1.0 HG21 A:ILE614 4.7 53.3 1.0 CB A:TYR611 4.7 44.5 1.0 CG2 A:ILE614 4.7 44.4 1.0 O A:ASP610 4.7 44.5 1.0 HB3 A:ASP610 4.7 48.0 1.0 N A:ILE614 4.8 43.7 1.0 HZ2 A:LYS663 4.8 77.2 1.0 HB3 A:TYR611 4.9 53.5 1.0 CA A:ASP610 4.9 39.7 1.0 HB3 A:ASP785 4.9 47.5 1.0 HA A:ASP610 4.9 47.7 1.0 O A:ASP785 4.9 37.2 1.0 CB A:ILE614 4.9 45.1 1.0

H.M.Kropp, S.L.Durr, C.Peter, K.Diederichs, A.Marx. Snapshots of A Modified Nucleotide Moving Through the Confines of A Dna Polymerase. Proc. Natl. Acad. Sci. V. 115 9992 2018U.S.A..
ISSN: ESSN 1091-6490
PubMed: 30224478
DOI: 10.1073/PNAS.1811518115