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Barium in PDB 1zqn: Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed with Seven Base Pairs of Dna; Soaked in the Presence of BACL2 (15 Millimolar) and Nacl (15 Millimolar)

Protein crystallography data

The structure of Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed with Seven Base Pairs of Dna; Soaked in the Presence of BACL2 (15 Millimolar) and Nacl (15 Millimolar), PDB code: 1zqn was solved by H.Pelletier, M.R.Sawaya, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 20.00 / 3.00
Space group P 21 21 2
Cell size a, b, c (Å), α, β, γ (°) 177.840, 57.674, 47.995, 90.00, 90.00, 90.00
R / Rfree (%) 17.7 / n/a

Barium Binding Sites:

The binding sites of Barium atom in the Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed with Seven Base Pairs of Dna; Soaked in the Presence of BACL2 (15 Millimolar) and Nacl (15 Millimolar) (pdb code 1zqn). This binding sites where shown within 5.0 Angstroms radius around Barium atom.
In total 2 binding sites of Barium where determined in the Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed with Seven Base Pairs of Dna; Soaked in the Presence of BACL2 (15 Millimolar) and Nacl (15 Millimolar), PDB code: 1zqn:
Jump to Barium binding site number: 1; 2;

Barium binding site 1 out of 2 in 1zqn

Go back to Barium Binding Sites List in 1zqn
Barium binding site 1 out of 2 in the Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed with Seven Base Pairs of Dna; Soaked in the Presence of BACL2 (15 Millimolar) and Nacl (15 Millimolar)


Mono view


Stereo pair view

A full contact list of Barium with other atoms in the Ba binding site number 1 of Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed with Seven Base Pairs of Dna; Soaked in the Presence of BACL2 (15 Millimolar) and Nacl (15 Millimolar) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ba341

b:59.1
occ:1.00
O A:THR101 2.6 21.6 1.0
OP1 P:DT6 2.7 25.1 1.0
O A:HOH588 2.8 0.0 1.0
O A:ILE106 2.9 21.0 1.0
OP2 P:DT6 2.9 12.0 1.0
P P:DT6 3.2 7.7 1.0
O A:VAL103 3.5 5.4 1.0
C A:THR101 3.7 17.8 1.0
C A:ILE106 4.0 12.9 1.0
O5' P:DT6 4.1 6.0 1.0
C A:VAL103 4.2 2.7 1.0
N A:GLY105 4.4 11.1 1.0
CA A:SER104 4.5 8.7 1.0
N A:ILE106 4.6 4.3 1.0
C A:ARG102 4.6 26.6 1.0
O3' P:DA5 4.6 8.0 1.0
CA A:THR101 4.6 13.8 1.0
O P:HOH561 4.6 47.4 1.0
N A:SER104 4.7 3.7 1.0
N A:ARG102 4.7 14.1 1.0
N A:VAL103 4.7 18.8 1.0
CA A:ARG102 4.7 20.0 1.0
N A:GLY107 4.8 8.8 1.0
CA A:ILE106 4.8 3.1 1.0
CG2 A:THR101 4.9 20.2 1.0
O A:ARG102 4.9 37.5 1.0
CA A:GLY107 4.9 2.1 1.0
C A:SER104 5.0 8.4 1.0

Barium binding site 2 out of 2 in 1zqn

Go back to Barium Binding Sites List in 1zqn
Barium binding site 2 out of 2 in the Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed with Seven Base Pairs of Dna; Soaked in the Presence of BACL2 (15 Millimolar) and Nacl (15 Millimolar)


Mono view


Stereo pair view

A full contact list of Barium with other atoms in the Ba binding site number 2 of Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed with Seven Base Pairs of Dna; Soaked in the Presence of BACL2 (15 Millimolar) and Nacl (15 Millimolar) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ba342

b:61.7
occ:1.00
O A:LEU62 2.7 24.7 1.0
O A:VAL65 2.8 18.4 1.0
O A:LYS60 3.0 38.0 1.0
C A:VAL65 3.8 13.8 1.0
C A:LEU62 3.9 24.6 1.0
N A:VAL65 4.2 5.8 1.0
C A:LYS60 4.2 36.6 1.0
C A:LYS61 4.4 33.6 1.0
CA A:VAL65 4.4 10.2 1.0
O A:LYS61 4.5 35.2 1.0
N A:LEU62 4.6 22.7 1.0
CG A:LYS60 4.6 40.9 1.0
N A:GLY64 4.6 22.8 1.0
N A:GLY66 4.7 21.3 1.0
N A:PRO63 4.7 31.9 1.0
CA A:PRO63 4.8 23.1 1.0
CA A:LEU62 4.8 19.2 1.0
CA A:GLY66 4.8 25.1 1.0
CB A:VAL65 4.9 18.6 1.0
CA A:LYS61 4.9 38.6 1.0
CE A:LYS60 5.0 54.2 1.0

Reference:

H.Pelletier, M.R.Sawaya. Characterization of the Metal Ion Binding Helix-Hairpin-Helix Motifs in Human Dna Polymerase Beta By X-Ray Structural Analysis. Biochemistry V. 35 12778 1996.
ISSN: ISSN 0006-2960
PubMed: 8841120
DOI: 10.1021/BI960790I
Page generated: Tue Oct 27 17:00:13 2020

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