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Fluorine in PDB 4ymm: Structure of Human Dna Polymerase Beta Complexed with 7BG As the Template Base in A 1-Nucleotide Gapped Dna

Enzymatic activity of Structure of Human Dna Polymerase Beta Complexed with 7BG As the Template Base in A 1-Nucleotide Gapped Dna

All present enzymatic activity of Structure of Human Dna Polymerase Beta Complexed with 7BG As the Template Base in A 1-Nucleotide Gapped Dna:
2.7.7.7;

Protein crystallography data

The structure of Structure of Human Dna Polymerase Beta Complexed with 7BG As the Template Base in A 1-Nucleotide Gapped Dna, PDB code: 4ymm was solved by S.Lee, M.-C.Koag, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 19.74 / 2.20
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 54.426, 78.966, 54.838, 90.00, 106.34, 90.00
R / Rfree (%) 19.6 / 25.7

Other elements in 4ymm:

The structure of Structure of Human Dna Polymerase Beta Complexed with 7BG As the Template Base in A 1-Nucleotide Gapped Dna also contains other interesting chemical elements:

Sodium (Na) 2 atoms

Fluorine Binding Sites:

The binding sites of Fluorine atom in the Structure of Human Dna Polymerase Beta Complexed with 7BG As the Template Base in A 1-Nucleotide Gapped Dna (pdb code 4ymm). This binding sites where shown within 5.0 Angstroms radius around Fluorine atom.
In total only one binding site of Fluorine was determined in the Structure of Human Dna Polymerase Beta Complexed with 7BG As the Template Base in A 1-Nucleotide Gapped Dna, PDB code: 4ymm:

Fluorine binding site 1 out of 1 in 4ymm

Go back to Fluorine Binding Sites List in 4ymm
Fluorine binding site 1 out of 1 in the Structure of Human Dna Polymerase Beta Complexed with 7BG As the Template Base in A 1-Nucleotide Gapped Dna


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 1 of Structure of Human Dna Polymerase Beta Complexed with 7BG As the Template Base in A 1-Nucleotide Gapped Dna within 5.0Å range:
probe atom residue distance (Å) B Occ
T:F6

b:86.7
occ:1.00
F1' T:7BG6 0.0 86.7 1.0
C2' T:7BG6 1.1 80.0 1.0
C3' T:7BG6 1.9 76.3 1.0
C1' T:7BG6 2.1 85.4 1.0
N9 T:7BG6 2.6 91.1 1.0
OP2 T:DT7 2.8 78.3 1.0
C6 T:DT7 2.8 60.8 1.0
O3' T:7BG6 2.8 65.9 1.0
O4' T:7BG6 2.9 79.3 1.0
C4' T:7BG6 3.0 77.8 1.0
C5 T:DT7 3.1 60.2 1.0
P T:DT7 3.2 86.6 1.0
N1 T:DT7 3.2 58.6 1.0
C8 T:7BG6 3.3 92.0 1.0
O4' T:DT7 3.3 66.0 1.0
O5' T:DT7 3.4 75.7 1.0
C4 T:7BG6 3.4 92.0 1.0
C5' T:DT7 3.5 70.2 1.0
C7 T:DT7 3.6 56.8 1.0
C4 T:DT7 3.7 53.3 1.0
C1' T:DT7 3.8 56.1 1.0
C2 T:DT7 3.8 55.3 1.0
C5' T:7BG6 3.9 71.6 1.0
N3 T:7BG6 3.9 82.6 1.0
N3 T:DT7 4.0 50.7 1.0
O T:HOH104 4.0 59.9 1.0
C4' T:DT7 4.0 67.5 1.0
N7 T:7BG6 4.2 93.9 1.0
C5 T:7BG6 4.3 86.2 1.0
C2' T:DT7 4.4 58.4 1.0
O4 T:DT7 4.5 49.0 1.0
OP1 T:DT7 4.6 83.3 1.0
O2 T:DT7 4.7 56.6 1.0
C3' T:DT7 4.9 60.8 1.0

Reference:

S.Lee, M.-C.Koag. Structure of Human Dna Polymerase Beta Complexed with 7BG As the Template Base in A 1-Nucleotide Gapped Dna To Be Published.
Page generated: Tue Jul 15 01:44:14 2025

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