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Calcium in PDB 4elv: Snapshot of the Large Fragment of Dna Polymerase I From Thermus Aquaticus Processing Modified Pyrimidines

Enzymatic activity of Snapshot of the Large Fragment of Dna Polymerase I From Thermus Aquaticus Processing Modified Pyrimidines

All present enzymatic activity of Snapshot of the Large Fragment of Dna Polymerase I From Thermus Aquaticus Processing Modified Pyrimidines:
2.7.7.7;

Protein crystallography data

The structure of Snapshot of the Large Fragment of Dna Polymerase I From Thermus Aquaticus Processing Modified Pyrimidines, PDB code: 4elv was solved by A.Marx, K.Diederichs, S.Obeid, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 47.29 / 1.90
Space group P 31 2 1
Cell size a, b, c (Å), α, β, γ (°) 109.213, 109.213, 91.047, 90.00, 90.00, 120.00
R / Rfree (%) 17.6 / 21.6

Other elements in 4elv:

The structure of Snapshot of the Large Fragment of Dna Polymerase I From Thermus Aquaticus Processing Modified Pyrimidines also contains other interesting chemical elements:

Magnesium (Mg) 3 atoms

Calcium Binding Sites:

The binding sites of Calcium atom in the Snapshot of the Large Fragment of Dna Polymerase I From Thermus Aquaticus Processing Modified Pyrimidines (pdb code 4elv). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total only one binding site of Calcium was determined in the Snapshot of the Large Fragment of Dna Polymerase I From Thermus Aquaticus Processing Modified Pyrimidines, PDB code: 4elv:

Calcium binding site 1 out of 1 in 4elv

Go back to Calcium Binding Sites List in 4elv
Calcium binding site 1 out of 1 in the Snapshot of the Large Fragment of Dna Polymerase I From Thermus Aquaticus Processing Modified Pyrimidines


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Snapshot of the Large Fragment of Dna Polymerase I From Thermus Aquaticus Processing Modified Pyrimidines within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca908

b:26.9
occ:1.00
 O7 A:0R7902 2.3 32.7 1.0
OD2 A:ASP785 2.3 36.0 1.0
O A:TYR611 2.3 25.3 1.0
O9 A:0R7902 2.3 27.8 1.0
OD1 A:ASP610 2.4 41.6 1.0
O11 A:0R7902 2.4 28.6 1.0
O A:HOH1196 3.3 44.3 1.0
CG A:ASP785 3.3 30.0 1.0
P2 A:0R7902 3.4 30.5 1.0
C A:TYR611 3.5 25.8 1.0
P3 A:0R7902 3.5 38.1 1.0
CG A:ASP610 3.5 36.0 1.0
P1 A:0R7902 3.7 29.9 1.0
O3 A:0R7902 3.8 23.5 1.0
OD1 A:ASP785 3.8 26.6 1.0
OD2 A:ASP610 4.0 31.6 1.0
O1 A:0R7902 4.0 35.7 1.0
O A:HOH1048 4.0 31.0 1.0
O A:HOH1080 4.0 37.3 1.0
MG A:MG901 4.1 42.4 1.0
C5' A:0R7902 4.3 30.3 1.0
N A:TYR611 4.3 23.9 1.0
N A:SER612 4.4 27.9 1.0
O6 A:0R7902 4.4 39.0 1.0
CA A:SER612 4.4 39.0 1.0
CA A:TYR611 4.4 24.2 1.0
O5' A:0R7902 4.5 24.9 1.0
N A:GLN613 4.5 39.0 1.0
CB A:ASP785 4.6 23.3 1.0
C A:ASP610 4.6 24.3 1.0
O5 A:0R7902 4.6 34.3 1.0
CG2 A:ILE614 4.7 31.1 1.0
O8 A:0R7902 4.7 29.4 1.0
CB A:ASP610 4.7 24.8 1.0
C A:SER612 4.7 35.1 1.0
CB A:TYR611 4.8 25.1 1.0
O10 A:0R7902 4.8 39.2 1.0
N A:ILE614 4.9 27.9 1.0
O A:ASP785 4.9 20.5 1.0

Reference:

S.Obeid, H.Bu Kamp, W.Welte, K.Diederichs, A.Marx. Snapshot of the Large Fragment of Dna Polymerase I From Thermus Aquaticus Processing Modified Pyrimidines To Be Published.
Page generated: Tue Jul 8 19:49:34 2025

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