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Lead in PDB 1hd7: A Second Divalent Metal Ion in the Active Site of A New Crystal Form of Human Apurinic/Apyridinimic Endonuclease, APE1, and Its Implications For the Catalytic Mechanism

Enzymatic activity of A Second Divalent Metal Ion in the Active Site of A New Crystal Form of Human Apurinic/Apyridinimic Endonuclease, APE1, and Its Implications For the Catalytic Mechanism

All present enzymatic activity of A Second Divalent Metal Ion in the Active Site of A New Crystal Form of Human Apurinic/Apyridinimic Endonuclease, APE1, and Its Implications For the Catalytic Mechanism:
4.2.99.18;

Protein crystallography data

The structure of A Second Divalent Metal Ion in the Active Site of A New Crystal Form of Human Apurinic/Apyridinimic Endonuclease, APE1, and Its Implications For the Catalytic Mechanism, PDB code: 1hd7 was solved by P.T.Beernink, B.W.Segelke, B.Rupp, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 25.0 / 1.95
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 128.390, 44.850, 78.140, 90.00, 124.54, 90.00
R / Rfree (%) 20.5 / 25.5

Lead Binding Sites:

The binding sites of Lead atom in the A Second Divalent Metal Ion in the Active Site of A New Crystal Form of Human Apurinic/Apyridinimic Endonuclease, APE1, and Its Implications For the Catalytic Mechanism (pdb code 1hd7). This binding sites where shown within 5.0 Angstroms radius around Lead atom.
In total only one binding site of Lead was determined in the A Second Divalent Metal Ion in the Active Site of A New Crystal Form of Human Apurinic/Apyridinimic Endonuclease, APE1, and Its Implications For the Catalytic Mechanism, PDB code: 1hd7:

Lead binding site 1 out of 1 in 1hd7

Go back to Lead Binding Sites List in 1hd7
Lead binding site 1 out of 1 in the A Second Divalent Metal Ion in the Active Site of A New Crystal Form of Human Apurinic/Apyridinimic Endonuclease, APE1, and Its Implications For the Catalytic Mechanism


Mono view


Stereo pair view

A full contact list of Lead with other atoms in the Pb binding site number 1 of A Second Divalent Metal Ion in the Active Site of A New Crystal Form of Human Apurinic/Apyridinimic Endonuclease, APE1, and Its Implications For the Catalytic Mechanism within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Pb1319

b:84.3
occ:1.00
 OD1 A:ASP70 2.3 35.5 1.0
OE1 A:GLU96 2.6 39.5 1.0
O A:HOH2282 2.6 27.0 1.0
O A:HOH2283 2.7 43.6 1.0
O A:HOH2069 2.7 45.2 1.0
O A:HOH2079 2.8 54.3 1.0
CD A:GLU96 3.1 40.8 1.0
OE2 A:GLU96 3.2 44.2 1.0
CG A:ASP70 3.4 33.0 1.0
CB A:ASP70 4.0 30.9 1.0
O A:HOH2146 4.1 64.7 1.0
CA A:ASP70 4.1 30.0 1.0
OD2 A:ASP308 4.2 32.5 1.0
O A:HOH2285 4.3 39.9 1.0
OD1 A:ASP308 4.3 30.6 1.0
OD2 A:ASP70 4.4 33.0 1.0
NZ A:LYS98 4.4 49.9 1.0
OD1 A:ASN68 4.6 24.7 1.0
CG A:GLU96 4.6 39.5 1.0
CE A:LYS98 4.7 47.6 1.0
CG A:ASP308 4.7 32.2 1.0
O A:HOH2082 4.9 60.5 1.0
CB A:GLU96 4.9 30.6 1.0

Reference:

P.T.Beernink, B.W.Segelke, M.Z.Hadi, J.P.Erzberger, D.M.Wilson Iii, B.Rupp. Two Divalent Metal Ions in the Active Site of A New Crystal Form of Human Apurinic/Apyrimidinic Endonuclease, APE1: Implications For the Catalytic Mechanism J.Mol.Biol. V. 307 1023 2001.
ISSN: ISSN 0022-2836
PubMed: 11286553
DOI: 10.1006/JMBI.2001.4529
Page generated: Thu Oct 10 09:59:35 2024

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