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Chlorine in PDB 2zbk: Crystal Structure of An Intact Type II Dna Topoisomerase: Insights Into Dna Transfer Mechanisms

Enzymatic activity of Crystal Structure of An Intact Type II Dna Topoisomerase: Insights Into Dna Transfer Mechanisms

All present enzymatic activity of Crystal Structure of An Intact Type II Dna Topoisomerase: Insights Into Dna Transfer Mechanisms:
5.99.1.3;

Protein crystallography data

The structure of Crystal Structure of An Intact Type II Dna Topoisomerase: Insights Into Dna Transfer Mechanisms, PDB code: 2zbk was solved by M.Graille, L.Cladiere, D.Durand, F.Lecointe, P.Forterre, H.Vantilbeurgh, Paris-Sud Yeast Structural Genomics (Ysg), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 19.99 / 3.56
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 114.960, 200.530, 329.070, 90.00, 90.00, 90.00
R / Rfree (%) 31.2 / 33.3

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Crystal Structure of An Intact Type II Dna Topoisomerase: Insights Into Dna Transfer Mechanisms (pdb code 2zbk). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 4 binding sites of Chlorine where determined in the Crystal Structure of An Intact Type II Dna Topoisomerase: Insights Into Dna Transfer Mechanisms, PDB code: 2zbk:
Jump to Chlorine binding site number: 1; 2; 3; 4;

Chlorine binding site 1 out of 4 in 2zbk

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Chlorine binding site 1 out of 4 in the Crystal Structure of An Intact Type II Dna Topoisomerase: Insights Into Dna Transfer Mechanisms


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Crystal Structure of An Intact Type II Dna Topoisomerase: Insights Into Dna Transfer Mechanisms within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cl531

b:92.9
occ:1.00
CL1 B:RDC531 0.0 92.9 1.0
C6 B:RDC531 1.5 93.0 1.0
C5 B:RDC531 2.6 92.9 1.0
O5 B:RDC531 2.6 93.8 1.0
C7 B:RDC531 2.6 92.9 1.0
O4 B:RDC531 2.9 93.0 1.0
C9 B:RDC531 2.9 93.8 1.0
C8 B:RDC531 3.1 93.1 1.0
CG2 B:VAL112 3.4 73.2 1.0
C4 B:RDC531 3.9 92.9 1.0
C2 B:RDC531 3.9 93.0 1.0
ND2 B:ASN42 4.0 72.9 1.0
CB B:VAL112 4.0 73.0 1.0
CG1 B:VAL112 4.0 73.4 1.0
CZ B:PHE90 4.0 76.3 1.0
CE1 B:PHE90 4.0 76.3 1.0
C10 B:RDC531 4.0 94.2 1.0
CG2 B:VAL172 4.3 73.8 1.0
C3 B:RDC531 4.4 92.9 1.0
CB B:ASN42 4.6 72.7 1.0
CG B:ASN42 4.7 72.8 1.0
CD2 B:LEU39 4.7 72.7 1.0
C11 B:RDC531 4.7 94.7 1.0

Chlorine binding site 2 out of 4 in 2zbk

Go back to Chlorine Binding Sites List in 2zbk
Chlorine binding site 2 out of 4 in the Crystal Structure of An Intact Type II Dna Topoisomerase: Insights Into Dna Transfer Mechanisms


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Crystal Structure of An Intact Type II Dna Topoisomerase: Insights Into Dna Transfer Mechanisms within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Cl531

b:92.9
occ:1.00
CL1 D:RDC531 0.0 92.9 1.0
C6 D:RDC531 1.5 92.9 1.0
C5 D:RDC531 2.6 92.9 1.0
O5 D:RDC531 2.6 93.8 1.0
C7 D:RDC531 2.6 92.9 1.0
O4 D:RDC531 2.8 93.0 1.0
C9 D:RDC531 2.9 93.8 1.0
C8 D:RDC531 3.1 93.1 1.0
CG1 D:VAL112 3.2 73.3 1.0
CG2 D:VAL112 3.3 73.2 1.0
ND2 D:ASN42 3.5 72.8 1.0
CB D:VAL112 3.5 73.0 1.0
C4 D:RDC531 3.8 93.0 1.0
C2 D:RDC531 3.9 93.0 1.0
C10 D:RDC531 4.1 94.3 1.0
CG D:ASN42 4.2 72.8 1.0
CZ D:PHE90 4.3 76.3 1.0
CE1 D:PHE90 4.4 76.3 1.0
C3 D:RDC531 4.4 93.0 1.0
CB D:ASN42 4.5 72.7 1.0
C11 D:RDC531 4.8 94.7 1.0

Chlorine binding site 3 out of 4 in 2zbk

Go back to Chlorine Binding Sites List in 2zbk
Chlorine binding site 3 out of 4 in the Crystal Structure of An Intact Type II Dna Topoisomerase: Insights Into Dna Transfer Mechanisms


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Crystal Structure of An Intact Type II Dna Topoisomerase: Insights Into Dna Transfer Mechanisms within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Cl531

b:92.9
occ:1.00
CL1 F:RDC531 0.0 92.9 1.0
C6 F:RDC531 1.5 93.0 1.0
O5 F:RDC531 2.5 93.9 1.0
C5 F:RDC531 2.6 93.0 1.0
C7 F:RDC531 2.6 93.0 1.0
O4 F:RDC531 2.9 93.0 1.0
C9 F:RDC531 3.0 93.8 1.0
C8 F:RDC531 3.1 93.1 1.0
CG2 F:VAL112 3.7 73.3 1.0
ND2 F:ASN42 3.7 72.8 1.0
C4 F:RDC531 3.9 92.9 1.0
C2 F:RDC531 3.9 93.0 1.0
C10 F:RDC531 4.1 94.1 1.0
CB F:VAL112 4.1 72.9 1.0
CB F:ASN42 4.1 72.6 1.0
CG1 F:VAL112 4.1 73.3 1.0
CG F:ASN42 4.3 72.7 1.0
C3 F:RDC531 4.4 93.0 1.0
CZ F:PHE90 4.4 76.3 1.0
CG2 F:VAL172 4.5 73.8 1.0
CE1 F:PHE90 4.5 76.4 1.0
C11 F:RDC531 4.7 94.6 1.0
CD2 F:LEU39 4.8 72.8 1.0

Chlorine binding site 4 out of 4 in 2zbk

Go back to Chlorine Binding Sites List in 2zbk
Chlorine binding site 4 out of 4 in the Crystal Structure of An Intact Type II Dna Topoisomerase: Insights Into Dna Transfer Mechanisms


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 4 of Crystal Structure of An Intact Type II Dna Topoisomerase: Insights Into Dna Transfer Mechanisms within 5.0Å range:
probe atom residue distance (Å) B Occ
H:Cl531

b:92.9
occ:1.00
CL1 H:RDC531 0.0 92.9 1.0
C6 H:RDC531 1.5 93.0 1.0
O5 H:RDC531 2.6 93.8 1.0
C5 H:RDC531 2.6 93.0 1.0
C7 H:RDC531 2.6 93.0 1.0
O4 H:RDC531 2.9 93.0 1.0
C9 H:RDC531 3.0 93.8 1.0
C8 H:RDC531 3.1 93.1 1.0
CG2 H:VAL112 3.4 73.2 1.0
C4 H:RDC531 3.9 93.0 1.0
ND2 H:ASN42 3.9 72.8 1.0
C2 H:RDC531 4.0 93.0 1.0
CB H:VAL112 4.0 73.0 1.0
CG1 H:VAL112 4.0 73.3 1.0
CZ H:PHE90 4.0 76.3 1.0
C10 H:RDC531 4.1 94.2 1.0
CE1 H:PHE90 4.1 76.4 1.0
CG2 H:VAL172 4.3 73.8 1.0
C3 H:RDC531 4.4 93.0 1.0
CB H:ASN42 4.5 72.6 1.0
CG H:ASN42 4.6 72.7 1.0
C11 H:RDC531 4.8 94.7 1.0
CD2 H:LEU39 4.8 72.7 1.0

Reference:

M.Graille, D.Durand, F.Lecointe, D.Gadelle, S.Quevillon-Cheruel, P.Vachette, P.Forterre, H.Van Tilbeurgh. Crystal Structure of An Intact Type II Dna Topoisomerase: Insights Into Dna Transfer Mechanisms Structure V. 16 360 2008.
ISSN: ISSN 0969-2126
PubMed: 18334211
DOI: 10.1016/J.STR.2007.12.020
Page generated: Fri Jul 11 02:53:33 2025

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