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Zinc in PDB 1dmy: Complex Between Murine Mitochondrial Carbonic Anyhdrase V and the Transition State Analogue Acetazolamide

Enzymatic activity of Complex Between Murine Mitochondrial Carbonic Anyhdrase V and the Transition State Analogue Acetazolamide

All present enzymatic activity of Complex Between Murine Mitochondrial Carbonic Anyhdrase V and the Transition State Analogue Acetazolamide:
4.2.1.1;

Protein crystallography data

The structure of Complex Between Murine Mitochondrial Carbonic Anyhdrase V and the Transition State Analogue Acetazolamide, PDB code: 1dmy was solved by P.A.Boriack-Sjodin, D.W.Christianson, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 8.00 / 2.45
Space group P 1
Cell size a, b, c (Å), α, β, γ (°) 48.690, 60.370, 60.440, 67.65, 75.26, 75.21
R / Rfree (%) 17 / n/a

Zinc Binding Sites:

The binding sites of Zinc atom in the Complex Between Murine Mitochondrial Carbonic Anyhdrase V and the Transition State Analogue Acetazolamide (pdb code 1dmy). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Complex Between Murine Mitochondrial Carbonic Anyhdrase V and the Transition State Analogue Acetazolamide, PDB code: 1dmy:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 1dmy

Go back to Zinc Binding Sites List in 1dmy
Zinc binding site 1 out of 2 in the Complex Between Murine Mitochondrial Carbonic Anyhdrase V and the Transition State Analogue Acetazolamide


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Complex Between Murine Mitochondrial Carbonic Anyhdrase V and the Transition State Analogue Acetazolamide within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn280

b:22.0
occ:1.00
N1 A:AZM400 1.9 21.7 1.0
NE2 A:HIS96 1.9 2.0 1.0
ND1 A:HIS119 2.0 4.2 1.0
NE2 A:HIS94 2.2 7.9 1.0
CD2 A:HIS94 2.7 5.4 1.0
O1 A:AZM400 2.8 25.0 1.0
CE1 A:HIS119 2.8 8.7 1.0
S1 A:AZM400 2.8 29.3 1.0
CD2 A:HIS96 2.9 3.9 1.0
CE1 A:HIS96 3.0 4.0 1.0
CG A:HIS119 3.2 10.9 1.0
CE1 A:HIS94 3.4 8.0 1.0
CB A:HIS119 3.6 10.0 1.0
CG A:HIS94 4.0 12.6 1.0
C1 A:AZM400 4.0 24.2 1.0
O2 A:AZM400 4.0 23.4 1.0
OG1 A:THR199 4.1 24.1 1.0
NE2 A:HIS119 4.1 10.8 1.0
CG A:HIS96 4.2 2.0 1.0
ND1 A:HIS96 4.2 2.0 1.0
CD2 A:HIS119 4.2 9.9 1.0
CE2 A:PHE65 4.3 12.1 1.0
ND1 A:HIS94 4.3 7.8 1.0
OE1 A:GLU106 4.4 29.5 1.0
CZ A:PHE65 4.8 14.2 1.0
N3 A:AZM400 4.9 23.2 1.0
CD A:GLU106 5.0 24.9 1.0

Zinc binding site 2 out of 2 in 1dmy

Go back to Zinc Binding Sites List in 1dmy
Zinc binding site 2 out of 2 in the Complex Between Murine Mitochondrial Carbonic Anyhdrase V and the Transition State Analogue Acetazolamide


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Complex Between Murine Mitochondrial Carbonic Anyhdrase V and the Transition State Analogue Acetazolamide within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn280

b:23.0
occ:1.00
N1 B:AZM900 1.8 11.8 1.0
NE2 B:HIS96 2.0 2.0 1.0
ND1 B:HIS119 2.0 8.4 1.0
NE2 B:HIS94 2.2 12.6 1.0
CD2 B:HIS94 2.7 12.8 1.0
CE1 B:HIS119 2.8 11.1 1.0
CD2 B:HIS96 2.9 2.0 1.0
S1 B:AZM900 3.0 23.5 1.0
CE1 B:HIS96 3.1 2.0 1.0
CG B:HIS119 3.2 13.4 1.0
CE1 B:HIS94 3.4 16.3 1.0
CB B:HIS119 3.6 12.4 1.0
O1 B:AZM900 3.6 24.4 1.0
CG B:HIS94 4.0 20.0 1.0
NE2 B:HIS119 4.0 9.1 1.0
OG1 B:THR199 4.1 22.2 1.0
O2 B:AZM900 4.1 18.2 1.0
C1 B:AZM900 4.1 18.8 1.0
CG B:HIS96 4.1 2.0 1.0
OE1 B:GLU106 4.2 15.0 1.0
ND1 B:HIS96 4.2 2.6 1.0
CD2 B:HIS119 4.2 15.1 1.0
CE2 B:PHE65 4.3 9.7 1.0
ND1 B:HIS94 4.3 22.0 1.0
N3 B:AZM900 4.7 18.2 1.0
CZ B:PHE65 4.8 13.7 1.0
CD B:GLU106 5.0 12.5 1.0

Reference:

P.A.Boriack-Sjodin, R.W.Heck, P.J.Laipis, D.N.Silverman, D.W.Christianson. Structure Determination of Murine Mitochondrial Carbonic Anhydrase V at 2.45-A Resolution: Implications For Catalytic Proton Transfer and Inhibitor Design. Proc.Natl.Acad.Sci.Usa V. 92 10949 1995.
ISSN: ISSN 0027-8424
PubMed: 7479916
DOI: 10.1073/PNAS.92.24.10949
Page generated: Sat Oct 12 23:46:15 2024

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