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Zinc in PDB 1dmx: Murine Mitochondrial Carbonic Anyhdrase V at 2.45 Angstroms Resolution

Enzymatic activity of Murine Mitochondrial Carbonic Anyhdrase V at 2.45 Angstroms Resolution

All present enzymatic activity of Murine Mitochondrial Carbonic Anyhdrase V at 2.45 Angstroms Resolution:
4.2.1.1;

Protein crystallography data

The structure of Murine Mitochondrial Carbonic Anyhdrase V at 2.45 Angstroms Resolution, PDB code: 1dmx 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 (%) 16.8 / 28.6

Zinc Binding Sites:

The binding sites of Zinc atom in the Murine Mitochondrial Carbonic Anyhdrase V at 2.45 Angstroms Resolution (pdb code 1dmx). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Murine Mitochondrial Carbonic Anyhdrase V at 2.45 Angstroms Resolution, PDB code: 1dmx:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 1dmx

Go back to Zinc Binding Sites List in 1dmx
Zinc binding site 1 out of 2 in the Murine Mitochondrial Carbonic Anyhdrase V at 2.45 Angstroms Resolution


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Murine Mitochondrial Carbonic Anyhdrase V at 2.45 Angstroms Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn280

b:21.2
occ:1.00
ND1 A:HIS119 2.0 11.2 1.0
O A:HOH281 2.0 13.6 1.0
NE2 A:HIS96 2.1 5.9 1.0
NE2 A:HIS94 2.4 10.9 1.0
CD2 A:HIS94 2.8 2.0 1.0
CE1 A:HIS119 2.8 14.0 1.0
CD2 A:HIS96 2.9 6.1 1.0
CG A:HIS119 3.2 13.6 1.0
CE1 A:HIS96 3.3 8.3 1.0
CB A:HIS119 3.6 12.5 1.0
CE1 A:HIS94 3.7 7.1 1.0
CE2 A:PHE65 4.0 12.6 1.0
O A:HOH354 4.0 46.9 1.0
NE2 A:HIS119 4.1 16.2 1.0
CG A:HIS94 4.1 11.3 1.0
CG A:HIS96 4.2 3.1 1.0
OG1 A:THR199 4.2 15.2 1.0
CD2 A:HIS119 4.3 12.5 1.0
OE1 A:GLU106 4.3 27.0 1.0
ND1 A:HIS96 4.3 3.3 1.0
ND1 A:HIS94 4.5 12.0 1.0
CZ A:PHE65 4.7 17.5 1.0
CD2 A:PHE65 4.8 14.4 1.0
CD A:GLU106 5.0 26.2 1.0

Zinc binding site 2 out of 2 in 1dmx

Go back to Zinc Binding Sites List in 1dmx
Zinc binding site 2 out of 2 in the Murine Mitochondrial Carbonic Anyhdrase V at 2.45 Angstroms Resolution


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Murine Mitochondrial Carbonic Anyhdrase V at 2.45 Angstroms Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn280

b:21.4
occ:1.00
O B:HOH781 1.9 7.2 1.0
NE2 B:HIS96 2.0 7.2 1.0
NE2 B:HIS94 2.1 15.9 1.0
ND1 B:HIS119 2.3 10.8 1.0
CD2 B:HIS94 2.6 13.4 1.0
CE1 B:HIS96 3.0 4.2 1.0
CE1 B:HIS119 3.1 5.8 1.0
CD2 B:HIS96 3.1 2.2 1.0
CG B:HIS119 3.2 12.3 1.0
CE1 B:HIS94 3.4 19.7 1.0
CB B:HIS119 3.5 12.0 1.0
CG B:HIS94 3.9 21.8 1.0
OG1 B:THR199 4.0 21.5 1.0
OE1 B:GLU106 4.1 14.9 1.0
NE2 B:HIS119 4.1 4.7 1.0
CG B:HIS96 4.2 2.8 1.0
ND1 B:HIS96 4.2 3.8 1.0
CE2 B:PHE65 4.2 2.4 1.0
CD2 B:HIS119 4.2 12.7 1.0
ND1 B:HIS94 4.3 17.4 1.0
O B:HOH868 4.4 37.9 1.0
CZ B:PHE65 4.7 10.0 1.0
CD2 B:PHE65 4.9 6.4 1.0
CD B:GLU106 4.9 14.2 1.0
CA B:HIS119 5.0 15.8 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: Mon Jan 25 16:08:43 2021

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