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Zinc in PDB 3nqx: Crystal Structure of Vibriolysin Mcp-02 Mature Enzyme, A Zinc Metalloprotease From M4 Family

Enzymatic activity of Crystal Structure of Vibriolysin Mcp-02 Mature Enzyme, A Zinc Metalloprotease From M4 Family

All present enzymatic activity of Crystal Structure of Vibriolysin Mcp-02 Mature Enzyme, A Zinc Metalloprotease From M4 Family:
3.4.24.25;

Protein crystallography data

The structure of Crystal Structure of Vibriolysin Mcp-02 Mature Enzyme, A Zinc Metalloprotease From M4 Family, PDB code: 3nqx was solved by X.Gao, J.Wang, J.-W.Wu, Y.-Z.Zhang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 21.45 / 1.70
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 43.801, 73.792, 91.421, 90.00, 90.00, 90.00
R / Rfree (%) 17.4 / 21.7

Other elements in 3nqx:

The structure of Crystal Structure of Vibriolysin Mcp-02 Mature Enzyme, A Zinc Metalloprotease From M4 Family also contains other interesting chemical elements:

Calcium (Ca) 1 atom

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of Vibriolysin Mcp-02 Mature Enzyme, A Zinc Metalloprotease From M4 Family (pdb code 3nqx). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total only one binding site of Zinc was determined in the Crystal Structure of Vibriolysin Mcp-02 Mature Enzyme, A Zinc Metalloprotease From M4 Family, PDB code: 3nqx:

Zinc binding site 1 out of 1 in 3nqx

Go back to Zinc Binding Sites List in 3nqx
Zinc binding site 1 out of 1 in the Crystal Structure of Vibriolysin Mcp-02 Mature Enzyme, A Zinc Metalloprotease From M4 Family


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure of Vibriolysin Mcp-02 Mature Enzyme, A Zinc Metalloprotease From M4 Family within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn1

b:12.1
occ:1.00
OE2 A:GLU369 2.0 9.9 1.0
NE2 A:HIS345 2.0 9.6 1.0
NE2 A:HIS349 2.1 9.2 1.0
CD A:GLU369 2.8 11.1 1.0
O A:HOH645 2.9 30.0 1.0
CD2 A:HIS345 3.0 7.8 1.0
CE1 A:HIS349 3.0 6.9 1.0
OE1 A:GLU369 3.0 8.5 1.0
CE1 A:HIS345 3.1 9.5 1.0
CD2 A:HIS349 3.1 8.6 1.0
OH A:TYR360 3.8 21.0 1.0
ND1 A:HIS349 4.1 9.4 1.0
CG A:HIS345 4.1 7.8 1.0
ND1 A:HIS345 4.2 8.6 1.0
NE2 A:HIS428 4.2 11.9 1.0
CG A:HIS349 4.2 7.9 1.0
CG A:GLU369 4.2 8.5 1.0
CD2 A:HIS428 4.4 10.9 1.0
OE1 A:GLU346 4.6 12.2 1.0
O A:HOH597 4.6 28.8 1.0
CB A:SER372 4.7 8.0 1.0
CZ A:TYR360 4.7 17.8 1.0
OE2 A:GLU346 4.8 15.1 1.0
CE1 A:TYR360 4.8 17.7 1.0
CA A:GLU369 4.8 8.5 1.0
OG A:SER372 4.9 8.7 1.0
O A:HOH12 5.0 14.1 1.0

Reference:

X.Gao, J.Wang, D.-Q.Yu, F.Bian, B.-B.Xie, X.-L.Chen, B.-C.Zhou, L.-H.Lai, Z.-X.Wang, J.-W.Wu, Y.-Z.Zhang. Structural Basis For the Autoprocessing of Zinc Metalloproteases in the Thermolysin Family Proc.Natl.Acad.Sci.Usa V. 107 17569 2010.
ISSN: ISSN 0027-8424
PubMed: 20876133
DOI: 10.1073/PNAS.1005681107
Page generated: Wed Dec 16 04:39:16 2020

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