Zinc in PDB 6qig: Metalloproteinase

Enzymatic activity of Metalloproteinase

All present enzymatic activity of Metalloproteinase:
3.4.24.87;

Protein crystallography data

The structure of Metalloproteinase, PDB code: 6qig was solved by H.J.Kim, J.Emsley, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 46.20 / 2.80
Space group P 32 2 1
Cell size a, b, c (Å), α, β, γ (°) 87.532, 87.532, 407.342, 90.00, 90.00, 120.00
R / Rfree (%) 20.6 / 24.7

Other elements in 6qig:

The structure of Metalloproteinase also contains other interesting chemical elements:

Chlorine (Cl) 5 atoms
Calcium (Ca) 3 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the Metalloproteinase (pdb code 6qig). 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 Metalloproteinase, PDB code: 6qig:

Zinc binding site 1 out of 1 in 6qig

Go back to Zinc Binding Sites List in 6qig
Zinc binding site 1 out of 1 in the Metalloproteinase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Metalloproteinase within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn716

b:43.7
occ:1.00
NE2 A:HIS234 2.0 48.5 1.0
NE2 A:HIS224 2.0 50.2 1.0
NE2 A:HIS228 2.1 42.1 1.0
O A:HOH847 2.1 10.5 1.0
CE1 A:HIS224 2.9 53.5 1.0
CE1 A:HIS234 3.0 50.2 1.0
CD2 A:HIS234 3.0 49.8 1.0
CD2 A:HIS228 3.0 42.9 1.0
CD2 A:HIS224 3.1 52.0 1.0
CE1 A:HIS228 3.1 41.3 1.0
NE2 A:GLN225 4.0 50.9 1.0
ND1 A:HIS224 4.1 54.7 1.0
ND1 A:HIS234 4.1 48.5 1.0
CG A:HIS234 4.1 46.9 1.0
CG A:HIS224 4.2 52.9 1.0
CG A:HIS228 4.2 43.7 1.0
ND1 A:HIS228 4.2 41.6 1.0
O A:ALA250 4.8 45.0 1.0

Reference:

A.Petri, H.J.Kim, Y.Xu, R.De Groot, C.Li, A.Vandenbulcke, K.Vanhoorelbeke, J.Emsley, J.T.B.Crawley. Crystal Structure and Substrate-Induced Activation of ADAMTS13. Nat Commun V. 10 3781 2019.
ISSN: ESSN 2041-1723
PubMed: 31439947
DOI: 10.1038/S41467-019-11474-5
Page generated: Wed Dec 16 12:34:21 2020

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