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Zinc in PDB 1bud: Acutolysin A From Snake Venom of Agkistrodon Acutus at pH 5.0

Protein crystallography data

The structure of Acutolysin A From Snake Venom of Agkistrodon Acutus at pH 5.0, PDB code: 1bud was solved by W.Gong, X.Zhu, S.Liu, M.Teng, L.Niu, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 8.00 / 1.90
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 63.470, 63.470, 95.490, 90.00, 90.00, 90.00
R / Rfree (%) 16.9 / n/a

Other elements in 1bud:

The structure of Acutolysin A From Snake Venom of Agkistrodon Acutus at pH 5.0 also contains other interesting chemical elements:

Calcium (Ca) 1 atom

Zinc Binding Sites:

The binding sites of Zinc atom in the Acutolysin A From Snake Venom of Agkistrodon Acutus at pH 5.0 (pdb code 1bud). 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 Acutolysin A From Snake Venom of Agkistrodon Acutus at pH 5.0, PDB code: 1bud:

Zinc binding site 1 out of 1 in 1bud

Go back to Zinc Binding Sites List in 1bud
Zinc binding site 1 out of 1 in the Acutolysin A From Snake Venom of Agkistrodon Acutus at pH 5.0


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Acutolysin A From Snake Venom of Agkistrodon Acutus at pH 5.0 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn800

b:10.4
occ:1.00
NE2 A:HIS142 2.0 13.5 1.0
NE2 A:HIS152 2.1 18.2 1.0
NE2 A:HIS146 2.1 11.5 1.0
O A:HOH561 2.2 22.0 1.0
CD2 A:HIS142 2.9 10.5 1.0
CE1 A:HIS142 3.0 13.0 1.0
CD2 A:HIS152 3.0 15.6 1.0
CD2 A:HIS146 3.1 9.3 1.0
CE1 A:HIS146 3.1 11.7 1.0
CE1 A:HIS152 3.1 14.7 1.0
CG A:HIS142 4.1 13.0 1.0
ND1 A:HIS142 4.1 12.6 1.0
CG A:HIS152 4.2 15.6 1.0
ND1 A:HIS152 4.2 12.0 1.0
ND1 A:HIS146 4.2 11.0 1.0
CG A:HIS146 4.2 9.9 1.0
CE A:MET166 4.4 5.4 1.0
O A:HOH555 4.5 41.7 1.0
O A:HOH552 4.6 15.5 1.0
O A:HOH551 4.9 49.4 1.0
OE2 A:GLU143 4.9 16.7 1.0
O A:HOH553 4.9 34.3 1.0
O A:HOH554 4.9 41.2 1.0
OE1 A:GLU143 4.9 8.4 1.0

Reference:

W.Gong, X.Zhu, S.Liu, M.Teng, L.Niu. Crystal Structures of Acutolysin A, A Three-Disulfide Hemorrhagic Zinc Metalloproteinase From the Snake Venom of Agkistrodon Acutus. J.Mol.Biol. V. 283 657 1998.
ISSN: ISSN 0022-2836
PubMed: 9784374
DOI: 10.1006/JMBI.1998.2110
Page generated: Wed Dec 16 02:46:02 2020

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