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Zinc in PDB 1add: A Pre-Transition State Mimic of An Enzyme: X-Ray Structure of Adenosine Deaminase with Bound 1-Deaza-Adenosine and Zinc-Activated Water

Enzymatic activity of A Pre-Transition State Mimic of An Enzyme: X-Ray Structure of Adenosine Deaminase with Bound 1-Deaza-Adenosine and Zinc-Activated Water

All present enzymatic activity of A Pre-Transition State Mimic of An Enzyme: X-Ray Structure of Adenosine Deaminase with Bound 1-Deaza-Adenosine and Zinc-Activated Water:
3.5.4.4;

Protein crystallography data

The structure of A Pre-Transition State Mimic of An Enzyme: X-Ray Structure of Adenosine Deaminase with Bound 1-Deaza-Adenosine and Zinc-Activated Water, PDB code: 1add was solved by D.K.Wilson, F.A.Quiocho, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) N/A / 2.40
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 102.390, 94.280, 73.020, 90.00, 127.05, 90.00
R / Rfree (%) 18.1 / n/a

Zinc Binding Sites:

The binding sites of Zinc atom in the A Pre-Transition State Mimic of An Enzyme: X-Ray Structure of Adenosine Deaminase with Bound 1-Deaza-Adenosine and Zinc-Activated Water (pdb code 1add). 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 A Pre-Transition State Mimic of An Enzyme: X-Ray Structure of Adenosine Deaminase with Bound 1-Deaza-Adenosine and Zinc-Activated Water, PDB code: 1add:

Zinc binding site 1 out of 1 in 1add

Go back to Zinc Binding Sites List in 1add
Zinc binding site 1 out of 1 in the A Pre-Transition State Mimic of An Enzyme: X-Ray Structure of Adenosine Deaminase with Bound 1-Deaza-Adenosine and Zinc-Activated Water


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of A Pre-Transition State Mimic of An Enzyme: X-Ray Structure of Adenosine Deaminase with Bound 1-Deaza-Adenosine and Zinc-Activated Water within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn400

b:12.8
occ:1.00
 O A:HOH461 1.8 2.0 1.0
NE2 A:HIS17 2.0 2.0 1.0
NE2 A:HIS214 2.1 2.0 1.0
NE2 A:HIS15 2.2 12.5 1.0
OD1 A:ASP295 2.3 2.0 1.0
CE1 A:HIS17 2.8 2.0 1.0
CD2 A:HIS214 2.9 2.4 1.0
CE1 A:HIS214 3.0 4.5 1.0
CD2 A:HIS17 3.1 4.5 1.0
CE1 A:HIS15 3.2 10.8 1.0
CD2 A:HIS15 3.2 11.8 1.0
CG A:ASP295 3.3 8.5 1.0
OD2 A:ASP295 3.7 8.6 1.0
C6 A:1DA353 4.0 5.5 1.0
ND1 A:HIS17 4.0 2.0 1.0
C5 A:1DA353 4.0 6.0 1.0
CG A:HIS214 4.1 2.0 1.0
ND1 A:HIS214 4.1 6.1 1.0
CG A:HIS17 4.1 2.4 1.0
N6 A:1DA353 4.1 7.3 1.0
N7 A:1DA353 4.2 8.1 1.0
NE2 A:HIS238 4.2 10.0 1.0
ND1 A:HIS15 4.3 11.7 1.0
CG A:HIS15 4.3 10.0 1.0
C1 A:1DA353 4.5 4.7 1.0
C4 A:1DA353 4.5 4.4 1.0
CB A:ASP295 4.7 5.7 1.0
CD2 A:HIS238 4.8 11.5 1.0
CD A:ARG101 4.8 5.6 1.0
OD2 A:ASP296 4.9 10.8 1.0
C8 A:1DA353 4.9 10.5 1.0
NH1 A:ARG101 4.9 8.5 1.0
CA A:ASP295 4.9 8.9 1.0
C2 A:1DA353 5.0 7.9 1.0
N3 A:1DA353 5.0 5.6 1.0

Reference:

D.K.Wilson, F.A.Quiocho. A Pre-Transition-State Mimic of An Enzyme: X-Ray Structure of Adenosine Deaminase with Bound 1-Deazaadenosine and Zinc-Activated Water. Biochemistry V. 32 1689 1993.
ISSN: ISSN 0006-2960
PubMed: 8439534
DOI: 10.1021/BI00058A001
Page generated: Sat Oct 12 21:57:30 2024

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