Atomistry » Zinc » PDB 5vdv-5vmw » 5vkr
Atomistry »
  Zinc »
    PDB 5vdv-5vmw »
      5vkr »

Zinc in PDB 5vkr: Horse Liver Alcohol Dehydrogenase Complexed with Adenosine-5- Diphosphoribose

Enzymatic activity of Horse Liver Alcohol Dehydrogenase Complexed with Adenosine-5- Diphosphoribose

All present enzymatic activity of Horse Liver Alcohol Dehydrogenase Complexed with Adenosine-5- Diphosphoribose:
1.1.1.1;

Protein crystallography data

The structure of Horse Liver Alcohol Dehydrogenase Complexed with Adenosine-5- Diphosphoribose, PDB code: 5vkr was solved by B.V.Plapp, J.K.Rubach, S.Ramaswamy, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 20.00 / 1.80
Space group C 2 2 21
Cell size a, b, c (Å), α, β, γ (°) 55.370, 74.270, 180.950, 90.00, 90.00, 90.00
R / Rfree (%) 19 / 24.8

Zinc Binding Sites:

The binding sites of Zinc atom in the Horse Liver Alcohol Dehydrogenase Complexed with Adenosine-5- Diphosphoribose (pdb code 5vkr). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Horse Liver Alcohol Dehydrogenase Complexed with Adenosine-5- Diphosphoribose, PDB code: 5vkr:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 5vkr

Go back to Zinc Binding Sites List in 5vkr
Zinc binding site 1 out of 2 in the Horse Liver Alcohol Dehydrogenase Complexed with Adenosine-5- Diphosphoribose


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Horse Liver Alcohol Dehydrogenase Complexed with Adenosine-5- Diphosphoribose within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn401

b:54.9
occ:1.00
NE2 A:HIS67 2.1 49.5 1.0
SG A:CYS174 2.3 53.8 1.0
O A:HOH502 2.3 54.3 1.0
SG A:CYS46 2.4 62.0 1.0
CE1 A:HIS67 2.9 49.6 1.0
CD2 A:HIS67 3.2 49.1 1.0
CB A:CYS174 3.3 55.3 1.0
CB A:CYS46 3.3 53.0 1.0
OE2 A:GLU68 4.0 95.9 1.0
ND1 A:HIS67 4.1 47.1 1.0
OG A:SER48 4.1 46.3 1.0
CG A:HIS67 4.3 45.5 1.0
CB A:SER48 4.3 51.1 1.0
NH2 A:ARG369 4.4 94.9 1.0
CA A:CYS174 4.7 47.5 1.0
CA A:CYS46 4.8 48.4 1.0

Zinc binding site 2 out of 2 in 5vkr

Go back to Zinc Binding Sites List in 5vkr
Zinc binding site 2 out of 2 in the Horse Liver Alcohol Dehydrogenase Complexed with Adenosine-5- Diphosphoribose


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Horse Liver Alcohol Dehydrogenase Complexed with Adenosine-5- Diphosphoribose within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn402

b:44.3
occ:1.00
SG A:CYS103 2.3 41.1 1.0
SG A:CYS100 2.3 44.0 1.0
SG A:CYS97 2.4 48.7 1.0
SG A:CYS111 2.4 43.1 1.0
CB A:CYS111 3.3 44.0 1.0
CB A:CYS97 3.5 43.2 1.0
CB A:CYS103 3.5 41.6 1.0
CB A:CYS100 3.5 52.2 1.0
N A:CYS97 3.6 40.6 1.0
CA A:CYS111 3.7 38.7 1.0
N A:LEU112 3.9 43.6 1.0
N A:CYS100 4.0 48.9 1.0
CA A:CYS97 4.0 47.1 1.0
N A:GLY98 4.1 56.4 1.0
N A:CYS103 4.2 40.6 1.0
C A:CYS111 4.2 42.7 1.0
CA A:CYS100 4.3 48.9 1.0
CA A:CYS103 4.4 41.6 1.0
C A:CYS97 4.5 57.0 1.0
N A:LYS99 4.6 56.4 1.0
CG A:LYS113 4.7 51.5 1.0
C A:GLN96 4.7 38.8 1.0
N A:LYS113 4.8 40.2 1.0
C A:CYS100 4.9 43.8 1.0
CA A:GLN96 5.0 38.4 1.0

Reference:

B.V.Plapp, B.R.Savarimuthu, D.J.Ferraro, J.K.Rubach, E.N.Brown, S.Ramaswamy. Horse Liver Alcohol Dehydrogenase: Zinc Coordination and Catalysis. Biochemistry V. 56 3632 2017.
ISSN: ISSN 1520-4995
PubMed: 28640600
DOI: 10.1021/ACS.BIOCHEM.7B00446
Page generated: Mon Oct 28 13:03:02 2024

Last articles

Zn in 9FD2
Zn in 9GUW
Zn in 9GUX
Zn in 9F7C
Zn in 9GUR
Zn in 9F7A
Zn in 9DDE
Zn in 9DBY
Zn in 9EBZ
Zn in 9DGG
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy