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Zinc in PDB 1jqb: Alcohol Dehydrogenase From Clostridium Beijerinckii: Crystal Structure of Mutant with Enhanced Thermal Stability

Enzymatic activity of Alcohol Dehydrogenase From Clostridium Beijerinckii: Crystal Structure of Mutant with Enhanced Thermal Stability

All present enzymatic activity of Alcohol Dehydrogenase From Clostridium Beijerinckii: Crystal Structure of Mutant with Enhanced Thermal Stability:
1.1.1.2;

Protein crystallography data

The structure of Alcohol Dehydrogenase From Clostridium Beijerinckii: Crystal Structure of Mutant with Enhanced Thermal Stability, PDB code: 1jqb was solved by I.Levin, F.Frolow, O.Bogin, M.Peretz, Y.Hacham, Y.Burstein, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 20.01 / 1.97
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 86.700, 147.800, 125.100, 90.00, 90.00, 90.00
R / Rfree (%) 21.9 / 24.7

Zinc Binding Sites:

The binding sites of Zinc atom in the Alcohol Dehydrogenase From Clostridium Beijerinckii: Crystal Structure of Mutant with Enhanced Thermal Stability (pdb code 1jqb). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the Alcohol Dehydrogenase From Clostridium Beijerinckii: Crystal Structure of Mutant with Enhanced Thermal Stability, PDB code: 1jqb:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in 1jqb

Go back to Zinc Binding Sites List in 1jqb
Zinc binding site 1 out of 4 in the Alcohol Dehydrogenase From Clostridium Beijerinckii: Crystal Structure of Mutant with Enhanced Thermal Stability


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Alcohol Dehydrogenase From Clostridium Beijerinckii: Crystal Structure of Mutant with Enhanced Thermal Stability within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn1353

b:35.8
occ:1.00
 OD2 A:ASP1150 1.9 25.5 1.0
NE2 A:HIS1059 2.2 24.9 1.0
SG A:CYS1037 2.5 29.3 1.0
CG A:ASP1150 3.1 25.9 1.0
CD2 A:HIS1059 3.1 25.4 1.0
CE1 A:HIS1059 3.2 26.6 1.0
CB A:CYS1037 3.2 30.1 1.0
OD1 A:ASP1150 3.6 23.0 1.0
OG A:SER1039 3.7 36.4 1.0
OE2 A:GLU1060 4.0 23.7 1.0
CB A:SER1039 4.1 34.6 1.0
CB A:ASP1150 4.3 22.6 1.0
ND1 A:HIS1059 4.3 25.5 1.0
CG A:HIS1059 4.3 23.9 1.0
CE A:MET1151 4.4 25.3 1.0
CD A:GLU1060 4.4 23.5 1.0
CG A:GLU1060 4.7 23.2 1.0
CA A:CYS1037 4.7 29.5 1.0

Zinc binding site 2 out of 4 in 1jqb

Go back to Zinc Binding Sites List in 1jqb
Zinc binding site 2 out of 4 in the Alcohol Dehydrogenase From Clostridium Beijerinckii: Crystal Structure of Mutant with Enhanced Thermal Stability


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Alcohol Dehydrogenase From Clostridium Beijerinckii: Crystal Structure of Mutant with Enhanced Thermal Stability within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn2353

b:41.9
occ:1.00
 OD1 B:ASP2150 2.0 29.9 1.0
NE2 B:HIS2059 2.3 28.9 1.0
OE2 B:GLU2060 2.3 31.1 1.0
SG B:CYS2037 2.5 30.1 1.0
CB B:CYS2037 3.0 30.3 1.0
CG B:ASP2150 3.1 26.0 1.0
CD2 B:HIS2059 3.1 27.2 1.0
CD B:GLU2060 3.2 25.7 1.0
CE1 B:HIS2059 3.3 29.9 1.0
CB B:ASP2150 3.6 21.2 1.0
CG B:GLU2060 3.7 24.0 1.0
CE B:MET2151 3.8 17.5 1.0
O B:HOH241 3.8 36.4 1.0
OG B:SER2039 4.1 41.5 1.0
OD2 B:ASP2150 4.2 28.7 1.0
OE1 B:GLU2060 4.2 25.1 1.0
CG B:HIS2059 4.3 26.9 1.0
ND1 B:HIS2059 4.3 28.6 1.0
CA B:CYS2037 4.4 31.3 1.0
O B:HOH139 4.7 31.6 1.0
O B:HOH191 5.0 26.5 1.0

Zinc binding site 3 out of 4 in 1jqb

Go back to Zinc Binding Sites List in 1jqb
Zinc binding site 3 out of 4 in the Alcohol Dehydrogenase From Clostridium Beijerinckii: Crystal Structure of Mutant with Enhanced Thermal Stability


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Alcohol Dehydrogenase From Clostridium Beijerinckii: Crystal Structure of Mutant with Enhanced Thermal Stability within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn3353

b:42.0
occ:1.00
 OD2 C:ASP3150 2.2 34.4 1.0
NE2 C:HIS3059 2.2 35.2 1.0
SG C:CYS3037 2.6 37.8 1.0
CE1 C:HIS3059 3.1 34.4 1.0
CG C:ASP3150 3.1 30.2 1.0
CB C:CYS3037 3.3 37.9 1.0
CD2 C:HIS3059 3.3 34.5 1.0
OD1 C:ASP3150 3.5 26.8 1.0
CB C:SER3039 3.8 51.6 1.0
ND1 C:HIS3059 4.3 34.5 1.0
CB C:ASP3150 4.3 26.0 1.0
OE2 C:GLU3060 4.3 29.6 1.0
OG C:SER3039 4.4 55.1 1.0
CG C:HIS3059 4.4 33.0 1.0
CE C:MET3151 4.6 23.0 1.0
CD C:GLU3060 4.6 29.8 1.0
CA C:CYS3037 4.8 39.3 1.0
CG C:GLU3060 4.9 29.5 1.0

Zinc binding site 4 out of 4 in 1jqb

Go back to Zinc Binding Sites List in 1jqb
Zinc binding site 4 out of 4 in the Alcohol Dehydrogenase From Clostridium Beijerinckii: Crystal Structure of Mutant with Enhanced Thermal Stability


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Alcohol Dehydrogenase From Clostridium Beijerinckii: Crystal Structure of Mutant with Enhanced Thermal Stability within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn4353

b:36.2
occ:1.00
 OD2 D:ASP4150 1.9 27.0 1.0
NE2 D:HIS4059 2.2 21.9 1.0
SG D:CYS4037 2.5 27.6 1.0
O D:HOH112 2.6 36.6 1.0
CG D:ASP4150 3.1 25.7 1.0
CD2 D:HIS4059 3.1 21.3 1.0
CE1 D:HIS4059 3.2 22.1 1.0
CB D:CYS4037 3.3 28.1 1.0
OD1 D:ASP4150 3.7 28.1 1.0
OG D:SER4039 3.8 37.6 1.0
OE2 D:GLU4060 3.9 27.3 1.0
CB D:SER4039 4.0 36.0 1.0
CB D:ASP4150 4.2 22.9 1.0
ND1 D:HIS4059 4.3 20.4 1.0
CG D:HIS4059 4.3 18.8 1.0
CE D:MET4151 4.3 18.2 1.0
CD D:GLU4060 4.5 22.7 1.0
CA D:CYS4037 4.8 27.4 1.0
CG D:GLU4060 4.8 20.8 1.0

Reference:

O.Bogin, I.Levin, Y.Hacham, S.Tel-Or, M.Peretz, F.Frolow, Y.Burstein. Structural Basis For the Enhanced Thermal Stability of Alcohol Dehydrogenase Mutants From the Mesophilic Bacterium Clostridium Beijerinckii: Contribution of Salt Bridging Protein Sci. V. 11 2561 2002.
ISSN: ISSN 0961-8368
PubMed: 12381840
DOI: 10.1110/PS.0222102
Page generated: Tue Aug 19 21:08:06 2025

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