Zinc in PDB 7ntm: Cryo-Em Structure of S.Cerevisiae Native Alcohol Dehydrogenase 1 (ADH1) in Its Tetrameric Apo State

Enzymatic activity of Cryo-Em Structure of S.Cerevisiae Native Alcohol Dehydrogenase 1 (ADH1) in Its Tetrameric Apo State

All present enzymatic activity of Cryo-Em Structure of S.Cerevisiae Native Alcohol Dehydrogenase 1 (ADH1) in Its Tetrameric Apo State:
1.1.1.1;

Zinc Binding Sites:

The binding sites of Zinc atom in the Cryo-Em Structure of S.Cerevisiae Native Alcohol Dehydrogenase 1 (ADH1) in Its Tetrameric Apo State (pdb code 7ntm). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 8 binding sites of Zinc where determined in the Cryo-Em Structure of S.Cerevisiae Native Alcohol Dehydrogenase 1 (ADH1) in Its Tetrameric Apo State, PDB code: 7ntm:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Zinc binding site 1 out of 8 in 7ntm

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Zinc binding site 1 out of 8 in the Cryo-Em Structure of S.Cerevisiae Native Alcohol Dehydrogenase 1 (ADH1) in Its Tetrameric Apo State


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Cryo-Em Structure of S.Cerevisiae Native Alcohol Dehydrogenase 1 (ADH1) in Its Tetrameric Apo State within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn401

b:67.5
occ:1.00
 CE1 A:HIS66 2.2 58.3 1.0
SG A:CYS43 2.6 61.4 1.0
SG A:CYS153 2.6 52.9 1.0
NE2 A:HIS66 2.9 51.4 1.0
OE2 A:GLU67 3.0 69.7 1.0
CB A:CYS43 3.1 50.2 1.0
ND1 A:HIS66 3.4 59.4 1.0
CB A:CYS153 3.6 57.0 1.0
CD A:GLU67 4.1 51.8 1.0
OG1 A:THR45 4.1 55.6 1.0
CD2 A:HIS66 4.2 39.5 1.0
CG A:HIS66 4.4 49.2 1.0
CA A:CYS43 4.6 57.3 1.0
CB A:THR45 4.6 49.4 1.0
CG A:GLU67 4.8 51.1 1.0

Zinc binding site 2 out of 8 in 7ntm

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Zinc binding site 2 out of 8 in the Cryo-Em Structure of S.Cerevisiae Native Alcohol Dehydrogenase 1 (ADH1) in Its Tetrameric Apo State


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Cryo-Em Structure of S.Cerevisiae Native Alcohol Dehydrogenase 1 (ADH1) in Its Tetrameric Apo State within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn402

b:54.1
occ:1.00
 SG A:CYS111 2.1 56.9 1.0
SG A:CYS100 2.3 63.8 1.0
O A:CYS97 2.6 71.2 1.0
SG A:CYS103 2.8 58.4 1.0
CB A:CYS97 3.4 45.9 1.0
CB A:CYS111 3.4 50.4 1.0
C A:CYS97 3.6 57.7 1.0
CB A:CYS100 3.7 49.0 1.0
CA A:CYS97 3.8 55.5 1.0
N A:CYS97 3.9 49.9 1.0
CD A:PRO112 3.9 53.7 1.0
CA A:CYS111 4.1 52.7 1.0
CB A:CYS103 4.2 40.3 1.0
SG A:CYS97 4.2 60.6 1.0
N A:CYS100 4.3 53.9 1.0
CA A:CYS100 4.6 47.8 1.0
N A:ALA99 4.6 51.1 1.0
N A:PRO112 4.6 66.0 1.0
N A:MET98 4.8 47.1 1.0
C A:CYS111 4.8 61.9 1.0

Zinc binding site 3 out of 8 in 7ntm

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Zinc binding site 3 out of 8 in the Cryo-Em Structure of S.Cerevisiae Native Alcohol Dehydrogenase 1 (ADH1) in Its Tetrameric Apo State


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Cryo-Em Structure of S.Cerevisiae Native Alcohol Dehydrogenase 1 (ADH1) in Its Tetrameric Apo State within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn401

b:66.6
occ:1.00
 NE2 B:HIS66 2.3 55.5 1.0
SG B:CYS153 2.4 52.4 1.0
SG B:CYS43 2.4 59.5 1.0
CE1 B:HIS66 3.1 63.5 1.0
CB B:CYS43 3.2 48.1 1.0
CD2 B:HIS66 3.4 46.6 1.0
CB B:CYS153 3.5 57.0 1.0
OE2 B:GLU67 3.6 53.3 1.0
OG1 B:THR45 3.9 55.4 1.0
ND1 B:HIS66 4.3 40.8 1.0
CG B:HIS66 4.5 47.5 1.0
CB B:THR45 4.6 51.1 1.0
CA B:CYS43 4.6 61.2 1.0
CD B:GLU67 4.6 56.4 1.0
CA B:CYS153 4.9 44.3 1.0

Zinc binding site 4 out of 8 in 7ntm

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Zinc binding site 4 out of 8 in the Cryo-Em Structure of S.Cerevisiae Native Alcohol Dehydrogenase 1 (ADH1) in Its Tetrameric Apo State


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Cryo-Em Structure of S.Cerevisiae Native Alcohol Dehydrogenase 1 (ADH1) in Its Tetrameric Apo State within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn402

b:53.9
occ:1.00
 SG B:CYS103 2.2 56.7 1.0
SG B:CYS100 2.3 64.6 1.0
O B:CYS97 2.4 113.4 1.0
SG B:CYS111 2.5 56.5 1.0
CB B:CYS103 3.1 52.8 1.0
CB B:CYS100 3.3 44.7 1.0
CB B:CYS111 3.6 49.6 1.0
C B:CYS97 3.6 59.5 1.0
CB B:CYS97 4.0 46.0 1.0
N B:CYS103 4.1 62.1 1.0
CA B:CYS97 4.2 77.1 1.0
CA B:CYS103 4.2 46.7 1.0
N B:CYS97 4.2 45.4 1.0
CA B:CYS111 4.3 53.4 1.0
N B:CYS100 4.3 50.2 1.0
CD B:PRO112 4.3 53.1 1.0
N B:ALA99 4.4 46.8 1.0
CA B:CYS100 4.4 53.4 1.0
C B:ALA99 4.5 49.0 1.0
O B:ALA99 4.6 67.7 1.0
N B:MET98 4.7 50.1 1.0

Zinc binding site 5 out of 8 in 7ntm

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Zinc binding site 5 out of 8 in the Cryo-Em Structure of S.Cerevisiae Native Alcohol Dehydrogenase 1 (ADH1) in Its Tetrameric Apo State


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Cryo-Em Structure of S.Cerevisiae Native Alcohol Dehydrogenase 1 (ADH1) in Its Tetrameric Apo State within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn401

b:65.7
occ:1.00
 NE2 D:HIS66 2.1 58.1 1.0
SG D:CYS43 2.3 59.5 1.0
SG D:CYS153 2.6 51.1 1.0
CE1 D:HIS66 2.8 60.3 1.0
CB D:CYS43 2.9 51.0 1.0
OE2 D:GLU67 3.3 52.4 1.0
CD2 D:HIS66 3.3 50.7 1.0
CB D:CYS153 3.7 55.4 1.0
OG1 D:THR45 3.8 51.0 1.0
ND1 D:HIS66 4.0 41.5 1.0
CG D:HIS66 4.3 46.7 1.0
CA D:CYS43 4.4 62.5 1.0
CD D:GLU67 4.4 54.1 1.0
CB D:THR45 4.5 52.9 1.0
CG D:GLU67 4.9 50.5 1.0

Zinc binding site 6 out of 8 in 7ntm

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Zinc binding site 6 out of 8 in the Cryo-Em Structure of S.Cerevisiae Native Alcohol Dehydrogenase 1 (ADH1) in Its Tetrameric Apo State


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of Cryo-Em Structure of S.Cerevisiae Native Alcohol Dehydrogenase 1 (ADH1) in Its Tetrameric Apo State within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn402

b:53.2
occ:1.00
 SG D:CYS97 1.6 61.2 1.0
SG D:CYS103 2.1 57.8 1.0
SG D:CYS111 2.3 55.1 1.0
SG D:CYS100 2.6 65.4 1.0
CB D:CYS103 3.1 43.6 1.0
CB D:CYS111 3.2 49.7 1.0
CB D:CYS100 3.3 44.0 1.0
CB D:CYS97 3.4 47.7 1.0
N D:MET98 3.7 50.5 1.0
N D:CYS97 3.9 51.8 1.0
CA D:CYS97 4.1 51.5 1.0
CA D:CYS111 4.1 53.8 1.0
N D:CYS100 4.1 51.9 1.0
CA D:CYS100 4.2 47.8 1.0
CA D:CYS103 4.3 55.8 1.0
N D:CYS103 4.3 47.7 1.0
N D:ALA99 4.3 52.4 1.0
CD D:PRO112 4.3 53.0 1.0
C D:CYS97 4.4 50.9 1.0
CA D:MET98 4.6 48.9 1.0
C D:ALA99 4.7 51.2 1.0
C D:CYS111 4.9 63.0 1.0
N D:PRO112 4.9 63.6 1.0
C D:MET98 5.0 58.8 1.0

Zinc binding site 7 out of 8 in 7ntm

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Zinc binding site 7 out of 8 in the Cryo-Em Structure of S.Cerevisiae Native Alcohol Dehydrogenase 1 (ADH1) in Its Tetrameric Apo State


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 7 of Cryo-Em Structure of S.Cerevisiae Native Alcohol Dehydrogenase 1 (ADH1) in Its Tetrameric Apo State within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn401

b:64.6
occ:1.00
 NE2 C:HIS66 2.1 58.0 1.0
SG C:CYS43 2.4 59.6 1.0
SG C:CYS153 2.5 51.3 1.0
CE1 C:HIS66 2.9 63.5 1.0
CB C:CYS43 3.0 50.5 1.0
OE1 C:GLU67 3.1 52.2 1.0
CD2 C:HIS66 3.3 49.0 1.0
CB C:CYS153 3.5 52.1 1.0
OG1 C:THR45 3.9 56.5 1.0
ND1 C:HIS66 4.1 39.4 1.0
CD C:GLU67 4.3 55.4 1.0
CG C:HIS66 4.3 50.3 1.0
CA C:CYS43 4.5 63.5 1.0
CB C:THR45 4.7 50.5 1.0
CG C:GLU67 4.8 51.4 1.0
CA C:CYS153 5.0 43.8 1.0

Zinc binding site 8 out of 8 in 7ntm

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Zinc binding site 8 out of 8 in the Cryo-Em Structure of S.Cerevisiae Native Alcohol Dehydrogenase 1 (ADH1) in Its Tetrameric Apo State


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 8 of Cryo-Em Structure of S.Cerevisiae Native Alcohol Dehydrogenase 1 (ADH1) in Its Tetrameric Apo State within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn402

b:47.7
occ:1.00
 SG C:CYS103 1.4 55.8 1.0
SG C:CYS100 2.3 74.9 1.0
SG C:CYS111 2.6 55.1 1.0
O C:CYS97 2.7 55.6 1.0
CB C:CYS103 2.8 35.6 1.0
CB C:CYS111 3.4 52.6 1.0
CB C:CYS100 3.4 43.4 1.0
N C:CYS103 3.6 38.1 1.0
SG C:CYS97 3.7 56.1 1.0
CA C:CYS103 3.9 61.3 1.0
C C:CYS97 3.9 58.3 1.0
N C:CYS100 4.0 59.1 1.0
CA C:CYS111 4.3 47.2 1.0
N C:ALA99 4.3 47.5 1.0
CA C:CYS100 4.3 45.1 1.0
C C:TYR102 4.6 73.8 1.0
N C:CYS97 4.7 53.5 1.0
C C:CYS100 4.7 52.4 1.0
CA C:CYS97 4.7 51.4 1.0
C C:ALA99 4.8 43.8 1.0
CB C:SER96 4.8 44.5 1.0
N C:MET98 4.8 47.9 1.0
CD C:PRO112 4.8 54.1 1.0
OG C:SER96 4.8 48.9 1.0
N C:TYR102 4.9 56.2 1.0
CA C:MET98 4.9 54.9 1.0
CB C:CYS97 4.9 51.7 1.0
CA C:TYR102 4.9 51.7 1.0

Reference:

J.A.Nzigou Mandouckou, M.Carroni, J.Z.Haeggstrom, M.Thulasingam. Cryo-Em Structure of S.Cerevisiae Native Alcohol Dehydrogenase 1 (ADH1) in Its Tetrameric Apo State To Be Published.
Page generated: Wed Oct 30 07:52:16 2024

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