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Zinc in PDB 8fjm: Crystal Structure of the Trypanosoma Brucei DOT1A Histone H3K76 Methyltransferase in Complex with Adohcy - P212121 Space Group

Enzymatic activity of Crystal Structure of the Trypanosoma Brucei DOT1A Histone H3K76 Methyltransferase in Complex with Adohcy - P212121 Space Group

All present enzymatic activity of Crystal Structure of the Trypanosoma Brucei DOT1A Histone H3K76 Methyltransferase in Complex with Adohcy - P212121 Space Group:
2.1.1.360;

Protein crystallography data

The structure of Crystal Structure of the Trypanosoma Brucei DOT1A Histone H3K76 Methyltransferase in Complex with Adohcy - P212121 Space Group, PDB code: 8fjm was solved by V.S.Frisbie, H.Hashimoto, E.W.Debler, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 40.81 / 1.90
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 41.934, 81.625, 170.115, 90, 90, 90
R / Rfree (%) 16 / 18.6

Other elements in 8fjm:

The structure of Crystal Structure of the Trypanosoma Brucei DOT1A Histone H3K76 Methyltransferase in Complex with Adohcy - P212121 Space Group also contains other interesting chemical elements:

Calcium (Ca) 2 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of the Trypanosoma Brucei DOT1A Histone H3K76 Methyltransferase in Complex with Adohcy - P212121 Space Group (pdb code 8fjm). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Crystal Structure of the Trypanosoma Brucei DOT1A Histone H3K76 Methyltransferase in Complex with Adohcy - P212121 Space Group, PDB code: 8fjm:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 8fjm

Go back to Zinc Binding Sites List in 8fjm
Zinc binding site 1 out of 2 in the Crystal Structure of the Trypanosoma Brucei DOT1A Histone H3K76 Methyltransferase in Complex with Adohcy - P212121 Space Group


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure of the Trypanosoma Brucei DOT1A Histone H3K76 Methyltransferase in Complex with Adohcy - P212121 Space Group within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn302

b:20.8
occ:1.00
 SG A:CYS77 2.3 21.5 1.0
SG A:CYS72 2.3 21.2 1.0
SG A:CYS79 2.3 20.6 1.0
SG A:CYS69 2.4 19.0 1.0
HB2 A:CYS79 2.9 23.3 1.0
HB2 A:CYS77 3.0 28.1 1.0
HB2 A:CYS72 3.1 31.2 1.0
HB2 A:CYS69 3.1 25.1 1.0
CB A:CYS69 3.2 20.9 1.0
HB3 A:CYS69 3.2 25.1 1.0
CB A:CYS77 3.2 23.4 1.0
CB A:CYS79 3.2 19.4 1.0
CB A:CYS72 3.3 25.9 1.0
HB3 A:CYS77 3.4 28.1 1.0
H A:CYS72 3.5 27.7 1.0
H A:CYS79 3.5 27.5 1.0
HB3 A:CYS79 3.8 23.3 1.0
HG22 A:THR115 3.9 24.5 1.0
HG A:SER118 3.9 25.4 1.0
HB2 A:HIS71 4.0 25.4 1.0
HD21 A:ASN65 4.0 29.2 1.0
HB3 A:CYS72 4.0 31.2 1.0
N A:CYS72 4.1 23.0 1.0
N A:CYS79 4.2 22.9 1.0
CA A:CYS72 4.3 27.0 1.0
CA A:CYS79 4.3 21.4 1.0
HB2 A:SER118 4.4 21.6 1.0
O A:HOH505 4.4 22.0 1.0
HA A:THR115 4.4 18.9 1.0
H A:HIS71 4.5 24.6 1.0
H A:HIS78 4.6 30.3 1.0
HB3 A:SER118 4.6 21.6 1.0
CA A:CYS77 4.6 24.0 1.0
CA A:CYS69 4.6 20.0 1.0
OG A:SER118 4.7 21.1 1.0
HA A:CYS72 4.7 32.4 1.0
O A:HOH517 4.7 19.6 1.0
ND2 A:ASN65 4.7 24.3 1.0
CB A:SER118 4.8 18.0 1.0
CG2 A:THR115 4.8 20.3 1.0
O A:HOH542 4.8 25.3 1.0
HA A:CYS79 4.8 25.7 1.0
N A:HIS78 4.9 25.2 1.0
HA A:CYS69 4.9 24.1 1.0
CB A:HIS71 4.9 21.1 1.0
O A:HOH594 5.0 27.1 1.0
C A:CYS77 5.0 25.6 1.0
O A:HOH498 5.0 23.7 1.0

Zinc binding site 2 out of 2 in 8fjm

Go back to Zinc Binding Sites List in 8fjm
Zinc binding site 2 out of 2 in the Crystal Structure of the Trypanosoma Brucei DOT1A Histone H3K76 Methyltransferase in Complex with Adohcy - P212121 Space Group


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystal Structure of the Trypanosoma Brucei DOT1A Histone H3K76 Methyltransferase in Complex with Adohcy - P212121 Space Group within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn303

b:21.9
occ:1.00
 SG B:CYS77 2.3 21.1 1.0
SG B:CYS79 2.4 19.5 1.0
SG B:CYS72 2.4 21.8 1.0
SG B:CYS69 2.4 21.6 1.0
HB2 B:CYS79 2.9 26.3 1.0
HB2 B:CYS72 2.9 30.3 1.0
HB2 B:CYS77 3.0 30.1 1.0
HB3 B:CYS69 3.1 29.7 1.0
HB2 B:CYS69 3.1 29.7 1.0
CB B:CYS69 3.1 24.7 1.0
CB B:CYS77 3.2 25.0 1.0
CB B:CYS79 3.2 21.8 1.0
CB B:CYS72 3.2 25.2 1.0
HB3 B:CYS77 3.4 30.1 1.0
H B:CYS72 3.5 29.1 1.0
H B:CYS79 3.5 24.5 1.0
HG22 B:THR115 3.8 25.8 1.0
HB3 B:CYS79 3.8 26.3 1.0
HB3 B:CYS72 3.9 30.3 1.0
HD21 B:ASN65 4.0 33.5 1.0
N B:CYS72 4.0 24.2 1.0
HG B:SER118 4.0 27.5 1.0
HB2 B:HIS71 4.1 29.0 1.0
N B:CYS79 4.2 20.4 1.0
CA B:CYS72 4.2 25.1 1.0
CA B:CYS79 4.3 21.2 1.0
O B:HOH482 4.4 20.8 0.5
O B:HOH489 4.4 21.0 1.0
HB2 B:SER118 4.5 23.2 1.0
HA B:THR115 4.5 23.6 1.0
H B:HIS71 4.5 30.1 1.0
HA B:CYS72 4.6 30.2 1.0
HB3 B:SER118 4.6 23.2 1.0
CA B:CYS69 4.6 25.0 1.0
CA B:CYS77 4.6 25.6 1.0
H B:HIS78 4.7 29.8 1.0
ND2 B:ASN65 4.7 27.9 1.0
CG2 B:THR115 4.8 21.4 1.0
OG B:SER118 4.8 22.8 1.0
CB B:SER118 4.8 19.3 1.0
HA B:CYS79 4.8 25.5 1.0
HA B:CYS69 4.9 30.1 1.0
O B:HOH465 4.9 23.1 1.0
CB B:HIS71 4.9 24.1 1.0
N B:HIS78 5.0 24.8 1.0
HD22 B:ASN65 5.0 33.5 1.0

Reference:

V.S.Frisbie, H.Hashimoto, Y.Xie, J.Baeza, T.Nguyen, Z.Yuan, B.A.Garcia, E.W.Debler. Structure and Mechanism of the Atypical Trypanosoma Brucei DOT1A Histone H3K76 Methyltransferase To Be Published.
Page generated: Wed Oct 30 20:26:37 2024

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