Zinc in PDB 8gzg: Cryo-Em Structure of Synechocystis Sp. Pcc 6803 Rpitc

Enzymatic activity of Cryo-Em Structure of Synechocystis Sp. Pcc 6803 Rpitc

All present enzymatic activity of Cryo-Em Structure of Synechocystis Sp. Pcc 6803 Rpitc:
2.7.7.6;

Other elements in 8gzg:

The structure of Cryo-Em Structure of Synechocystis Sp. Pcc 6803 Rpitc also contains other interesting chemical elements:

Magnesium (Mg) 1 atom

Zinc Binding Sites:

The binding sites of Zinc atom in the Cryo-Em Structure of Synechocystis Sp. Pcc 6803 Rpitc (pdb code 8gzg). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Cryo-Em Structure of Synechocystis Sp. Pcc 6803 Rpitc, PDB code: 8gzg:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 8gzg

Go back to Zinc Binding Sites List in 8gzg
Zinc binding site 1 out of 2 in the Cryo-Em Structure of Synechocystis Sp. Pcc 6803 Rpitc


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 Synechocystis Sp. Pcc 6803 Rpitc within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn2002

b:44.5
occ:1.00
SG D:CYS71 2.6 28.5 1.0
SG D:CYS73 2.6 28.5 1.0
SG D:CYS86 2.7 37.4 1.0
CB D:CYS86 3.2 37.4 1.0
O D:GLY74 3.3 30.6 1.0
CB D:CYS89 3.4 35.6 1.0
CB D:CYS71 3.6 28.5 1.0
CB D:CYS73 3.9 28.5 1.0
N D:GLY74 4.0 30.6 1.0
N D:CYS73 4.1 28.5 1.0
CD2 D:TYR76 4.2 37.0 1.0
N D:CYS89 4.3 35.6 1.0
C D:GLY74 4.4 30.6 1.0
CA D:CYS73 4.4 28.5 1.0
CA D:CYS89 4.5 35.6 1.0
SG D:CYS89 4.6 35.6 1.0
C D:CYS73 4.7 28.5 1.0
CA D:CYS86 4.7 37.4 1.0
N D:TRP72 4.7 28.5 1.0
CA D:GLY74 4.8 30.6 1.0
CA D:CYS71 4.9 28.5 1.0
CE2 D:TYR76 5.0 37.0 1.0

Zinc binding site 2 out of 2 in 8gzg

Go back to Zinc Binding Sites List in 8gzg
Zinc binding site 2 out of 2 in the Cryo-Em Structure of Synechocystis Sp. Pcc 6803 Rpitc


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 Synechocystis Sp. Pcc 6803 Rpitc within 5.0Å range:
probe atom residue distance (Å) B Occ
Z:Zn2001

b:23.8
occ:1.00
SG Z:CYS296 2.5 28.5 1.0
SG Z:CYS214 2.5 28.5 1.0
SG Z:CYS286 2.5 28.5 1.0
CB Z:CYS293 2.6 28.5 1.0
CB Z:CYS296 3.5 28.5 1.0
SG Z:CYS293 3.5 28.5 1.0
CB Z:CYS214 3.5 28.5 1.0
CB Z:CYS286 3.6 28.5 1.0
CA Z:CYS293 3.9 28.5 1.0
CA Z:CYS286 4.0 28.5 1.0
N Z:CYS293 4.0 28.5 1.0
N Z:GLU287 4.0 28.5 1.0
NH2 Z:ARG281 4.4 28.5 1.0
C Z:CYS286 4.5 28.5 1.0
CG2 Z:THR216 4.6 28.5 1.0
N Z:CYS214 4.7 28.5 1.0
O Z:GLU287 4.7 28.5 1.0
CA Z:CYS214 4.7 28.5 1.0
CA Z:CYS296 4.7 28.5 1.0
N Z:CYS296 4.8 28.5 1.0
C Z:GLU287 4.8 28.5 1.0
C Z:CYS293 4.8 28.5 1.0
CB Z:ALA288 4.9 23.1 1.0
OE2 Z:GLU211 5.0 28.5 1.0

Reference:

L.Q.Shen, L.L.You, Y.Zhang. Cryo-Em Structure of Synechocystis Sp. Pcc 6803 Ctp-Bound Rpitc Proc.Natl.Acad.Sci.Usa 2023.
ISSN: ESSN 1091-6490
Page generated: Wed Apr 26 00:45:18 2023

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