Zinc in PDB 6x34: Pig R615C RYR1 Egta (All Classes, Open)

Enzymatic activity of Pig R615C RYR1 Egta (All Classes, Open)

All present enzymatic activity of Pig R615C RYR1 Egta (All Classes, Open):
5.2.1.8;

Zinc Binding Sites:

The binding sites of Zinc atom in the Pig R615C RYR1 Egta (All Classes, Open) (pdb code 6x34). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the Pig R615C RYR1 Egta (All Classes, Open), PDB code: 6x34:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in 6x34

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Zinc binding site 1 out of 4 in the Pig R615C RYR1 Egta (All Classes, Open)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Pig R615C RYR1 Egta (All Classes, Open) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn5101

b:156.5
occ:1.00
SG B:CYS4959 2.3 137.7 1.0
ND1 B:HIS4981 2.3 126.7 1.0
NE2 B:HIS4976 2.3 143.0 1.0
N B:ILE4961 2.4 138.1 1.0
N B:GLY4962 2.7 147.4 1.0
CB B:ILE4961 2.7 138.1 1.0
CA B:ILE4961 2.8 138.1 1.0
CE1 B:HIS4981 2.9 126.7 1.0
CB B:CYS4959 2.9 137.7 1.0
CE1 B:HIS4976 3.0 143.0 1.0
C B:ILE4961 3.2 138.1 1.0
CD2 B:HIS4976 3.5 143.0 1.0
N B:GLY4960 3.5 133.2 1.0
C B:GLY4960 3.6 133.2 1.0
CG B:HIS4981 3.6 126.7 1.0
C B:CYS4959 3.8 137.7 1.0
CA B:GLY4962 3.9 147.4 1.0
O B:GLY4962 3.9 147.4 1.0
CA B:CYS4959 4.0 137.7 1.0
CA B:GLY4960 4.0 133.2 1.0
NE2 B:HIS4981 4.1 126.7 1.0
CB B:HIS4981 4.2 126.7 1.0
C B:GLY4962 4.2 147.4 1.0
ND1 B:HIS4976 4.2 143.0 1.0
O B:ILE4961 4.4 138.1 1.0
O B:CYS4959 4.5 137.7 1.0
CD2 B:HIS4981 4.5 126.7 1.0
CG B:HIS4976 4.5 143.0 1.0
O B:GLY4960 4.6 133.2 1.0
N B:CYS4959 5.0 137.7 1.0

Zinc binding site 2 out of 4 in 6x34

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Zinc binding site 2 out of 4 in the Pig R615C RYR1 Egta (All Classes, Open)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Pig R615C RYR1 Egta (All Classes, Open) within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn5101

b:156.5
occ:1.00
SG D:CYS4959 2.3 137.7 1.0
ND1 D:HIS4981 2.3 126.7 1.0
NE2 D:HIS4976 2.3 143.0 1.0
N D:ILE4961 2.4 138.1 1.0
N D:GLY4962 2.7 147.4 1.0
CB D:ILE4961 2.7 138.1 1.0
CA D:ILE4961 2.8 138.1 1.0
CE1 D:HIS4981 2.9 126.7 1.0
CB D:CYS4959 2.9 137.7 1.0
CE1 D:HIS4976 3.0 143.0 1.0
C D:ILE4961 3.2 138.1 1.0
CD2 D:HIS4976 3.5 143.0 1.0
N D:GLY4960 3.5 133.2 1.0
C D:GLY4960 3.6 133.2 1.0
CG D:HIS4981 3.6 126.7 1.0
C D:CYS4959 3.8 137.7 1.0
CA D:GLY4962 3.9 147.4 1.0
O D:GLY4962 3.9 147.4 1.0
CA D:CYS4959 4.0 137.7 1.0
CA D:GLY4960 4.0 133.2 1.0
NE2 D:HIS4981 4.1 126.7 1.0
CB D:HIS4981 4.2 126.7 1.0
C D:GLY4962 4.2 147.4 1.0
ND1 D:HIS4976 4.2 143.0 1.0
O D:ILE4961 4.4 138.1 1.0
O D:CYS4959 4.5 137.7 1.0
CD2 D:HIS4981 4.5 126.7 1.0
CG D:HIS4976 4.5 143.0 1.0
O D:GLY4960 4.6 133.2 1.0
N D:CYS4959 5.0 137.7 1.0

Zinc binding site 3 out of 4 in 6x34

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Zinc binding site 3 out of 4 in the Pig R615C RYR1 Egta (All Classes, Open)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Pig R615C RYR1 Egta (All Classes, Open) within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Zn5101

b:156.5
occ:1.00
SG F:CYS4959 2.3 137.7 1.0
ND1 F:HIS4981 2.3 126.7 1.0
NE2 F:HIS4976 2.3 143.0 1.0
N F:ILE4961 2.4 138.1 1.0
N F:GLY4962 2.7 147.4 1.0
CB F:ILE4961 2.7 138.1 1.0
CA F:ILE4961 2.8 138.1 1.0
CE1 F:HIS4981 2.9 126.7 1.0
CB F:CYS4959 2.9 137.7 1.0
CE1 F:HIS4976 3.0 143.0 1.0
C F:ILE4961 3.2 138.1 1.0
CD2 F:HIS4976 3.5 143.0 1.0
N F:GLY4960 3.5 133.2 1.0
C F:GLY4960 3.6 133.2 1.0
CG F:HIS4981 3.6 126.7 1.0
C F:CYS4959 3.8 137.7 1.0
CA F:GLY4962 3.9 147.4 1.0
O F:GLY4962 3.9 147.4 1.0
CA F:CYS4959 4.0 137.7 1.0
CA F:GLY4960 4.0 133.2 1.0
NE2 F:HIS4981 4.1 126.7 1.0
CB F:HIS4981 4.2 126.7 1.0
C F:GLY4962 4.2 147.4 1.0
ND1 F:HIS4976 4.2 143.0 1.0
O F:ILE4961 4.4 138.1 1.0
O F:CYS4959 4.5 137.7 1.0
CD2 F:HIS4981 4.5 126.7 1.0
CG F:HIS4976 4.5 143.0 1.0
O F:GLY4960 4.6 133.2 1.0
N F:CYS4959 5.0 137.7 1.0

Zinc binding site 4 out of 4 in 6x34

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Zinc binding site 4 out of 4 in the Pig R615C RYR1 Egta (All Classes, Open)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Pig R615C RYR1 Egta (All Classes, Open) within 5.0Å range:
probe atom residue distance (Å) B Occ
H:Zn5101

b:156.5
occ:1.00
SG H:CYS4959 2.3 137.7 1.0
ND1 H:HIS4981 2.3 126.7 1.0
NE2 H:HIS4976 2.3 143.0 1.0
N H:ILE4961 2.4 138.1 1.0
N H:GLY4962 2.7 147.4 1.0
CB H:ILE4961 2.7 138.1 1.0
CA H:ILE4961 2.8 138.1 1.0
CE1 H:HIS4981 2.9 126.7 1.0
CB H:CYS4959 2.9 137.7 1.0
CE1 H:HIS4976 3.0 143.0 1.0
C H:ILE4961 3.2 138.1 1.0
CD2 H:HIS4976 3.5 143.0 1.0
N H:GLY4960 3.5 133.2 1.0
C H:GLY4960 3.6 133.2 1.0
CG H:HIS4981 3.6 126.7 1.0
C H:CYS4959 3.8 137.7 1.0
CA H:GLY4962 3.9 147.4 1.0
O H:GLY4962 3.9 147.4 1.0
CA H:CYS4959 4.0 137.7 1.0
CA H:GLY4960 4.0 133.2 1.0
NE2 H:HIS4981 4.1 126.7 1.0
CB H:HIS4981 4.2 126.7 1.0
C H:GLY4962 4.2 147.4 1.0
ND1 H:HIS4976 4.2 143.0 1.0
O H:ILE4961 4.4 138.1 1.0
O H:CYS4959 4.5 137.7 1.0
CD2 H:HIS4981 4.5 126.7 1.0
CG H:HIS4976 4.5 143.0 1.0
O H:GLY4960 4.6 133.2 1.0
N H:CYS4959 5.0 137.7 1.0

Reference:

K.W.Woll, O.Haji-Ghassemi, F.Van Petegem. Pathological Conformations of Disease Mutant Ryanodine Receptors Revealed By Cryo-Em Nat Commun 2021.
ISSN: ESSN 2041-1723
Page generated: Mon Jan 25 16:37:16 2021

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