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Zinc in PDB 5gy6: Ribonuclease From Hericium Erinaceus (Rnase HE1)

Enzymatic activity of Ribonuclease From Hericium Erinaceus (Rnase HE1)

All present enzymatic activity of Ribonuclease From Hericium Erinaceus (Rnase HE1):
3.1.27.3;

Protein crystallography data

The structure of Ribonuclease From Hericium Erinaceus (Rnase HE1), PDB code: 5gy6 was solved by H.Kobayashi, T.Sangawa, K.Takebe, T.Itagaki, N.Motoyoshi, M.Suzuki, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 34.96 / 1.50
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 31.701, 42.945, 60.183, 90.00, 90.00, 90.00
R / Rfree (%) 17.3 / 19.7

Zinc Binding Sites:

The binding sites of Zinc atom in the Ribonuclease From Hericium Erinaceus (Rnase HE1) (pdb code 5gy6). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total only one binding site of Zinc was determined in the Ribonuclease From Hericium Erinaceus (Rnase HE1), PDB code: 5gy6:

Zinc binding site 1 out of 1 in 5gy6

Go back to Zinc Binding Sites List in 5gy6
Zinc binding site 1 out of 1 in the Ribonuclease From Hericium Erinaceus (Rnase HE1)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Ribonuclease From Hericium Erinaceus (Rnase HE1) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn201

b:11.8
occ:1.00
OE2 A:GLU53 2.0 15.7 1.0
ND1 A:HIS34 2.1 12.0 1.0
NE2 A:HIS37 2.1 16.9 1.0
OE1 A:GLU53 2.5 20.8 1.0
CD A:GLU53 2.6 15.0 1.0
CE1 A:HIS37 3.0 15.1 1.0
CE1 A:HIS34 3.0 11.3 1.0
CG A:HIS34 3.1 11.2 1.0
CD2 A:HIS37 3.2 23.8 1.0
CB A:HIS34 3.5 11.4 1.0
CG A:GLU53 4.1 11.2 1.0
NE2 A:HIS34 4.1 11.1 1.0
ND1 A:HIS37 4.2 20.3 1.0
CZ A:PHE95 4.2 17.8 1.0
CD2 A:HIS34 4.2 11.7 1.0
CE2 A:TYR32 4.2 8.9 1.0
CG A:HIS37 4.3 18.4 1.0
CE2 A:PHE95 4.4 21.3 1.0
O A:HOH365 4.6 17.4 1.0
CB A:GLU53 4.6 10.0 1.0
OH A:TYR32 4.8 11.0 1.0
NE A:ARG71 4.9 17.3 1.0
CZ A:TYR32 4.9 10.1 1.0
CD2 A:TYR32 5.0 8.8 1.0
CA A:HIS34 5.0 11.5 1.0

Reference:

H.Kobayashi, T.Sangawa, K.Takebe, T.Itagaki, N.Motoyoshi, M.Suzuki. Ribonuclease From Hericium Erinaceus (Rnase HE1) To Be Published.
Page generated: Wed Dec 16 06:19:51 2020

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