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Zinc in PDB 5ft9: Arabidopsis Thaliana Nuclear Protein-Only Rnase P 2 (PRORP2)

Enzymatic activity of Arabidopsis Thaliana Nuclear Protein-Only Rnase P 2 (PRORP2)

All present enzymatic activity of Arabidopsis Thaliana Nuclear Protein-Only Rnase P 2 (PRORP2):
3.1.26.5;

Protein crystallography data

The structure of Arabidopsis Thaliana Nuclear Protein-Only Rnase P 2 (PRORP2), PDB code: 5ft9 was solved by P.Fernandez-Millan, F.Pinker, C.Schelcher, A.Gobert, P.Giege, C.Sauter, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 34.71 / 3.05
Space group P 1
Cell size a, b, c (Å), α, β, γ (°) 70.500, 72.800, 80.300, 63.10, 72.20, 78.40
R / Rfree (%) 24.2 / 29

Zinc Binding Sites:

The binding sites of Zinc atom in the Arabidopsis Thaliana Nuclear Protein-Only Rnase P 2 (PRORP2) (pdb code 5ft9). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Arabidopsis Thaliana Nuclear Protein-Only Rnase P 2 (PRORP2), PDB code: 5ft9:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 5ft9

Go back to Zinc Binding Sites List in 5ft9
Zinc binding site 1 out of 2 in the Arabidopsis Thaliana Nuclear Protein-Only Rnase P 2 (PRORP2)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Arabidopsis Thaliana Nuclear Protein-Only Rnase P 2 (PRORP2) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn1001

b:0.2
occ:1.00
NE2 A:HIS494 2.3 98.3 1.0
SG A:CYS284 2.4 0.3 1.0
SG A:CYS281 2.4 0.9 1.0
SG A:CYS511 2.5 0.1 1.0
CB A:CYS281 3.0 0.2 1.0
CD2 A:HIS494 3.0 91.4 1.0
OG A:SER283 3.2 0.8 1.0
CB A:CYS511 3.3 0.1 1.0
CE1 A:HIS494 3.4 93.6 1.0
CB A:CYS284 3.5 1.0 1.0
N A:CYS284 3.9 1.0 1.0
CA A:CYS511 4.3 98.3 1.0
CG A:HIS494 4.3 82.5 1.0
CA A:CYS284 4.3 0.6 1.0
ND1 A:HIS494 4.4 81.8 1.0
CA A:CYS281 4.4 0.1 1.0
CB A:SER283 4.6 0.9 1.0
O A:CYS281 4.8 0.4 1.0
C A:CYS281 4.8 0.8 1.0
C A:SER283 4.9 0.7 1.0

Zinc binding site 2 out of 2 in 5ft9

Go back to Zinc Binding Sites List in 5ft9
Zinc binding site 2 out of 2 in the Arabidopsis Thaliana Nuclear Protein-Only Rnase P 2 (PRORP2)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Arabidopsis Thaliana Nuclear Protein-Only Rnase P 2 (PRORP2) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn1001

b:0.1
occ:1.00
SG B:CYS284 2.2 0.7 1.0
NE2 B:HIS494 2.3 0.2 1.0
SG B:CYS511 2.3 0.3 1.0
SG B:CYS281 2.8 96.0 1.0
CB B:CYS281 3.1 0.1 1.0
CD2 B:HIS494 3.1 0.5 1.0
CB B:CYS284 3.2 0.4 1.0
CB B:CYS511 3.3 0.5 1.0
CE1 B:HIS494 3.4 0.1 1.0
N B:CYS284 3.6 0.4 1.0
CA B:CYS284 4.0 0.4 1.0
CG B:HIS494 4.3 83.5 1.0
CB B:SER283 4.4 0.3 1.0
ND1 B:HIS494 4.4 84.2 1.0
CA B:CYS511 4.4 0.0 1.0
CA B:CYS281 4.4 0.2 1.0
O B:CYS281 4.5 0.5 1.0
C B:SER283 4.6 0.3 1.0
C B:CYS281 4.7 0.9 1.0
C B:CYS284 4.7 0.0 1.0
CA B:SER283 4.9 0.4 1.0
O B:GLU286 4.9 0.9 1.0
OG B:SER513 4.9 0.3 1.0
N B:SER283 5.0 0.9 1.0
N B:SER285 5.0 0.7 1.0

Reference:

F.Pinker, C.Schelcher, P.Fernandez-Millan, A.Gobert, C.Birck, P.Roblin, P.Giege, C.Sauter. Structures of Arabidopsis Nuclear Rnase P Alone and with Trna Reveal Plasticities To Be Published.
Page generated: Wed Dec 16 06:16:29 2020

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