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Zinc in PDB 2pkg: Structure of A Complex Between the A Subunit of Protein Phosphatase 2A and the Small T Antigen of SV40

Protein crystallography data

The structure of Structure of A Complex Between the A Subunit of Protein Phosphatase 2A and the Small T Antigen of SV40, PDB code: 2pkg was solved by P.D.Jeffrey, Y.Shi, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 60.40 / 3.30
Space group C 2 2 21
Cell size a, b, c (Å), α, β, γ (°) 137.700, 147.790, 209.650, 90.00, 90.00, 90.00
R / Rfree (%) 24.7 / 31.2

Zinc Binding Sites:

The binding sites of Zinc atom in the Structure of A Complex Between the A Subunit of Protein Phosphatase 2A and the Small T Antigen of SV40 (pdb code 2pkg). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the Structure of A Complex Between the A Subunit of Protein Phosphatase 2A and the Small T Antigen of SV40, PDB code: 2pkg:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in 2pkg

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Zinc binding site 1 out of 4 in the Structure of A Complex Between the A Subunit of Protein Phosphatase 2A and the Small T Antigen of SV40


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Structure of A Complex Between the A Subunit of Protein Phosphatase 2A and the Small T Antigen of SV40 within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn175

b:37.0
occ:1.00
SG C:CYS111 2.0 50.3 1.0
SG C:CYS103 2.2 47.5 1.0
SG C:CYS113 2.2 49.8 1.0
SG C:CYS116 2.3 27.2 1.0
CB C:CYS111 3.0 56.4 1.0
CB C:CYS116 3.1 33.1 1.0
CB C:CYS103 3.3 43.1 1.0
CB C:CYS113 3.4 57.7 1.0
OG C:SER108 3.6 80.4 1.0
N C:CYS116 4.1 35.9 1.0
N C:CYS113 4.1 57.1 1.0
CA C:CYS116 4.1 35.7 1.0
N C:LYS98 4.2 65.2 1.0
CA C:CYS103 4.3 43.7 1.0
O C:LYS98 4.3 80.9 1.0
CA C:CYS113 4.3 55.7 1.0
CA C:CYS111 4.4 64.5 1.0
N C:ILE112 4.6 64.5 1.0
CB C:LYS98 4.6 73.6 1.0
C C:CYS111 4.8 66.6 1.0
CB C:SER108 4.9 80.9 1.0
O C:CYS113 4.9 50.2 1.0
CA C:LYS98 4.9 72.1 1.0
C C:CYS113 4.9 51.4 1.0

Zinc binding site 2 out of 4 in 2pkg

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Zinc binding site 2 out of 4 in the Structure of A Complex Between the A Subunit of Protein Phosphatase 2A and the Small T Antigen of SV40


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Structure of A Complex Between the A Subunit of Protein Phosphatase 2A and the Small T Antigen of SV40 within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn176

b:40.7
occ:1.00
ND1 C:HIS122 1.7 35.6 1.0
SG C:CYS140 2.2 32.8 1.0
SG C:CYS143 2.3 38.2 1.0
SG C:CYS138 2.3 36.6 1.0
CE1 C:HIS122 2.5 37.5 1.0
CG C:HIS122 2.9 38.3 1.0
CB C:CYS138 3.1 35.5 1.0
CB C:CYS140 3.1 38.7 1.0
CB C:CYS143 3.3 39.6 1.0
CB C:HIS122 3.6 39.2 1.0
NE2 C:HIS122 3.7 40.5 1.0
CD2 C:HIS122 3.9 37.6 1.0
N C:CYS140 4.1 40.8 1.0
CA C:CYS140 4.1 39.1 1.0
CD1 C:LEU133 4.3 41.9 1.0
N C:CYS143 4.3 37.7 1.0
CA C:CYS143 4.3 37.9 1.0
CA C:CYS138 4.4 41.8 1.0
CB C:LEU133 4.5 54.2 1.0
CA C:HIS122 4.6 37.0 1.0
O C:CYS140 4.7 35.3 1.0
C C:CYS138 4.7 40.6 1.0
C C:CYS140 4.8 38.9 1.0
N C:TYR139 5.0 39.4 1.0

Zinc binding site 3 out of 4 in 2pkg

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Zinc binding site 3 out of 4 in the Structure of A Complex Between the A Subunit of Protein Phosphatase 2A and the Small T Antigen of SV40


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Structure of A Complex Between the A Subunit of Protein Phosphatase 2A and the Small T Antigen of SV40 within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn175

b:57.7
occ:1.00
SG D:CYS116 2.1 37.1 1.0
SG D:CYS111 2.2 60.7 1.0
SG D:CYS113 2.3 54.5 1.0
SG D:CYS103 2.3 55.0 1.0
CB D:CYS116 3.0 43.1 1.0
CB D:CYS111 3.1 63.0 1.0
CB D:CYS103 3.3 57.5 1.0
CB D:CYS113 3.5 59.4 1.0
N D:CYS116 4.0 40.5 1.0
CA D:CYS116 4.1 43.4 1.0
CA D:CYS103 4.2 61.8 1.0
N D:CYS113 4.3 65.8 1.0
N D:LYS98 4.4 77.3 1.0
OG D:SER108 4.4 87.5 1.0
O D:LYS98 4.4 89.3 1.0
CA D:CYS113 4.4 59.9 1.0
CB D:SER108 4.5 85.7 1.0
CA D:CYS111 4.5 70.7 1.0
O D:CYS113 4.8 47.2 1.0
N D:ILE112 4.8 69.8 1.0
C D:CYS113 4.9 53.2 1.0
CB D:LYS98 4.9 81.2 1.0
C D:CYS111 4.9 71.1 1.0

Zinc binding site 4 out of 4 in 2pkg

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Zinc binding site 4 out of 4 in the Structure of A Complex Between the A Subunit of Protein Phosphatase 2A and the Small T Antigen of SV40


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Structure of A Complex Between the A Subunit of Protein Phosphatase 2A and the Small T Antigen of SV40 within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn176

b:38.5
occ:1.00
ND1 D:HIS122 1.8 42.6 1.0
SG D:CYS140 2.0 35.2 1.0
SG D:CYS143 2.1 29.9 1.0
SG D:CYS138 2.1 40.0 1.0
CE1 D:HIS122 2.5 42.5 1.0
CG D:HIS122 3.0 43.5 1.0
CB D:CYS140 3.0 36.5 1.0
CB D:CYS143 3.2 27.9 1.0
CB D:CYS138 3.3 40.5 1.0
CB D:HIS122 3.6 48.6 1.0
NE2 D:HIS122 3.7 40.2 1.0
CD2 D:HIS122 4.0 36.5 1.0
N D:CYS143 4.0 34.4 1.0
CA D:CYS140 4.1 38.6 1.0
N D:CYS140 4.1 35.2 1.0
CA D:CYS143 4.1 33.7 1.0
CD1 D:LEU133 4.3 46.8 1.0
CB D:LEU133 4.5 55.9 1.0
O D:CYS140 4.6 37.1 1.0
CA D:CYS138 4.6 40.7 1.0
C D:CYS140 4.7 38.1 1.0
CA D:HIS122 4.7 46.5 1.0
C D:CYS138 4.9 40.7 1.0

Reference:

Y.Chen, Y.Xu, Q.Bao, Y.Xing, Z.Li, Z.Lin, J.B.Stock, P.D.Jeffrey, Y.Shi. Structural and Biochemical Insights Into the Regulation of Protein Phosphatase 2A By Small T Antigen of SV40. Nat.Struct.Mol.Biol. V. 14 527 2007.
ISSN: ISSN 1545-9993
PubMed: 17529992
DOI: 10.1038/NSMB1254
Page generated: Sat Sep 26 03:31:26 2020
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