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Zinc in PDB 2ata: Structural Basis of Dna Recognition By P53 Tetramers (Complex II)

Protein crystallography data

The structure of Structural Basis of Dna Recognition By P53 Tetramers (Complex II), PDB code: 2ata was solved by M.Kitayner, H.Rozenberg, N.Kessler, D.Rabinovich, Z.Shakked, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 43.00 / 2.20
Space group P 1
Cell size a, b, c (Å), α, β, γ (°) 54.649, 57.998, 77.983, 83.35, 87.55, 73.50
R / Rfree (%) 14.5 / 21.5

Zinc Binding Sites:

The binding sites of Zinc atom in the Structural Basis of Dna Recognition By P53 Tetramers (Complex II) (pdb code 2ata). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the Structural Basis of Dna Recognition By P53 Tetramers (Complex II), PDB code: 2ata:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in 2ata

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Zinc binding site 1 out of 4 in the Structural Basis of Dna Recognition By P53 Tetramers (Complex II)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Structural Basis of Dna Recognition By P53 Tetramers (Complex II) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn1

b:20.7
occ:1.00
ND1 A:HIS179 1.9 15.3 1.0
SG A:CYS238 2.2 15.3 1.0
SG A:CYS242 2.3 20.7 1.0
SG A:CYS176 2.4 20.9 1.0
CE1 A:HIS179 2.8 16.5 1.0
CG A:HIS179 3.0 20.5 1.0
CB A:CYS242 3.2 21.9 1.0
CB A:CYS238 3.3 18.1 1.0
CB A:HIS179 3.5 16.9 1.0
CB A:CYS176 3.6 18.0 1.0
CA A:CYS238 3.8 15.1 1.0
NE2 A:HIS179 3.9 16.8 1.0
N A:CYS176 4.0 20.1 1.0
CD2 A:HIS179 4.1 15.0 1.0
CA A:CYS176 4.4 18.2 1.0
N A:ASN239 4.4 15.5 1.0
N A:HIS179 4.5 17.5 1.0
CA A:CYS242 4.5 19.9 1.0
CA A:HIS179 4.6 18.2 1.0
C A:CYS238 4.6 16.9 1.0
O A:MET237 4.7 14.4 1.0
O A:HOH315 4.7 23.3 1.0
N A:CYS238 4.9 14.2 1.0
CE B:MET243 4.9 33.6 1.0
O A:HOH376 5.0 21.2 1.0
O A:CYS176 5.0 13.0 1.0

Zinc binding site 2 out of 4 in 2ata

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Zinc binding site 2 out of 4 in the Structural Basis of Dna Recognition By P53 Tetramers (Complex II)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Structural Basis of Dna Recognition By P53 Tetramers (Complex II) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn1

b:24.2
occ:1.00
ND1 B:HIS179 2.2 21.7 1.0
SG B:CYS242 2.2 21.1 1.0
SG B:CYS176 2.2 23.1 1.0
SG B:CYS238 2.4 23.4 1.0
CB B:CYS242 3.0 23.1 1.0
CE1 B:HIS179 3.1 26.0 1.0
CG B:HIS179 3.2 20.1 1.0
CB B:CYS238 3.2 17.4 1.0
CB B:CYS176 3.4 20.6 1.0
CB B:HIS179 3.6 26.6 1.0
CA B:CYS238 3.8 17.8 1.0
N B:CYS176 4.1 22.5 1.0
NE2 B:HIS179 4.2 20.6 1.0
CE A:MET243 4.2 42.4 1.0
CD2 B:HIS179 4.3 19.2 1.0
CA B:CYS176 4.4 23.5 1.0
CA B:CYS242 4.4 20.4 1.0
N B:HIS179 4.4 28.9 1.0
N B:ASN239 4.5 19.1 1.0
O B:MET237 4.6 20.9 1.0
CA B:HIS179 4.6 27.9 1.0
C B:CYS238 4.6 19.7 1.0
O B:HOH304 4.7 21.4 1.0
N B:CYS238 4.9 18.0 1.0

Zinc binding site 3 out of 4 in 2ata

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Zinc binding site 3 out of 4 in the Structural Basis of Dna Recognition By P53 Tetramers (Complex II)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Structural Basis of Dna Recognition By P53 Tetramers (Complex II) within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn1

b:20.4
occ:1.00
ND1 C:HIS179 2.0 13.9 1.0
SG C:CYS242 2.3 19.7 1.0
SG C:CYS238 2.3 16.6 1.0
SG C:CYS176 2.4 17.9 1.0
CE1 C:HIS179 3.0 20.9 1.0
CG C:HIS179 3.0 21.4 1.0
CB C:CYS242 3.1 18.3 1.0
CB C:CYS238 3.3 9.7 1.0
CB C:HIS179 3.4 17.1 1.0
CB C:CYS176 3.5 17.3 1.0
CA C:CYS238 3.8 12.2 1.0
N C:CYS176 4.1 17.3 1.0
NE2 C:HIS179 4.1 25.6 1.0
CD2 C:HIS179 4.2 19.6 1.0
N C:HIS179 4.3 17.8 1.0
CA C:CYS176 4.4 15.9 1.0
CA C:HIS179 4.5 18.3 1.0
CA C:CYS242 4.5 19.6 1.0
CE D:MET243 4.5 30.8 1.0
N C:ASN239 4.6 13.9 1.0
O C:MET237 4.7 15.5 1.0
C C:CYS238 4.7 14.1 1.0
O C:HOH326 4.8 19.4 1.0
O C:CYS176 4.9 16.1 1.0
N C:CYS238 5.0 14.1 1.0
C C:CYS176 5.0 17.2 1.0

Zinc binding site 4 out of 4 in 2ata

Go back to Zinc Binding Sites List in 2ata
Zinc binding site 4 out of 4 in the Structural Basis of Dna Recognition By P53 Tetramers (Complex II)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Structural Basis of Dna Recognition By P53 Tetramers (Complex II) within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn1

b:21.0
occ:1.00
ND1 D:HIS179 2.0 26.8 1.0
SG D:CYS242 2.3 19.6 1.0
SG D:CYS238 2.4 21.1 1.0
SG D:CYS176 2.4 19.7 1.0
CE1 D:HIS179 2.9 19.3 1.0
CB D:CYS242 3.0 18.4 1.0
CG D:HIS179 3.1 21.4 1.0
CB D:CYS238 3.2 18.2 1.0
CB D:CYS176 3.5 18.7 1.0
CB D:HIS179 3.5 24.7 1.0
CA D:CYS238 3.8 18.5 1.0
N D:CYS176 4.0 18.1 1.0
NE2 D:HIS179 4.0 21.4 1.0
CD2 D:HIS179 4.2 22.8 1.0
CA D:CYS176 4.3 16.9 1.0
CA D:CYS242 4.4 20.2 1.0
N D:HIS179 4.5 20.9 1.0
N D:ASN239 4.6 18.3 1.0
CA D:HIS179 4.6 22.2 1.0
O D:MET237 4.7 18.1 1.0
C D:CYS238 4.7 20.9 1.0
O D:HOH314 4.7 22.7 1.0
N D:CYS238 5.0 15.7 1.0
O D:CYS176 5.0 16.9 1.0

Reference:

M.Kitayner, H.Rozenberg, N.Kessler, D.Rabinovich, L.Shaulov, T.E.Haran, Z.Shakked. Structural Basis of Dna Recognition By P53 Tetramers Mol.Cell V. 22 741 2006.
ISSN: ISSN 1097-2765
PubMed: 16793544
DOI: 10.1016/J.MOLCEL.2006.05.015
Page generated: Wed Dec 16 03:17:53 2020

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