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Platinum in PDB 4hga: Structure of the Variant Histone H3.3-H4 Heterodimer in Complex with Its Chaperone Daxx

Protein crystallography data

The structure of Structure of the Variant Histone H3.3-H4 Heterodimer in Complex with Its Chaperone Daxx, PDB code: 4hga was solved by C.P.Liu, C.Y.Xiong, M.Z.Wang, Z.L.Yu, N.Yang, P.Chen, Z.G.Zhang, G.H.Li, R.M.Xu, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 44.93 / 2.80
Space group P 61 2 2
Cell size a, b, c (Å), α, β, γ (°) 72.103, 72.103, 323.550, 90.00, 90.00, 120.00
R / Rfree (%) 20.8 / 27.1

Other elements in 4hga:

The structure of Structure of the Variant Histone H3.3-H4 Heterodimer in Complex with Its Chaperone Daxx also contains other interesting chemical elements:

Chlorine (Cl) 9 atoms

Platinum Binding Sites:

The binding sites of Platinum atom in the Structure of the Variant Histone H3.3-H4 Heterodimer in Complex with Its Chaperone Daxx (pdb code 4hga). This binding sites where shown within 5.0 Angstroms radius around Platinum atom.
In total 4 binding sites of Platinum where determined in the Structure of the Variant Histone H3.3-H4 Heterodimer in Complex with Its Chaperone Daxx, PDB code: 4hga:
Jump to Platinum binding site number: 1; 2; 3; 4;

Platinum binding site 1 out of 4 in 4hga

Go back to Platinum Binding Sites List in 4hga
Platinum binding site 1 out of 4 in the Structure of the Variant Histone H3.3-H4 Heterodimer in Complex with Its Chaperone Daxx


Mono view


Stereo pair view

A full contact list of Platinum with other atoms in the Pt binding site number 1 of Structure of the Variant Histone H3.3-H4 Heterodimer in Complex with Its Chaperone Daxx within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Pt401

b:0.7
occ:0.50
PT A:PC4401 0.0 0.7 0.5
CL2 A:PC4401 2.4 74.3 0.5
CL3 A:PC4401 2.4 77.7 0.5
CL1 A:PC4401 2.4 0.9 0.5
CL4 A:PC4401 2.4 0.2 0.5
NH2 A:ARG323 4.0 86.8 1.0
CB A:ARG260 4.2 93.9 1.0
N A:ARG260 4.3 85.3 1.0
NH1 A:ARG323 4.4 86.2 1.0
CZ A:ARG323 4.5 84.1 1.0
C A:ARG260 4.7 91.5 1.0
CA A:ARG260 4.7 91.5 1.0
O A:ARG260 4.8 94.6 1.0
CG A:ARG260 5.0 97.6 1.0

Platinum binding site 2 out of 4 in 4hga

Go back to Platinum Binding Sites List in 4hga
Platinum binding site 2 out of 4 in the Structure of the Variant Histone H3.3-H4 Heterodimer in Complex with Its Chaperone Daxx


Mono view


Stereo pair view

A full contact list of Platinum with other atoms in the Pt binding site number 2 of Structure of the Variant Histone H3.3-H4 Heterodimer in Complex with Its Chaperone Daxx within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Pt402

b:0.7
occ:0.90
PT A:PC4402 0.0 0.7 0.9
CL4 A:PC4402 2.4 0.9 0.9
CL3 A:PC4402 2.4 0.5 0.9
CL2 A:PC4402 2.4 96.5 0.9
SD A:MET312 3.0 0.4 1.0
CG A:MET312 3.5 78.9 1.0
CB A:MET312 3.6 78.5 1.0
CE A:MET312 3.6 87.2 1.0
CE2 A:TYR264 4.0 0.1 1.0
CD2 A:TYR264 4.3 0.1 1.0
CA A:MET312 4.9 76.5 1.0
O A:GLN308 4.9 88.4 1.0

Platinum binding site 3 out of 4 in 4hga

Go back to Platinum Binding Sites List in 4hga
Platinum binding site 3 out of 4 in the Structure of the Variant Histone H3.3-H4 Heterodimer in Complex with Its Chaperone Daxx


Mono view


Stereo pair view

A full contact list of Platinum with other atoms in the Pt binding site number 3 of Structure of the Variant Histone H3.3-H4 Heterodimer in Complex with Its Chaperone Daxx within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Pt403

b:90.5
occ:0.20
SD A:MET369 3.4 0.6 1.0
CB A:MET369 3.4 62.0 1.0
CG A:MET369 3.6 67.7 1.0
NE A:ARG365 3.7 69.5 1.0
CG A:ARG365 4.1 69.4 1.0
CZ A:ARG365 4.2 70.0 1.0
O A:ARG365 4.3 63.9 1.0
CD A:ARG365 4.3 68.9 1.0
NH2 A:ARG365 4.3 66.8 1.0
CE A:MET369 4.4 59.5 1.0
CA A:MET369 4.8 63.0 1.0
C A:ARG365 4.9 69.4 1.0

Platinum binding site 4 out of 4 in 4hga

Go back to Platinum Binding Sites List in 4hga
Platinum binding site 4 out of 4 in the Structure of the Variant Histone H3.3-H4 Heterodimer in Complex with Its Chaperone Daxx


Mono view


Stereo pair view

A full contact list of Platinum with other atoms in the Pt binding site number 4 of Structure of the Variant Histone H3.3-H4 Heterodimer in Complex with Its Chaperone Daxx within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Pt201

b:0.1
occ:0.60
PT B:PC4201 0.0 0.1 0.6
CL4 B:PC4201 2.4 0.6 0.6
CL1 B:PC4201 2.4 0.1 0.6
SD B:MET120 3.1 0.6 1.0
CG B:MET120 3.3 84.2 1.0
CE B:MET120 3.4 76.5 1.0
CG A:GLN383 3.7 99.4 1.0
CB B:MET120 3.8 79.7 1.0
OG C:SER47 3.9 94.4 1.0
NE2 A:GLN383 3.9 94.8 1.0
CD A:GLN383 3.9 94.8 1.0
CB C:SER47 4.3 87.1 1.0
OE1 A:GLN383 4.7 92.6 1.0
CD1 C:LEU49 4.7 86.8 1.0
CD B:PRO121 4.9 80.5 1.0
CB A:GLN383 4.9 0.2 1.0
CA B:MET120 4.9 72.4 1.0

Reference:

C.P.Liu, C.Y.Xiong, M.Z.Wang, Z.L.Yu, N.Yang, P.Chen, Z.G.Zhang, G.H.Li, R.M.Xu. Structure of the Variant Histone H3.3-H4 Heterodimer in Complex with Its Chaperone Daxx. Nat.Struct.Mol.Biol. V. 19 1287 2012.
ISSN: ISSN 1545-9993
PubMed: 23142979
DOI: 10.1038/NSMB.2439
Page generated: Wed Dec 16 02:04:47 2020

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