Atomistry » Caesium » PDB 4hul-6dwe » 5na9
Atomistry »
  Caesium »
    PDB 4hul-6dwe »
      5na9 »

Caesium in PDB 5na9: The X-Ray Structure of Bovine Pancreatic Ribonuclease Incubated in the Presence of An Excess of Carboplatin (1:10 Ratio)

Enzymatic activity of The X-Ray Structure of Bovine Pancreatic Ribonuclease Incubated in the Presence of An Excess of Carboplatin (1:10 Ratio)

All present enzymatic activity of The X-Ray Structure of Bovine Pancreatic Ribonuclease Incubated in the Presence of An Excess of Carboplatin (1:10 Ratio):
3.1.27.5;

Protein crystallography data

The structure of The X-Ray Structure of Bovine Pancreatic Ribonuclease Incubated in the Presence of An Excess of Carboplatin (1:10 Ratio), PDB code: 5na9 was solved by G.Ferraro, A.Merlino, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 55.57 / 2.07
Space group P 32 2 1
Cell size a, b, c (Å), α, β, γ (°) 64.168, 64.168, 64.271, 90.00, 90.00, 120.00
R / Rfree (%) 17.8 / 24.4

Other elements in 5na9:

The structure of The X-Ray Structure of Bovine Pancreatic Ribonuclease Incubated in the Presence of An Excess of Carboplatin (1:10 Ratio) also contains other interesting chemical elements:

Platinum (Pt) 2 atoms
Chlorine (Cl) 9 atoms

Caesium Binding Sites:

The binding sites of Caesium atom in the The X-Ray Structure of Bovine Pancreatic Ribonuclease Incubated in the Presence of An Excess of Carboplatin (1:10 Ratio) (pdb code 5na9). This binding sites where shown within 5.0 Angstroms radius around Caesium atom.
In total 5 binding sites of Caesium where determined in the The X-Ray Structure of Bovine Pancreatic Ribonuclease Incubated in the Presence of An Excess of Carboplatin (1:10 Ratio), PDB code: 5na9:
Jump to Caesium binding site number: 1; 2; 3; 4; 5;

Caesium binding site 1 out of 5 in 5na9

Go back to Caesium Binding Sites List in 5na9
Caesium binding site 1 out of 5 in the The X-Ray Structure of Bovine Pancreatic Ribonuclease Incubated in the Presence of An Excess of Carboplatin (1:10 Ratio)


Mono view


Stereo pair view

A full contact list of Caesium with other atoms in the Cs binding site number 1 of The X-Ray Structure of Bovine Pancreatic Ribonuclease Incubated in the Presence of An Excess of Carboplatin (1:10 Ratio) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cs202

b:20.4
occ:0.30
 O A:HIS48 3.0 14.5 1.0
OE1 A:GLU49 3.3 10.6 1.0
OE2 A:GLU49 3.6 10.3 1.0
O A:HOH337 3.7 22.5 1.0
CD A:GLU49 3.7 11.9 1.0
O A:HOH431 4.1 34.4 1.0
C A:HIS48 4.2 12.6 1.0
O A:SER18 4.2 20.9 1.0
CB A:SER80 4.4 16.0 1.0
CA A:SER18 4.5 26.7 1.0
O A:HOH304 4.5 22.2 1.0
CB A:SER18 4.7 26.5 1.0
CA A:GLU49 4.7 12.1 1.0
C A:SER18 4.8 25.4 1.0
CG A:GLU49 4.9 11.3 1.0
N A:GLU49 4.9 12.1 1.0
CB A:HIS48 4.9 15.8 1.0
O A:HOH346 5.0 9.2 1.0

Caesium binding site 2 out of 5 in 5na9

Go back to Caesium Binding Sites List in 5na9
Caesium binding site 2 out of 5 in the The X-Ray Structure of Bovine Pancreatic Ribonuclease Incubated in the Presence of An Excess of Carboplatin (1:10 Ratio)


Mono view


Stereo pair view

A full contact list of Caesium with other atoms in the Cs binding site number 2 of The X-Ray Structure of Bovine Pancreatic Ribonuclease Incubated in the Presence of An Excess of Carboplatin (1:10 Ratio) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cs203

b:51.2
occ:0.60
 O A:HOH340 2.3 24.2 1.0
O A:THR70 3.2 25.3 1.0
OH A:TYR73 3.3 20.4 1.0
OD1 A:ASN62 3.4 20.1 1.0
O A:HOH477 3.8 42.0 1.0
CG A:ASN62 3.8 20.5 1.0
ND2 A:ASN62 3.8 22.6 1.0
CZ A:TYR73 4.4 19.2 1.0
C A:THR70 4.4 27.6 1.0
OG1 A:THR70 4.5 31.9 1.0
OH A:TYR115 4.8 17.9 1.0
O A:HOH368 4.8 28.8 1.0
CB A:ASN62 4.8 18.9 1.0
CA A:ASN71 4.9 21.7 1.0
CB A:THR70 5.0 33.5 1.0
O A:HOH464 5.0 32.8 1.0

Caesium binding site 3 out of 5 in 5na9

Go back to Caesium Binding Sites List in 5na9
Caesium binding site 3 out of 5 in the The X-Ray Structure of Bovine Pancreatic Ribonuclease Incubated in the Presence of An Excess of Carboplatin (1:10 Ratio)


Mono view


Stereo pair view

A full contact list of Caesium with other atoms in the Cs binding site number 3 of The X-Ray Structure of Bovine Pancreatic Ribonuclease Incubated in the Presence of An Excess of Carboplatin (1:10 Ratio) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cs204

b:20.3
occ:0.30
 CS A:CS204 0.0 20.3 0.3
O A:SER32 2.9 18.0 1.0
CS A:CS204 3.6 10.9 0.3
C A:SER32 3.8 19.3 1.0
OD1 A:ASN34 3.9 24.9 1.0
CA A:SER32 4.1 19.1 1.0
ND2 A:ASN34 4.1 23.9 1.0
CG A:ASN34 4.3 23.4 1.0
O A:LYS31 4.7 17.1 1.0
CB A:SER32 4.7 20.5 1.0
O A:HOH454 4.8 25.7 1.0

Caesium binding site 4 out of 5 in 5na9

Go back to Caesium Binding Sites List in 5na9
Caesium binding site 4 out of 5 in the The X-Ray Structure of Bovine Pancreatic Ribonuclease Incubated in the Presence of An Excess of Carboplatin (1:10 Ratio)


Mono view


Stereo pair view

A full contact list of Caesium with other atoms in the Cs binding site number 4 of The X-Ray Structure of Bovine Pancreatic Ribonuclease Incubated in the Presence of An Excess of Carboplatin (1:10 Ratio) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cs204

b:10.9
occ:0.30
 CS A:CS204 0.0 10.9 0.3
OD1 A:ASN34 3.1 24.9 1.0
O A:LYS31 3.2 17.1 1.0
CS A:CS204 3.6 20.3 0.3
O A:HOH454 3.8 25.7 1.0
O A:HOH482 3.9 46.1 1.0
C A:LYS31 4.2 18.5 1.0
O A:HOH357 4.2 21.2 1.0
CG A:ASN34 4.3 23.4 1.0
CG A:LYS31 4.4 25.7 1.0
CA A:SER32 4.6 19.1 1.0
O A:SER32 4.8 18.0 1.0
N A:SER32 4.8 18.3 1.0
C A:SER32 4.9 19.3 1.0
ND2 A:ASN34 5.0 23.9 1.0

Caesium binding site 5 out of 5 in 5na9

Go back to Caesium Binding Sites List in 5na9
Caesium binding site 5 out of 5 in the The X-Ray Structure of Bovine Pancreatic Ribonuclease Incubated in the Presence of An Excess of Carboplatin (1:10 Ratio)


Mono view


Stereo pair view

A full contact list of Caesium with other atoms in the Cs binding site number 5 of The X-Ray Structure of Bovine Pancreatic Ribonuclease Incubated in the Presence of An Excess of Carboplatin (1:10 Ratio) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cs205

b:20.9
occ:0.50
 OG A:SER23 3.1 18.1 1.0
OD1 A:ASN24 3.2 18.9 1.0
O A:HOH347 3.3 19.8 1.0
O A:HOH463 3.5 24.8 1.0
O A:HOH429 3.6 13.3 1.0
O A:HOH408 3.7 36.0 1.0
CB A:SER23 3.7 21.9 1.0
O A:SER23 3.9 17.1 1.0
CG A:ASN24 4.0 19.6 1.0
C A:SER23 4.2 18.2 1.0
O A:HOH499 4.3 28.0 1.0
ND2 A:ASN24 4.4 21.2 1.0
N A:ASN24 4.6 16.5 1.0
CA A:SER23 4.6 20.3 1.0
O A:HOH376 4.9 11.7 1.0
CA A:ASN24 4.9 17.2 1.0

Reference:

D.Picone, F.Donnarumma, G.Ferraro, G.Gotte, A.Fagagnini, G.Butera, M.Donadelli, A.Merlino. A Comparison Study on Rnase A Oligomerization Induced By Cisplatin, Carboplatin and Oxaliplatin. J. Inorg. Biochem. V. 173 105 2017.
ISSN: ISSN 1873-3344
PubMed: 28511060
DOI: 10.1016/J.JINORGBIO.2017.05.005
Page generated: Sun Jul 13 22:51:10 2025

Last articles

Zn in 9QM9
Zn in 9S44
Zn in 9OFE
Zn in 9OFC
Zn in 9OFD
Zn in 9OF1
Zn in 9OFB
Zn in 9N0J
Zn in 9M5X
Zn in 9LGI
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy