Atomistry » Platinum » PDB 7dis-8us4 » 7woj
Atomistry »
  Platinum »
    PDB 7dis-8us4 »
      7woj »

Platinum in PDB 7woj: Crystal Structure of Hsa-Myr Complex Soaked with Cisplatin For One Week

Protein crystallography data

The structure of Crystal Structure of Hsa-Myr Complex Soaked with Cisplatin For One Week, PDB code: 7woj was solved by S.L.Chen, C.Yuan, L.G.Jiang, Z.P.Luo, M.D.Huang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 43.41 / 2.89
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 169.91, 36.69, 90.01, 90, 105.41, 90
R / Rfree (%) 25.8 / 28.4

Other elements in 7woj:

The structure of Crystal Structure of Hsa-Myr Complex Soaked with Cisplatin For One Week also contains other interesting chemical elements:

Chlorine (Cl) 3 atoms

Platinum Binding Sites:

The binding sites of Platinum atom in the Crystal Structure of Hsa-Myr Complex Soaked with Cisplatin For One Week (pdb code 7woj). This binding sites where shown within 5.0 Angstroms radius around Platinum atom.
In total 9 binding sites of Platinum where determined in the Crystal Structure of Hsa-Myr Complex Soaked with Cisplatin For One Week, PDB code: 7woj:
Jump to Platinum binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9;

Platinum binding site 1 out of 9 in 7woj

Go back to Platinum Binding Sites List in 7woj
Platinum binding site 1 out of 9 in the Crystal Structure of Hsa-Myr Complex Soaked with Cisplatin For One Week


Mono view


Stereo pair view

A full contact list of Platinum with other atoms in the Pt binding site number 1 of Crystal Structure of Hsa-Myr Complex Soaked with Cisplatin For One Week within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Pt601

b:155.9
occ:0.92
 PT1 A:CPT601 0.0 155.9 0.9
NE2 A:HIS338 1.8 102.3 1.0
N2 A:CPT601 2.0 99.6 0.9
N1 A:CPT601 2.1 161.6 0.9
CL1 A:CPT601 2.3 126.9 0.9
CE1 A:HIS338 2.6 94.0 1.0
CD2 A:HIS338 3.0 102.6 1.0
ND1 A:HIS338 3.8 100.3 1.0
CG A:HIS338 4.0 96.3 1.0
OH A:TYR341 4.4 90.7 1.0
CE1 A:TYR334 4.7 78.7 1.0
OH A:TYR334 4.9 86.7 1.0

Platinum binding site 2 out of 9 in 7woj

Go back to Platinum Binding Sites List in 7woj
Platinum binding site 2 out of 9 in the Crystal Structure of Hsa-Myr Complex Soaked with Cisplatin For One Week


Mono view


Stereo pair view

A full contact list of Platinum with other atoms in the Pt binding site number 2 of Crystal Structure of Hsa-Myr Complex Soaked with Cisplatin For One Week within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Pt602

b:131.0
occ:0.75
 PT1 A:CPT602 0.0 131.0 0.8
N1 A:CPT602 2.0 86.5 0.8
N2 A:CPT602 2.1 100.5 0.8
SD A:MET329 2.1 82.6 1.0
CL1 A:CPT602 2.3 85.2 0.8
CG A:MET329 3.0 104.4 1.0
CB A:MET329 3.5 100.6 1.0
CE A:MET329 3.7 107.1 1.0
OE2 A:GLU333 4.5 137.1 1.0
CA A:MET329 4.7 81.4 1.0
CD2 A:PHE228 4.9 125.8 1.0
CB A:PHE228 5.0 95.4 1.0

Platinum binding site 3 out of 9 in 7woj

Go back to Platinum Binding Sites List in 7woj
Platinum binding site 3 out of 9 in the Crystal Structure of Hsa-Myr Complex Soaked with Cisplatin For One Week


Mono view


Stereo pair view

A full contact list of Platinum with other atoms in the Pt binding site number 3 of Crystal Structure of Hsa-Myr Complex Soaked with Cisplatin For One Week within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Pt603

b:101.3
occ:0.65
 PT1 A:CPT603 0.0 101.3 0.7
N1 A:CPT603 2.0 58.9 0.7
N2 A:CPT603 2.1 57.8 0.7
SD A:MET548 2.2 83.3 1.0
CG A:MET548 2.8 98.8 1.0
CB A:MET548 3.1 114.1 1.0
CE A:MET548 3.6 105.6 1.0
C5 A:MYR613 4.0 92.0 1.0
C6 A:MYR613 4.4 89.1 1.0
CA A:MET548 4.5 105.5 1.0
C4 A:MYR613 4.5 93.7 1.0
CB A:ASN405 4.8 61.6 1.0
ND2 A:ASN405 4.8 85.9 1.0
CG A:ASN405 4.9 67.3 1.0
C2 A:MYR613 4.9 111.0 1.0
C A:MET548 5.0 109.3 1.0

Platinum binding site 4 out of 9 in 7woj

Go back to Platinum Binding Sites List in 7woj
Platinum binding site 4 out of 9 in the Crystal Structure of Hsa-Myr Complex Soaked with Cisplatin For One Week


Mono view


Stereo pair view

A full contact list of Platinum with other atoms in the Pt binding site number 4 of Crystal Structure of Hsa-Myr Complex Soaked with Cisplatin For One Week within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Pt604

b:113.7
occ:0.60
 PT1 A:CPT604 0.0 113.7 0.6
N1 A:CPT604 2.0 97.8 0.6
N2 A:CPT604 2.0 90.1 0.6
ND1 A:HIS128 2.1 114.3 1.0
CL1 A:CPT604 2.4 101.8 0.6
CG A:HIS128 3.1 110.5 1.0
CE1 A:HIS128 3.2 103.6 1.0
CB A:HIS128 3.3 99.1 1.0
CA A:HIS128 3.4 84.3 1.0
O A:HIS128 4.2 80.8 1.0
CD2 A:HIS128 4.2 130.5 1.0
NE2 A:HIS128 4.3 108.4 1.0
C A:HIS128 4.3 77.0 1.0
N A:HIS128 4.4 78.2 1.0
O A:PHE127 4.4 87.4 1.0
C A:PHE127 4.8 77.2 1.0

Platinum binding site 5 out of 9 in 7woj

Go back to Platinum Binding Sites List in 7woj
Platinum binding site 5 out of 9 in the Crystal Structure of Hsa-Myr Complex Soaked with Cisplatin For One Week


Mono view


Stereo pair view

A full contact list of Platinum with other atoms in the Pt binding site number 5 of Crystal Structure of Hsa-Myr Complex Soaked with Cisplatin For One Week within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Pt605

b:121.7
occ:0.55
 PT1 A:CPT605 0.0 121.7 0.6
NE2 A:HIS440 1.9 88.5 1.0
N2 A:CPT605 2.0 72.2 0.6
N1 A:CPT605 2.1 77.0 0.6
NZ A:LYS436 2.3 141.3 1.0
CE1 A:HIS440 2.8 94.5 1.0
CD2 A:HIS440 3.0 77.1 1.0
CE A:LYS436 3.3 110.2 1.0
ND1 A:HIS440 3.9 90.3 1.0
CD A:LYS436 4.1 97.7 1.0
CG A:HIS440 4.1 72.6 1.0
SG A:CYS448 4.4 78.4 1.0
CG A:LYS436 4.6 78.9 1.0
CE2 A:TYR452 4.9 101.7 1.0
OH A:TYR452 5.0 123.6 1.0

Platinum binding site 6 out of 9 in 7woj

Go back to Platinum Binding Sites List in 7woj
Platinum binding site 6 out of 9 in the Crystal Structure of Hsa-Myr Complex Soaked with Cisplatin For One Week


Mono view


Stereo pair view

A full contact list of Platinum with other atoms in the Pt binding site number 6 of Crystal Structure of Hsa-Myr Complex Soaked with Cisplatin For One Week within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Pt606

b:110.8
occ:0.44
 PT1 A:CPT606 0.0 110.8 0.4
NE2 A:HIS146 1.9 94.1 1.0
N2 A:CPT606 2.0 56.2 0.4
N1 A:CPT606 2.1 65.6 0.4
CE1 A:HIS146 2.5 94.8 1.0
CD2 A:HIS146 3.2 70.9 1.0
ND1 A:HIS146 3.7 83.5 1.0
CG A:HIS146 4.1 75.7 1.0
NH1 A:ARG114 4.9 142.1 1.0
CB A:ARG145 5.0 71.1 1.0

Platinum binding site 7 out of 9 in 7woj

Go back to Platinum Binding Sites List in 7woj
Platinum binding site 7 out of 9 in the Crystal Structure of Hsa-Myr Complex Soaked with Cisplatin For One Week


Mono view


Stereo pair view

A full contact list of Platinum with other atoms in the Pt binding site number 7 of Crystal Structure of Hsa-Myr Complex Soaked with Cisplatin For One Week within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Pt607

b:97.3
occ:0.35
 PT1 A:CPT607 0.0 97.3 0.3
N1 A:CPT607 1.8 56.0 0.3
N2 A:CPT607 2.0 58.2 0.3
ND1 A:HIS247 2.3 126.1 1.0
CE1 A:HIS247 3.0 119.8 1.0
CG A:HIS247 3.5 122.5 1.0
CA A:HIS247 3.5 118.0 1.0
CB A:HIS247 4.1 116.4 1.0
O A:HIS247 4.2 123.5 1.0
NE2 A:HIS247 4.3 127.5 1.0
N A:HIS247 4.4 93.7 1.0
C A:HIS247 4.4 128.8 1.0
CD2 A:HIS247 4.5 123.8 1.0
O A:CYS246 4.7 83.9 1.0
C A:CYS246 4.8 92.4 1.0

Platinum binding site 8 out of 9 in 7woj

Go back to Platinum Binding Sites List in 7woj
Platinum binding site 8 out of 9 in the Crystal Structure of Hsa-Myr Complex Soaked with Cisplatin For One Week


Mono view


Stereo pair view

A full contact list of Platinum with other atoms in the Pt binding site number 8 of Crystal Structure of Hsa-Myr Complex Soaked with Cisplatin For One Week within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Pt608

b:88.1
occ:0.32
 PT1 A:CPT608 0.0 88.1 0.3
N1 A:CPT608 2.1 51.6 0.3
N2 A:CPT608 2.1 52.4 0.3
SD A:MET298 2.1 91.4 1.0
CG A:MET298 2.8 117.2 1.0
CE A:MET298 3.2 95.3 1.0
CB A:MET298 4.2 135.0 1.0
O A:ARG337 4.7 86.7 1.0

Platinum binding site 9 out of 9 in 7woj

Go back to Platinum Binding Sites List in 7woj
Platinum binding site 9 out of 9 in the Crystal Structure of Hsa-Myr Complex Soaked with Cisplatin For One Week


Mono view


Stereo pair view

A full contact list of Platinum with other atoms in the Pt binding site number 9 of Crystal Structure of Hsa-Myr Complex Soaked with Cisplatin For One Week within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Pt609

b:86.7
occ:0.29
 PT1 A:CPT609 0.0 86.7 0.3
ND1 A:HIS105 1.8 99.0 1.0
N1 A:CPT609 2.0 48.4 0.3
N2 A:CPT609 2.1 48.9 0.3
CE1 A:HIS105 2.7 101.8 1.0
CG A:HIS105 2.9 101.9 1.0
CB A:HIS105 3.3 112.8 1.0
CA A:HIS105 3.5 99.8 1.0
NE2 A:HIS105 3.8 108.4 1.0
CB A:GLU86 3.8 107.1 1.0
CD2 A:HIS105 3.9 94.9 1.0
O A:GLN104 4.2 113.0 1.0
N A:HIS105 4.4 89.2 1.0
N A:MET87 4.5 139.7 1.0
C A:GLU86 4.5 135.6 1.0
C A:HIS105 4.6 87.9 1.0
C A:GLN104 4.6 110.5 1.0
O A:HIS105 4.6 125.8 1.0
CA A:GLU86 4.8 129.7 1.0
CA A:MET87 4.9 131.3 1.0
O A:GLU86 4.9 139.3 1.0

Reference:

S.L.Chen, C.Yuan, L.G.Jiang, Z.P.Luo, M.D.Huang. Crystallographic Analysis of Interaction Between Cisplatin and Human Serum Albumin: Effect of Fatty Acid. Int.J.Biol.Macromol. V. 216 172 2022.
ISSN: ISSN 0141-8130
PubMed: 35788007
DOI: 10.1016/J.IJBIOMAC.2022.06.181
Page generated: Thu Oct 10 11:51:21 2024

Last articles

Zn in 9JPJ
Zn in 9JP7
Zn in 9JPK
Zn in 9JPL
Zn in 9GN6
Zn in 9GN7
Zn in 9GKU
Zn in 9GKW
Zn in 9GKX
Zn in 9GL0
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy