Atomistry » Rhodium » PDB 8oqe-8oqg » 8oqg
Atomistry »
  Rhodium »
    PDB 8oqe-8oqg »
      8oqg »

Rhodium in PDB 8oqg: Cross-Linked Crystal of Dirhodium Tetraacetate/Ribonuclease A Adduct in the P3221 Space Group (High Temperature Data Collection)

Enzymatic activity of Cross-Linked Crystal of Dirhodium Tetraacetate/Ribonuclease A Adduct in the P3221 Space Group (High Temperature Data Collection)

All present enzymatic activity of Cross-Linked Crystal of Dirhodium Tetraacetate/Ribonuclease A Adduct in the P3221 Space Group (High Temperature Data Collection):
4.6.1.18;

Protein crystallography data

The structure of Cross-Linked Crystal of Dirhodium Tetraacetate/Ribonuclease A Adduct in the P3221 Space Group (High Temperature Data Collection), PDB code: 8oqg was solved by D.Loreto, A.Merlino, B.Maity, T.Ueno, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 22.02 / 1.60
Space group P 32 2 1
Cell size a, b, c (Å), α, β, γ (°) 67.278, 67.278, 65.899, 90, 90, 120
R / Rfree (%) 18.2 / 20.2

Other elements in 8oqg:

The structure of Cross-Linked Crystal of Dirhodium Tetraacetate/Ribonuclease A Adduct in the P3221 Space Group (High Temperature Data Collection) also contains other interesting chemical elements:

Chlorine (Cl) 1 atom

Rhodium Binding Sites:

The binding sites of Rhodium atom in the Cross-Linked Crystal of Dirhodium Tetraacetate/Ribonuclease A Adduct in the P3221 Space Group (High Temperature Data Collection) (pdb code 8oqg). This binding sites where shown within 5.0 Angstroms radius around Rhodium atom.
In total 4 binding sites of Rhodium where determined in the Cross-Linked Crystal of Dirhodium Tetraacetate/Ribonuclease A Adduct in the P3221 Space Group (High Temperature Data Collection), PDB code: 8oqg:
Jump to Rhodium binding site number: 1; 2; 3; 4;

Rhodium binding site 1 out of 4 in 8oqg

Go back to Rhodium Binding Sites List in 8oqg
Rhodium binding site 1 out of 4 in the Cross-Linked Crystal of Dirhodium Tetraacetate/Ribonuclease A Adduct in the P3221 Space Group (High Temperature Data Collection)


Mono view


Stereo pair view

A full contact list of Rhodium with other atoms in the Rh binding site number 1 of Cross-Linked Crystal of Dirhodium Tetraacetate/Ribonuclease A Adduct in the P3221 Space Group (High Temperature Data Collection) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Rh201

b:13.7
occ:0.80
 RH1 A:VVU201 0.0 13.7 0.8
O1 A:VVU201 2.0 15.4 0.8
O3 A:VVU201 2.0 13.5 0.8
O0 A:VVU201 2.1 15.7 0.8
O7 A:VVU201 2.1 14.2 0.8
NE2 A:HIS105 2.2 13.9 1.0
RH2 A:VVU201 2.4 16.0 0.8
C5 A:VVU201 2.6 20.3 0.8
C7 A:VVU201 2.8 16.3 0.8
C1 A:VVU201 2.9 20.1 0.8
C3 A:VVU201 2.9 16.6 0.8
O4 A:VVU201 3.0 15.0 0.8
O9 A:VVU201 3.0 15.3 0.8
O2 A:VVU201 3.1 15.4 0.8
O8 A:VVU201 3.1 15.1 0.8
CE1 A:HIS105 3.1 12.8 1.0
CD2 A:HIS105 3.3 13.9 1.0
C6 A:VVU201 4.1 23.9 0.8
C4 A:VVU201 4.2 17.0 0.8
O A:HOH351 4.2 19.4 1.0
C2 A:VVU201 4.3 20.6 0.8
C8 A:VVU201 4.3 16.9 0.8
ND1 A:HIS105 4.3 13.0 1.0
O A:HOH350 4.4 31.8 1.0
CG A:HIS105 4.4 12.4 1.0
CG2 A:THR78 4.6 16.9 1.0

Rhodium binding site 2 out of 4 in 8oqg

Go back to Rhodium Binding Sites List in 8oqg
Rhodium binding site 2 out of 4 in the Cross-Linked Crystal of Dirhodium Tetraacetate/Ribonuclease A Adduct in the P3221 Space Group (High Temperature Data Collection)


Mono view


Stereo pair view

A full contact list of Rhodium with other atoms in the Rh binding site number 2 of Cross-Linked Crystal of Dirhodium Tetraacetate/Ribonuclease A Adduct in the P3221 Space Group (High Temperature Data Collection) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Rh201

b:16.0
occ:0.80
 RH2 A:VVU201 0.0 16.0 0.8
O2 A:VVU201 2.0 15.4 0.8
O4 A:VVU201 2.0 15.0 0.8
O8 A:VVU201 2.0 15.1 0.8
O9 A:VVU201 2.1 15.3 0.8
RH1 A:VVU201 2.4 13.7 0.8
CL A:CL204 2.6 24.4 0.8
C5 A:VVU201 2.7 20.3 0.8
C1 A:VVU201 2.8 20.1 0.8
C3 A:VVU201 2.8 16.6 0.8
C7 A:VVU201 2.9 16.3 0.8
O1 A:VVU201 2.9 15.4 0.8
O7 A:VVU201 3.0 14.2 0.8
O3 A:VVU201 3.2 13.5 0.8
O0 A:VVU201 3.2 15.7 0.8
O A:HOH306 3.7 53.9 1.0
O A:HOH354 3.8 58.1 1.0
O A:HOH377 4.0 51.9 1.0
C6 A:VVU201 4.0 23.9 0.8
C2 A:VVU201 4.2 20.6 0.8
C8 A:VVU201 4.3 16.9 0.8
C4 A:VVU201 4.3 17.0 0.8
NE2 A:HIS105 4.6 13.9 1.0

Rhodium binding site 3 out of 4 in 8oqg

Go back to Rhodium Binding Sites List in 8oqg
Rhodium binding site 3 out of 4 in the Cross-Linked Crystal of Dirhodium Tetraacetate/Ribonuclease A Adduct in the P3221 Space Group (High Temperature Data Collection)


Mono view


Stereo pair view

A full contact list of Rhodium with other atoms in the Rh binding site number 3 of Cross-Linked Crystal of Dirhodium Tetraacetate/Ribonuclease A Adduct in the P3221 Space Group (High Temperature Data Collection) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Rh202

b:48.8
occ:0.35
 RH3 A:VW5202 0.0 48.8 0.3
O1 A:VW5202 2.1 43.3 0.3
O4 A:VW5202 2.1 42.9 0.3
RH4 A:VW5202 2.5 44.9 0.3
CE1 A:HIS119 2.9 22.0 0.3
ND1 A:HIS119 3.1 21.7 0.3
O2 A:VW5202 3.1 33.1 0.3
O3 A:VW5202 3.3 36.6 0.3
NZ A:LYS7 4.1 26.9 0.2
NE2 A:HIS119 4.1 22.6 0.3
CG A:HIS119 4.4 20.9 0.3
CE A:LYS7 4.6 26.7 0.6
ND1 A:HIS119 4.6 22.9 0.7
O A:HOH395 4.7 47.5 1.0
O A:HOH326 4.7 30.3 1.0
CD2 A:HIS119 4.9 22.3 0.3
O A:HOH367 5.0 6.5 0.5

Rhodium binding site 4 out of 4 in 8oqg

Go back to Rhodium Binding Sites List in 8oqg
Rhodium binding site 4 out of 4 in the Cross-Linked Crystal of Dirhodium Tetraacetate/Ribonuclease A Adduct in the P3221 Space Group (High Temperature Data Collection)


Mono view


Stereo pair view

A full contact list of Rhodium with other atoms in the Rh binding site number 4 of Cross-Linked Crystal of Dirhodium Tetraacetate/Ribonuclease A Adduct in the P3221 Space Group (High Temperature Data Collection) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Rh202

b:44.9
occ:0.35
 RH4 A:VW5202 0.0 44.9 0.3
ND1 A:HIS119 1.8 21.7 0.3
O3 A:VW5202 2.1 36.6 0.3
O2 A:VW5202 2.1 33.1 0.3
ND1 A:HIS119 2.2 22.9 0.7
RH3 A:VW5202 2.5 48.8 0.3
CE1 A:HIS119 2.6 22.0 0.3
CG A:HIS119 2.6 20.9 0.3
CE1 A:HIS119 3.0 21.8 0.7
O1 A:VW5202 3.1 43.3 0.3
CG A:HIS119 3.1 20.2 0.7
CB A:HIS119 3.3 18.4 0.3
O4 A:VW5202 3.3 42.9 0.3
NE2 A:HIS119 3.4 22.6 0.3
CB A:HIS119 3.5 17.9 0.7
CD2 A:HIS119 3.5 22.3 0.3
O A:HOH367 3.7 6.5 0.5
O A:HOH308 3.8 52.6 1.0
CA A:HIS119 4.1 16.6 0.3
CA A:HIS119 4.1 16.3 0.7
NE2 A:HIS119 4.1 20.6 0.7
CD2 A:HIS119 4.2 20.0 0.7
O A:VAL118 4.4 18.8 1.0
O A:HOH348 4.8 37.9 1.0

Reference:

D.Loreto, B.Maity, T.Morita, H.Nakamura, A.Merlino, T.Ueno. Cross-Linked Crystals of Dirhodium Tetraacetate/Rnase A Adduct Can Be Used As Heterogeneous Catalysts. Inorg.Chem. V. 62 7515 2023.
ISSN: ISSN 0020-1669
PubMed: 37144589
DOI: 10.1021/ACS.INORGCHEM.3C00852
Page generated: Thu Oct 10 12:42:24 2024

Last articles

Zn in 9J0N
Zn in 9J0O
Zn in 9J0P
Zn in 9FJX
Zn in 9EKB
Zn in 9C0F
Zn in 9CAH
Zn in 9CH0
Zn in 9CH3
Zn in 9CH1
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy