Atomistry » Ruthenium » PDB 3m0b-4kgc » 4gqj
Atomistry »
  Ruthenium »
    PDB 3m0b-4kgc »
      4gqj »

Ruthenium in PDB 4gqj: Complex of A Binuclear Ruthenium Compound D,D-([Mu-(11,11')-Bi(Dppz)- (1,10-Phenanthroline)4-RU2]4+) Bound to D(Cgtacg)

Protein crystallography data

The structure of Complex of A Binuclear Ruthenium Compound D,D-([Mu-(11,11')-Bi(Dppz)- (1,10-Phenanthroline)4-RU2]4+) Bound to D(Cgtacg), PDB code: 4gqj was solved by D.R.Boer, M.Coll, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 38.20 / 2.95
Space group P 41 3 2
Cell size a, b, c (Å), α, β, γ (°) 85.429, 85.429, 85.429, 90.00, 90.00, 90.00
R / Rfree (%) 17.7 / 20.6

Ruthenium Binding Sites:

The binding sites of Ruthenium atom in the Complex of A Binuclear Ruthenium Compound D,D-([Mu-(11,11')-Bi(Dppz)- (1,10-Phenanthroline)4-RU2]4+) Bound to D(Cgtacg) (pdb code 4gqj). This binding sites where shown within 5.0 Angstroms radius around Ruthenium atom.
In total 2 binding sites of Ruthenium where determined in the Complex of A Binuclear Ruthenium Compound D,D-([Mu-(11,11')-Bi(Dppz)- (1,10-Phenanthroline)4-RU2]4+) Bound to D(Cgtacg), PDB code: 4gqj:
Jump to Ruthenium binding site number: 1; 2;

Ruthenium binding site 1 out of 2 in 4gqj

Go back to Ruthenium Binding Sites List in 4gqj
Ruthenium binding site 1 out of 2 in the Complex of A Binuclear Ruthenium Compound D,D-([Mu-(11,11')-Bi(Dppz)- (1,10-Phenanthroline)4-RU2]4+) Bound to D(Cgtacg)


Mono view


Stereo pair view

A full contact list of Ruthenium with other atoms in the Ru binding site number 1 of Complex of A Binuclear Ruthenium Compound D,D-([Mu-(11,11')-Bi(Dppz)- (1,10-Phenanthroline)4-RU2]4+) Bound to D(Cgtacg) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ru101

b:36.2
occ:1.00
RU1 A:RR2101 0.0 36.2 1.0
N24 A:RR2101 1.9 28.2 1.0
NB2 A:RR2101 1.9 22.9 1.0
NA2 A:RR2101 1.9 32.1 1.0
NB1 A:RR2101 2.0 30.0 1.0
N25 A:RR2101 2.0 27.5 1.0
NA1 A:RR2101 2.0 19.6 1.0
CB8 A:RR2101 2.6 19.0 1.0
CB4 A:RR2101 2.6 16.8 1.0
CA8 A:RR2101 2.6 24.2 1.0
CA4 A:RR2101 2.6 16.4 1.0
C4C A:RR2101 2.8 33.1 1.0
C4D A:RR2101 2.8 36.3 1.0
C23 A:RR2101 2.8 36.6 1.0
CBB A:RR2101 3.0 45.0 1.0
C26 A:RR2101 3.0 37.2 1.0
CAB A:RR2101 3.1 39.9 1.0
CB1 A:RR2101 3.1 44.5 1.0
CA1 A:RR2101 3.2 42.2 1.0
CB9 A:RR2101 4.0 29.9 1.0
CB5 A:RR2101 4.0 35.5 1.0
CA9 A:RR2101 4.0 32.7 1.0
CA5 A:RR2101 4.1 30.9 1.0
C8H A:RR2101 4.1 33.9 1.0
C22 A:RR2101 4.1 39.6 1.0
C8E A:RR2101 4.2 38.1 1.0
CBA A:RR2101 4.3 40.4 1.0
CAA A:RR2101 4.3 42.4 1.0
C27 A:RR2101 4.3 41.0 1.0
CB2 A:RR2101 4.3 40.1 1.0
CA2 A:RR2101 4.4 36.5 1.0
C21 A:RR2101 4.6 31.6 1.0
CB0 A:RR2101 4.7 30.6 1.0
CA0 A:RR2101 4.7 33.8 1.0
CB3 A:RR2101 4.7 35.4 1.0
CA3 A:RR2101 4.8 27.8 1.0
C28 A:RR2101 4.8 33.9 1.0
CB7 A:RR2101 5.0 32.4 1.0
CB6 A:RR2101 5.0 38.4 1.0

Ruthenium binding site 2 out of 2 in 4gqj

Go back to Ruthenium Binding Sites List in 4gqj
Ruthenium binding site 2 out of 2 in the Complex of A Binuclear Ruthenium Compound D,D-([Mu-(11,11')-Bi(Dppz)- (1,10-Phenanthroline)4-RU2]4+) Bound to D(Cgtacg)


Mono view


Stereo pair view

A full contact list of Ruthenium with other atoms in the Ru binding site number 2 of Complex of A Binuclear Ruthenium Compound D,D-([Mu-(11,11')-Bi(Dppz)- (1,10-Phenanthroline)4-RU2]4+) Bound to D(Cgtacg) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ru101

b:41.7
occ:1.00
RU2 A:RR2101 0.0 41.7 1.0
N4 A:RR2101 1.9 21.7 1.0
N5 A:RR2101 2.0 29.0 1.0
NC1 A:RR2101 2.0 37.6 1.0
NC2 A:RR2101 2.0 33.8 1.0
ND2 A:RR2101 2.0 25.0 1.0
ND1 A:RR2101 2.0 26.6 1.0
CC4 A:RR2101 2.5 47.0 1.0
CC8 A:RR2101 2.5 44.0 1.0
CD8 A:RR2101 2.6 29.8 1.0
CD4 A:RR2101 2.6 29.9 1.0
C4A A:RR2101 2.7 29.6 1.0
C4B A:RR2101 2.7 32.9 1.0
C3 A:RR2101 2.9 39.5 1.0
C6 A:RR2101 3.0 33.1 1.0
CC1 A:RR2101 3.1 52.1 1.0
CCB A:RR2101 3.1 38.2 1.0
CDB A:RR2101 3.1 37.7 1.0
CD1 A:RR2101 3.1 35.2 1.0
CC5 A:RR2101 4.0 48.0 1.0
CC9 A:RR2101 4.0 40.7 1.0
C8A A:RR2101 4.1 30.9 1.0
CD5 A:RR2101 4.1 39.0 1.0
CD9 A:RR2101 4.1 36.6 1.0
C8D A:RR2101 4.1 29.4 1.0
C2 A:RR2101 4.2 46.3 1.0
C7 A:RR2101 4.3 30.1 1.0
CC2 A:RR2101 4.3 45.3 1.0
CCA A:RR2101 4.3 45.5 1.0
CDA A:RR2101 4.4 41.5 1.0
CD2 A:RR2101 4.4 40.2 1.0
CC3 A:RR2101 4.7 58.5 1.0
C1 A:RR2101 4.7 32.5 1.0
CC0 A:RR2101 4.7 52.6 1.0
C8 A:RR2101 4.7 22.9 1.0
CD3 A:RR2101 4.7 40.0 1.0
CD0 A:RR2101 4.8 35.0 1.0
CC6 A:RR2101 5.0 34.2 1.0
CC7 A:RR2101 5.0 35.4 1.0

Reference:

D.R.Boer, L.Wu, P.Lincoln, M.Coll. Thread Insertion of A Bis(Dipyridophenazine) Diruthenium Complex Into the Dna Double Helix By the Extrusion of at Base Pairs and Cross-Linking of Dna Duplexes. Angew.Chem.Int.Ed.Engl. V. 53 1949 2014.
ISSN: ISSN 1433-7851
PubMed: 24449275
DOI: 10.1002/ANIE.201308070
Page generated: Wed Dec 16 02:08:12 2020

Last articles

Zn in 7RRP
Zn in 7OKY
Zn in 7OL0
Zn in 7OKX
Zn in 7ONB
Zn in 7RSF
Zn in 7OUF
Zn in 7OUG
Zn in 7OUH
Zn in 7RGN
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy