Atomistry » Zinc » PDB 1g45-1gkq » 1g6d
Atomistry »
  Zinc »
    PDB 1g45-1gkq »
      1g6d »

Zinc in PDB 1g6d: Structure of Peptidyl-D(Cgcaattgcg) in the Presence of Zinc Ions

Protein crystallography data

The structure of Structure of Peptidyl-D(Cgcaattgcg) in the Presence of Zinc Ions, PDB code: 1g6d was solved by M.Soler-Lopez, L.Malinina, V.Tereshko, V.Zarytova, J.A.Subirana, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 20.00 / 2.90
Space group C 2 2 21
Cell size a, b, c (Å), α, β, γ (°) 27.920, 44.090, 53.220, 90.00, 90.00, 90.00
R / Rfree (%) 20.8 / 21.3

Zinc Binding Sites:

The binding sites of Zinc atom in the Structure of Peptidyl-D(Cgcaattgcg) in the Presence of Zinc Ions (pdb code 1g6d). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 3 binding sites of Zinc where determined in the Structure of Peptidyl-D(Cgcaattgcg) in the Presence of Zinc Ions, PDB code: 1g6d:
Jump to Zinc binding site number: 1; 2; 3;

Zinc binding site 1 out of 3 in 1g6d

Go back to Zinc Binding Sites List in 1g6d
Zinc binding site 1 out of 3 in the Structure of Peptidyl-D(Cgcaattgcg) in the Presence of Zinc Ions


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Structure of Peptidyl-D(Cgcaattgcg) in the Presence of Zinc Ions within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn11

b:11.3
occ:0.50
O A:HOH25 2.1 16.1 1.0
OP1 A:DC1 2.2 37.6 1.0
P A:DC1 3.6 37.6 1.0
O5' A:DC1 4.2 37.6 1.0
OP3 A:DC1 4.2 37.6 1.0
OP2 A:DC1 4.7 37.6 1.0

Zinc binding site 2 out of 3 in 1g6d

Go back to Zinc Binding Sites List in 1g6d
Zinc binding site 2 out of 3 in the Structure of Peptidyl-D(Cgcaattgcg) in the Presence of Zinc Ions


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Structure of Peptidyl-D(Cgcaattgcg) in the Presence of Zinc Ions within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn12

b:19.1
occ:0.90
O A:HOH18 2.1 21.8 0.9
O A:HOH15 2.1 21.8 0.9
O A:HOH17 2.1 21.8 0.9
O A:HOH16 2.1 21.8 0.9
O A:HOH14 2.1 21.8 0.9
N7 A:DG10 2.2 7.8 1.0
C8 A:DG10 3.0 6.9 1.0
C5 A:DG10 3.4 7.0 1.0
O6 A:DG10 3.8 6.9 1.0
C6 A:DG10 4.0 6.9 1.0
OP2 A:DG10 4.0 8.7 1.0
N9 A:DG10 4.3 6.9 1.0
C4 A:DG10 4.5 7.0 1.0

Zinc binding site 3 out of 3 in 1g6d

Go back to Zinc Binding Sites List in 1g6d
Zinc binding site 3 out of 3 in the Structure of Peptidyl-D(Cgcaattgcg) in the Presence of Zinc Ions


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Structure of Peptidyl-D(Cgcaattgcg) in the Presence of Zinc Ions within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn13

b:25.6
occ:0.75
O A:HOH22 2.1 23.2 0.8
O A:HOH20 2.1 23.2 0.8
O A:HOH19 2.1 23.2 0.8
O A:HOH23 2.1 23.2 0.8
O A:HOH21 2.1 23.2 0.8
N7 A:DG2 2.2 6.9 1.0
C8 A:DG2 2.7 6.9 1.0
C5 A:DG2 3.4 6.9 1.0
N9 A:DG2 4.0 6.9 1.0
O A:HOH34 4.1 29.1 1.0
O6 A:DG2 4.2 6.9 1.0
C6 A:DG2 4.2 6.9 1.0
C4 A:DG2 4.4 6.9 1.0
OP1 A:DG2 4.5 22.9 1.0
N4 A:DC3 4.5 6.9 1.0
O5' A:DG2 4.8 19.0 1.0

Reference:

M.Soler-Lopez, L.Malinina, V.Tereshko, V.Zarytova, J.A.Subirana. Interaction of Zinc Ions with D(Cgcaattgcg) in A 2.9 A Resolution X-Ray Structure. J.Biol.Inorg.Chem. V. 7 533 2002.
ISSN: ISSN 0949-8257
PubMed: 11941511
DOI: 10.1007/S00775-001-0333-Z
Page generated: Sun Oct 13 01:21:35 2024

Last articles

Zn in 9JYW
Zn in 9IR4
Zn in 9IR3
Zn in 9GMX
Zn in 9GMW
Zn in 9JEJ
Zn in 9ERF
Zn in 9ERE
Zn in 9EGV
Zn in 9EGW
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy