Atomistry » Calcium » PDB 3l7f-3ljt » 3ldy
Atomistry »
  Calcium »
    PDB 3l7f-3ljt »
      3ldy »

Calcium in PDB 3ldy: An Extraordinary Mechanism of Dna Perturbation Exhibited By the Rare- Cutting Hnh Restriction Endonuclease Paci

Protein crystallography data

The structure of An Extraordinary Mechanism of Dna Perturbation Exhibited By the Rare- Cutting Hnh Restriction Endonuclease Paci, PDB code: 3ldy was solved by B.W.Shen, D.Heiter, S.-H.Chan, S.-Y.Xu, G.Wilson, B.L.Stoddard, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 28.95 / 1.97
Space group C 2 2 21
Cell size a, b, c (Å), α, β, γ (°) 36.908, 115.788, 114.689, 90.00, 90.00, 90.00
R / Rfree (%) 18.4 / 21.7

Other elements in 3ldy:

The structure of An Extraordinary Mechanism of Dna Perturbation Exhibited By the Rare- Cutting Hnh Restriction Endonuclease Paci also contains other interesting chemical elements:

Zinc (Zn) 2 atoms

Calcium Binding Sites:

The binding sites of Calcium atom in the An Extraordinary Mechanism of Dna Perturbation Exhibited By the Rare- Cutting Hnh Restriction Endonuclease Paci (pdb code 3ldy). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total only one binding site of Calcium was determined in the An Extraordinary Mechanism of Dna Perturbation Exhibited By the Rare- Cutting Hnh Restriction Endonuclease Paci, PDB code: 3ldy:

Calcium binding site 1 out of 1 in 3ldy

Go back to Calcium Binding Sites List in 3ldy
Calcium binding site 1 out of 1 in the An Extraordinary Mechanism of Dna Perturbation Exhibited By the Rare- Cutting Hnh Restriction Endonuclease Paci


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of An Extraordinary Mechanism of Dna Perturbation Exhibited By the Rare- Cutting Hnh Restriction Endonuclease Paci within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca145

b:32.8
occ:1.00
OP1 C:DT11 2.3 20.2 1.0
OD1 A:ASN113 2.4 24.8 1.0
OD1 A:ASP92 2.4 32.2 1.0
O A:HOH167 2.5 24.5 1.0
O A:HOH168 2.5 18.8 1.0
O3' C:DT10 2.6 18.3 1.0
P C:DT11 3.1 22.1 1.0
CG A:ASP92 3.5 30.1 1.0
CG A:ASN113 3.5 23.0 1.0
CA A:ASP92 3.6 28.4 1.0
N A:ARG93 3.7 28.6 1.0
CB A:ASP92 3.8 28.5 1.0
C3' C:DT10 3.9 18.8 1.0
O5' C:DT11 4.0 23.8 1.0
ND2 A:ASN113 4.0 23.0 1.0
C4' C:DT10 4.1 18.6 1.0
NZ A:LYS116 4.1 25.2 1.0
C A:ASP92 4.1 28.1 1.0
O A:ASN113 4.2 22.4 1.0
O A:ARG93 4.3 30.9 1.0
OP2 C:DT11 4.4 17.4 1.0
O A:SER117 4.5 23.4 1.0
C5' C:DT10 4.5 19.2 1.0
OD2 A:ASP92 4.6 30.6 1.0
C2' C:DT10 4.6 18.2 1.0
C A:ARG93 4.7 30.2 1.0
CB A:ASN113 4.7 21.8 1.0
CA A:ARG93 4.7 29.6 1.0
OG A:SER96 4.8 35.0 1.0
CA A:ASN113 4.8 22.6 1.0
CD A:LYS116 4.8 22.7 1.0
C A:ASN113 4.9 22.1 1.0
N A:ASP92 4.9 27.8 1.0
O A:VAL91 4.9 27.8 1.0

Reference:

B.W.Shen, D.F.Heiter, S.H.Chan, H.Wang, S.Y.Xu, R.D.Morgan, G.G.Wilson, B.L.Stoddard. Unusual Target Site Disruption By the Rare-Cutting Hnh Restriction Endonuclease Paci. Structure V. 18 734 2010.
ISSN: ISSN 0969-2126
PubMed: 20541511
DOI: 10.1016/J.STR.2010.03.009
Page generated: Sat Dec 12 04:18:47 2020

Last articles

Zn in 7VD8
Zn in 7V1R
Zn in 7V1Q
Zn in 7VPF
Zn in 7T85
Zn in 7T5F
Zn in 7NF9
Zn in 7M4M
Zn in 7M4O
Zn in 7M4N
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy