Atomistry » Calcium » PDB 3whi-3ws5 » 3wl4
Atomistry »
  Calcium »
    PDB 3whi-3ws5 »
      3wl4 »

Calcium in PDB 3wl4: N,N'-Diacetylchitobiose Deacetylase (Se-Derivative) From Pyrococcus Furiosus

Protein crystallography data

The structure of N,N'-Diacetylchitobiose Deacetylase (Se-Derivative) From Pyrococcus Furiosus, PDB code: 3wl4 was solved by T.Nakamura, M.Niiyama, W.Hashimoto, K.Uegaki, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 26.40 / 1.54
Space group H 3
Cell size a, b, c (Å), α, β, γ (°) 113.894, 113.894, 201.029, 90.00, 90.00, 120.00
R / Rfree (%) 15.4 / 16.9

Other elements in 3wl4:

The structure of N,N'-Diacetylchitobiose Deacetylase (Se-Derivative) From Pyrococcus Furiosus also contains other interesting chemical elements:

Cadmium (Cd) 4 atoms
Chlorine (Cl) 8 atoms

Calcium Binding Sites:

The binding sites of Calcium atom in the N,N'-Diacetylchitobiose Deacetylase (Se-Derivative) From Pyrococcus Furiosus (pdb code 3wl4). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the N,N'-Diacetylchitobiose Deacetylase (Se-Derivative) From Pyrococcus Furiosus, PDB code: 3wl4:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in 3wl4

Go back to Calcium Binding Sites List in 3wl4
Calcium binding site 1 out of 2 in the N,N'-Diacetylchitobiose Deacetylase (Se-Derivative) From Pyrococcus Furiosus


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of N,N'-Diacetylchitobiose Deacetylase (Se-Derivative) From Pyrococcus Furiosus within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca303

b:17.0
occ:1.00
OD1 A:ASP265 2.2 23.2 1.0
O A:HOH565 2.3 35.4 1.0
O A:HOH564 2.3 30.3 1.0
O A:HOH563 2.4 22.9 1.0
OD2 A:ASP265 2.5 30.4 1.0
CG A:ASP265 2.8 23.2 1.0
CD2 A:LEU266 4.0 24.9 1.0
CB A:ASP265 4.3 18.9 1.0
O A:HOH406 4.4 19.5 1.0
CG A:LEU266 4.4 21.7 1.0
C A:ASP265 4.9 20.7 1.0
O A:PRO262 4.9 24.0 1.0
CA A:ASP265 5.0 19.2 1.0

Calcium binding site 2 out of 2 in 3wl4

Go back to Calcium Binding Sites List in 3wl4
Calcium binding site 2 out of 2 in the N,N'-Diacetylchitobiose Deacetylase (Se-Derivative) From Pyrococcus Furiosus


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of N,N'-Diacetylchitobiose Deacetylase (Se-Derivative) From Pyrococcus Furiosus within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca303

b:16.9
occ:1.00
OD1 B:ASP265 2.2 23.1 1.0
O B:HOH555 2.3 35.5 1.0
O B:HOH556 2.3 29.2 1.0
O B:HOH554 2.4 22.1 1.0
OD2 B:ASP265 2.5 28.7 1.0
CG B:ASP265 2.8 23.0 1.0
CD2 B:LEU266 4.0 25.0 1.0
CB B:ASP265 4.3 19.5 1.0
O B:HOH404 4.4 20.0 1.0
CG B:LEU266 4.4 21.8 1.0
C B:ASP265 4.8 20.9 1.0
O B:PRO262 4.8 24.1 1.0
CA B:ASP265 5.0 19.7 1.0

Reference:

S.Mine, M.Niiyama, W.Hashimoto, T.Ikegami, D.Koma, T.Ohmoto, Y.Fukuda, T.Inoue, Y.Abe, T.Ueda, J.Morita, K.Uegaki, T.Nakamura. Expression From Engineered Escherichia Coli Chromosome and Crystallographic Study of Archaeal N,N'-Diacetylchitobiose Deacetylase Febs J. V. 281 2584 2014.
ISSN: ISSN 1742-464X
PubMed: 24702737
DOI: 10.1111/FEBS.12805
Page generated: Sat Dec 12 04:35:35 2020

Last articles

Zn in 8WB0
Zn in 8WAX
Zn in 8WAU
Zn in 8WAZ
Zn in 8WAY
Zn in 8WAV
Zn in 8WAW
Zn in 8WAT
Zn in 8W7M
Zn in 8WD3
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy