Atomistry » Calcium » PDB 4iai-4iun » 4ild
Atomistry »
  Calcium »
    PDB 4iai-4iun »
      4ild »

Calcium in PDB 4ild: Crystal Structure of Truncated Bovine Viral Diarrhea Virus 1 E2 Envelope Protein

Protein crystallography data

The structure of Crystal Structure of Truncated Bovine Viral Diarrhea Virus 1 E2 Envelope Protein, PDB code: 4ild was solved by Y.Modis, Y.Li, J.Wang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 47.97 / 3.27
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 136.720, 54.450, 95.920, 90.00, 92.23, 90.00
R / Rfree (%) 24.6 / 28.9

Other elements in 4ild:

The structure of Crystal Structure of Truncated Bovine Viral Diarrhea Virus 1 E2 Envelope Protein also contains other interesting chemical elements:

Uranium (U) 4 atoms

Calcium Binding Sites:

The binding sites of Calcium atom in the Crystal Structure of Truncated Bovine Viral Diarrhea Virus 1 E2 Envelope Protein (pdb code 4ild). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 4 binding sites of Calcium where determined in the Crystal Structure of Truncated Bovine Viral Diarrhea Virus 1 E2 Envelope Protein, PDB code: 4ild:
Jump to Calcium binding site number: 1; 2; 3; 4;

Calcium binding site 1 out of 4 in 4ild

Go back to Calcium Binding Sites List in 4ild
Calcium binding site 1 out of 4 in the Crystal Structure of Truncated Bovine Viral Diarrhea Virus 1 E2 Envelope Protein


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Crystal Structure of Truncated Bovine Viral Diarrhea Virus 1 E2 Envelope Protein within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca2409

b:41.7
occ:1.00
OD2 A:ASP788 2.7 63.9 1.0
CB A:ASP788 3.5 57.3 1.0
CG A:ASP788 3.5 63.0 1.0
OD1 A:ASN790 3.8 52.1 1.0
CA A:PHE791 4.4 39.7 1.0
N A:PHE791 4.7 41.5 1.0
O A:ASN790 4.7 42.1 1.0
OD1 A:ASP788 4.7 67.7 1.0
C A:ASN790 4.8 42.9 1.0
CA A:ASP788 4.9 54.5 1.0

Calcium binding site 2 out of 4 in 4ild

Go back to Calcium Binding Sites List in 4ild
Calcium binding site 2 out of 4 in the Crystal Structure of Truncated Bovine Viral Diarrhea Virus 1 E2 Envelope Protein


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Crystal Structure of Truncated Bovine Viral Diarrhea Virus 1 E2 Envelope Protein within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca2410

b:14.5
occ:1.00
OD1 A:ASP885 2.6 43.9 1.0
OD2 A:ASP885 2.8 45.7 1.0
CG A:ASP885 3.0 42.4 1.0
CB A:ASP885 4.5 38.4 1.0
O A:GLN886 4.5 35.0 1.0
N A:GLN886 4.9 32.3 1.0

Calcium binding site 3 out of 4 in 4ild

Go back to Calcium Binding Sites List in 4ild
Calcium binding site 3 out of 4 in the Crystal Structure of Truncated Bovine Viral Diarrhea Virus 1 E2 Envelope Protein


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Crystal Structure of Truncated Bovine Viral Diarrhea Virus 1 E2 Envelope Protein within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca2411

b:30.6
occ:1.00
CA A:LEU947 3.6 30.9 1.0
CB A:LEU947 3.7 29.3 1.0
CE A:LYS948 3.7 46.1 1.0
O A:THR946 4.0 37.3 1.0
N A:LYS948 4.0 30.3 1.0
CG A:LYS948 4.1 39.4 1.0
C A:LEU947 4.4 29.9 1.0
CD A:LYS948 4.5 42.9 1.0
N A:LEU947 4.7 31.5 1.0
C A:THR946 4.7 34.9 1.0
NZ A:LYS948 4.9 48.3 1.0
CE A:LYS993 5.0 44.0 1.0

Calcium binding site 4 out of 4 in 4ild

Go back to Calcium Binding Sites List in 4ild
Calcium binding site 4 out of 4 in the Crystal Structure of Truncated Bovine Viral Diarrhea Virus 1 E2 Envelope Protein


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Crystal Structure of Truncated Bovine Viral Diarrhea Virus 1 E2 Envelope Protein within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca2409

b:30.7
occ:1.00
OD2 B:ASP1021 2.5 70.6 1.0
OD1 B:ASP1021 2.7 74.2 1.0
CG B:ASP1021 3.0 71.0 1.0
CB B:ASP1021 4.5 66.1 1.0
N B:LEU1022 4.9 76.2 1.0

Reference:

Y.Li, J.Wang, R.Kanai, Y.Modis. Crystal Structure of Glycoprotein E2 From Bovine Viral Diarrhea Virus. Proc.Natl.Acad.Sci.Usa V. 110 6805 2013.
ISSN: ISSN 0027-8424
PubMed: 23569276
DOI: 10.1073/PNAS.1300524110
Page generated: Sat Dec 12 04:52:06 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