Atomistry » Calcium » PDB 6mro-6n9d » 6n4d
Atomistry »
  Calcium »
    PDB 6mro-6n9d »
      6n4d »

Calcium in PDB 6n4d: The Crystal Structure of Neuramindase From A/Canine/Il/11613/2015 (H3N2) Influenza Virus.

Protein crystallography data

The structure of The Crystal Structure of Neuramindase From A/Canine/Il/11613/2015 (H3N2) Influenza Virus., PDB code: 6n4d was solved by H.Yang, J.Stevens, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 49.43 / 1.80
Space group P 21 21 2
Cell size a, b, c (Å), α, β, γ (°) 110.451, 110.562, 126.620, 90.00, 90.00, 90.00
R / Rfree (%) 21 / 23.8

Calcium Binding Sites:

The binding sites of Calcium atom in the The Crystal Structure of Neuramindase From A/Canine/Il/11613/2015 (H3N2) Influenza Virus. (pdb code 6n4d). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 4 binding sites of Calcium where determined in the The Crystal Structure of Neuramindase From A/Canine/Il/11613/2015 (H3N2) Influenza Virus., PDB code: 6n4d:
Jump to Calcium binding site number: 1; 2; 3; 4;

Calcium binding site 1 out of 4 in 6n4d

Go back to Calcium Binding Sites List in 6n4d
Calcium binding site 1 out of 4 in the The Crystal Structure of Neuramindase From A/Canine/Il/11613/2015 (H3N2) Influenza Virus.


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of The Crystal Structure of Neuramindase From A/Canine/Il/11613/2015 (H3N2) Influenza Virus. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca501

b:24.6
occ:1.00
 O A:ASP293 2.2 24.2 1.0
OD2 A:ASP324 2.3 21.7 1.0
O A:GLY345 2.3 26.1 1.0
O A:PRO347 2.4 28.2 1.0
O A:HOH639 2.4 23.4 1.0
O A:GLY297 2.4 26.7 1.0
C A:GLY345 3.4 26.3 1.0
C A:ASP293 3.5 24.0 1.0
CG A:ASP324 3.5 22.9 1.0
C A:PRO347 3.5 26.3 1.0
C A:GLY297 3.6 26.1 1.0
CA A:GLY348 4.0 23.4 1.0
CA A:ASN294 4.1 23.0 1.0
N A:GLY348 4.2 24.9 1.0
N A:ASN294 4.2 22.8 1.0
CA A:GLY345 4.2 27.5 1.0
CA A:SER298 4.2 23.5 1.0
N A:ASN346 4.3 25.9 1.0
CB A:ASP324 4.3 22.1 1.0
OD1 A:ASP324 4.3 20.8 1.0
N A:SER298 4.3 25.3 1.0
O A:ARG344 4.4 28.1 1.0
CA A:ASN346 4.5 28.7 1.0
C A:ASN294 4.5 23.2 1.0
N A:GLY297 4.5 27.2 1.0
CA A:ASP293 4.5 23.3 1.0
CA A:GLY297 4.6 26.1 1.0
CA A:PRO347 4.7 28.6 1.0
N A:TRP295 4.8 25.3 1.0
CB A:ASP293 4.8 23.4 1.0
OD1 A:ASP293 4.8 24.0 1.0
N A:ASP293 4.8 22.7 1.0
CB A:SER298 4.9 25.4 1.0
O A:ASN294 5.0 22.3 1.0
O A:PRO326 5.0 24.3 1.0

Calcium binding site 2 out of 4 in 6n4d

Go back to Calcium Binding Sites List in 6n4d
Calcium binding site 2 out of 4 in the The Crystal Structure of Neuramindase From A/Canine/Il/11613/2015 (H3N2) Influenza Virus.


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of The Crystal Structure of Neuramindase From A/Canine/Il/11613/2015 (H3N2) Influenza Virus. within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca501

b:26.5
occ:1.00
 O B:ASP293 2.2 23.9 1.0
OD2 B:ASP324 2.3 26.8 1.0
O B:PRO347 2.3 28.1 1.0
O B:GLY345 2.4 31.4 1.0
O B:GLY297 2.4 31.4 1.0
O B:HOH615 2.5 29.0 1.0
C B:ASP293 3.4 26.4 1.0
C B:GLY345 3.4 31.2 1.0
CG B:ASP324 3.5 28.2 1.0
C B:PRO347 3.5 28.7 1.0
C B:GLY297 3.6 32.1 1.0
CA B:GLY348 3.9 24.7 1.0
CA B:ASN294 4.0 26.3 1.0
O B:HOH620 4.1 25.9 1.0
N B:ASN294 4.2 24.9 1.0
N B:GLY348 4.2 23.6 1.0
CA B:SER298 4.3 29.2 1.0
OD1 B:ASP324 4.3 28.2 1.0
CA B:GLY345 4.3 32.2 1.0
N B:ASN346 4.3 32.3 1.0
N B:SER298 4.3 30.3 1.0
CB B:ASP324 4.4 25.6 1.0
C B:ASN294 4.4 25.4 1.0
CA B:ASN346 4.5 31.3 1.0
CA B:ASP293 4.5 25.7 1.0
O B:ARG344 4.5 28.4 1.0
N B:GLY297 4.6 29.4 1.0
CA B:GLY297 4.6 30.2 1.0
CA B:PRO347 4.7 31.3 1.0
N B:ASP293 4.7 26.6 1.0
N B:TRP295 4.7 25.1 1.0
OD1 B:ASP293 4.7 26.6 1.0
CB B:ASP293 4.8 26.4 1.0
OD1 B:ASN294 4.9 30.2 1.0
O B:ASN294 4.9 27.4 1.0
CB B:SER298 5.0 31.8 1.0

Calcium binding site 3 out of 4 in 6n4d

Go back to Calcium Binding Sites List in 6n4d
Calcium binding site 3 out of 4 in the The Crystal Structure of Neuramindase From A/Canine/Il/11613/2015 (H3N2) Influenza Virus.


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of The Crystal Structure of Neuramindase From A/Canine/Il/11613/2015 (H3N2) Influenza Virus. within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ca501

b:26.4
occ:1.00
 O C:ASP293 2.2 24.1 1.0
OD2 C:ASP324 2.3 27.9 1.0
O C:PRO347 2.3 27.8 1.0
O C:GLY345 2.4 28.9 1.0
O C:HOH613 2.4 27.3 1.0
O C:GLY297 2.5 32.8 1.0
C C:ASP293 3.4 25.7 1.0
C C:GLY345 3.4 29.8 1.0
CG C:ASP324 3.5 27.7 1.0
C C:PRO347 3.5 28.2 1.0
C C:GLY297 3.6 32.7 1.0
CA C:GLY348 3.9 24.1 1.0
CA C:ASN294 4.0 26.1 1.0
O C:HOH632 4.1 26.1 1.0
N C:ASN294 4.2 24.4 1.0
N C:GLY348 4.2 22.2 1.0
OD1 C:ASP324 4.3 28.1 1.0
CA C:SER298 4.3 29.0 1.0
CA C:GLY345 4.3 30.0 1.0
N C:ASN346 4.3 30.7 1.0
CB C:ASP324 4.3 25.2 1.0
N C:SER298 4.4 30.6 1.0
C C:ASN294 4.4 26.1 1.0
CA C:ASN346 4.5 31.3 1.0
O C:ARG344 4.5 27.6 1.0
CA C:ASP293 4.5 26.2 1.0
N C:GLY297 4.6 32.0 1.0
CA C:GLY297 4.6 31.4 1.0
CA C:PRO347 4.7 31.7 1.0
OD1 C:ASP293 4.8 28.3 1.0
N C:TRP295 4.8 26.1 1.0
N C:ASP293 4.8 27.1 1.0
CB C:ASP293 4.8 28.0 1.0
OD1 C:ASN294 4.9 30.1 1.0
O C:ASN294 5.0 29.4 1.0

Calcium binding site 4 out of 4 in 6n4d

Go back to Calcium Binding Sites List in 6n4d
Calcium binding site 4 out of 4 in the The Crystal Structure of Neuramindase From A/Canine/Il/11613/2015 (H3N2) Influenza Virus.


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of The Crystal Structure of Neuramindase From A/Canine/Il/11613/2015 (H3N2) Influenza Virus. within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Ca501

b:24.2
occ:1.00
 O D:ASP293 2.2 23.9 1.0
OD2 D:ASP324 2.3 20.1 1.0
O D:HOH625 2.3 22.9 1.0
O D:GLY345 2.3 25.3 1.0
O D:PRO347 2.4 28.1 1.0
O D:GLY297 2.4 27.6 1.0
C D:GLY345 3.4 25.8 1.0
C D:ASP293 3.5 22.7 1.0
CG D:ASP324 3.5 21.9 1.0
C D:PRO347 3.5 26.5 1.0
C D:GLY297 3.6 26.9 1.0
CA D:GLY348 3.9 23.8 1.0
CA D:ASN294 4.1 22.0 1.0
N D:GLY348 4.2 24.9 1.0
N D:ASN294 4.2 21.6 1.0
CA D:GLY345 4.2 27.2 1.0
CA D:SER298 4.2 23.7 1.0
CB D:ASP324 4.3 21.7 1.0
N D:ASN346 4.3 27.0 1.0
OD1 D:ASP324 4.3 21.0 1.0
N D:SER298 4.3 25.0 1.0
O D:ARG344 4.4 26.8 1.0
CA D:ASN346 4.5 28.9 1.0
C D:ASN294 4.5 22.5 1.0
N D:GLY297 4.6 28.0 1.0
CA D:ASP293 4.6 21.8 1.0
CA D:GLY297 4.6 26.4 1.0
CA D:PRO347 4.7 28.2 1.0
N D:TRP295 4.8 24.4 1.0
OD1 D:ASP293 4.8 23.1 1.0
CB D:ASP293 4.8 23.2 1.0
N D:ASP293 4.8 22.5 1.0
CB D:SER298 4.9 25.4 1.0
O D:PRO326 5.0 24.1 1.0

Reference:

J.A.Pulit-Penaloza, N.Simpson, H.Yang, H.M.Creager, J.Jones, P.Carney, J.A.Belser, G.Yang, J.Chang, H.Zeng, S.Thor, Y.Jang, M.L.Killian, M.Jenkins-Moore, A.Janas-Martindale, E.Dubovi, D.E.Wentworth, J.Stevens, T.M.Tumpey, C.T.Davis, T.R.Maines. Assessment of Molecular, Antigenic, and Pathological Features of Canine Influenza A(H3N2) Viruses That Emerged in the United States. J. Infect. Dis. V. 216 S499 2017.
ISSN: ESSN 1537-6613
PubMed: 28934454
DOI: 10.1093/INFDIS/JIW620
Page generated: Wed Jul 9 16:15:31 2025

Last articles

Ca in 7F4I
Ca in 7F4H
Ca in 7F4D
Ca in 7F4F
Ca in 7EV1
Ca in 7F44
Ca in 7F06
Ca in 7EZZ
Ca in 7EY3
Ca in 7EXC
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy