Atomistry » Calcium » PDB 6ljf-6m4m » 6lxj
Atomistry »
  Calcium »
    PDB 6ljf-6m4m »
      6lxj »

Calcium in PDB 6lxj: Crystal Structure of Human Z2B3 Fab in Complex with Influenza Virus Neuraminidase From A/Anhui/1/2013 (H7N9)

Enzymatic activity of Crystal Structure of Human Z2B3 Fab in Complex with Influenza Virus Neuraminidase From A/Anhui/1/2013 (H7N9)

All present enzymatic activity of Crystal Structure of Human Z2B3 Fab in Complex with Influenza Virus Neuraminidase From A/Anhui/1/2013 (H7N9):
3.2.1.18;

Protein crystallography data

The structure of Crystal Structure of Human Z2B3 Fab in Complex with Influenza Virus Neuraminidase From A/Anhui/1/2013 (H7N9), PDB code: 6lxj was solved by H.Jiang, W.Peng, J.Qi, Y.Chai, H.Song, Y.Shi, G.F.Gao, Y.Wu, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 48.91 / 2.90
Space group C 2 2 2
Cell size a, b, c (Å), α, β, γ (°) 201.307, 207.514, 207.702, 90.00, 90.00, 90.00
R / Rfree (%) 19.3 / 24.1

Calcium Binding Sites:

The binding sites of Calcium atom in the Crystal Structure of Human Z2B3 Fab in Complex with Influenza Virus Neuraminidase From A/Anhui/1/2013 (H7N9) (pdb code 6lxj). 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 Human Z2B3 Fab in Complex with Influenza Virus Neuraminidase From A/Anhui/1/2013 (H7N9), PDB code: 6lxj:
Jump to Calcium binding site number: 1; 2; 3; 4;

Calcium binding site 1 out of 4 in 6lxj

Go back to Calcium Binding Sites List in 6lxj
Calcium binding site 1 out of 4 in the Crystal Structure of Human Z2B3 Fab in Complex with Influenza Virus Neuraminidase From A/Anhui/1/2013 (H7N9)


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 Human Z2B3 Fab in Complex with Influenza Virus Neuraminidase From A/Anhui/1/2013 (H7N9) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca502

b:65.9
occ:1.00
 O A:GLY298 2.3 44.1 1.0
O A:ASP294 2.6 33.3 1.0
O A:ASN344A 2.6 43.5 1.0
OD2 A:ASP324 3.3 36.9 1.0
C A:GLY298 3.5 38.2 1.0
CG A:ASP324 3.6 34.1 1.0
C A:ASN344A 3.8 39.2 1.0
C A:ASP294 3.8 35.3 1.0
CA A:GLY345 3.9 31.2 1.0
OD1 A:ASP324 4.1 30.8 1.0
CA A:SER299 4.1 30.9 1.0
N A:SER299 4.2 33.6 1.0
CB A:ASP324 4.2 30.1 1.0
N A:GLY345 4.3 35.0 1.0
OG A:SER299 4.4 43.5 1.0
CA A:ASN295 4.5 34.8 1.0
N A:ASN295 4.6 32.2 1.0
O A:PRO326 4.6 34.7 1.0
CA A:GLY298 4.6 36.3 1.0
N A:GLY298 4.6 43.6 1.0
O A:ASN342 4.7 39.2 1.0
CB A:SER299 4.8 38.5 1.0
CA A:ASP294 4.8 39.2 1.0
C A:ASN295 4.8 40.3 1.0
CB A:ASP294 4.9 40.6 1.0
N A:ASN344A 5.0 44.2 1.0

Calcium binding site 2 out of 4 in 6lxj

Go back to Calcium Binding Sites List in 6lxj
Calcium binding site 2 out of 4 in the Crystal Structure of Human Z2B3 Fab in Complex with Influenza Virus Neuraminidase From A/Anhui/1/2013 (H7N9)


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 Human Z2B3 Fab in Complex with Influenza Virus Neuraminidase From A/Anhui/1/2013 (H7N9) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca502

b:79.5
occ:1.00
 O B:GLY298 2.6 52.6 1.0
O B:ASN344A 2.7 62.2 1.0
O B:ASP294 3.3 45.6 1.0
C B:GLY298 3.6 49.2 1.0
OD2 B:ASP324 3.6 46.9 1.0
C B:ASN344A 3.9 56.5 1.0
OG B:SER299 4.0 51.9 1.0
CA B:SER299 4.1 49.8 1.0
O B:ASN342 4.1 53.9 1.0
CG B:ASP324 4.1 45.1 1.0
N B:SER299 4.1 49.8 1.0
O B:PRO326 4.2 41.8 1.0
CA B:GLY345 4.3 41.8 1.0
N B:GLY345 4.5 50.4 1.0
C B:ASP294 4.5 44.7 1.0
CB B:SER299 4.6 50.7 1.0
OD1 B:ASP324 4.6 42.8 1.0
CB B:ASP324 4.7 42.2 1.0
CA B:GLY298 4.8 50.7 1.0
C B:ASN342 4.8 56.4 1.0
N B:GLY298 4.8 52.0 1.0
O B:TRP296 4.8 62.5 1.0
C B:ASN295 4.8 56.6 1.0
CA B:ASN295 4.8 49.6 1.0
CB B:ASN342 4.9 51.9 1.0
N B:ASN344A 4.9 52.4 1.0

Calcium binding site 3 out of 4 in 6lxj

Go back to Calcium Binding Sites List in 6lxj
Calcium binding site 3 out of 4 in the Crystal Structure of Human Z2B3 Fab in Complex with Influenza Virus Neuraminidase From A/Anhui/1/2013 (H7N9)


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 Human Z2B3 Fab in Complex with Influenza Virus Neuraminidase From A/Anhui/1/2013 (H7N9) within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ca502

b:72.0
occ:1.00
 O C:ASP294 2.3 39.6 1.0
O C:GLY298 2.3 54.3 1.0
O C:ASN344A 2.9 48.2 1.0
OD2 C:ASP324 3.0 42.6 1.0
C C:GLY298 3.5 43.8 1.0
C C:ASP294 3.5 42.0 1.0
CG C:ASP324 3.5 38.4 1.0
C C:ASN344A 3.9 43.8 1.0
OD1 C:ASP324 4.0 33.9 1.0
CA C:GLY345 4.1 39.0 1.0
CB C:ASP324 4.2 34.6 1.0
CA C:SER299 4.2 38.4 1.0
N C:SER299 4.2 42.4 1.0
CA C:ASN295 4.3 43.3 1.0
N C:ASN295 4.3 40.7 1.0
N C:GLY345 4.5 43.0 1.0
N C:GLY298 4.5 43.4 1.0
CA C:ASP294 4.5 39.1 1.0
CA C:GLY298 4.5 40.8 1.0
CB C:ASP294 4.6 44.7 1.0
C C:ASN295 4.7 48.4 1.0
OG C:SER299 4.7 45.2 1.0
O C:ASN342 4.7 57.4 1.0
N C:ASP294 4.8 34.7 1.0
O C:PRO326 4.8 35.3 1.0
N C:TRP296 4.9 48.2 1.0
N C:ASN344A 5.0 47.6 1.0

Calcium binding site 4 out of 4 in 6lxj

Go back to Calcium Binding Sites List in 6lxj
Calcium binding site 4 out of 4 in the Crystal Structure of Human Z2B3 Fab in Complex with Influenza Virus Neuraminidase From A/Anhui/1/2013 (H7N9)


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 Human Z2B3 Fab in Complex with Influenza Virus Neuraminidase From A/Anhui/1/2013 (H7N9) within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Ca502

b:90.7
occ:1.00
 O D:GLY298 2.4 47.3 1.0
O D:ASN344A 2.8 56.0 1.0
O D:ASP294 2.9 43.7 1.0
C D:GLY298 3.4 41.0 1.0
OD2 D:ASP324 3.4 39.5 1.0
CG D:ASP324 3.9 39.6 1.0
O D:ASN342 4.0 54.6 1.0
C D:ASN344A 4.0 47.0 1.0
CA D:SER299 4.0 38.4 1.0
N D:SER299 4.0 39.5 1.0
C D:ASP294 4.1 44.6 1.0
OG D:SER299 4.1 45.8 1.0
OD1 D:ASP324 4.3 36.4 1.0
N D:GLY298 4.4 44.3 1.0
CA D:GLY345 4.4 36.9 1.0
OD1 D:ASN295 4.4 52.9 1.0
CA D:GLY298 4.4 40.3 1.0
O D:PRO326 4.5 37.7 1.0
CB D:ASP324 4.5 35.0 1.0
CA D:ASN295 4.6 46.7 1.0
CB D:SER299 4.6 39.7 1.0
N D:GLY345 4.7 43.2 1.0
C D:GLN297 4.8 47.4 1.0
N D:ASN295 4.8 46.8 1.0
N D:ASN344A 4.9 50.4 1.0
O D:GLN297 5.0 46.3 1.0
C D:ASN342 5.0 54.0 1.0

Reference:

H.Jiang, W.Peng, J.Qi, Y.Chai, H.Song, Y.Bi, P.Rijal, H.Wang, B.O.Oladejo, J.Liu, Y.Shi, G.F.Gao, A.R.Townsend, Y.Wu. Structure-Based Modification of An Anti-Neuraminidase Human Antibody Restores Protection Efficacy Against the Drifted Influenza Virus. Mbio V. 11 2020.
ISSN: ESSN 2150-7511
PubMed: 33024040
DOI: 10.1128/MBIO.02315-20
Page generated: Tue Jul 16 11:08:01 2024

Last articles

Zn in 9J0N
Zn in 9J0O
Zn in 9J0P
Zn in 9FJX
Zn in 9EKB
Zn in 9C0F
Zn in 9CAH
Zn in 9CH0
Zn in 9CH3
Zn in 9CH1
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy