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Calcium in PDB 4ln6: The Crystal Structure of Hemagglutinin From A H7N9 Influenza Virus (A/Shanghai/2/2013)

Protein crystallography data

The structure of The Crystal Structure of Hemagglutinin From A H7N9 Influenza Virus (A/Shanghai/2/2013), PDB code: 4ln6 was solved by H.Yang, P.J.Carney, J.C.Chang, J.M.Villanueva, J.Stevens, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 49.07 / 2.12
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 154.023, 152.834, 155.303, 90.00, 90.00, 90.00
R / Rfree (%) 23.8 / 25.9

Calcium Binding Sites:

The binding sites of Calcium atom in the The Crystal Structure of Hemagglutinin From A H7N9 Influenza Virus (A/Shanghai/2/2013) (pdb code 4ln6). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 6 binding sites of Calcium where determined in the The Crystal Structure of Hemagglutinin From A H7N9 Influenza Virus (A/Shanghai/2/2013), PDB code: 4ln6:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6;

Calcium binding site 1 out of 6 in 4ln6

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Calcium binding site 1 out of 6 in the The Crystal Structure of Hemagglutinin From A H7N9 Influenza Virus (A/Shanghai/2/2013)


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 Hemagglutinin From A H7N9 Influenza Virus (A/Shanghai/2/2013) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca403

b:42.2
occ:1.00
 OD1 A:ASP109 2.4 38.3 1.0
OE1 A:GLU71 2.4 39.6 1.0
O A:LYS110 2.4 37.1 1.0
CG A:ASP109 3.5 37.1 1.0
CD A:GLU71 3.5 40.4 1.0
C A:LYS110 3.6 33.9 1.0
N A:LYS110 3.7 31.5 1.0
OE2 A:GLU71 3.9 42.8 1.0
OD2 A:ASP109 4.0 40.5 1.0
CA A:LYS110 4.2 30.5 1.0
C A:ASP109 4.4 31.0 1.0
N A:GLU111 4.7 34.0 1.0
CA A:ASP109 4.7 34.5 1.0
CB A:ASP109 4.7 36.1 1.0
CB A:LYS110 4.8 29.1 1.0
CG A:GLU71 4.8 38.6 1.0
CA A:GLU111 5.0 34.7 1.0
NH2 A:ARG247 5.0 44.5 1.0

Calcium binding site 2 out of 6 in 4ln6

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Calcium binding site 2 out of 6 in the The Crystal Structure of Hemagglutinin From A H7N9 Influenza Virus (A/Shanghai/2/2013)


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 Hemagglutinin From A H7N9 Influenza Virus (A/Shanghai/2/2013) within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ca404

b:46.7
occ:1.00
 OE1 C:GLU71 2.4 37.8 1.0
OD1 C:ASP109 2.4 29.9 1.0
O C:LYS110 2.5 27.4 1.0
CD C:GLU71 3.5 37.8 1.0
CG C:ASP109 3.5 34.1 1.0
C C:LYS110 3.6 32.7 1.0
N C:LYS110 3.7 29.6 1.0
OE2 C:GLU71 3.9 43.2 1.0
OD2 C:ASP109 4.1 35.0 1.0
CA C:LYS110 4.2 28.5 1.0
C C:ASP109 4.3 28.5 1.0
CA C:ASP109 4.7 33.7 1.0
CB C:ASP109 4.7 36.4 1.0
CB C:LYS110 4.7 28.3 1.0
N C:GLU111 4.7 33.2 1.0
CG C:GLU71 4.8 34.2 1.0
NH2 C:ARG247 4.9 36.9 1.0
CA C:GLU111 5.0 36.2 1.0

Calcium binding site 3 out of 6 in 4ln6

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Calcium binding site 3 out of 6 in the The Crystal Structure of Hemagglutinin From A H7N9 Influenza Virus (A/Shanghai/2/2013)


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 Hemagglutinin From A H7N9 Influenza Virus (A/Shanghai/2/2013) within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Ca408

b:42.0
occ:1.00
 OE1 E:GLU71 2.3 45.7 1.0
OD1 E:ASP109 2.4 42.3 1.0
O E:LYS110 2.4 35.1 1.0
CD E:GLU71 3.4 41.4 1.0
CG E:ASP109 3.5 35.5 1.0
C E:LYS110 3.6 33.6 1.0
N E:LYS110 3.7 28.8 1.0
OE2 E:GLU71 3.8 45.8 1.0
OD2 E:ASP109 4.1 42.5 1.0
CA E:LYS110 4.1 31.4 1.0
C E:ASP109 4.4 29.5 1.0
CB E:LYS110 4.7 30.4 1.0
N E:GLU111 4.7 33.2 1.0
CA E:ASP109 4.7 30.3 1.0
CB E:ASP109 4.7 34.6 1.0
CG E:GLU71 4.7 40.9 1.0
NH2 E:ARG247 4.8 37.9 1.0
CA E:GLU111 5.0 40.0 1.0

Calcium binding site 4 out of 6 in 4ln6

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Calcium binding site 4 out of 6 in the The Crystal Structure of Hemagglutinin From A H7N9 Influenza Virus (A/Shanghai/2/2013)


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 Hemagglutinin From A H7N9 Influenza Virus (A/Shanghai/2/2013) within 5.0Å range:
probe atom residue distance (Å) B Occ
G:Ca403

b:35.3
occ:1.00
 O G:LYS110 2.3 33.1 1.0
OE1 G:GLU71 2.4 33.0 1.0
OD1 G:ASP109 2.4 33.9 1.0
O G:HOH520 2.5 34.1 1.0
C G:LYS110 3.4 29.7 1.0
CD G:GLU71 3.5 38.6 1.0
CG G:ASP109 3.5 32.1 1.0
N G:LYS110 3.7 25.4 1.0
OE2 G:GLU71 3.9 43.4 1.0
OD2 G:ASP109 4.0 28.9 1.0
CA G:LYS110 4.1 29.3 1.0
C G:ASP109 4.4 27.6 1.0
N G:GLU111 4.5 30.0 1.0
CB G:LYS110 4.6 26.2 1.0
CA G:ASP109 4.7 28.1 1.0
CB G:ASP109 4.7 30.7 1.0
CG G:GLU71 4.8 36.3 1.0
CA G:GLU111 4.8 34.0 1.0
NH2 G:ARG247 4.9 32.1 1.0

Calcium binding site 5 out of 6 in 4ln6

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Calcium binding site 5 out of 6 in the The Crystal Structure of Hemagglutinin From A H7N9 Influenza Virus (A/Shanghai/2/2013)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of The Crystal Structure of Hemagglutinin From A H7N9 Influenza Virus (A/Shanghai/2/2013) within 5.0Å range:
probe atom residue distance (Å) B Occ
I:Ca404

b:43.2
occ:1.00
 OE1 I:GLU71 2.4 39.6 1.0
O I:HOH511 2.4 38.1 1.0
O I:LYS110 2.4 34.5 1.0
OD1 I:ASP109 2.5 38.0 1.0
CD I:GLU71 3.4 38.6 1.0
C I:LYS110 3.5 30.4 1.0
CG I:ASP109 3.6 36.2 1.0
N I:LYS110 3.7 24.6 1.0
OE2 I:GLU71 3.8 47.4 1.0
OD2 I:ASP109 4.1 40.5 1.0
CA I:LYS110 4.1 26.6 1.0
C I:ASP109 4.4 28.8 1.0
N I:GLU111 4.7 35.8 1.0
CB I:LYS110 4.7 26.2 1.0
CA I:ASP109 4.7 30.8 1.0
CG I:GLU71 4.7 40.5 1.0
CB I:ASP109 4.8 33.6 1.0
NH2 I:ARG247 4.8 38.0 1.0
CA I:GLU111 4.9 38.9 1.0

Calcium binding site 6 out of 6 in 4ln6

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Calcium binding site 6 out of 6 in the The Crystal Structure of Hemagglutinin From A H7N9 Influenza Virus (A/Shanghai/2/2013)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 6 of The Crystal Structure of Hemagglutinin From A H7N9 Influenza Virus (A/Shanghai/2/2013) within 5.0Å range:
probe atom residue distance (Å) B Occ
K:Ca404

b:44.8
occ:1.00
 OE1 K:GLU71 2.4 40.5 1.0
O K:LYS110 2.4 31.2 1.0
OD1 K:ASP109 2.4 37.9 1.0
CD K:GLU71 3.5 34.9 1.0
C K:LYS110 3.5 32.4 1.0
CG K:ASP109 3.6 41.7 1.0
N K:LYS110 3.7 28.1 1.0
OE2 K:GLU71 3.8 40.1 1.0
CA K:LYS110 4.1 27.9 1.0
OD2 K:ASP109 4.2 39.8 1.0
C K:ASP109 4.4 33.2 1.0
N K:GLU111 4.6 36.0 1.0
CB K:LYS110 4.7 26.6 1.0
CA K:ASP109 4.7 33.3 1.0
CB K:ASP109 4.8 35.6 1.0
CG K:GLU71 4.8 31.6 1.0
NH2 K:ARG247 4.8 33.8 1.0
CA K:GLU111 4.9 38.5 1.0

Reference:

H.Yang, P.J.Carney, J.C.Chang, J.M.Villanueva, J.Stevens. Structural Analysis of the Hemagglutinin From the Recent 2013 H7N9 Influenza Virus. J.Virol. V. 87 12433 2013.
ISSN: ISSN 0022-538X
PubMed: 24027325
DOI: 10.1128/JVI.01854-13
Page generated: Sat Dec 12 04:57:06 2020

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