Atomistry » Calcium » PDB 5mop-5n2x » 5muv
Atomistry »
  Calcium »
    PDB 5mop-5n2x »
      5muv »

Calcium in PDB 5muv: Atomic Structure Fitted Into A Localized Reconstruction of Bacteriophage PHI6 Packaging Hexamer P4

Enzymatic activity of Atomic Structure Fitted Into A Localized Reconstruction of Bacteriophage PHI6 Packaging Hexamer P4

All present enzymatic activity of Atomic Structure Fitted Into A Localized Reconstruction of Bacteriophage PHI6 Packaging Hexamer P4:
3.6.1.15;

Calcium Binding Sites:

The binding sites of Calcium atom in the Atomic Structure Fitted Into A Localized Reconstruction of Bacteriophage PHI6 Packaging Hexamer P4 (pdb code 5muv). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 6 binding sites of Calcium where determined in the Atomic Structure Fitted Into A Localized Reconstruction of Bacteriophage PHI6 Packaging Hexamer P4, PDB code: 5muv:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6;

Calcium binding site 1 out of 6 in 5muv

Go back to Calcium Binding Sites List in 5muv
Calcium binding site 1 out of 6 in the Atomic Structure Fitted Into A Localized Reconstruction of Bacteriophage PHI6 Packaging Hexamer P4


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Atomic Structure Fitted Into A Localized Reconstruction of Bacteriophage PHI6 Packaging Hexamer P4 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca401

b:65.1
occ:1.00
 OG A:SER133 2.2 40.5 1.0
O2B A:ADP402 2.2 38.8 1.0
OE1 A:GLU150 3.3 66.8 1.0
CB A:SER133 3.3 34.1 1.0
PB A:ADP402 3.4 37.3 1.0
O3B A:ADP402 3.4 33.4 1.0
O2A A:ADP402 3.9 45.9 1.0
OD1 A:ASP187 4.0 34.6 1.0
OE2 A:GLU153 4.1 37.5 1.0
N A:SER133 4.1 31.9 1.0
OD2 A:ASP187 4.2 49.4 1.0
CA A:SER133 4.2 32.3 1.0
O3A A:ADP402 4.3 43.5 1.0
CD A:GLU150 4.3 59.4 1.0
O1B A:ADP402 4.5 37.7 1.0
CG A:ASP187 4.6 36.8 1.0
PA A:ADP402 4.6 49.0 1.0
O1A A:ADP402 4.8 50.1 1.0
OE2 A:GLU150 4.9 22.3 1.0
NH2 A:ARG147 5.0 74.1 1.0

Calcium binding site 2 out of 6 in 5muv

Go back to Calcium Binding Sites List in 5muv
Calcium binding site 2 out of 6 in the Atomic Structure Fitted Into A Localized Reconstruction of Bacteriophage PHI6 Packaging Hexamer P4


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Atomic Structure Fitted Into A Localized Reconstruction of Bacteriophage PHI6 Packaging Hexamer P4 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca401

b:55.1
occ:1.00
 OG B:SER133 2.3 36.2 1.0
O2B B:ADP402 2.7 29.5 1.0
OE1 B:GLU150 3.2 52.2 1.0
CB B:SER133 3.5 27.2 1.0
OD1 B:ASP187 3.8 37.4 1.0
O3B B:ADP402 3.8 24.1 1.0
PB B:ADP402 3.8 29.3 1.0
OE2 B:GLU153 3.9 42.7 1.0
CD B:GLU150 4.0 61.3 1.0
OD2 B:ASP187 4.1 35.7 1.0
O2A B:ADP402 4.2 44.9 1.0
CG B:ASP187 4.4 36.2 1.0
N B:SER133 4.5 27.9 1.0
OE2 B:GLU150 4.5 26.6 1.0
CA B:SER133 4.5 26.8 1.0
NH2 B:ARG147 4.6 49.2 1.0
O3A B:ADP402 4.8 37.5 1.0
CG B:GLU150 4.9 45.4 1.0
CD B:GLU153 4.9 63.9 1.0
O1B B:ADP402 4.9 27.9 1.0

Calcium binding site 3 out of 6 in 5muv

Go back to Calcium Binding Sites List in 5muv
Calcium binding site 3 out of 6 in the Atomic Structure Fitted Into A Localized Reconstruction of Bacteriophage PHI6 Packaging Hexamer P4


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Atomic Structure Fitted Into A Localized Reconstruction of Bacteriophage PHI6 Packaging Hexamer P4 within 5.0Å range:
probe atom residue distance (Å) B Occ
I:Ca402

b:49.8
occ:1.00
 OG I:SER133 2.4 36.7 1.0
O2B I:ADP401 2.5 33.5 1.0
CB I:SER133 3.1 31.1 1.0
OE1 I:GLU150 3.1 40.9 1.0
OE2 I:GLU153 3.3 42.5 1.0
O2A I:ADP401 3.5 52.8 1.0
PB I:ADP401 3.7 38.5 1.0
O3B I:ADP401 3.9 37.8 1.0
CD I:GLU153 4.2 71.6 1.0
OE1 I:GLU153 4.2 71.9 1.0
O3A I:ADP401 4.3 48.4 1.0
CD I:GLU150 4.4 59.2 1.0
PA I:ADP401 4.4 54.2 1.0
OD1 I:ASP187 4.4 27.1 1.0
CA I:SER133 4.4 29.0 1.0
N I:SER133 4.5 28.5 1.0
OD2 I:ASP187 4.5 38.2 1.0
NH2 I:ARG147 4.6 69.6 1.0
O1A I:ADP401 4.6 54.3 1.0
CG I:ASP187 4.9 30.1 1.0
O1B I:ADP401 5.0 38.1 1.0

Calcium binding site 4 out of 6 in 5muv

Go back to Calcium Binding Sites List in 5muv
Calcium binding site 4 out of 6 in the Atomic Structure Fitted Into A Localized Reconstruction of Bacteriophage PHI6 Packaging Hexamer P4


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Atomic Structure Fitted Into A Localized Reconstruction of Bacteriophage PHI6 Packaging Hexamer P4 within 5.0Å range:
probe atom residue distance (Å) B Occ
J:Ca401

b:48.8
occ:1.00
 OG J:SER133 2.4 45.7 1.0
O2B J:ADP402 2.6 52.2 1.0
OE1 J:GLU150 3.4 45.1 1.0
CB J:SER133 3.5 33.5 1.0
O3B J:ADP402 3.6 52.5 1.0
PB J:ADP402 3.7 51.3 1.0
OE2 J:GLU153 3.7 36.3 1.0
O2A J:ADP402 3.8 54.6 1.0
OD1 J:ASP187 4.1 22.7 1.0
OD2 J:ASP187 4.2 28.8 1.0
CD J:GLU150 4.3 46.0 1.0
O3A J:ADP402 4.5 52.8 1.0
N J:SER133 4.5 30.0 1.0
CA J:SER133 4.6 30.5 1.0
CG J:ASP187 4.6 26.1 1.0
CD J:GLU153 4.6 54.6 1.0
PA J:ADP402 4.7 54.6 1.0
NH2 J:ARG147 4.7 52.5 1.0
OE1 J:GLU153 4.8 56.8 1.0
O1B J:ADP402 4.8 48.3 1.0
OE2 J:GLU150 5.0 22.1 1.0

Calcium binding site 5 out of 6 in 5muv

Go back to Calcium Binding Sites List in 5muv
Calcium binding site 5 out of 6 in the Atomic Structure Fitted Into A Localized Reconstruction of Bacteriophage PHI6 Packaging Hexamer P4


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of Atomic Structure Fitted Into A Localized Reconstruction of Bacteriophage PHI6 Packaging Hexamer P4 within 5.0Å range:
probe atom residue distance (Å) B Occ
K:Ca401

b:61.6
occ:1.00
 OG K:SER133 2.4 43.8 1.0
O2B K:ADP402 2.6 49.2 1.0
OE1 K:GLU150 3.1 61.4 1.0
O3B K:ADP402 3.5 51.2 1.0
OE2 K:GLU153 3.5 47.1 1.0
CB K:SER133 3.6 39.5 1.0
PB K:ADP402 3.7 50.6 1.0
O2A K:ADP402 3.8 65.1 1.0
CD K:GLU150 4.1 54.0 1.0
OD1 K:ASP187 4.2 29.9 1.0
OD2 K:ASP187 4.4 45.1 1.0
CD K:GLU153 4.5 72.7 1.0
O3A K:ADP402 4.5 57.5 1.0
NH2 K:ARG147 4.6 39.8 1.0
OE1 K:GLU153 4.6 80.8 1.0
N K:SER133 4.6 38.2 1.0
CA K:SER133 4.7 38.0 1.0
PA K:ADP402 4.7 65.5 1.0
CG K:ASP187 4.7 34.6 1.0
OE2 K:GLU150 4.7 52.6 1.0
O1B K:ADP402 4.9 50.1 1.0
CG K:GLU150 4.9 31.3 1.0

Calcium binding site 6 out of 6 in 5muv

Go back to Calcium Binding Sites List in 5muv
Calcium binding site 6 out of 6 in the Atomic Structure Fitted Into A Localized Reconstruction of Bacteriophage PHI6 Packaging Hexamer P4


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 6 of Atomic Structure Fitted Into A Localized Reconstruction of Bacteriophage PHI6 Packaging Hexamer P4 within 5.0Å range:
probe atom residue distance (Å) B Occ
L:Ca401

b:50.2
occ:1.00
 OG L:SER133 2.3 30.6 1.0
O2B L:ADP402 2.5 45.1 1.0
CB L:SER133 3.2 29.6 1.0
OE2 L:GLU153 3.5 24.8 1.0
OE1 L:GLU150 3.5 53.5 1.0
O2A L:ADP402 3.5 57.3 1.0
O3B L:ADP402 3.5 39.8 1.0
PB L:ADP402 3.6 44.4 1.0
O3A L:ADP402 4.3 49.4 1.0
CD L:GLU153 4.3 59.1 1.0
OE1 L:GLU153 4.4 65.6 1.0
OD2 L:ASP187 4.4 51.4 1.0
PA L:ADP402 4.4 56.3 1.0
OD1 L:ASP187 4.4 30.4 1.0
CA L:SER133 4.4 29.4 1.0
N L:SER133 4.5 29.1 1.0
CD L:GLU150 4.5 52.9 1.0
NH2 L:ARG147 4.6 48.4 1.0
O1A L:ADP402 4.8 55.5 1.0
O1B L:ADP402 4.8 42.8 1.0
CG L:ASP187 4.9 37.4 1.0

Reference:

Z.Sun, K.El Omari, X.Sun, S.L.Ilca, A.Kotecha, D.I.Stuart, M.M.Poranen, J.T.Huiskonen. Double-Stranded Rna Virus Outer Shell Assembly By Bona Fide Domain-Swapping. Nat Commun V. 8 14814 2017.
ISSN: ESSN 2041-1723
PubMed: 28287099
DOI: 10.1038/NCOMMS14814
Page generated: Mon Jul 15 08:37:54 2024

Last articles

Zn in 9JYW
Zn in 9IR4
Zn in 9IR3
Zn in 9GMX
Zn in 9GMW
Zn in 9JEJ
Zn in 9ERF
Zn in 9ERE
Zn in 9EGV
Zn in 9EGW
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy