Atomistry » Calcium » PDB 9bhu-9enp » 9cm9
Atomistry »
  Calcium »
    PDB 9bhu-9enp »
      9cm9 »

Calcium in PDB 9cm9: Cryo-Em Model Derived From Localized Reconstruction of AD657-Hexon-Fx Complex at 3.86A Resolution

Enzymatic activity of Cryo-Em Model Derived From Localized Reconstruction of AD657-Hexon-Fx Complex at 3.86A Resolution

All present enzymatic activity of Cryo-Em Model Derived From Localized Reconstruction of AD657-Hexon-Fx Complex at 3.86A Resolution:
3.4.21.6;

Calcium Binding Sites:

The binding sites of Calcium atom in the Cryo-Em Model Derived From Localized Reconstruction of AD657-Hexon-Fx Complex at 3.86A Resolution (pdb code 9cm9). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 7 binding sites of Calcium where determined in the Cryo-Em Model Derived From Localized Reconstruction of AD657-Hexon-Fx Complex at 3.86A Resolution, PDB code: 9cm9:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6; 7;

Calcium binding site 1 out of 7 in 9cm9

Go back to Calcium Binding Sites List in 9cm9
Calcium binding site 1 out of 7 in the Cryo-Em Model Derived From Localized Reconstruction of AD657-Hexon-Fx Complex at 3.86A Resolution


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Cryo-Em Model Derived From Localized Reconstruction of AD657-Hexon-Fx Complex at 3.86A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
Z:Ca501

b:13.5
occ:1.00
 OE21 Z:CGU25 2.5 16.1 1.0
NH2 Z:ARG28 2.5 22.4 1.0
CB L:THR431 2.8 89.8 1.0
CD2 Z:CGU25 2.8 15.3 1.0
OG1 L:THR431 3.0 89.8 1.0
OE12 Z:CGU29 3.2 17.4 1.0
N L:THR431 3.3 89.8 1.0
CG Z:CGU25 3.5 17.7 1.0
OE22 Z:CGU25 3.5 22.3 1.0
CA L:THR431 3.5 89.8 1.0
CZ Z:ARG28 3.8 23.5 1.0
CD1 Z:CGU25 3.8 16.1 1.0
O L:THR431 3.9 89.8 1.0
CG2 L:THR431 4.0 89.8 1.0
OE11 Z:CGU25 4.0 16.5 1.0
C L:THR431 4.1 89.8 1.0
NH2 L:ARG456 4.3 88.0 1.0
NE Z:ARG28 4.4 23.2 1.0
C L:ASP430 4.4 86.6 1.0
OE12 Z:CGU25 4.4 14.6 1.0
CD1 Z:CGU29 4.5 16.8 1.0
OG K:SER276 4.6 83.9 1.0
CB K:SER276 4.7 83.9 1.0
NH1 Z:ARG28 4.7 21.4 1.0
CA L:ASP430 4.8 86.6 1.0
OE22 Z:CGU29 4.9 10.3 1.0
CA Z:CA502 4.9 14.3 1.0
CB Z:CGU25 4.9 13.2 1.0

Calcium binding site 2 out of 7 in 9cm9

Go back to Calcium Binding Sites List in 9cm9
Calcium binding site 2 out of 7 in the Cryo-Em Model Derived From Localized Reconstruction of AD657-Hexon-Fx Complex at 3.86A Resolution


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Cryo-Em Model Derived From Localized Reconstruction of AD657-Hexon-Fx Complex at 3.86A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
Z:Ca502

b:14.3
occ:1.00
 OE22 Z:CGU7 2.7 8.1 1.0
OE21 Z:CGU7 3.2 13.6 1.0
CD2 Z:CGU7 3.3 9.3 1.0
OE22 Z:CGU29 3.3 10.3 1.0
OE12 Z:CGU29 3.4 17.4 1.0
OE11 Z:CGU25 3.4 16.5 1.0
CD1 Z:CGU29 3.6 16.8 1.0
CD2 Z:CGU29 3.7 12.2 1.0
OE11 Z:CGU29 3.8 20.6 1.0
O L:THR429 3.9 86.6 1.0
OE21 Z:CGU29 4.3 14.5 1.0
CG Z:CGU29 4.3 13.0 1.0
CD1 Z:CGU25 4.5 16.1 1.0
CA L:ASP430 4.6 86.6 1.0
C L:THR429 4.7 86.6 1.0
CG Z:CGU7 4.8 10.9 1.0
CA Z:CA501 4.9 13.5 1.0
CG Z:CGU25 5.0 17.7 1.0
N L:THR431 5.0 89.8 1.0

Calcium binding site 3 out of 7 in 9cm9

Go back to Calcium Binding Sites List in 9cm9
Calcium binding site 3 out of 7 in the Cryo-Em Model Derived From Localized Reconstruction of AD657-Hexon-Fx Complex at 3.86A Resolution


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Cryo-Em Model Derived From Localized Reconstruction of AD657-Hexon-Fx Complex at 3.86A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
Z:Ca503

b:9.4
occ:1.00
 CA Z:CA504 2.1 12.6 1.0
OE21 Z:CGU29 2.4 14.5 1.0
N Z:GLY11 2.4 17.2 1.0
OE12 Z:CGU7 2.6 13.2 1.0
CA Z:GLY11 3.0 17.8 1.0
C Z:LYS10 3.3 18.4 1.0
CD2 Z:CGU29 3.6 12.2 1.0
CA Z:LYS10 3.6 19.3 1.0
CD1 Z:CGU7 3.6 13.1 1.0
CB Z:CGU29 4.0 11.0 1.0
OE11 Z:CGU7 4.1 8.1 1.0
O Z:LYS10 4.2 18.3 1.0
CG Z:CGU29 4.4 13.0 1.0
N Z:LYS10 4.5 17.4 1.0
C Z:GLY11 4.5 16.6 1.0
OE22 Z:CGU29 4.5 10.3 1.0
CD2 Z:CGU7 4.5 9.3 1.0
O Z:LYS9 4.6 20.5 1.0
OE22 Z:CGU16 4.6 9.0 1.0
OE21 Z:CGU7 4.7 13.6 1.0
CG Z:CGU7 4.7 10.9 1.0
CA Z:CGU26 4.7 15.5 1.0
CB Z:LYS10 4.8 30.0 1.0
OE22 Z:CGU7 4.8 8.1 1.0
CB Z:CGU26 4.8 14.9 1.0
C Z:LYS9 4.8 15.4 1.0
OE21 Z:CGU16 4.9 4.8 1.0

Calcium binding site 4 out of 7 in 9cm9

Go back to Calcium Binding Sites List in 9cm9
Calcium binding site 4 out of 7 in the Cryo-Em Model Derived From Localized Reconstruction of AD657-Hexon-Fx Complex at 3.86A Resolution


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Cryo-Em Model Derived From Localized Reconstruction of AD657-Hexon-Fx Complex at 3.86A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
Z:Ca504

b:12.6
occ:1.00
 CA Z:CA503 2.1 9.4 1.0
OE21 Z:CGU29 2.4 14.5 1.0
OE12 Z:CGU7 2.5 13.2 1.0
OE11 Z:CGU7 2.8 8.1 1.0
CB Z:CGU26 2.8 14.9 1.0
CD1 Z:CGU7 2.9 13.1 1.0
OE22 Z:CGU16 3.0 9.0 1.0
CA Z:CGU26 3.1 15.5 1.0
CA Z:GLY11 3.5 17.8 1.0
CD2 Z:CGU29 3.6 12.2 1.0
N Z:GLY11 3.7 17.2 1.0
O Z:CGU26 3.8 17.8 1.0
CD2 Z:CGU16 4.0 8.4 1.0
C Z:CGU26 4.0 16.6 1.0
OE12 Z:CGU26 4.0 10.3 1.0
OE22 Z:CGU29 4.1 10.3 1.0
OE21 Z:CGU16 4.1 4.8 1.0
CG Z:CGU7 4.1 10.9 1.0
CG Z:CGU26 4.2 13.6 1.0
N Z:CGU26 4.3 18.7 1.0
CD2 Z:CGU7 4.4 9.3 1.0
OE22 Z:CGU7 4.4 8.1 1.0
CD1 Z:CGU26 4.5 14.3 1.0
C Z:LYS10 4.7 18.4 1.0
OE22 Z:CGU26 4.7 10.6 1.0
OE12 Z:CGU6 4.8 15.9 1.0
CG Z:CGU29 4.8 13.0 1.0
CB Z:CGU29 4.8 11.0 1.0
C Z:GLY11 4.9 16.6 1.0
CD2 Z:CGU26 5.0 11.2 1.0

Calcium binding site 5 out of 7 in 9cm9

Go back to Calcium Binding Sites List in 9cm9
Calcium binding site 5 out of 7 in the Cryo-Em Model Derived From Localized Reconstruction of AD657-Hexon-Fx Complex at 3.86A Resolution


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of Cryo-Em Model Derived From Localized Reconstruction of AD657-Hexon-Fx Complex at 3.86A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
Z:Ca505

b:12.1
occ:1.00
 NE Z:ARG15 2.4 8.2 1.0
OE11 Z:CGU16 2.4 12.7 1.0
OE21 Z:CGU16 2.5 4.8 1.0
CZ Z:ARG15 2.9 9.3 1.0
CG Z:CGU16 2.9 7.4 1.0
CD1 Z:CGU16 2.9 12.0 1.0
CD2 Z:CGU16 3.0 8.4 1.0
CD Z:ARG15 3.0 2.0 1.0
NH2 Z:ARG15 3.2 6.2 1.0
OE12 Z:CGU6 3.2 15.9 1.0
CG Z:ARG15 3.4 4.3 1.0
CG Z:CGU6 3.6 18.2 1.0
NH1 Z:ARG15 3.7 6.5 1.0
CD1 Z:CGU6 3.9 17.6 1.0
CD2 Z:CGU6 3.9 19.5 1.0
OE22 Z:CGU6 4.0 18.9 1.0
OE12 Z:CGU16 4.1 12.4 1.0
OE22 Z:CGU16 4.2 9.0 1.0
CB Z:CGU16 4.4 11.1 1.0
CB Z:ARG15 4.5 5.1 1.0
OE21 Z:CGU6 4.7 21.6 1.0
N Z:CGU16 4.8 11.8 1.0
CB Z:CGU6 4.9 15.4 1.0
CA Z:CGU16 4.9 12.2 1.0
CA Z:CA506 5.0 19.1 1.0

Calcium binding site 6 out of 7 in 9cm9

Go back to Calcium Binding Sites List in 9cm9
Calcium binding site 6 out of 7 in the Cryo-Em Model Derived From Localized Reconstruction of AD657-Hexon-Fx Complex at 3.86A Resolution


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 6 of Cryo-Em Model Derived From Localized Reconstruction of AD657-Hexon-Fx Complex at 3.86A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
Z:Ca506

b:19.1
occ:1.00
 OE21 Z:CGU20 2.4 12.8 1.0
OE11 Z:CGU16 3.3 12.7 1.0
CD2 Z:CGU20 3.5 10.2 1.0
CG Z:CGU20 4.0 13.1 1.0
OE22 Z:CGU6 4.1 18.9 1.0
CD1 Z:CGU16 4.3 12.0 1.0
N Z:ALA1 4.4 4.1 1.0
OE21 Z:CGU6 4.4 21.6 1.0
CD1 Z:CGU20 4.5 12.7 1.0
OE22 Z:CGU20 4.6 14.7 1.0
CD2 Z:CGU6 4.6 19.5 1.0
OE12 Z:CGU20 4.6 19.0 1.0
OE12 Z:CGU16 4.7 12.4 1.0
O Z:ARG15 4.7 10.5 1.0
CA Z:CA505 5.0 12.1 1.0

Calcium binding site 7 out of 7 in 9cm9

Go back to Calcium Binding Sites List in 9cm9
Calcium binding site 7 out of 7 in the Cryo-Em Model Derived From Localized Reconstruction of AD657-Hexon-Fx Complex at 3.86A Resolution


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 7 of Cryo-Em Model Derived From Localized Reconstruction of AD657-Hexon-Fx Complex at 3.86A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
Z:Ca507

b:23.3
occ:1.00
 OE12 Z:CGU19 2.5 20.5 1.0
OE12 Z:CGU14 2.5 17.1 1.0
CD1 Z:CGU14 3.3 13.0 1.0
SD Z:MET18 3.7 30.0 1.0
CD1 Z:CGU19 3.7 17.4 1.0
CG Z:CGU14 3.7 19.5 1.0
OE11 Z:CGU14 4.2 13.5 1.0
OE22 Z:CGU14 4.3 25.1 1.0
OE22 Z:CGU19 4.3 20.9 1.0
CE Z:MET18 4.4 30.0 1.0
OE11 Z:CGU19 4.5 15.2 1.0
CD2 Z:CGU14 4.5 19.1 1.0
CG Z:CGU19 4.7 19.9 1.0
O Z:CGU14 4.8 18.0 1.0
CB Z:CGU14 4.9 15.4 1.0
CD2 Z:CGU19 5.0 16.8 1.0

Reference:

H.E.Mudrick, S.C.Lu, J.Bhandari, M.E.Barry, J.R.Hemsath, F.G.M.Andres, O.X.Ma, M.A.Barry, V.S.Reddy. Structure-Derived Insights From Blood Factors Binding to the Surfaces of Different Adenoviruses. Nat Commun V. 15 9768 2024.
ISSN: ESSN 2041-1723
PubMed: 39528527
DOI: 10.1038/S41467-024-54049-9
Page generated: Tue Dec 10 18:50:58 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