Calcium in PDB 9cln: Cryo-Em Model Derived From Localized Reconstruction of Human Adenovirus 5 (AD5)-Hexon-Fii Complex at 3.9A Resolution

Enzymatic activity of Cryo-Em Model Derived From Localized Reconstruction of Human Adenovirus 5 (AD5)-Hexon-Fii Complex at 3.9A Resolution

All present enzymatic activity of Cryo-Em Model Derived From Localized Reconstruction of Human Adenovirus 5 (AD5)-Hexon-Fii Complex at 3.9A Resolution:
3.4.21.5;

Calcium Binding Sites:

The binding sites of Calcium atom in the Cryo-Em Model Derived From Localized Reconstruction of Human Adenovirus 5 (AD5)-Hexon-Fii Complex at 3.9A Resolution (pdb code 9cln). 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 Human Adenovirus 5 (AD5)-Hexon-Fii Complex at 3.9A Resolution, PDB code: 9cln:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6; 7;

Calcium binding site 1 out of 7 in 9cln

Go back to Calcium Binding Sites List in 9cln
Calcium binding site 1 out of 7 in the Cryo-Em Model Derived From Localized Reconstruction of Human Adenovirus 5 (AD5)-Hexon-Fii Complex at 3.9A 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 Human Adenovirus 5 (AD5)-Hexon-Fii Complex at 3.9A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
K:Ca1001

b:13.5
occ:1.00
OG1 K:THR425 2.0 67.5 1.0
N K:THR425 2.2 67.5 1.0
CB K:THR425 2.5 67.5 1.0
OE12 Z:CGU25 2.6 14.6 1.0
CA K:THR425 2.8 67.5 1.0
CD1 Z:CGU25 3.0 16.1 1.0
OE11 Z:CGU25 3.2 16.5 1.0
C K:GLU424 3.3 65.7 1.0
C K:THR425 3.5 67.5 1.0
O K:THR425 3.6 67.5 1.0
CA K:GLU424 3.7 65.7 1.0
CB K:GLU424 3.9 65.7 1.0
CG2 K:THR425 4.0 67.5 1.0
CG Z:CGU25 4.1 17.7 1.0
O K:GLU424 4.3 65.7 1.0
CD2 Z:CGU25 4.5 15.3 1.0
N K:LEU426 4.6 67.0 1.0
CG K:GLU424 4.7 65.7 1.0
OG1 J:THR270 4.8 76.3 1.0
OE21 Z:CGU25 4.9 16.1 1.0
OE22 Z:CGU25 4.9 22.3 1.0

Calcium binding site 2 out of 7 in 9cln

Go back to Calcium Binding Sites List in 9cln
Calcium binding site 2 out of 7 in the Cryo-Em Model Derived From Localized Reconstruction of Human Adenovirus 5 (AD5)-Hexon-Fii Complex at 3.9A 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 Human Adenovirus 5 (AD5)-Hexon-Fii Complex at 3.9A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
Z:Ca601

b:14.3
occ:1.00
OE11 Z:CGU7 2.5 8.1 1.0
OE22 Z:CGU7 2.5 8.1 1.0
CD1 Z:CGU7 3.2 13.1 1.0
CD2 Z:CGU7 3.2 9.3 1.0
CG Z:CGU7 3.5 10.9 1.0
OE11 Z:CGU26 3.7 11.8 1.0
CD1 Z:CGU26 4.2 14.3 1.0
OE21 Z:CGU7 4.2 13.6 1.0
OE12 Z:CGU7 4.3 13.2 1.0
OE12 Z:CGU26 4.5 10.3 1.0
CA Z:CA602 4.9 9.4 1.0
CG Z:CGU26 4.9 13.6 1.0

Calcium binding site 3 out of 7 in 9cln

Go back to Calcium Binding Sites List in 9cln
Calcium binding site 3 out of 7 in the Cryo-Em Model Derived From Localized Reconstruction of Human Adenovirus 5 (AD5)-Hexon-Fii Complex at 3.9A 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 Human Adenovirus 5 (AD5)-Hexon-Fii Complex at 3.9A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
Z:Ca602

b:9.4
occ:1.00
OE12 Z:CGU26 2.5 10.3 1.0
OE11 Z:CGU26 2.5 11.8 1.0
OE22 Z:CGU29 2.7 10.3 1.0
CD1 Z:CGU26 2.8 14.3 1.0
OE21 Z:CGU29 3.2 14.5 1.0
N Z:GLY11 3.3 61.8 1.0
CD2 Z:CGU29 3.3 12.2 1.0
OE11 Z:CGU7 3.6 8.1 1.0
CA Z:GLY11 3.7 61.8 1.0
OE22 Z:CGU16 3.9 9.0 1.0
OE21 Z:CGU16 4.0 4.8 1.0
O Z:ARG9 4.0 52.3 1.0
C Z:LYS10 4.2 56.1 1.0
CG Z:CGU26 4.3 13.6 1.0
CD2 Z:CGU16 4.4 8.4 1.0
CA Z:LYS10 4.5 56.1 1.0
CD1 Z:CGU7 4.5 13.1 1.0
CA Z:CA603 4.6 12.6 1.0
CA Z:CGU26 4.7 15.5 1.0
CG Z:CGU29 4.7 13.0 1.0
CB Z:CGU26 4.8 14.9 1.0
O Z:CGU6 4.9 15.4 1.0
CA Z:CA601 4.9 14.3 1.0

Calcium binding site 4 out of 7 in 9cln

Go back to Calcium Binding Sites List in 9cln
Calcium binding site 4 out of 7 in the Cryo-Em Model Derived From Localized Reconstruction of Human Adenovirus 5 (AD5)-Hexon-Fii Complex at 3.9A 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 Human Adenovirus 5 (AD5)-Hexon-Fii Complex at 3.9A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
Z:Ca603

b:12.6
occ:1.00
OE22 Z:CGU16 2.3 9.0 1.0
OE22 Z:CGU26 2.4 10.6 1.0
OE12 Z:CGU16 2.4 12.4 1.0
N Z:ALA1 2.5 28.7 1.0
OE12 Z:CGU26 2.6 10.3 1.0
OE12 Z:CGU6 2.6 15.9 1.0
CD2 Z:CGU16 2.7 8.4 1.0
CD1 Z:CGU16 3.1 12.0 1.0
OE21 Z:CGU16 3.2 4.8 1.0
CA Z:CA604 3.3 12.1 1.0
CD2 Z:CGU26 3.3 11.2 1.0
CA Z:ALA1 3.4 28.7 1.0
CG Z:CGU16 3.4 7.4 1.0
CD1 Z:CGU26 3.6 14.3 1.0
CD1 Z:CGU6 3.9 17.6 1.0
CG Z:CGU26 4.0 13.6 1.0
OE21 Z:CGU26 4.1 14.4 1.0
OE11 Z:CGU16 4.2 12.7 1.0
NH2 Z:ARG15 4.2 84.0 1.0
CB Z:CGU16 4.2 11.1 1.0
C Z:ALA1 4.3 28.7 1.0
N Z:ASN2 4.4 40.0 1.0
CB Z:ALA1 4.5 28.7 1.0
OE11 Z:CGU6 4.5 22.5 1.0
CA Z:CA602 4.6 9.4 1.0
OE11 Z:CGU26 4.7 11.8 1.0
OE22 Z:CGU20 4.8 14.7 1.0
CB Z:CGU26 4.8 14.9 1.0
O Z:ASN2 4.9 40.0 1.0
O Z:CGU6 4.9 15.4 1.0
CG Z:CGU6 5.0 18.2 1.0
OE21 Z:CGU20 5.0 12.8 1.0

Calcium binding site 5 out of 7 in 9cln

Go back to Calcium Binding Sites List in 9cln
Calcium binding site 5 out of 7 in the Cryo-Em Model Derived From Localized Reconstruction of Human Adenovirus 5 (AD5)-Hexon-Fii Complex at 3.9A 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 Human Adenovirus 5 (AD5)-Hexon-Fii Complex at 3.9A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
Z:Ca604

b:12.1
occ:1.00
OE12 Z:CGU16 2.4 12.4 1.0
OE12 Z:CGU6 2.4 15.9 1.0
OE21 Z:CGU20 2.5 12.8 1.0
N Z:ALA1 2.5 28.7 1.0
OE11 Z:CGU6 2.6 22.5 1.0
CD1 Z:CGU6 2.7 17.6 1.0
OE22 Z:CGU20 2.9 14.7 1.0
CD2 Z:CGU20 3.1 10.2 1.0
CD1 Z:CGU16 3.3 12.0 1.0
CA Z:CA603 3.3 12.6 1.0
N Z:ASN2 3.4 40.0 1.0
OE11 Z:CGU16 3.4 12.7 1.0
O Z:ASN2 3.7 40.0 1.0
CA Z:ALA1 3.8 28.7 1.0
OG1 Z:THR3 4.0 46.5 1.0
CG Z:CGU6 4.1 18.2 1.0
C Z:ALA1 4.1 28.7 1.0
C Z:ASN2 4.2 40.0 1.0
CB Z:CGU6 4.3 15.4 1.0
CA Z:ASN2 4.3 40.0 1.0
CA Z:CA605 4.4 19.1 1.0
OE22 Z:CGU16 4.5 9.0 1.0
CG Z:CGU20 4.6 13.1 1.0
CG Z:CGU16 4.6 7.4 1.0
CB Z:ALA1 4.7 28.7 1.0
CB Z:ASN2 4.9 40.0 1.0
OE22 Z:CGU26 4.9 10.6 1.0
CD2 Z:CGU16 4.9 8.4 1.0
CD2 Z:CGU6 4.9 19.5 1.0

Calcium binding site 6 out of 7 in 9cln

Go back to Calcium Binding Sites List in 9cln
Calcium binding site 6 out of 7 in the Cryo-Em Model Derived From Localized Reconstruction of Human Adenovirus 5 (AD5)-Hexon-Fii Complex at 3.9A 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 Human Adenovirus 5 (AD5)-Hexon-Fii Complex at 3.9A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
Z:Ca605

b:19.1
occ:1.00
OE11 Z:CGU6 2.4 22.5 1.0
OE11 Z:CGU16 2.5 12.7 1.0
CD Z:ARG15 2.9 84.0 1.0
NE Z:ARG15 3.1 84.0 1.0
OE22 Z:CGU6 3.1 18.9 1.0
CG Z:ARG15 3.1 84.0 1.0
OE21 Z:CGU20 3.3 12.8 1.0
CD1 Z:CGU6 3.4 17.6 1.0
CZ Z:ARG15 3.5 84.0 1.0
CD1 Z:CGU16 3.7 12.0 1.0
NH1 Z:ARG15 3.7 84.0 1.0
CD2 Z:CGU6 3.9 19.5 1.0
OE12 Z:CGU6 4.2 15.9 1.0
CG Z:CGU6 4.3 18.2 1.0
CD2 Z:CGU20 4.4 10.2 1.0
NH2 Z:ARG15 4.4 84.0 1.0
OE12 Z:CGU16 4.4 12.4 1.0
CA Z:CA604 4.4 12.1 1.0
CB Z:ARG15 4.6 84.0 1.0
CG Z:CGU16 4.7 7.4 1.0
OE21 Z:CGU6 4.8 21.6 1.0
CG Z:CGU20 4.8 13.1 1.0

Calcium binding site 7 out of 7 in 9cln

Go back to Calcium Binding Sites List in 9cln
Calcium binding site 7 out of 7 in the Cryo-Em Model Derived From Localized Reconstruction of Human Adenovirus 5 (AD5)-Hexon-Fii Complex at 3.9A 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 Human Adenovirus 5 (AD5)-Hexon-Fii Complex at 3.9A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
Z:Ca606

b:23.3
occ:1.00
OE21 Z:CGU14 2.6 21.5 1.0
CD2 Z:CGU14 3.5 19.1 1.0
OE22 Z:CGU14 3.7 25.1 1.0
OE21 Z:CGU19 4.4 22.9 1.0
OE22 Z:CGU19 4.6 20.9 1.0
CD2 Z:CGU19 4.9 16.8 1.0
CG Z:CGU14 4.9 19.5 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 18:50:46 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