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Calcium in PDB 9cls: Cryo-Em Model Derived From Localized Reconstruction of Human Adenovirus 6 (AD6)-Hexon-Fii Complex

Enzymatic activity of Cryo-Em Model Derived From Localized Reconstruction of Human Adenovirus 6 (AD6)-Hexon-Fii Complex

All present enzymatic activity of Cryo-Em Model Derived From Localized Reconstruction of Human Adenovirus 6 (AD6)-Hexon-Fii Complex:
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 6 (AD6)-Hexon-Fii Complex (pdb code 9cls). 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 6 (AD6)-Hexon-Fii Complex, PDB code: 9cls:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6; 7;

Calcium binding site 1 out of 7 in 9cls

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Calcium binding site 1 out of 7 in the Cryo-Em Model Derived From Localized Reconstruction of Human Adenovirus 6 (AD6)-Hexon-Fii Complex


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 6 (AD6)-Hexon-Fii Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
Z:Ca601

b:13.5
occ:1.00
 OE22 Z:CGU29 2.5 10.3 1.0
OE21 Z:CGU25 2.6 16.1 1.0
OE21 Z:CGU29 2.7 14.5 1.0
CD2 Z:CGU29 2.7 12.2 1.0
CB L:THR433 3.2 150.0 1.0
OG K:SER278 3.2 30.0 1.0
OG1 K:THR279 3.3 30.0 1.0
CD2 Z:CGU25 3.6 15.3 1.0
OG1 L:THR433 3.6 186.6 1.0
CG2 L:THR433 3.7 159.9 1.0
CB K:THR279 3.9 30.0 1.0
CG Z:CGU29 3.9 13.0 1.0
CG Z:CGU25 4.2 17.7 1.0
N K:THR279 4.3 245.5 1.0
CA L:THR433 4.3 155.1 1.0
OE22 Z:CGU25 4.4 22.3 1.0
O L:THR433 4.4 164.9 1.0
N L:THR433 4.5 198.8 1.0
CB K:SER278 4.6 30.0 1.0
C L:THR433 4.6 159.8 1.0
OE11 Z:CGU25 4.7 16.5 1.0
NH2 L:ARG460 4.7 30.0 1.0
CA K:THR279 4.7 356.2 1.0
OE12 Z:CGU29 4.9 17.4 1.0
CD1 Z:CGU29 4.9 16.8 1.0
CD1 Z:CGU25 4.9 16.1 1.0
CB Z:CGU29 5.0 11.0 1.0

Calcium binding site 2 out of 7 in 9cls

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Calcium binding site 2 out of 7 in the Cryo-Em Model Derived From Localized Reconstruction of Human Adenovirus 6 (AD6)-Hexon-Fii Complex


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 6 (AD6)-Hexon-Fii Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
Z:Ca602

b:14.3
occ:1.00
 OE12 Z:CGU7 2.6 13.2 1.0
OE21 Z:CGU7 2.6 13.6 1.0
CD2 Z:CGU7 2.6 9.3 1.0
OE22 Z:CGU7 2.9 8.1 1.0
OE12 Z:CGU26 2.9 10.3 1.0
OE11 Z:CGU26 3.0 11.8 1.0
OE11 Z:CGU29 3.1 20.6 1.0
CD1 Z:CGU7 3.2 13.1 1.0
CD1 Z:CGU26 3.3 14.3 1.0
CG Z:CGU7 3.5 10.9 1.0
CD1 Z:CGU29 3.5 16.8 1.0
OE11 Z:CGU25 3.8 16.5 1.0
OE22 Z:CGU29 3.9 10.3 1.0
CA Z:CA603 4.0 9.4 1.0
OE12 Z:CGU29 4.0 17.4 1.0
CD2 Z:CGU29 4.1 12.2 1.0
OE11 Z:CGU7 4.2 8.1 1.0
CG Z:CGU29 4.3 13.0 1.0
CB Z:CGU29 4.6 11.0 1.0
CG Z:CGU26 4.7 13.6 1.0
OE21 Z:CGU29 4.7 14.5 1.0
CB Z:CGU7 4.7 13.2 1.0
CD1 Z:CGU25 5.0 16.1 1.0

Calcium binding site 3 out of 7 in 9cls

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Calcium binding site 3 out of 7 in the Cryo-Em Model Derived From Localized Reconstruction of Human Adenovirus 6 (AD6)-Hexon-Fii Complex


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 6 (AD6)-Hexon-Fii Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
Z:Ca603

b:9.4
occ:1.00
 OE12 Z:CGU7 2.4 13.2 1.0
OE12 Z:CGU6 2.5 15.9 1.0
OE21 Z:CGU16 2.5 4.8 1.0
OE22 Z:CGU16 2.5 9.0 1.0
OE12 Z:CGU26 2.7 10.3 1.0
CD2 Z:CGU16 2.8 8.4 1.0
CD1 Z:CGU7 3.3 13.1 1.0
OE11 Z:CGU7 3.5 8.1 1.0
CD1 Z:CGU6 3.5 17.6 1.0
CD1 Z:CGU26 3.7 14.3 1.0
OE11 Z:CGU6 3.7 22.5 1.0
CA Z:CA602 4.0 14.3 1.0
CG Z:CGU16 4.1 7.4 1.0
OE11 Z:CGU26 4.3 11.8 1.0
NH2 Z:ARG15 4.4 84.0 1.0
O Z:CGU6 4.6 15.4 1.0
CG Z:CGU26 4.7 13.6 1.0
CB Z:CGU26 4.7 14.9 1.0
OE22 Z:CGU26 4.7 10.6 1.0
CA Z:GLY11 4.8 61.8 1.0
CG Z:CGU7 4.8 10.9 1.0
CG Z:CGU6 4.8 18.2 1.0
CA Z:CGU7 4.9 13.4 1.0
OE11 Z:CGU29 5.0 20.6 1.0

Calcium binding site 4 out of 7 in 9cls

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Calcium binding site 4 out of 7 in the Cryo-Em Model Derived From Localized Reconstruction of Human Adenovirus 6 (AD6)-Hexon-Fii Complex


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 6 (AD6)-Hexon-Fii Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
Z:Ca604

b:12.6
occ:1.00
 OE22 Z:CGU26 2.3 10.6 1.0
OE11 Z:CGU6 2.4 22.5 1.0
OE11 Z:CGU16 2.5 12.7 1.0
N Z:ALA1 3.0 28.7 1.0
CA Z:ALA1 3.0 28.7 1.0
CD1 Z:CGU16 3.2 12.0 1.0
CA Z:CA605 3.2 12.1 1.0
OE11 Z:CGU7 3.3 8.1 1.0
CD2 Z:CGU26 3.4 11.2 1.0
OE22 Z:CGU16 3.4 9.0 1.0
O Z:ALA1 3.5 28.7 1.0
C Z:ALA1 3.5 28.7 1.0
OE12 Z:CGU16 3.7 12.4 1.0
CD1 Z:CGU6 3.7 17.6 1.0
OE21 Z:CGU26 3.9 14.4 1.0
CG Z:CGU16 4.2 7.4 1.0
OE22 Z:CGU6 4.2 18.9 1.0
CD2 Z:CGU16 4.2 8.4 1.0
CB Z:ALA1 4.3 28.7 1.0
O Z:ASN2 4.5 40.0 1.0
CB Z:CGU6 4.5 15.4 1.0
CD1 Z:CGU7 4.5 13.1 1.0
OE12 Z:CGU6 4.6 15.9 1.0
CG Z:CGU6 4.6 18.2 1.0
N Z:ASN2 4.6 40.0 1.0
CG Z:CGU26 4.6 13.6 1.0
CD1 Z:CGU26 4.7 14.3 1.0
OE11 Z:CGU26 4.7 11.8 1.0
CD2 Z:CGU6 4.9 19.5 1.0
OE22 Z:CGU20 4.9 14.7 1.0

Calcium binding site 5 out of 7 in 9cls

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Calcium binding site 5 out of 7 in the Cryo-Em Model Derived From Localized Reconstruction of Human Adenovirus 6 (AD6)-Hexon-Fii Complex


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 6 (AD6)-Hexon-Fii Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
Z:Ca605

b:12.1
occ:1.00
 O Z:ASN2 2.4 40.0 1.0
OE22 Z:CGU6 2.4 18.9 1.0
N Z:ALA1 2.5 28.7 1.0
OE11 Z:CGU16 2.5 12.7 1.0
OE22 Z:CGU20 2.5 14.7 1.0
C Z:ALA1 3.1 28.7 1.0
N Z:ASN2 3.2 40.0 1.0
CA Z:CA604 3.2 12.6 1.0
CA Z:ALA1 3.3 28.7 1.0
CD2 Z:CGU6 3.4 19.5 1.0
C Z:ASN2 3.4 40.0 1.0
CD2 Z:CGU20 3.4 10.2 1.0
OE11 Z:CGU6 3.5 22.5 1.0
OG1 Z:THR3 3.5 46.5 1.0
OE21 Z:CGU20 3.7 12.8 1.0
O Z:ALA1 3.7 28.7 1.0
CD1 Z:CGU16 3.7 12.0 1.0
CA Z:ASN2 3.9 40.0 1.0
CG Z:CGU6 4.0 18.2 1.0
CB Z:CGU6 4.0 15.4 1.0
CD1 Z:CGU6 4.1 17.6 1.0
OE21 Z:CGU6 4.2 21.6 1.0
N Z:THR3 4.6 46.5 1.0
OE12 Z:CGU16 4.6 12.4 1.0
CG Z:CGU16 4.6 7.4 1.0
CB Z:ALA1 4.6 28.7 1.0
O Z:THR3 4.7 46.5 1.0
CB Z:THR3 4.8 46.5 1.0
CG Z:CGU20 4.8 13.1 1.0
CB Z:ASN2 4.8 40.0 1.0
O Z:ARG15 4.9 84.0 1.0

Calcium binding site 6 out of 7 in 9cls

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Calcium binding site 6 out of 7 in the Cryo-Em Model Derived From Localized Reconstruction of Human Adenovirus 6 (AD6)-Hexon-Fii Complex


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 6 (AD6)-Hexon-Fii Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
Z:Ca606

b:19.1
occ:1.00
 CG2 Z:THR3 3.5 46.5 1.0
OE21 Z:CGU20 3.9 12.8 1.0
OG1 Z:THR3 4.1 46.5 1.0
CB Z:THR3 4.4 46.5 1.0
OE21 Z:CGU6 4.6 21.6 1.0

Calcium binding site 7 out of 7 in 9cls

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Calcium binding site 7 out of 7 in the Cryo-Em Model Derived From Localized Reconstruction of Human Adenovirus 6 (AD6)-Hexon-Fii Complex


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 6 (AD6)-Hexon-Fii Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
Z:Ca607

b:23.3
occ:1.00
 OE22 Z:CGU14 2.4 25.1 1.0
OE21 Z:CGU19 2.5 22.9 1.0
OE22 Z:CGU19 2.5 20.9 1.0
CD2 Z:CGU19 2.8 16.8 1.0
CD2 Z:CGU14 3.0 19.1 1.0
OE21 Z:CGU14 3.2 21.5 1.0
CG Z:CGU14 4.1 19.5 1.0
CG Z:CGU19 4.2 19.9 1.0
OE12 Z:CGU14 4.5 17.1 1.0
OE12 Z:CGU19 4.7 20.5 1.0
NE Z:ARG54 4.7 86.5 1.0
CD1 Z:CGU14 4.7 13.0 1.0
CD1 Z:CGU19 4.8 17.4 1.0
NH2 J:ARG460 4.9 30.0 1.0
O Z:CGU14 4.9 18.0 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: Thu Jul 10 09:06:17 2025

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