Atomistry » Calcium » PDB 9odw-9uuu » 9ud2
Atomistry »
  Calcium »
    PDB 9odw-9uuu »
      9ud2 »

Calcium in PDB 9ud2: Cryo-Em Structure of Na+-Translocating Nadh-Ubiquinone Oxidoreductase Nqrc-T225Y Mutant From Vibrio Cholerae Reduced By Nadh

Enzymatic activity of Cryo-Em Structure of Na+-Translocating Nadh-Ubiquinone Oxidoreductase Nqrc-T225Y Mutant From Vibrio Cholerae Reduced By Nadh

All present enzymatic activity of Cryo-Em Structure of Na+-Translocating Nadh-Ubiquinone Oxidoreductase Nqrc-T225Y Mutant From Vibrio Cholerae Reduced By Nadh:
7.2.1.1;

Other elements in 9ud2:

The structure of Cryo-Em Structure of Na+-Translocating Nadh-Ubiquinone Oxidoreductase Nqrc-T225Y Mutant From Vibrio Cholerae Reduced By Nadh also contains other interesting chemical elements:

Iron (Fe) 4 atoms

Calcium Binding Sites:

The binding sites of Calcium atom in the Cryo-Em Structure of Na+-Translocating Nadh-Ubiquinone Oxidoreductase Nqrc-T225Y Mutant From Vibrio Cholerae Reduced By Nadh (pdb code 9ud2). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total only one binding site of Calcium was determined in the Cryo-Em Structure of Na+-Translocating Nadh-Ubiquinone Oxidoreductase Nqrc-T225Y Mutant From Vibrio Cholerae Reduced By Nadh, PDB code: 9ud2:

Calcium binding site 1 out of 1 in 9ud2

Go back to Calcium Binding Sites List in 9ud2
Calcium binding site 1 out of 1 in the Cryo-Em Structure of Na+-Translocating Nadh-Ubiquinone Oxidoreductase Nqrc-T225Y Mutant From Vibrio Cholerae Reduced By Nadh


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Cryo-Em Structure of Na+-Translocating Nadh-Ubiquinone Oxidoreductase Nqrc-T225Y Mutant From Vibrio Cholerae Reduced By Nadh within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ca301

b:62.4
occ:1.00
 NE2 C:GLN93 2.7 61.1 1.0
N C:ALA119 3.5 73.2 1.0
CD C:GLN93 3.7 61.9 1.0
CB C:ALA119 3.9 72.8 1.0
CG C:GLN93 3.9 66.6 1.0
NE2 C:HIS141 3.9 41.4 1.0
CB C:ALA97 4.1 74.5 1.0
CH2 C:TRP238 4.2 50.4 1.0
CA C:ALA119 4.3 75.2 1.0
CA C:ARG118 4.3 79.3 1.0
C C:ARG118 4.4 79.1 1.0
O C:GLN93 4.5 67.3 1.0
CG C:ARG118 4.6 70.5 1.0
CZ2 C:TRP238 4.6 43.7 1.0
CD2 C:HIS141 4.8 38.6 1.0
CE1 C:HIS141 4.8 44.1 1.0
OE1 C:GLN93 4.8 59.1 1.0
O C:ALA119 5.0 80.5 1.0

Reference:

M.Ishikawa-Fukuda, T.Seki, J.I.Kishikawa, M.Takahiro, K.I.Okazaki, T.Kato, B.Barquera, H.Miyoshi, M.Murai. The Na + -Pumping Mechanism Driven By Redox Reactions in the Nadh-Quinone Oxidoreductase From Vibrio Cholerae Relies on Dynamic Conformational Changes. Biorxiv 2025.
ISSN: ISSN 2692-8205
PubMed: 40501732
DOI: 10.1101/2025.06.01.656757
Page generated: Thu Jul 10 10:27:11 2025

Last articles

Cl in 5H0Y
Cl in 5GZK
Cl in 5GXZ
Cl in 5GWF
Cl in 5GXY
Cl in 5GXX
Cl in 5GWI
Cl in 5GWJ
Cl in 5GWB
Cl in 5GWA
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy