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Calcium in PDB 9u5g: Cryo-Em Structure of Na+-Translocating Nadh-Ubiquinone Oxidoreductase Nqrc-T225Y Mutant From Vibrio Cholerae

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

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

Other elements in 9u5g:

The structure of Cryo-Em Structure of Na+-Translocating Nadh-Ubiquinone Oxidoreductase Nqrc-T225Y Mutant From Vibrio Cholerae 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 (pdb code 9u5g). 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, PDB code: 9u5g:

Calcium binding site 1 out of 1 in 9u5g

Go back to Calcium Binding Sites List in 9u5g
Calcium binding site 1 out of 1 in the Cryo-Em Structure of Na+-Translocating Nadh-Ubiquinone Oxidoreductase Nqrc-T225Y Mutant From Vibrio Cholerae


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 within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ca301

b:143.6
occ:1.00
 NE2 C:GLN93 2.8 135.8 1.0
N C:ALA119 3.4 140.0 1.0
CG C:GLN93 3.7 136.4 1.0
CD C:GLN93 3.7 134.1 1.0
CB C:ALA119 3.7 139.0 1.0
NE2 C:HIS141 4.0 117.3 1.0
CB C:ALA97 4.1 143.6 1.0
CA C:ALA119 4.2 139.8 1.0
CA C:ARG118 4.3 137.5 1.0
CH2 C:TRP238 4.3 118.8 1.0
CG C:ARG118 4.3 135.3 1.0
C C:ARG118 4.4 140.2 1.0
O C:GLN93 4.6 140.2 1.0
O C:HOH401 4.6 112.0 1.0
CE1 C:HIS141 4.7 113.8 1.0
CZ2 C:TRP238 4.8 118.0 1.0
OE1 C:GLN93 4.9 129.6 1.0
CB C:ARG118 4.9 137.0 1.0
O C:ALA119 5.0 142.1 1.0
CB C:GLN93 5.0 133.0 1.0
O C:ARG117 5.0 143.3 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 10:26:54 2025

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