Atomistry » Cadmium » PDB 6w87-7icf » 6w8a
Atomistry »
  Cadmium »
    PDB 6w87-7icf »
      6w8a »

Cadmium in PDB 6w8a: K2P2.1 (Trek-1):ML335 Complex, 10 Mm K+

Protein crystallography data

The structure of K2P2.1 (Trek-1):ML335 Complex, 10 Mm K+, PDB code: 6w8a was solved by M.Lolicato, D.L.Minor, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 15.00 / 3.00
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 66.867, 119.951, 129.245, 90, 90, 90
R / Rfree (%) 25.1 / 26.4

Other elements in 6w8a:

The structure of K2P2.1 (Trek-1):ML335 Complex, 10 Mm K+ also contains other interesting chemical elements:

Chlorine (Cl) 4 atoms
Potassium (K) 5 atoms

Cadmium Binding Sites:

The binding sites of Cadmium atom in the K2P2.1 (Trek-1):ML335 Complex, 10 Mm K+ (pdb code 6w8a). This binding sites where shown within 5.0 Angstroms radius around Cadmium atom.
In total 4 binding sites of Cadmium where determined in the K2P2.1 (Trek-1):ML335 Complex, 10 Mm K+, PDB code: 6w8a:
Jump to Cadmium binding site number: 1; 2; 3; 4;

Cadmium binding site 1 out of 4 in 6w8a

Go back to Cadmium Binding Sites List in 6w8a
Cadmium binding site 1 out of 4 in the K2P2.1 (Trek-1):ML335 Complex, 10 Mm K+


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 1 of K2P2.1 (Trek-1):ML335 Complex, 10 Mm K+ within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd409

b:261.5
occ:0.50
OD1 A:ASP263 3.3 196.3 1.0
C20 A:Q6F403 3.3 137.1 1.0
OD2 A:ASP263 3.7 200.5 1.0
CG A:ASP263 3.9 196.3 1.0
CE1 A:HIS126 3.9 154.4 1.0
O A:GLY261 4.2 134.9 1.0
ND1 A:HIS126 4.3 154.9 1.0
NE2 A:HIS126 4.7 156.3 1.0
S03 A:Q6F403 4.9 132.0 1.0

Cadmium binding site 2 out of 4 in 6w8a

Go back to Cadmium Binding Sites List in 6w8a
Cadmium binding site 2 out of 4 in the K2P2.1 (Trek-1):ML335 Complex, 10 Mm K+


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 2 of K2P2.1 (Trek-1):ML335 Complex, 10 Mm K+ within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cd403

b:290.5
occ:1.00
OD1 B:ASP263 3.2 173.3 1.0
OD2 B:ASP263 3.3 178.3 1.0
CE1 B:HIS126 3.4 157.3 1.0
CG B:ASP263 3.6 173.5 1.0
NE2 B:HIS126 4.0 152.8 1.0
ND1 B:HIS126 4.3 157.3 1.0
CD1 B:ILE115 4.5 210.9 1.0
O B:GLY261 5.0 139.5 1.0

Cadmium binding site 3 out of 4 in 6w8a

Go back to Cadmium Binding Sites List in 6w8a
Cadmium binding site 3 out of 4 in the K2P2.1 (Trek-1):ML335 Complex, 10 Mm K+


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 3 of K2P2.1 (Trek-1):ML335 Complex, 10 Mm K+ within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cd404

b:156.4
occ:1.00
OE1 B:GLU309 2.7 207.9 1.0
CE1 B:HIS313 2.9 161.3 1.0
CD B:GLU309 3.1 191.3 1.0
OE2 B:GLU309 3.1 186.2 1.0
ND1 B:HIS313 3.5 166.6 1.0
NE2 B:HIS313 3.9 152.1 1.0
CG B:GLU309 4.3 164.8 1.0
CA B:GLU309 4.4 151.0 1.0
CB B:GLU309 4.5 154.3 1.0
CG B:HIS313 4.7 164.8 1.0
O B:GLU309 4.7 149.2 1.0
CB B:ALA312 4.8 180.5 1.0
CD2 B:HIS313 4.9 152.2 1.0

Cadmium binding site 4 out of 4 in 6w8a

Go back to Cadmium Binding Sites List in 6w8a
Cadmium binding site 4 out of 4 in the K2P2.1 (Trek-1):ML335 Complex, 10 Mm K+


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 4 of K2P2.1 (Trek-1):ML335 Complex, 10 Mm K+ within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cd405

b:198.1
occ:0.61
OD2 B:ASP128 3.2 136.3 1.0
OD1 B:ASP128 3.8 135.5 1.0
CG B:ASP128 3.9 134.5 1.0
NZ B:LYS271 3.9 135.5 1.0
OG B:SER131 4.0 111.8 1.0
C16 B:Q6F409 4.4 120.4 1.0
CA B:GLY130 4.4 137.7 1.0
N B:SER131 4.4 123.4 1.0
C B:GLY130 4.6 129.1 1.0
N B:GLY130 4.7 143.2 1.0
C31 B:R16411 4.9 130.7 1.0

Reference:

M.Lolicato, A.M.Natale, F.Abderemane-Ali, D.Crottes, S.Capponi, R.Duman, A.Wagner, J.M.Rosenberg, M.Grabe, D.L.Minor Jr.. K 2P Channel C-Type Gating Involves Asymmetric Selectivity Filter Order-Disorder Transitions. Sci Adv V. 6 2020.
ISSN: ESSN 2375-2548
PubMed: 33127683
DOI: 10.1126/SCIADV.ABC9174
Page generated: Thu Jul 10 15:17:36 2025

Last articles

Cl in 3R1S
Cl in 3QVQ
Cl in 3R0W
Cl in 3R0V
Cl in 3R0S
Cl in 3R0N
Cl in 3R0L
Cl in 3QZU
Cl in 3QZE
Cl in 3QZI
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy