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Gadolinium in PDB 3atb: Crystal Structure of the KIR3.2 Cytoplasmic Domain (Na+-Free Crystal Soaked in 10 Mm Gadolinium Chloride)

Protein crystallography data

The structure of Crystal Structure of the KIR3.2 Cytoplasmic Domain (Na+-Free Crystal Soaked in 10 Mm Gadolinium Chloride), PDB code: 3atb was solved by A.Inanobe, Y.Kurachi, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 48.30 / 3.51
Space group I 4 2 2
Cell size a, b, c (Å), α, β, γ (°) 82.373, 82.373, 172.810, 90.00, 90.00, 90.00
R / Rfree (%) 30.4 / 34.6

Gadolinium Binding Sites:

The binding sites of Gadolinium atom in the Crystal Structure of the KIR3.2 Cytoplasmic Domain (Na+-Free Crystal Soaked in 10 Mm Gadolinium Chloride) (pdb code 3atb). This binding sites where shown within 5.0 Angstroms radius around Gadolinium atom.
In total 2 binding sites of Gadolinium where determined in the Crystal Structure of the KIR3.2 Cytoplasmic Domain (Na+-Free Crystal Soaked in 10 Mm Gadolinium Chloride), PDB code: 3atb:
Jump to Gadolinium binding site number: 1; 2;

Gadolinium binding site 1 out of 2 in 3atb

Go back to Gadolinium Binding Sites List in 3atb
Gadolinium binding site 1 out of 2 in the Crystal Structure of the KIR3.2 Cytoplasmic Domain (Na+-Free Crystal Soaked in 10 Mm Gadolinium Chloride)


Mono view


Stereo pair view

A full contact list of Gadolinium with other atoms in the Gd binding site number 1 of Crystal Structure of the KIR3.2 Cytoplasmic Domain (Na+-Free Crystal Soaked in 10 Mm Gadolinium Chloride) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Gd1

b:0.5
occ:0.25
OE2 A:GLU236 3.2 50.8 1.0
OE1 A:GLU236 4.0 51.2 1.0
CD A:GLU236 4.0 51.3 1.0
CE A:MET313 4.6 50.8 0.5

Gadolinium binding site 2 out of 2 in 3atb

Go back to Gadolinium Binding Sites List in 3atb
Gadolinium binding site 2 out of 2 in the Crystal Structure of the KIR3.2 Cytoplasmic Domain (Na+-Free Crystal Soaked in 10 Mm Gadolinium Chloride)


Mono view


Stereo pair view

A full contact list of Gadolinium with other atoms in the Gd binding site number 2 of Crystal Structure of the KIR3.2 Cytoplasmic Domain (Na+-Free Crystal Soaked in 10 Mm Gadolinium Chloride) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Gd2

b:0.5
occ:1.00
OE2 A:GLU358 3.0 43.2 1.0
OE1 A:GLU358 3.5 41.1 1.0
OG A:SER355 3.6 39.3 1.0
CD A:GLU358 3.6 41.7 1.0
CB A:SER355 4.8 39.9 1.0
OD2 A:ASP352 4.9 48.2 1.0

Reference:

A.Inanobe, A.Nakagawa, Y.Kurachi. Interactions of Cations with the Cytoplasmic Pores of Inward Rectifier K(+) Channels in the Closed State J.Biol.Chem. V. 286 41801 2011.
ISSN: ISSN 0021-9258
PubMed: 21982822
DOI: 10.1074/JBC.M111.278531
Page generated: Sun Dec 13 18:59:24 2020

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