Potassium in PDB 3vd8: Crystal Structure of Human AIM2 Pyd Domain with Mbp Fusion

The structure of Crystal Structure of Human AIM2 Pyd Domain with Mbp Fusion, PDB code: 3vd8 was solved by T.C.Jin, A.Perry, P.Smith, T.S.Xiao, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	38.89 / 2.07
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	61.599, 91.934, 100.281, 90.00, 90.00, 90.00
R / Rfree (%)	18.2 / 22.1

The binding sites of Potassium atom in the Crystal Structure of Human AIM2 Pyd Domain with Mbp Fusion (pdb code 3vd8). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 4 binding sites of Potassium where determined in the Crystal Structure of Human AIM2 Pyd Domain with Mbp Fusion, PDB code: 3vd8:
Jump to Potassium binding site number: 1; 2; 3; 4;

Potassium binding site 1 out of 4 in the Crystal Structure of Human AIM2 Pyd Domain with Mbp Fusion


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Crystal Structure of Human AIM2 Pyd Domain with Mbp Fusion within 5.0Å range: probe atom residue distance (Å) B Occ A:K1206 b:50.7 occ:1.00 O A:SER238 2.7 44.5 1.0 O A:ILE235 2.8 38.3 1.0 O A:VAL240 2.9 38.6 1.0 O A:HOH1530 3.1 56.0 1.0 O A:HOH1592 3.1 62.1 1.0 O A:ASP236 3.1 40.3 1.0 C A:ASP236 3.6 39.5 1.0 C A:SER238 3.7 39.8 1.0 CA A:ASP236 3.7 42.8 1.0 C A:VAL240 3.8 37.1 1.0 C A:ILE235 3.9 38.6 1.0 N A:VAL240 3.9 41.3 1.0 O A:HOH1414 4.0 51.4 1.0 OG A:SER238 4.2 32.9 1.0 C A:ALA239 4.3 46.8 1.0 N A:ASP236 4.3 36.3 1.0 N A:SER238 4.3 40.3 1.0 CA A:VAL240 4.4 37.7 1.0 N A:ALA239 4.5 39.8 1.0 CA A:SER238 4.5 39.7 1.0 CA A:ALA239 4.5 42.5 1.0 N A:THR237 4.6 39.2 1.0 N A:ASN241 4.7 33.7 1.0 C A:THR237 4.8 48.2 1.0 O A:ALA239 4.9 49.7 1.0

Potassium binding site 2 out of 4 in the Crystal Structure of Human AIM2 Pyd Domain with Mbp Fusion


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Crystal Structure of Human AIM2 Pyd Domain with Mbp Fusion within 5.0Å range: probe atom residue distance (Å) B Occ A:K1207 b:53.8 occ:1.00 O A:HOH1542 2.6 45.2 1.0 OG1 A:THR249 2.8 33.6 1.0 N A:GLY252 2.9 31.7 1.0 OE1 A:GLU130 3.0 34.6 1.0 O A:THR249 3.2 24.9 1.0 N A:LYS251 3.2 31.7 1.0 C A:THR249 3.3 24.9 1.0 N A:PHE250 3.6 25.9 1.0 CB A:THR128 3.6 28.9 1.0 C A:PHE250 3.6 33.0 1.0 CB A:THR249 3.6 28.2 1.0 CG2 A:THR128 3.6 28.1 1.0 CA A:PHE250 3.6 27.2 1.0 CD A:GLU130 3.6 30.5 1.0 OE2 A:GLU130 3.6 34.2 1.0 CA A:GLY252 3.7 34.5 1.0 C A:LYS251 3.9 32.6 1.0 CA A:LYS251 3.9 34.3 1.0 CA A:THR249 4.1 29.3 1.0 CA A:THR128 4.3 23.8 1.0 O A:HOH1420 4.4 43.6 1.0 O A:PHE250 4.4 30.0 1.0 C A:GLY252 4.5 34.6 1.0 OG1 A:THR128 4.7 33.6 1.0 N A:GLN253 4.7 34.1 1.0 N A:TRP129 4.8 24.5 1.0 N A:THR249 4.9 25.0 1.0 CG A:GLU130 4.9 33.8 1.0 CG2 A:THR249 4.9 30.3 1.0

Potassium binding site 3 out of 4 in the Crystal Structure of Human AIM2 Pyd Domain with Mbp Fusion


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 3 of Crystal Structure of Human AIM2 Pyd Domain with Mbp Fusion within 5.0Å range: probe atom residue distance (Å) B Occ A:K1208 b:62.6 occ:1.00 O A:HOH1452 2.3 44.2 1.0 O A:LEU147 2.8 27.7 1.0 O A:HIS203 3.0 32.7 1.0 O A:HOH1342 3.2 33.0 1.0 CG A:MET148 3.3 37.7 1.0 O A:HOH1533 3.5 38.9 1.0 CA A:MET204 3.5 30.4 0.7 CA A:MET204 3.6 30.4 0.3 O A:HOH1350 3.7 33.0 1.0 CG A:MET204 3.7 32.6 0.7 C A:HIS203 3.8 32.2 1.0 C A:LEU147 3.8 32.1 1.0 CB A:MET204 4.1 27.5 0.7 N A:MET204 4.1 29.0 0.3 N A:MET204 4.1 28.8 0.7 OG A:SER145 4.1 37.0 1.0 CB A:SER145 4.1 28.2 1.0 CB A:MET204 4.3 28.1 0.3 SD A:MET148 4.3 50.5 1.0 CG A:MET204 4.3 30.1 0.3 C A:MET204 4.4 28.5 0.7 CB A:MET148 4.4 26.3 1.0 N A:ASN205 4.4 25.5 1.0 CA A:MET148 4.4 29.8 1.0 C A:MET204 4.5 28.7 0.3 N A:MET148 4.5 23.9 1.0 N A:LEU147 4.7 30.8 1.0 O A:HOH1315 4.8 27.9 1.0 CA A:LEU147 4.9 34.2 1.0 O A:HOH1517 4.9 53.4 1.0 ND2 A:ASN205 4.9 47.1 1.0 CE A:MET204 4.9 29.2 0.3 SD A:MET204 5.0 33.4 0.7

Potassium binding site 4 out of 4 in the Crystal Structure of Human AIM2 Pyd Domain with Mbp Fusion


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 4 of Crystal Structure of Human AIM2 Pyd Domain with Mbp Fusion within 5.0Å range: probe atom residue distance (Å) B Occ A:K1209 b:54.9 occ:1.00 O A:HOH1510 2.6 44.9 1.0 O A:ASP65 2.6 28.7 1.0 N A:GLY69 2.9 34.4 1.0 O A:ILE333 3.0 27.5 1.0 O A:ASN332 3.1 30.2 1.0 O A:ARG66 3.4 27.4 1.0 C A:ARG66 3.5 29.4 1.0 C A:ILE333 3.6 28.9 1.0 CA A:GLY69 3.6 33.2 1.0 N A:GLY68 3.7 29.4 1.0 C A:ASP65 3.7 28.6 1.0 CA A:ARG66 3.7 32.1 1.0 O A:HOH1334 3.8 32.4 1.0 CA A:PRO334 3.8 26.6 1.0 C A:GLY68 3.8 37.7 1.0 C A:ASN332 3.8 28.4 1.0 CA A:GLY68 3.9 36.3 1.0 N A:PRO334 4.0 30.4 1.0 N A:PHE67 4.2 29.9 1.0 N A:ARG66 4.2 23.9 1.0 CB A:MET336 4.3 24.7 1.0 C A:PRO334 4.3 31.8 1.0 O A:PRO334 4.4 30.3 1.0 N A:ILE333 4.5 22.1 1.0 C A:PHE67 4.5 31.3 1.0 CA A:ASN332 4.6 25.1 1.0 CA A:ILE333 4.6 27.4 1.0 O A:HOH1610 4.7 43.0 1.0 O A:HOH1507 4.8 49.7 1.0 N A:MET336 4.9 24.4 1.0 O A:GLY68 4.9 35.0 1.0 CG A:MET336 4.9 18.7 1.0 C A:GLY69 4.9 34.2 1.0 CA A:PHE67 4.9 33.0 1.0 CA A:ASP65 5.0 26.9 1.0

T.Jin, A.Perry, P.Smith, J.Jiang, T.S.Xiao. Structure of the Absent in Melanoma 2 (AIM2) Pyrin Domain Provides Insights Into the Mechanisms of AIM2 Autoinhibition and Inflammasome Assembly. J.Biol.Chem. V. 288 13225 2013.
ISSN: ISSN 0021-9258
PubMed: 23530044
DOI: 10.1074/JBC.M113.468033