Atomistry » Magnesium » PDB 1duh-1e9a » 1e42
Atomistry »
  Magnesium »
    PDB 1duh-1e9a »
      1e42 »

Magnesium in PDB 1e42: BETA2-Adaptin Appendage Domain, From Clathrin Adaptor AP2

Protein crystallography data

The structure of BETA2-Adaptin Appendage Domain, From Clathrin Adaptor AP2, PDB code: 1e42 was solved by D.J.Owen, P.R.Evans, H.T.Mcmahon, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 67.42 / 1.7
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 97.040, 124.590, 67.640, 90.00, 124.18, 90.00
R / Rfree (%) 19.6 / 24.6

Other elements in 1e42:

The structure of BETA2-Adaptin Appendage Domain, From Clathrin Adaptor AP2 also contains other interesting chemical elements:

Nickel (Ni) 1 atom
Chlorine (Cl) 4 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the BETA2-Adaptin Appendage Domain, From Clathrin Adaptor AP2 (pdb code 1e42). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the BETA2-Adaptin Appendage Domain, From Clathrin Adaptor AP2, PDB code: 1e42:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in 1e42

Go back to Magnesium Binding Sites List in 1e42
Magnesium binding site 1 out of 4 in the BETA2-Adaptin Appendage Domain, From Clathrin Adaptor AP2


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of BETA2-Adaptin Appendage Domain, From Clathrin Adaptor AP2 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg960

b:42.1
occ:1.00
OD1 A:ASN872 2.1 29.7 1.0
O A:HOH2337 2.1 45.8 1.0
O A:HOH2198 2.1 42.4 1.0
O A:HOH2338 2.1 45.8 1.0
O A:HOH2332 2.1 37.2 1.0
O A:HOH2340 2.1 46.5 1.0
CG A:ASN872 3.1 33.2 1.0
O A:HOH2201 3.3 49.7 1.0
ND2 A:ASN872 3.6 32.9 1.0
O A:HOH2032 3.9 49.7 1.0
OH A:TYR874 4.1 34.7 1.0
O A:GLN869 4.4 28.0 1.0
CB A:ASN872 4.4 28.1 1.0
CA A:ASN872 4.6 27.5 1.0
N A:ASN872 4.7 25.3 1.0
CG A:GLU828 4.7 37.9 1.0
CA A:GLU828 4.9 28.5 1.0
CB A:GLU828 4.9 29.3 1.0

Magnesium binding site 2 out of 4 in 1e42

Go back to Magnesium Binding Sites List in 1e42
Magnesium binding site 2 out of 4 in the BETA2-Adaptin Appendage Domain, From Clathrin Adaptor AP2


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of BETA2-Adaptin Appendage Domain, From Clathrin Adaptor AP2 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg960

b:35.4
occ:1.00
O B:HOH2357 2.1 39.5 1.0
OD1 B:ASN872 2.1 27.0 1.0
O B:HOH2225 2.1 40.3 1.0
O B:HOH2358 2.1 40.6 1.0
O B:HOH2361 2.1 39.0 1.0
O B:HOH2351 2.1 35.6 1.0
CG B:ASN872 3.2 28.4 1.0
ND2 B:ASN872 3.7 23.8 1.0
OH B:TYR874 3.9 34.1 1.0
O B:HOH2032 4.2 44.4 1.0
O B:GLN869 4.3 25.3 1.0
O B:HOH2355 4.3 44.8 1.0
CB B:ASN872 4.4 19.9 1.0
CA B:ASN872 4.6 20.4 1.0
N B:ASN872 4.6 18.8 1.0
OE1 B:GLN869 4.8 49.2 1.0
CG B:GLU828 4.9 36.2 1.0
CZ B:TYR874 5.0 29.1 1.0

Magnesium binding site 3 out of 4 in 1e42

Go back to Magnesium Binding Sites List in 1e42
Magnesium binding site 3 out of 4 in the BETA2-Adaptin Appendage Domain, From Clathrin Adaptor AP2


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of BETA2-Adaptin Appendage Domain, From Clathrin Adaptor AP2 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg961

b:44.6
occ:1.00
O B:HOH2389 2.0 38.6 1.0
O B:HOH2332 2.1 43.0 1.0
O B:HOH2331 2.1 47.1 1.0
O B:HOH2330 2.1 43.4 1.0
O B:HOH2253 2.1 43.7 1.0
OE2 B:GLU849 2.2 31.7 1.0
CD B:GLU849 3.1 32.1 1.0
OE1 B:GLU849 3.3 31.3 1.0
NE2 B:GLN851 4.1 46.1 1.0
OE1 B:GLU902 4.2 32.3 1.0
OG B:SER915 4.2 28.3 1.0
O B:HOH2334 4.5 50.7 1.0
CG B:GLU849 4.5 28.8 1.0
O B:HOH2390 4.6 43.8 1.0
CB B:SER915 4.6 26.9 1.0
CZ2 B:TRP841 5.0 31.3 1.0
CD B:GLU902 5.0 30.5 1.0

Magnesium binding site 4 out of 4 in 1e42

Go back to Magnesium Binding Sites List in 1e42
Magnesium binding site 4 out of 4 in the BETA2-Adaptin Appendage Domain, From Clathrin Adaptor AP2


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of BETA2-Adaptin Appendage Domain, From Clathrin Adaptor AP2 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg962

b:50.4
occ:1.00
O B:HOH2325 2.1 48.5 1.0
O B:HOH2317 2.1 43.8 1.0
O B:HOH2199 2.1 49.6 1.0
O B:HOH2316 2.1 53.2 1.0
O B:LYS842 2.1 33.9 1.0
O B:HOH2315 2.1 51.4 1.0
C B:LYS842 3.2 31.1 1.0
CA B:LYS842 3.8 31.5 1.0
O B:HOH2327 3.9 33.4 1.0
OD1 B:ASN846 4.2 40.9 1.0
CB B:LYS842 4.3 33.0 1.0
N B:ASP843 4.3 29.8 1.0
O B:ILE844 4.4 32.6 1.0
O B:ASP843 4.6 37.4 1.0
CA B:ASP843 4.6 30.9 1.0
C B:ASP843 4.7 33.8 1.0
CG B:ASN846 4.8 39.0 1.0
ND2 B:ASN846 4.9 43.4 1.0
O B:HOH2321 4.9 49.9 1.0

Reference:

D.J.Owen, Y.Vallis, B.M.F.Pearse, H.T.Mcmahon, P.R.Evans. The Structure and Function of the BETA2-Adaptin Appendage Domain Embo J. V. 19 4216 2000.
ISSN: ISSN 0261-4189
PubMed: 10944104
DOI: 10.1093/EMBOJ/19.16.4216
Page generated: Tue Aug 13 02:51:29 2024

Last articles

Na in 5IHF
Na in 5ICM
Na in 5ICC
Na in 5ICF
Na in 5IBC
Na in 5IAJ
Na in 5IAR
Na in 5IAK
Na in 5IAN
Na in 5IAS
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy