Nickel in PDB 5wrk: MU2 Subunit of the Clathrin Adaptor Complex AP2 in Complex with Irs-1 Y608 Peptide

The structure of MU2 Subunit of the Clathrin Adaptor Complex AP2 in Complex with Irs-1 Y608 Peptide, PDB code: 5wrk was solved by Y.Yoneyama, H.Niwa, T.Umehara, S.Yokoyama, F.Hakuno, S.Takahashi, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	43.80 / 2.62
Space group	P 64
Cell size a, b, c (Å), α, β, γ (°)	126.065, 126.065, 73.403, 90.00, 90.00, 120.00
R / Rfree (%)	18.5 / 22.3

The binding sites of Nickel atom in the MU2 Subunit of the Clathrin Adaptor Complex AP2 in Complex with Irs-1 Y608 Peptide (pdb code 5wrk). This binding sites where shown within 5.0 Angstroms radius around Nickel atom.
In total 2 binding sites of Nickel where determined in the MU2 Subunit of the Clathrin Adaptor Complex AP2 in Complex with Irs-1 Y608 Peptide, PDB code: 5wrk:
Jump to Nickel binding site number: 1; 2;

Nickel binding site 1 out of 2 in the MU2 Subunit of the Clathrin Adaptor Complex AP2 in Complex with Irs-1 Y608 Peptide


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 1 of MU2 Subunit of the Clathrin Adaptor Complex AP2 in Complex with Irs-1 Y608 Peptide within 5.0Å range: probe atom residue distance (Å) B Occ A:Ni501 b:0.9 occ:1.00 NE2 A:HIS416 2.3 0.8 1.0 CE1 A:HIS416 2.5 0.8 1.0 CD2 A:HIS416 3.6 0.0 1.0 ND1 A:HIS416 3.8 0.8 1.0 OD1 A:ASP417 4.1 95.8 1.0 OD2 A:ASP417 4.2 94.6 1.0 OG A:SER414 4.2 0.0 1.0 CG A:HIS416 4.4 0.1 1.0 CG A:ASP417 4.5 92.9 1.0

Nickel binding site 2 out of 2 in the MU2 Subunit of the Clathrin Adaptor Complex AP2 in Complex with Irs-1 Y608 Peptide


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 2 of MU2 Subunit of the Clathrin Adaptor Complex AP2 in Complex with Irs-1 Y608 Peptide within 5.0Å range: probe atom residue distance (Å) B Occ A:Ni502 b:99.4 occ:0.50 OH A:TYR205 3.0 82.8 1.0 CE2 A:TYR205 3.7 78.0 1.0 CE1 A:PHE174 3.8 63.7 1.0 CD1 A:PHE174 3.8 66.6 1.0 CZ A:TYR205 3.8 77.7 1.0 CD A:LYS203 4.2 81.8 1.0 CZ A:PHE174 4.3 66.2 1.0 CG A:PHE174 4.3 65.8 1.0 CB A:LYS203 4.4 75.2 1.0 CE2 A:PHE174 4.8 62.7 1.0 CD2 A:PHE174 4.8 57.2 1.0 CD2 A:TYR205 4.9 74.4 1.0

Y.Yoneyama, P.Lanzerstorfer, H.Niwa, T.Umehara, T.Shibano, S.Yokoyama, K.Chida, J.Weghuber, F.Hakuno, S.I.Takahashi. Irs-1 Acts As An Endocytic Regulator of Igf-I Receptor to Facilitate Sustained Igf Signaling Elife V. 7 2018.
ISSN: ESSN 2050-084X
PubMed: 29661273
DOI: 10.7554/ELIFE.32893