Nickel in PDB 5apa: Crystal Structure of Human Aspartate Beta-Hydroxylase Isoform A

All present enzymatic activity of Crystal Structure of Human Aspartate Beta-Hydroxylase Isoform A:
1.14.11.16;

The structure of Crystal Structure of Human Aspartate Beta-Hydroxylase Isoform A, PDB code: 5apa was solved by T.Krojer, G.Kochan, I.Pfeffer, M.A.Mcdonough, E.Pilka, V.Hozjan, C.Allerston, J.R.Muniz, A.Chaikuad, O.Gileadi, K.Kavanagh, F.Von Delft, C.Bountra, C.H.Arrowsmith, J.Weigelt, A.Edwards, U.Oppermann, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	19.87 / 2.05
Space group	P 31 2 1
Cell size a, b, c (Å), α, β, γ (°)	133.221, 133.221, 44.637, 90.00, 90.00, 120.00
R / Rfree (%)	15.3 / 18.6

The binding sites of Nickel atom in the Crystal Structure of Human Aspartate Beta-Hydroxylase Isoform A (pdb code 5apa). This binding sites where shown within 5.0 Angstroms radius around Nickel atom.
In total only one binding site of Nickel was determined in the Crystal Structure of Human Aspartate Beta-Hydroxylase Isoform A, PDB code: 5apa:

Nickel binding site 1 out of 1 in the Crystal Structure of Human Aspartate Beta-Hydroxylase Isoform A


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 1 of Crystal Structure of Human Aspartate Beta-Hydroxylase Isoform A within 5.0Å range: probe atom residue distance (Å) B Occ A:Ni1759 b:34.0 occ:1.00 NE2 A:HIS679 2.1 30.2 1.0 NE2 A:HIS725 2.1 34.1 1.0 O A:HOH2056 2.2 31.0 1.0 O A:HOH2088 2.2 34.4 1.0 O1B A:LMR1760 2.2 33.9 1.0 O1A A:LMR1760 2.2 35.8 1.0 C1 A:LMR1760 2.5 35.2 1.0 CD2 A:HIS679 3.0 29.2 1.0 CE1 A:HIS679 3.0 34.1 1.0 CE1 A:HIS725 3.1 36.5 1.0 CD2 A:HIS725 3.1 34.1 1.0 OD1 A:ASN618 3.9 36.1 1.0 C2 A:LMR1760 4.0 37.7 1.0 ND1 A:HIS679 4.1 32.1 1.0 ND1 A:HIS725 4.2 34.5 1.0 CG A:HIS679 4.2 33.1 1.0 O A:HOH2057 4.2 34.4 1.0 CG A:HIS725 4.2 33.1 1.0 NH1 A:ARG688 4.3 32.5 1.0 OD2 A:ASP721 4.3 35.9 1.0 OE1 A:GLU617 4.3 43.2 1.0 H3A A:LMR1760 4.4 38.4 0.0 H2 A:LMR1760 4.5 45.2 0.0 O2 A:LMR1760 4.6 44.8 1.0 C3 A:LMR1760 4.7 32.0 1.0 H3 A:LMR1760 4.8 38.4 0.0 CG A:ASN618 4.8 36.5 1.0 HO2 A:LMR1760 4.8 53.8 0.0 CB A:ASP721 4.9 34.8 1.0

I.Pfeffer, L.Brewitz, T.Krojer, S.A.Jensen, G.T.Kochan, N.J.Kershaw, K.S.Hewitson, L.A.Mcneill, H.Kramer, M.Munzel, R.J.Hopkinson, U.Oppermann, P.A.Handford, M.A.Mcdonough, C.J.Schofield. Aspartate/Asparagine-Beta-Hydroxylase Crystal Structures Reveal An Unexpected Epidermal Growth Factor-Like Domain Substrate Disulfide Pattern. Nat Commun V. 10 4910 2019.
ISSN: ESSN 2041-1723
PubMed: 31659163
DOI: 10.1038/S41467-019-12711-7