Zinc in PDB 4rda: X-Ray Structure of the Amyloid Precursor Protein-Like Protein 1 (APLP1) E2 Domain in Complex with A Heparin Dodecasaccharide

The structure of X-Ray Structure of the Amyloid Precursor Protein-Like Protein 1 (APLP1) E2 Domain in Complex with A Heparin Dodecasaccharide, PDB code: 4rda was solved by S.O.Dahms, M.E.Than, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	45.98 / 2.50
Space group	P 31 2 1
Cell size a, b, c (Å), α, β, γ (°)	91.969, 91.969, 208.481, 90.00, 90.00, 120.00
R / Rfree (%)	21.6 / 24.5

The binding sites of Zinc atom in the X-Ray Structure of the Amyloid Precursor Protein-Like Protein 1 (APLP1) E2 Domain in Complex with A Heparin Dodecasaccharide (pdb code 4rda). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total only one binding site of Zinc was determined in the X-Ray Structure of the Amyloid Precursor Protein-Like Protein 1 (APLP1) E2 Domain in Complex with A Heparin Dodecasaccharide, PDB code: 4rda:

Zinc binding site 1 out of 1 in the X-Ray Structure of the Amyloid Precursor Protein-Like Protein 1 (APLP1) E2 Domain in Complex with A Heparin Dodecasaccharide


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of X-Ray Structure of the Amyloid Precursor Protein-Like Protein 1 (APLP1) E2 Domain in Complex with A Heparin Dodecasaccharide within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn506 b:47.8 occ:1.00 NE2 A:HIS486 2.0 52.4 1.0 O A:HOH611 2.1 29.0 1.0 O A:HOH602 2.1 52.5 1.0 O A:HOH609 2.3 37.6 1.0 O A:HOH613 2.4 36.1 1.0 CE1 A:HIS486 2.9 50.3 1.0 CD2 A:HIS486 3.0 50.9 1.0 O A:HOH601 3.8 40.9 1.0 O A:HOH616 4.0 59.9 1.0 O A:HOH612 4.0 34.3 1.0 ND1 A:HIS486 4.0 52.0 1.0 CG A:HIS486 4.1 51.6 1.0 O A:HOH610 4.1 39.5 1.0 O A:HOH614 4.3 59.5 1.0 O A:HOH608 4.3 33.6 1.0 CD1 A:LEU485 4.6 42.9 1.0 CB A:LEU485 4.9 47.3 1.0 O A:HOH604 5.0 63.9 1.0

S.O.Dahms, M.C.Mayer, D.Roeser, G.Multhaup, M.E.Than. Interaction of the Amyloid Precursor Protein-Like Protein 1 (APLP1) E2 Domain with Heparan Sulfate Involves Two Distinct Binding Modes Acta Crystallogr.,Sect.D V. 71 494 2015.
ISSN: ISSN 0907-4449
DOI: 10.1107/S1399004714027114