Atomistry » Nickel » PDB 6z8o-7err » 7d2b
Atomistry »
  Nickel »
    PDB 6z8o-7err »
      7d2b »

Nickel in PDB 7d2b: Crystal Structure of Ixodes Scapularis Glutaminyl Cyclase with A Ni Ion Bound to the Active Site

Enzymatic activity of Crystal Structure of Ixodes Scapularis Glutaminyl Cyclase with A Ni Ion Bound to the Active Site

All present enzymatic activity of Crystal Structure of Ixodes Scapularis Glutaminyl Cyclase with A Ni Ion Bound to the Active Site:
2.3.2.5;

Protein crystallography data

The structure of Crystal Structure of Ixodes Scapularis Glutaminyl Cyclase with A Ni Ion Bound to the Active Site, PDB code: 7d2b was solved by K.-F.Huang, J.-S.Huang, M.-L.Wu, W.-L.Hsieh, A.H.-J.Wang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 22.78 / 1.99
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 55.066, 71.26, 80.119, 90, 90, 90
R / Rfree (%) 17.2 / 23.1

Nickel Binding Sites:

The binding sites of Nickel atom in the Crystal Structure of Ixodes Scapularis Glutaminyl Cyclase with A Ni Ion Bound to the Active Site (pdb code 7d2b). 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 Ixodes Scapularis Glutaminyl Cyclase with A Ni Ion Bound to the Active Site, PDB code: 7d2b:

Nickel binding site 1 out of 1 in 7d2b

Go back to Nickel Binding Sites List in 7d2b
Nickel binding site 1 out of 1 in the Crystal Structure of Ixodes Scapularis Glutaminyl Cyclase with A Ni Ion Bound to the Active Site


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 Ixodes Scapularis Glutaminyl Cyclase with A Ni Ion Bound to the Active Site within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ni400

b:31.6
occ:1.00
OE2 A:GLU184 2.1 25.3 1.0
NE2 A:HIS322 2.1 21.0 1.0
OD2 A:ASP144 2.1 18.3 1.0
O A:HOH701 2.1 39.2 1.0
CG A:ASP144 2.8 19.4 1.0
CD A:GLU184 2.9 23.2 1.0
CD2 A:HIS322 2.9 19.9 1.0
OD1 A:ASP144 2.9 18.4 1.0
OE1 A:GLU184 3.0 24.9 1.0
CE1 A:HIS322 3.2 20.0 1.0
NE1 A:TRP321 3.8 24.6 1.0
O A:HOH531 3.9 23.9 1.0
O A:HOH672 4.0 40.8 1.0
CG A:HIS322 4.1 21.4 1.0
ND1 A:HIS322 4.3 20.2 1.0
CB A:ASP144 4.3 18.5 1.0
CG A:GLU184 4.3 21.7 1.0
CE2 A:TRP321 4.4 25.5 1.0
OE1 A:GLU183 4.5 25.4 1.0
O A:HOH512 4.6 20.2 1.0
CD1 A:TRP321 4.6 23.5 1.0
CD2 A:LEU239 4.6 16.3 1.0
CZ2 A:TRP321 4.7 25.4 1.0
NE2 A:HIS128 4.8 20.0 1.0

Reference:

K.F.Huang, J.S.Huang, M.L.Wu, W.L.Hsieh, K.C.Hsu, H.L.Hsu, T.P.Ko, A.H-J Wang. A Unique Carboxylic-Acid Hydrogen-Bond Network (Cahbn) Confers Glutaminyl Cyclase Activity on M28 Family Enzymes. J.Mol.Biol. 66960 2021.
ISSN: ESSN 1089-8638
PubMed: 33774034
DOI: 10.1016/J.JMB.2021.166960
Page generated: Thu Oct 10 09:10:20 2024

Last articles

Fe in 2YXO
Fe in 2YRS
Fe in 2YXC
Fe in 2YNM
Fe in 2YVJ
Fe in 2YP1
Fe in 2YU2
Fe in 2YU1
Fe in 2YQB
Fe in 2YOO
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy