Atomistry » Nickel » PDB 6vwz-6z8m » 6xte
Atomistry »
  Nickel »
    PDB 6vwz-6z8m »
      6xte »

Nickel in PDB 6xte: Human Karyopherin RANBP5 (Isoform-1)

Protein crystallography data

The structure of Human Karyopherin RANBP5 (Isoform-1), PDB code: 6xte was solved by C.Swale, A.A.Mccarthy, R.W.H.Ruigrok, T.Crepin, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 78.49 / 2.27
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 87.091, 96.313, 156.979, 90.00, 90.00, 90.00
R / Rfree (%) 19.9 / 26

Other elements in 6xte:

The structure of Human Karyopherin RANBP5 (Isoform-1) also contains other interesting chemical elements:

Chlorine (Cl) 1 atom

Nickel Binding Sites:

The binding sites of Nickel atom in the Human Karyopherin RANBP5 (Isoform-1) (pdb code 6xte). This binding sites where shown within 5.0 Angstroms radius around Nickel atom.
In total 2 binding sites of Nickel where determined in the Human Karyopherin RANBP5 (Isoform-1), PDB code: 6xte:
Jump to Nickel binding site number: 1; 2;

Nickel binding site 1 out of 2 in 6xte

Go back to Nickel Binding Sites List in 6xte
Nickel binding site 1 out of 2 in the Human Karyopherin RANBP5 (Isoform-1)


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 1 of Human Karyopherin RANBP5 (Isoform-1) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ni1201

b:0.4
occ:1.00
ND1 A:HIS807 3.2 68.8 1.0
O A:CYS802 3.7 66.8 1.0
CE1 A:HIS807 3.7 69.2 1.0
ND2 A:ASN804 3.7 70.2 1.0
SG A:CYS768 3.9 73.6 1.0
CD2 A:HIS765 4.0 85.2 1.0
N A:ASN804 4.0 65.0 1.0
CB A:CYS768 4.2 71.2 1.0
CG A:ASN804 4.2 69.2 1.0
NE2 A:HIS765 4.3 86.5 1.0
CG A:HIS807 4.4 66.9 1.0
CA A:LEU803 4.5 64.7 1.0
CB A:ASN804 4.5 66.1 1.0
C A:CYS802 4.6 65.5 1.0
C A:LEU803 4.7 65.1 1.0
CA A:ASN804 4.9 65.3 1.0
NE1 A:TRP764 4.9 81.4 1.0
CG A:HIS765 5.0 83.6 1.0
CB A:HIS807 5.0 64.4 1.0
N A:LEU803 5.0 64.8 1.0
OD1 A:ASN804 5.0 70.3 1.0

Nickel binding site 2 out of 2 in 6xte

Go back to Nickel Binding Sites List in 6xte
Nickel binding site 2 out of 2 in the Human Karyopherin RANBP5 (Isoform-1)


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 2 of Human Karyopherin RANBP5 (Isoform-1) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ni1202

b:79.5
occ:1.00
NE2 A:GLN974 3.5 57.6 1.0
NE1 A:TRP1017 3.7 50.1 1.0
ND1 A:HIS1013 3.8 52.8 1.0
OG A:SER1016 4.1 53.5 1.0
CG A:GLN974 4.4 54.4 1.0
CD A:GLN974 4.5 57.2 1.0
CE2 A:TRP1017 4.5 49.6 1.0
CD1 A:TRP1017 4.6 49.4 1.0
CE1 A:HIS1013 4.7 53.2 1.0
CZ2 A:TRP1017 4.7 50.1 1.0
CG A:HIS1013 4.7 50.7 1.0
CB A:HIS1013 4.8 48.6 1.0

Reference:

C.Swale, B.Da Costa, L.Sedano, F.Garzoni, A.A.Mccarthy, I.Berger, C.Bieniossek, R.W.H.Ruigrok, B.Delmas, T.Crepin. X-Ray Structure of the Human Karyopherin RANBP5, An Essential Factor For Influenza Polymerase Nuclear Trafficking. J.Mol.Biol. 2020.
ISSN: ESSN 1089-8638
PubMed: 32222384
DOI: 10.1016/J.JMB.2020.03.021
Page generated: Thu Oct 10 08:58:46 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