Nickel in PDB 6ek6: Crystal Structure of KDM5B in Complex with S49195A.

The structure of Crystal Structure of KDM5B in Complex with S49195A., PDB code: 6ek6 was solved by V.Srikannathasan, A.Szykowska, J.A.Newman, G.F.Ruda, C.Strain-Damerell, N.A.Burgess-Brown, S.Vazquez-Rodriguez, M.Wright, P.E.Brennan, C.H.Arrowsmith, A.Edwards, C.Bountra, U.Oppermann, K.Huber, F.Von Delft, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	56.74 / 2.05
Space group	P 65 2 2
Cell size a, b, c (Å), α, β, γ (°)	141.410, 141.410, 150.950, 90.00, 90.00, 120.00
R / Rfree (%)	17.9 / 20

The structure of Crystal Structure of KDM5B in Complex with S49195A. also contains other interesting chemical elements:

Manganese	(Mn)	1 atom
Zinc	(Zn)	1 atom

The binding sites of Nickel atom in the Crystal Structure of KDM5B in Complex with S49195A. (pdb code 6ek6). 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 KDM5B in Complex with S49195A., PDB code: 6ek6:

Nickel binding site 1 out of 1 in the Crystal Structure of KDM5B in Complex with S49195A.


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 KDM5B in Complex with S49195A. within 5.0Å range: probe atom residue distance (Å) B Occ A:Ni803 b:29.4 occ:1.00 N7 A:90V804 1.9 33.9 1.0 OE2 A:GLU501 2.1 33.2 1.0 CE1 A:HIS587 2.1 24.6 1.0 O A:HOH938 2.2 34.0 1.0 NE2 A:HIS499 2.2 30.6 1.0 O11 A:90V804 2.2 29.2 1.0 C6 A:90V804 2.8 28.3 1.0 C10 A:90V804 2.9 32.5 1.0 NE2 A:HIS587 2.9 29.2 1.0 CE1 A:HIS499 3.0 34.9 1.0 N9 A:90V804 3.1 29.0 1.0 CD A:GLU501 3.2 33.4 1.0 ND1 A:HIS587 3.2 31.7 1.0 CD2 A:HIS499 3.3 28.9 1.0 OE1 A:GLU501 3.7 32.6 1.0 C5 A:90V804 4.0 27.7 1.0 ND1 A:HIS499 4.1 33.7 1.0 CD2 A:HIS587 4.2 23.5 1.0 N12 A:90V804 4.2 35.2 1.0 C4 A:90V804 4.2 38.4 1.0 OG A:SER507 4.2 32.9 1.0 CG A:HIS499 4.3 29.4 1.0 CG A:HIS587 4.3 29.8 1.0 CG A:GLU501 4.5 31.7 1.0 OD1 A:ASN509 4.8 34.2 1.0 CB A:SER507 4.8 32.1 1.0 C17 A:90V804 4.8 31.9 1.0

V.Srikannathasan, V.Srikannathasan, A.Szykowska, J.A.Newman, G.F.Ruda, C.Strain-Damerell, N.A.Burgess-Brown, S.Vazquez-Rodriguez, M.Wright, P.E.Brennan, C.H.Arrowsmith, A.Edwards, C.Bountra, U.Oppermann, K.Huber, F.Von Delft. N/A N/A.