Nickel in PDB 5dmv: Polo-Box Domain of Mouse Polo-Like Kinase 1 Complexed with EMI2 (146- 177)

All present enzymatic activity of Polo-Box Domain of Mouse Polo-Like Kinase 1 Complexed with EMI2 (146- 177):
2.7.11.21;

The structure of Polo-Box Domain of Mouse Polo-Like Kinase 1 Complexed with EMI2 (146- 177), PDB code: 5dmv was solved by S.Namgoong, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	28.41 / 2.50
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	35.627, 63.329, 56.831, 90.00, 97.20, 90.00
R / Rfree (%)	21.2 / 29.1

The binding sites of Nickel atom in the Polo-Box Domain of Mouse Polo-Like Kinase 1 Complexed with EMI2 (146- 177) (pdb code 5dmv). This binding sites where shown within 5.0 Angstroms radius around Nickel atom.
In total 3 binding sites of Nickel where determined in the Polo-Box Domain of Mouse Polo-Like Kinase 1 Complexed with EMI2 (146- 177), PDB code: 5dmv:
Jump to Nickel binding site number: 1; 2; 3;

Nickel binding site 1 out of 3 in the Polo-Box Domain of Mouse Polo-Like Kinase 1 Complexed with EMI2 (146- 177)


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 1 of Polo-Box Domain of Mouse Polo-Like Kinase 1 Complexed with EMI2 (146- 177) within 5.0Å range: probe atom residue distance (Å) B Occ C:Ni701 b:51.3 occ:1.00 O C:HOH825 1.9 48.0 1.0 O C:HOH834 2.2 50.0 1.0 NE2 C:HIS489 2.4 52.4 1.0 CE1 C:HIS489 3.0 44.6 1.0 CD2 C:HIS489 3.2 44.6 1.0 ND1 C:HIS489 3.9 36.3 1.0 CG C:HIS489 4.1 38.5 1.0

Nickel binding site 2 out of 3 in the Polo-Box Domain of Mouse Polo-Like Kinase 1 Complexed with EMI2 (146- 177)


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 2 of Polo-Box Domain of Mouse Polo-Like Kinase 1 Complexed with EMI2 (146- 177) within 5.0Å range: probe atom residue distance (Å) B Occ C:Ni702 b:70.2 occ:1.00 O C:HOH818 1.9 47.8 1.0 NE2 C:HIS538 2.1 57.8 1.0 CD2 C:HIS538 3.1 42.3 1.0 CE1 C:HIS538 3.1 47.1 1.0 O C:HOH835 3.2 58.2 1.0 O C:GLN536 4.0 44.6 1.0 ND1 C:HIS538 4.2 39.1 1.0 CG C:HIS538 4.2 37.8 1.0

Nickel binding site 3 out of 3 in the Polo-Box Domain of Mouse Polo-Like Kinase 1 Complexed with EMI2 (146- 177)


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 3 of Polo-Box Domain of Mouse Polo-Like Kinase 1 Complexed with EMI2 (146- 177) within 5.0Å range: probe atom residue distance (Å) B Occ C:Ni703 b:0.3 occ:1.00 O C:HOH802 1.9 57.2 1.0 NE2 C:HIS468 2.3 45.9 1.0 CD2 C:HIS468 3.3 43.0 1.0 CE1 C:HIS468 3.3 44.0 1.0 ND1 C:HIS468 4.4 43.1 1.0 CG C:HIS468 4.4 41.0 1.0 O C:VAL465 4.4 46.5 1.0

J.L.Jia, Y.H.Han, H.C.Kim, M.Ahn, J.W.Kwon, Y.Luo, P.Gunasekaran, S.J.Lee, K.S.Lee, J.K.Bang, N.H.Kim, S.Namgoong. Structural Basis For Recognition of EMI2 By Polo-Like Kinase 1 and Development of Peptidomimetics Blocking Oocyte Maturation and Fertilization. Sci Rep V. 5 14626 2015.
ISSN: ESSN 2045-2322
PubMed: 26459104
DOI: 10.1038/SREP14626