Manganese in PDB 4kz2: Crystal Structure of PHI29 Prna 3WJ Core

The structure of Crystal Structure of PHI29 Prna 3WJ Core, PDB code: 4kz2 was solved by H.Zhang, J.A.Endrizzi, Y.Shu, F.Haque, C.Sauter, P.Guo, Y.-I.Chi, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	30.00 / 3.05
Space group	I 4
Cell size a, b, c (Å), α, β, γ (°)	125.012, 125.012, 26.989, 90.00, 90.00, 90.00
R / Rfree (%)	19.7 / 19.7

The binding sites of Manganese atom in the Crystal Structure of PHI29 Prna 3WJ Core (pdb code 4kz2). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 3 binding sites of Manganese where determined in the Crystal Structure of PHI29 Prna 3WJ Core, PDB code: 4kz2:
Jump to Manganese binding site number: 1; 2; 3;

Manganese binding site 1 out of 3 in the Crystal Structure of PHI29 Prna 3WJ Core


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Crystal Structure of PHI29 Prna 3WJ Core within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn101 b:89.5 occ:1.00 OP1 C:A7 2.3 70.2 1.0 OP1 A:G3 2.4 89.5 1.0 P A:G3 3.5 89.0 1.0 P C:A7 3.7 59.5 1.0 O5' A:G3 3.9 81.8 1.0 OP2 A:G3 4.1 95.2 1.0 OP2 C:A7 4.3 56.6 1.0 C5' A:G3 4.4 84.1 1.0 O5' C:A7 4.5 58.0 1.0 OP2 A:C4 4.6 72.2 1.0 OP2 C:U8 4.7 81.4 1.0 O3' C:A6 4.7 49.1 1.0 O3' A:U2 4.8 85.8 1.0 C5' C:A7 4.9 66.7 1.0

Manganese binding site 2 out of 3 in the Crystal Structure of PHI29 Prna 3WJ Core


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 2 of Crystal Structure of PHI29 Prna 3WJ Core within 5.0Å range: probe atom residue distance (Å) B Occ B:Mn101 b:92.4 occ:1.00 O3' B:C20 2.0 89.0 1.0 O2' B:C20 2.7 96.2 1.0 C3' B:C20 3.1 83.7 1.0 C2' B:C20 3.2 86.7 1.0 C4' B:C20 4.0 78.9 1.0 C1' B:C20 4.6 75.8 1.0 O4' B:C20 4.9 74.6 1.0

Manganese binding site 3 out of 3 in the Crystal Structure of PHI29 Prna 3WJ Core


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 3 of Crystal Structure of PHI29 Prna 3WJ Core within 5.0Å range: probe atom residue distance (Å) B Occ C:Mn101 b:82.1 occ:1.00 OP1 C:A6 2.2 64.4 1.0 OP1 A:C4 2.3 75.8 1.0 P C:A6 3.3 60.9 1.0 O5' C:A6 3.7 64.5 1.0 P A:C4 3.7 75.0 1.0 OP2 C:A6 4.0 56.5 1.0 C5' C:A6 4.1 51.8 1.0 O5' A:C4 4.2 0.1 1.0 OP2 A:C4 4.4 72.2 1.0 OP2 C:A7 4.6 56.6 1.0 O3' C:C5 4.6 58.1 1.0 C5' A:C4 4.7 98.5 1.0 O3' A:G3 4.8 77.0 1.0

H.Zhang, J.A.Endrizzi, Y.Shu, F.Haque, C.Sauter, L.S.Shlyakhtenko, Y.Lyubchenko, P.Guo, Y.I.Chi. Crystal Structure of 3WJ Core Revealing Divalent Ion-Promoted Thermostability and Assembly of the PHI29 Hexameric Motor Prna. Rna V. 19 1226 2013.
ISSN: ISSN 1355-8382
PubMed: 23884902
DOI: 10.1261/RNA.037077.112