Magnesium in PDB 4cvm: Pamurf in Complex with Amp-Pnp and Udp-Murnac-Tripeptide (Mdap)

All present enzymatic activity of Pamurf in Complex with Amp-Pnp and Udp-Murnac-Tripeptide (Mdap):
6.3.2.10;

The structure of Pamurf in Complex with Amp-Pnp and Udp-Murnac-Tripeptide (Mdap), PDB code: 4cvm was solved by K.M.Ruane, V.Majce, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	61.61 / 2.06
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	58.540, 86.050, 88.240, 90.00, 90.00, 90.00
R / Rfree (%)	18.22 / 22.442

The binding sites of Magnesium atom in the Pamurf in Complex with Amp-Pnp and Udp-Murnac-Tripeptide (Mdap) (pdb code 4cvm). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Pamurf in Complex with Amp-Pnp and Udp-Murnac-Tripeptide (Mdap), PDB code: 4cvm:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Pamurf in Complex with Amp-Pnp and Udp-Murnac-Tripeptide (Mdap)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Pamurf in Complex with Amp-Pnp and Udp-Murnac-Tripeptide (Mdap) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1457 b:39.4 occ:1.00 MG A:MG1458 2.0 33.5 1.0 O2B A:ANP1456 2.6 28.5 1.0 OD1 A:ASN140 2.7 40.1 1.0 OG1 A:THR114 2.7 21.5 1.0 O2A A:ANP1456 2.8 29.2 1.0 O2G A:ANP1456 3.2 40.4 1.0 CB A:THR114 3.3 20.9 1.0 CG A:ASN140 3.5 38.9 1.0 N3B A:ANP1456 3.5 31.7 1.0 PB A:ANP1456 3.5 26.7 1.0 PG A:ANP1456 3.6 35.2 1.0 O3G A:ANP1456 3.6 33.5 1.0 ND2 A:ASN140 3.9 38.7 1.0 PA A:ANP1456 3.9 29.4 1.0 CG2 A:THR114 4.0 23.4 1.0 O3A A:ANP1456 4.1 27.6 1.0 OE2 A:GLU164 4.3 30.8 1.0 CB A:ASN140 4.5 34.6 1.0 CA A:THR114 4.6 21.1 1.0 N A:THR114 4.6 24.2 1.0 O1A A:ANP1456 4.9 29.0 1.0 O1B A:ANP1456 4.9 26.7 1.0 OE1 A:GLU164 5.0 28.6 1.0

Magnesium binding site 2 out of 2 in the Pamurf in Complex with Amp-Pnp and Udp-Murnac-Tripeptide (Mdap)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Pamurf in Complex with Amp-Pnp and Udp-Murnac-Tripeptide (Mdap) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1458 b:33.5 occ:1.00 OD1 A:ASN140 1.9 40.1 1.0 MG A:MG1457 2.0 39.4 1.0 O2B A:ANP1456 2.1 28.5 1.0 O2G A:ANP1456 2.1 40.4 1.0 OG1 A:THR114 2.3 21.5 1.0 OE2 A:GLU164 2.4 30.8 1.0 CG A:ASN140 2.9 38.9 1.0 PG A:ANP1456 3.3 35.2 1.0 CD A:GLU164 3.3 30.7 1.0 PB A:ANP1456 3.4 26.7 1.0 ND2 A:ASN140 3.4 38.7 1.0 CB A:THR114 3.4 20.9 1.0 OE1 A:GLU164 3.6 28.6 1.0 N3B A:ANP1456 3.6 31.7 1.0 N A:THR114 3.9 24.2 1.0 O3G A:ANP1456 4.0 33.5 1.0 ND2 A:ASN142 4.1 25.0 1.0 CA A:THR114 4.2 21.1 1.0 O2A A:ANP1456 4.2 29.2 1.0 CB A:ASN140 4.2 34.6 1.0 O1B A:ANP1456 4.3 26.7 1.0 O1G A:ANP1456 4.4 35.7 1.0 CE A:LYS113 4.4 22.8 1.0 CB A:LYS113 4.4 23.4 1.0 CG2 A:THR114 4.5 23.4 1.0 O3A A:ANP1456 4.5 27.6 1.0 CA A:ASN140 4.6 29.6 1.0 CG A:GLU164 4.6 28.9 1.0 NZ A:LYS113 4.8 27.1 1.0 C A:LYS113 4.9 23.6 1.0 PA A:ANP1456 4.9 29.4 1.0

V.Majce, K.Ruane. Pamurf in Complex with Amp-Pnp and Udp-Murnac-Tripeptide To Be Published.