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Magnesium in PDB 6xi7: Crystal Structure of Wild-Type Kras (Gmppnp-Bound) in Complex with Ras-Binding Domain (Rbd) and Cysteine-Rich Domain (Crd) of RAF1/Craf (Crystal Form I)

Enzymatic activity of Crystal Structure of Wild-Type Kras (Gmppnp-Bound) in Complex with Ras-Binding Domain (Rbd) and Cysteine-Rich Domain (Crd) of RAF1/Craf (Crystal Form I)

All present enzymatic activity of Crystal Structure of Wild-Type Kras (Gmppnp-Bound) in Complex with Ras-Binding Domain (Rbd) and Cysteine-Rich Domain (Crd) of RAF1/Craf (Crystal Form I):
2.7.11.1; 3.6.5.2;

Protein crystallography data

The structure of Crystal Structure of Wild-Type Kras (Gmppnp-Bound) in Complex with Ras-Binding Domain (Rbd) and Cysteine-Rich Domain (Crd) of RAF1/Craf (Crystal Form I), PDB code: 6xi7 was solved by A.H.Chan, T.H.Tran, S.Dharmaiah, D.K.Simanshu, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 45.95 / 1.95
Space group P 63 2 2
Cell size a, b, c (Å), α, β, γ (°) 91.89, 91.89, 154.11, 90, 90, 120
R / Rfree (%) 20.4 / 23.2

Other elements in 6xi7:

The structure of Crystal Structure of Wild-Type Kras (Gmppnp-Bound) in Complex with Ras-Binding Domain (Rbd) and Cysteine-Rich Domain (Crd) of RAF1/Craf (Crystal Form I) also contains other interesting chemical elements:

Zinc (Zn) 3 atoms
Chlorine (Cl) 5 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Crystal Structure of Wild-Type Kras (Gmppnp-Bound) in Complex with Ras-Binding Domain (Rbd) and Cysteine-Rich Domain (Crd) of RAF1/Craf (Crystal Form I) (pdb code 6xi7). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total only one binding site of Magnesium was determined in the Crystal Structure of Wild-Type Kras (Gmppnp-Bound) in Complex with Ras-Binding Domain (Rbd) and Cysteine-Rich Domain (Crd) of RAF1/Craf (Crystal Form I), PDB code: 6xi7:

Magnesium binding site 1 out of 1 in 6xi7

Go back to Magnesium Binding Sites List in 6xi7
Magnesium binding site 1 out of 1 in the Crystal Structure of Wild-Type Kras (Gmppnp-Bound) in Complex with Ras-Binding Domain (Rbd) and Cysteine-Rich Domain (Crd) of RAF1/Craf (Crystal Form I)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structure of Wild-Type Kras (Gmppnp-Bound) in Complex with Ras-Binding Domain (Rbd) and Cysteine-Rich Domain (Crd) of RAF1/Craf (Crystal Form I) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg202

b:39.1
occ:1.00
 O1G A:GNP201 2.0 45.2 1.0
O A:HOH324 2.0 40.9 1.0
OG A:SER17 2.0 42.4 1.0
O A:HOH311 2.0 40.9 1.0
O1B A:GNP201 2.1 41.1 1.0
OG1 A:THR35 2.1 42.9 1.0
CB A:THR35 3.1 45.5 1.0
CB A:SER17 3.1 43.6 1.0
PG A:GNP201 3.2 44.5 1.0
PB A:GNP201 3.2 42.1 1.0
N3B A:GNP201 3.4 43.8 1.0
N A:THR35 3.7 47.8 1.0
N A:SER17 3.8 41.4 1.0
O3G A:GNP201 4.0 45.1 1.0
OD2 A:ASP57 4.0 50.9 1.0
CA A:THR35 4.0 47.1 1.0
CA A:SER17 4.0 41.8 1.0
O1A A:GNP201 4.2 43.9 1.0
O A:HOH312 4.2 61.0 1.0
O3A A:GNP201 4.2 42.8 1.0
OD1 A:ASP57 4.2 47.7 1.0
CG2 A:THR35 4.2 44.5 1.0
O2G A:GNP201 4.3 46.7 1.0
O2B A:GNP201 4.3 41.4 1.0
O A:THR58 4.3 45.0 1.0
CG A:ASP57 4.5 48.1 1.0
O A:ASP33 4.5 56.3 1.0
PA A:GNP201 4.5 43.2 1.0
O2A A:GNP201 4.6 42.6 1.0
C A:PRO34 4.7 52.9 1.0
CB A:LYS16 4.8 37.9 1.0
C A:LYS16 4.9 38.7 1.0
CE A:LYS16 4.9 41.5 1.0
CA A:PRO34 4.9 53.0 1.0

Reference:

T.H.Tran, A.H.Chan, S.Dharmaiah, D.K.Simanshu. Crystal Structure of Wild-Type Kras (Gmppnp-Bound) in Complex with Ras-Binding Domain (Rbd) and Cysteine-Rich Domain (Crd) of RAF1/Craf (Crystal Form I) Nat Commun 2020.
ISSN: ESSN 2041-1723
Page generated: Wed Aug 13 20:09:23 2025

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