Zinc in PDB 6xhb: 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 II)

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 II)

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 II):
2.7.11.1;

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 II), PDB code: 6xhb was solved by T.H.Tran, A.H.Chan, S.Dharmaiah, D.K.Simanshu, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 48.65 / 2.50
Space group P 6 2 2
Cell size a, b, c (Å), α, β, γ (°) 133.984, 133.984, 89.275, 90, 90, 120
R / Rfree (%) 18.6 / 22.1

Other elements in 6xhb:

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 II) also contains other interesting chemical elements:

Chlorine (Cl) 3 atoms
Arsenic (As) 1 atom
Magnesium (Mg) 1 atom

Zinc Binding Sites:

The binding sites of Zinc 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 II) (pdb code 6xhb). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where 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 II), PDB code: 6xhb:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 6xhb

Go back to Zinc Binding Sites List in 6xhb
Zinc binding site 1 out of 2 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 II)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn 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 II) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn203

b:46.2
occ:1.00
ND1 B:HIS139 2.2 38.8 1.0
SG B:CYS184 2.4 48.7 1.0
SG B:CYS168 2.4 47.6 1.0
SG B:CYS165 2.4 46.5 1.0
CE1 B:HIS139 3.0 40.5 1.0
CB B:CYS184 3.1 40.9 1.0
CG B:HIS139 3.2 39.1 1.0
CB B:CYS165 3.3 36.0 1.0
CB B:CYS168 3.4 35.2 1.0
CB B:HIS139 3.6 44.0 1.0
N B:CYS168 3.7 48.7 1.0
CA B:HIS139 3.7 40.8 1.0
CA B:CYS184 4.0 39.8 1.0
CA B:CYS168 4.2 44.8 1.0
NE2 B:HIS139 4.2 39.6 1.0
CD2 B:HIS139 4.3 41.4 1.0
CB B:THR167 4.4 49.9 1.0
N B:HIS139 4.6 41.8 1.0
N B:ASN140 4.7 46.5 1.0
C B:THR167 4.7 52.9 1.0
CA B:CYS165 4.8 42.7 1.0
C B:HIS139 4.8 43.4 1.0
C B:CYS184 4.9 43.8 1.0
CA B:THR167 5.0 53.0 1.0
N B:THR167 5.0 54.6 1.0
C B:CYS168 5.0 41.7 1.0

Zinc binding site 2 out of 2 in 6xhb

Go back to Zinc Binding Sites List in 6xhb
Zinc binding site 2 out of 2 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 II)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 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 II) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn204

b:54.4
occ:1.00
ND1 B:HIS173 2.1 55.4 1.0
SG B:CYS155 2.4 50.8 1.0
SG B:CYS152 2.4 47.7 1.0
SG B:CYS176 2.4 57.2 1.0
CE1 B:HIS173 3.1 58.1 1.0
CB B:CYS152 3.1 40.1 1.0
CG B:HIS173 3.2 55.1 1.0
CB B:CYS155 3.4 44.2 1.0
CB B:CYS176 3.5 48.5 1.0
CB B:HIS173 3.5 48.8 1.0
N B:HIS173 3.8 51.1 1.0
N B:CYS155 3.8 52.3 1.0
CA B:CYS155 4.2 47.3 1.0
NE2 B:HIS173 4.2 55.5 1.0
CE1 B:HIS175 4.2 74.7 1.0
CD2 B:HIS173 4.3 57.9 1.0
CA B:HIS173 4.3 47.3 1.0
CB B:ILE154 4.5 45.0 1.0
CA B:CYS152 4.6 52.4 1.0
NE2 B:HIS175 4.6 78.1 1.0
C B:ILE154 4.8 53.5 1.0
ND1 B:HIS175 4.9 75.7 1.0
C B:PHE172 4.9 46.4 1.0
CA B:CYS176 4.9 46.9 1.0
C B:CYS155 4.9 48.4 1.0
CA B:PHE172 5.0 45.3 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 II) To Be Published.
Page generated: Mon Jan 25 16:37:29 2021

Last articles

Zn in 8WB0
Zn in 8WAX
Zn in 8WAU
Zn in 8WAZ
Zn in 8WAY
Zn in 8WAV
Zn in 8WAW
Zn in 8WAT
Zn in 8W7M
Zn in 8WD3
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy