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Arsenic in PDB 5oyj: Crystal Structure of Vegfr-2 Domains 4-5 in Complex with Darpin D4B

Enzymatic activity of Crystal Structure of Vegfr-2 Domains 4-5 in Complex with Darpin D4B

All present enzymatic activity of Crystal Structure of Vegfr-2 Domains 4-5 in Complex with Darpin D4B:
2.7.10.1;

Protein crystallography data

The structure of Crystal Structure of Vegfr-2 Domains 4-5 in Complex with Darpin D4B, PDB code: 5oyj was solved by C.L.Piscitelli, K.M.Thieltges, S.Markovic-Mueller, H.K.Binz, K.Ballmer-Hofer, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 38.75 / 2.38
Space group P 21 21 2
Cell size a, b, c (Å), α, β, γ (°) 109.489, 164.559, 70.759, 90.00, 90.00, 90.00
R / Rfree (%) 17.8 / 22.9

Other elements in 5oyj:

The structure of Crystal Structure of Vegfr-2 Domains 4-5 in Complex with Darpin D4B also contains other interesting chemical elements:

Calcium (Ca) 4 atoms
Sodium (Na) 1 atom

Arsenic Binding Sites:

The binding sites of Arsenic atom in the Crystal Structure of Vegfr-2 Domains 4-5 in Complex with Darpin D4B (pdb code 5oyj). This binding sites where shown within 5.0 Angstroms radius around Arsenic atom.
In total only one binding site of Arsenic was determined in the Crystal Structure of Vegfr-2 Domains 4-5 in Complex with Darpin D4B, PDB code: 5oyj:

Arsenic binding site 1 out of 1 in 5oyj

Go back to Arsenic Binding Sites List in 5oyj
Arsenic binding site 1 out of 1 in the Crystal Structure of Vegfr-2 Domains 4-5 in Complex with Darpin D4B


Mono view


Stereo pair view

A full contact list of Arsenic with other atoms in the As binding site number 1 of Crystal Structure of Vegfr-2 Domains 4-5 in Complex with Darpin D4B within 5.0Å range:
probe atom residue distance (Å) B Occ
C:As610

b:0.5
occ:1.00
 AS C:CAC610 0.0 0.5 1.0
O1 C:CAC610 1.7 0.8 1.0
O2 C:CAC610 1.7 0.6 1.0
C1 C:CAC610 2.0 0.5 1.0
C2 C:CAC610 2.0 0.5 1.0
OE1 C:GLU464 2.9 43.5 1.0
O C:HOH754 3.2 37.5 0.5
CD C:GLU464 3.7 43.4 1.0
OE2 C:GLU464 3.7 42.4 1.0
O C:HOH712 4.6 54.0 1.0
N C:SER525 4.6 40.8 1.0
CG1 C:VAL524 4.6 43.6 1.0

Reference:

K.M.Thieltges, D.Avramovic, C.L.Piscitelli, S.Markovic-Mueller, H.K.Binz, K.Ballmer-Hofer. Characterization of A Drug-Targetable Allosteric Site Regulating Vascular Endothelial Growth Factor Signaling. Angiogenesis V. 21 533 2018.
ISSN: ESSN 1573-7209
PubMed: 29502220
DOI: 10.1007/S10456-018-9606-9
Page generated: Wed Jul 10 13:06:13 2024

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