Atomistry » Fluorine » PDB 3uyt-3vrb » 3vc4
Atomistry »
  Fluorine »
    PDB 3uyt-3vrb »
      3vc4 »

Fluorine in PDB 3vc4: Exploitation of Hydrogen Bonding Constraints and Flat Hydrophobic Energy Landscapes in Pim-1 Kinase Needle Screening and Inhibitor Design

Enzymatic activity of Exploitation of Hydrogen Bonding Constraints and Flat Hydrophobic Energy Landscapes in Pim-1 Kinase Needle Screening and Inhibitor Design

All present enzymatic activity of Exploitation of Hydrogen Bonding Constraints and Flat Hydrophobic Energy Landscapes in Pim-1 Kinase Needle Screening and Inhibitor Design:
2.7.11.1;

Protein crystallography data

The structure of Exploitation of Hydrogen Bonding Constraints and Flat Hydrophobic Energy Landscapes in Pim-1 Kinase Needle Screening and Inhibitor Design, PDB code: 3vc4 was solved by J.Liu, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 85.30 / 2.23
Space group P 65
Cell size a, b, c (Å), α, β, γ (°) 98.496, 98.496, 81.025, 90.00, 90.00, 120.00
R / Rfree (%) 25.7 / 31.9

Fluorine Binding Sites:

The binding sites of Fluorine atom in the Exploitation of Hydrogen Bonding Constraints and Flat Hydrophobic Energy Landscapes in Pim-1 Kinase Needle Screening and Inhibitor Design (pdb code 3vc4). This binding sites where shown within 5.0 Angstroms radius around Fluorine atom.
In total 3 binding sites of Fluorine where determined in the Exploitation of Hydrogen Bonding Constraints and Flat Hydrophobic Energy Landscapes in Pim-1 Kinase Needle Screening and Inhibitor Design, PDB code: 3vc4:
Jump to Fluorine binding site number: 1; 2; 3;

Fluorine binding site 1 out of 3 in 3vc4

Go back to Fluorine Binding Sites List in 3vc4
Fluorine binding site 1 out of 3 in the Exploitation of Hydrogen Bonding Constraints and Flat Hydrophobic Energy Landscapes in Pim-1 Kinase Needle Screening and Inhibitor Design


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 1 of Exploitation of Hydrogen Bonding Constraints and Flat Hydrophobic Energy Landscapes in Pim-1 Kinase Needle Screening and Inhibitor Design within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F1

b:66.2
occ:1.00
F16 A:0FS1 0.0 66.2 1.0
C12 A:0FS1 1.3 62.7 1.0
F18 A:0FS1 2.2 66.7 1.0
F17 A:0FS1 2.3 60.3 1.0
C04 A:0FS1 2.3 58.8 1.0
C02 A:0FS1 2.8 57.7 1.0
CD1 A:LEU174 3.2 27.9 1.0
C06 A:0FS1 3.6 54.8 1.0
CG A:ARG122 3.7 37.2 1.0
CG1 A:VAL126 3.9 37.8 1.0
CD A:PRO123 4.0 41.8 1.0
C03 A:0FS1 4.1 55.3 1.0
CG2 A:VAL126 4.2 39.9 1.0
CB A:ARG122 4.3 38.7 1.0
CD A:ARG122 4.3 33.8 1.0
CA A:ARG122 4.4 39.7 1.0
CG A:PRO123 4.5 43.7 1.0
CG A:LEU174 4.5 33.1 1.0
CB A:VAL126 4.5 39.9 1.0
C05 A:0FS1 4.6 54.2 1.0
O A:PRO123 4.6 44.6 1.0
N A:PRO123 4.7 42.8 1.0
CD2 A:LEU174 4.7 25.3 1.0
C01 A:0FS1 4.9 55.4 1.0
C A:ARG122 5.0 41.0 1.0
O A:GLU121 5.0 40.3 1.0

Fluorine binding site 2 out of 3 in 3vc4

Go back to Fluorine Binding Sites List in 3vc4
Fluorine binding site 2 out of 3 in the Exploitation of Hydrogen Bonding Constraints and Flat Hydrophobic Energy Landscapes in Pim-1 Kinase Needle Screening and Inhibitor Design


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 2 of Exploitation of Hydrogen Bonding Constraints and Flat Hydrophobic Energy Landscapes in Pim-1 Kinase Needle Screening and Inhibitor Design within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F1

b:60.3
occ:1.00
F17 A:0FS1 0.0 60.3 1.0
C12 A:0FS1 1.4 62.7 1.0
F18 A:0FS1 2.2 66.7 1.0
F16 A:0FS1 2.3 66.2 1.0
C04 A:0FS1 2.3 58.8 1.0
C06 A:0FS1 2.7 54.8 1.0
O A:GLU121 3.4 40.3 1.0
CD1 A:LEU174 3.6 27.9 1.0
C02 A:0FS1 3.6 57.7 1.0
CB A:ALA65 3.7 33.0 1.0
CD1 A:ILE104 4.0 35.5 1.0
C05 A:0FS1 4.0 54.2 1.0
CB A:ARG122 4.0 38.7 1.0
CA A:ARG122 4.0 39.7 1.0
CG A:ARG122 4.2 37.2 1.0
CD A:PRO123 4.3 41.8 1.0
C A:GLU121 4.5 38.6 1.0
S10 A:0FS1 4.6 51.3 1.0
C03 A:0FS1 4.8 55.3 1.0
N A:ARG122 4.8 38.6 1.0
CD A:ARG122 4.9 33.8 1.0
C01 A:0FS1 4.9 55.4 1.0
C13 A:0FS1 5.0 50.0 1.0

Fluorine binding site 3 out of 3 in 3vc4

Go back to Fluorine Binding Sites List in 3vc4
Fluorine binding site 3 out of 3 in the Exploitation of Hydrogen Bonding Constraints and Flat Hydrophobic Energy Landscapes in Pim-1 Kinase Needle Screening and Inhibitor Design


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 3 of Exploitation of Hydrogen Bonding Constraints and Flat Hydrophobic Energy Landscapes in Pim-1 Kinase Needle Screening and Inhibitor Design within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F1

b:66.7
occ:1.00
F18 A:0FS1 0.0 66.7 1.0
C12 A:0FS1 1.3 62.7 1.0
C04 A:0FS1 2.1 58.8 1.0
F16 A:0FS1 2.2 66.2 1.0
F17 A:0FS1 2.2 60.3 1.0
C02 A:0FS1 2.9 57.7 1.0
C06 A:0FS1 3.1 54.8 1.0
CD A:ARG122 3.2 33.8 1.0
CG A:ARG122 3.2 37.2 1.0
CB A:ALA65 3.4 33.0 1.0
CD1 A:LEU44 3.5 37.9 1.0
CB A:ARG122 3.7 38.7 1.0
C03 A:0FS1 4.1 55.3 1.0
C05 A:0FS1 4.2 54.2 1.0
CA A:ARG122 4.4 39.7 1.0
CA A:ALA65 4.4 34.8 1.0
NE A:ARG122 4.5 34.0 1.0
C01 A:0FS1 4.6 55.4 1.0
O A:GLU121 4.8 40.3 1.0
N A:ALA65 4.9 36.1 1.0
CD1 A:LEU174 5.0 27.9 1.0
CG A:LEU44 5.0 41.9 1.0

Reference:

A.C.Good, J.Liu, B.Hirth, G.Asmussen, Y.Xiang, H.P.Biemann, K.A.Bishop, T.Fremgen, M.Fitzgerald, T.Gladysheva, A.Jain, K.Jancsics, M.Metz, A.Papoulis, R.Skerlj, J.D.Stepp, R.R.Wei. Implications of Promiscuous Pim-1 Kinase Fragment Inhibitor Hydrophobic Interactions For Fragment-Based Drug Design. J.Med.Chem. V. 55 2641 2012.
ISSN: ISSN 0022-2623
PubMed: 22339127
DOI: 10.1021/JM2014698
Page generated: Sun Dec 13 11:56:58 2020

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