Atomistry » Fluorine » PDB 8g9e-8gu1 » 8gkz
Atomistry »
  Fluorine »
    PDB 8g9e-8gu1 »
      8gkz »

Fluorine in PDB 8gkz: Human Mitochondrial Serine Hydroxymethyltransferase (SHMT2) Y105F in Complex with Plp, Glycine and AGF362 Inhibitor

Enzymatic activity of Human Mitochondrial Serine Hydroxymethyltransferase (SHMT2) Y105F in Complex with Plp, Glycine and AGF362 Inhibitor

All present enzymatic activity of Human Mitochondrial Serine Hydroxymethyltransferase (SHMT2) Y105F in Complex with Plp, Glycine and AGF362 Inhibitor:
2.1.2.1;

Protein crystallography data

The structure of Human Mitochondrial Serine Hydroxymethyltransferase (SHMT2) Y105F in Complex with Plp, Glycine and AGF362 Inhibitor, PDB code: 8gkz was solved by J.M.Katinas, C.E.Dann Iii, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 48.74 / 2.75
Space group P 65 2 2
Cell size a, b, c (Å), α, β, γ (°) 158.25, 158.25, 207.99, 90, 90, 120
R / Rfree (%) 21.5 / 26.7

Fluorine Binding Sites:

The binding sites of Fluorine atom in the Human Mitochondrial Serine Hydroxymethyltransferase (SHMT2) Y105F in Complex with Plp, Glycine and AGF362 Inhibitor (pdb code 8gkz). This binding sites where shown within 5.0 Angstroms radius around Fluorine atom.
In total only one binding site of Fluorine was determined in the Human Mitochondrial Serine Hydroxymethyltransferase (SHMT2) Y105F in Complex with Plp, Glycine and AGF362 Inhibitor, PDB code: 8gkz:

Fluorine binding site 1 out of 1 in 8gkz

Go back to Fluorine Binding Sites List in 8gkz
Fluorine binding site 1 out of 1 in the Human Mitochondrial Serine Hydroxymethyltransferase (SHMT2) Y105F in Complex with Plp, Glycine and AGF362 Inhibitor


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 1 of Human Mitochondrial Serine Hydroxymethyltransferase (SHMT2) Y105F in Complex with Plp, Glycine and AGF362 Inhibitor within 5.0Å range:
probe atom residue distance (Å) B Occ
B:F601

b:87.4
occ:0.91
 F33 B:Y72601 0.0 87.4 0.9
C12 B:Y72601 1.4 85.5 0.9
C13 B:Y72601 2.4 83.6 0.9
C16 B:Y72601 2.5 82.4 0.9
C31 B:Y72601 2.9 83.6 0.9
C17 B:Y72601 3.0 83.2 0.9
CZ B:PHE105 3.1 86.1 1.0
C32 B:Y72601 3.1 86.8 0.9
N19 B:Y72601 3.2 93.3 0.9
CE2 B:PHE105 3.3 90.4 1.0
CG B:PRO321 3.3 32.8 1.0
CB B:PRO321 3.4 29.1 1.0
CE2 B:PHE320 3.7 35.8 1.0
C15 B:Y72601 3.7 72.8 0.9
S14 B:Y72601 3.8 80.7 0.9
O18 B:Y72601 3.9 70.6 0.9
CZ B:PHE320 4.0 30.4 1.0
CE1 B:PHE105 4.0 74.3 1.0
CD1 A:LEU172 4.1 44.6 1.0
C30 B:Y72601 4.3 84.5 0.9
CD2 B:PHE105 4.3 80.5 1.0
C20 B:Y72601 4.4 94.1 0.9
CD2 A:LEU172 4.5 31.8 1.0
CD2 B:PHE320 4.5 35.0 1.0
CD B:PRO321 4.6 17.2 1.0
CA B:PRO321 4.7 18.9 1.0
C21 B:Y72601 4.7 96.4 0.9
CG A:LEU172 4.8 35.2 1.0
CD1 B:PHE105 4.9 72.6 1.0
N B:PRO321 5.0 27.0 1.0
CG B:PHE105 5.0 68.3 1.0

Reference:

J.M.Katinas, M.J.Nayeen, M.Schneider, K.Shah, A.N.Fifer, L.M.Klapper, A.Sharma, K.Thalluri, M.S.Van Nieuwenhze, Z.Hou, A.Gangjee, L.H.Matherly, C.E.Dann 3Rd. Structural Characterization of 5-Substituted Pyrrolo[3,2- D ]Pyrimidine Antifolate Inhibitors in Complex with Human Serine Hydroxymethyl Transferase 2. Biochemistry 2024.
ISSN: ISSN 0006-2960
PubMed: 38324671
DOI: 10.1021/ACS.BIOCHEM.3C00613
Page generated: Fri Aug 2 19:55:15 2024

Last articles

Zn in 9JPJ
Zn in 9JP7
Zn in 9JPK
Zn in 9JPL
Zn in 9GN6
Zn in 9GN7
Zn in 9GKU
Zn in 9GKW
Zn in 9GKX
Zn in 9GL0
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy