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Chlorine in PDB 5fz7: Crystal Structure of the Catalytic Domain of Human JARID1B in Complex with Maybridge Fragment Ethyl 2-Amino-4-Thiophen-2-Ylthiophene-3- Carboxylate (N06131B) (Ligand Modelled Based on Pandda Event Map, Sgc - Diamond I04-1 Fragment Screening)

Protein crystallography data

The structure of Crystal Structure of the Catalytic Domain of Human JARID1B in Complex with Maybridge Fragment Ethyl 2-Amino-4-Thiophen-2-Ylthiophene-3- Carboxylate (N06131B) (Ligand Modelled Based on Pandda Event Map, Sgc - Diamond I04-1 Fragment Screening), PDB code: 5fz7 was solved by R.Nowak, T.Krojer, C.Johansson, K.Kupinska, A.Szykowska, N.Pearce, R.Talon, P.Collins, C.Gileadi, C.Strain-Damerell, N.A.Burgess-Brown, C.H.Arrowsmith, C.Bountra, A.M.Edwards, F.Von Delft, P.E.Brennan, U.Oppermann, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 96.33 / 2.30
Space group P 65 2 2
Cell size a, b, c (Å), α, β, γ (°) 143.300, 143.300, 152.810, 90.00, 90.00, 120.00
R / Rfree (%) 18.4 / 22.6

Other elements in 5fz7:

The structure of Crystal Structure of the Catalytic Domain of Human JARID1B in Complex with Maybridge Fragment Ethyl 2-Amino-4-Thiophen-2-Ylthiophene-3- Carboxylate (N06131B) (Ligand Modelled Based on Pandda Event Map, Sgc - Diamond I04-1 Fragment Screening) also contains other interesting chemical elements:

Manganese (Mn) 1 atom
Zinc (Zn) 2 atoms

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Crystal Structure of the Catalytic Domain of Human JARID1B in Complex with Maybridge Fragment Ethyl 2-Amino-4-Thiophen-2-Ylthiophene-3- Carboxylate (N06131B) (Ligand Modelled Based on Pandda Event Map, Sgc - Diamond I04-1 Fragment Screening) (pdb code 5fz7). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total only one binding site of Chlorine was determined in the Crystal Structure of the Catalytic Domain of Human JARID1B in Complex with Maybridge Fragment Ethyl 2-Amino-4-Thiophen-2-Ylthiophene-3- Carboxylate (N06131B) (Ligand Modelled Based on Pandda Event Map, Sgc - Diamond I04-1 Fragment Screening), PDB code: 5fz7:

Chlorine binding site 1 out of 1 in 5fz7

Go back to Chlorine Binding Sites List in 5fz7
Chlorine binding site 1 out of 1 in the Crystal Structure of the Catalytic Domain of Human JARID1B in Complex with Maybridge Fragment Ethyl 2-Amino-4-Thiophen-2-Ylthiophene-3- Carboxylate (N06131B) (Ligand Modelled Based on Pandda Event Map, Sgc - Diamond I04-1 Fragment Screening)


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Crystal Structure of the Catalytic Domain of Human JARID1B in Complex with Maybridge Fragment Ethyl 2-Amino-4-Thiophen-2-Ylthiophene-3- Carboxylate (N06131B) (Ligand Modelled Based on Pandda Event Map, Sgc - Diamond I04-1 Fragment Screening) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl1769

b:72.6
occ:1.00
O A:HOH2027 2.2 57.1 1.0
ND2 A:ASN91 2.5 38.2 1.0
O A:THR416 2.8 66.3 1.0
O A:GLU419 2.9 77.7 1.0
O A:LEU413 2.9 49.7 1.0
O A:LEU90 3.2 40.7 1.0
C A:THR416 3.8 66.7 1.0
CG A:ASN91 3.8 51.8 1.0
C A:GLU419 4.0 69.7 1.0
O A:VAL414 4.0 46.0 1.0
C A:LEU413 4.1 45.3 1.0
C A:VAL414 4.2 48.9 1.0
CA A:VAL414 4.2 42.6 1.0
C A:LEU90 4.2 41.6 1.0
CA A:ASN91 4.4 46.7 1.0
CB A:GLU419 4.5 68.7 1.0
CA A:ILE417 4.6 73.8 1.0
CB A:ASN91 4.6 44.7 1.0
N A:THR416 4.6 60.9 1.0
N A:ILE417 4.6 72.4 1.0
N A:VAL414 4.6 41.8 1.0
CA A:GLU419 4.7 69.3 1.0
CA A:THR416 4.7 65.5 1.0
N A:ASN91 4.7 47.1 1.0
OD1 A:ASN91 4.7 55.6 1.0
O A:ILE417 4.7 72.7 1.0
C A:ILE417 4.7 76.2 1.0
N A:GLU419 4.8 73.1 1.0
N A:SER415 4.9 51.4 1.0
N A:ASP420 4.9 67.0 1.0

Reference:

R.Nowak, T.Krojer, C.Johansson, K.Kupinska, A.Szykowska, N.Pearce, R.Talon, P.Collins, C.Gileadi, C.Strain-Damerell, N.A.Burgess-Brown, C.H.Arrowsmith, C.Bountra, A.M.Edwards, F.Von Delft, P.E.Brennan, U.Oppermann. Crystal Structure of the Catalytic Domain of Human JARID1B in Complex with Maybridge Fragment Ethyl 2-Amino-4-Thiophen-2-Ylthiophene-3-Carboxylate (N06131B) (Ligand Modelled Based on Pandda Event Map, Sgc - Diamond I04-1 Fragment Screening) To Be Published.
Page generated: Sat Jul 12 02:21:35 2025

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