Chlorine in PDB 6yl8: Crystal Structure of YTHDC1 with Compound DHU_DC1_011

The structure of Crystal Structure of YTHDC1 with Compound DHU_DC1_011, PDB code: 6yl8 was solved by R.K.Bedi, D.Huang, L.Wiedmer, A.Caflisch, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	40.85 / 1.50
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	39.790, 103.860, 42.400, 90.00, 105.52, 90.00
R / Rfree (%)	17.3 / 20

The binding sites of Chlorine atom in the Crystal Structure of YTHDC1 with Compound DHU_DC1_011 (pdb code 6yl8). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 3 binding sites of Chlorine where determined in the Crystal Structure of YTHDC1 with Compound DHU_DC1_011, PDB code: 6yl8:
Jump to Chlorine binding site number: 1; 2; 3;

Chlorine binding site 1 out of 3 in the Crystal Structure of YTHDC1 with Compound DHU_DC1_011


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 YTHDC1 with Compound DHU_DC1_011 within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl601 b:81.5 occ:1.00 CL1 A:OWZ601 0.0 81.5 1.0 C11 A:OWZ601 1.8 39.6 1.0 C06 A:OWZ601 2.8 28.5 1.0 C10 A:OWZ601 2.8 31.8 1.0 C05 A:OWZ601 3.1 30.6 1.0 C04 A:OWZ601 3.3 27.4 1.0 CG A:PRO431 3.7 37.1 1.0 OD1 A:ASN363 3.7 44.8 1.0 O4 A:SO4605 3.9 40.2 1.0 CD A:PRO431 4.0 36.1 1.0 C09 A:OWZ601 4.1 32.0 1.0 C07 A:OWZ601 4.1 35.9 1.0 O13 A:OWZ601 4.4 29.1 1.0 N03 A:OWZ601 4.4 28.7 1.0 C08 A:OWZ601 4.6 36.5 1.0 CD1 A:LEU380 4.6 27.9 1.0 O1 A:SO4605 4.7 44.6 1.0 S A:SO4605 4.9 28.8 1.0 CG A:ASN363 4.9 40.4 1.0

Chlorine binding site 2 out of 3 in the Crystal Structure of YTHDC1 with Compound DHU_DC1_011


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Crystal Structure of YTHDC1 with Compound DHU_DC1_011 within 5.0Å range: probe atom residue distance (Å) B Occ B:Cl601 b:53.1 occ:1.00 CL1 B:OWZ601 0.0 53.1 1.0 C11 B:OWZ601 1.8 28.4 1.0 C06 B:OWZ601 2.7 33.8 1.0 C10 B:OWZ601 2.8 35.0 1.0 C05 B:OWZ601 3.0 29.4 1.0 C04 B:OWZ601 3.4 29.7 1.0 CG B:PRO431 3.8 36.7 1.0 C07 B:OWZ601 4.1 30.3 1.0 C09 B:OWZ601 4.1 28.3 1.0 O3 B:SO4606 4.3 39.1 1.0 O13 B:OWZ601 4.4 25.9 1.0 O4 B:SO4606 4.4 31.6 1.0 CD1 B:LEU380 4.4 31.6 1.0 O1 B:SO4606 4.4 34.8 1.0 N03 B:OWZ601 4.5 23.4 1.0 C08 B:OWZ601 4.6 31.5 1.0 CG B:LEU380 4.6 29.3 1.0 S B:SO4606 4.6 25.5 1.0 CD2 B:LEU380 4.7 34.1 1.0 CD B:PRO431 4.8 35.0 1.0 CB B:PRO431 4.9 33.6 1.0 O B:HOH753 5.0 26.9 1.0

Chlorine binding site 3 out of 3 in the Crystal Structure of YTHDC1 with Compound DHU_DC1_011


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Crystal Structure of YTHDC1 with Compound DHU_DC1_011 within 5.0Å range: probe atom residue distance (Å) B Occ B:Cl602 b:31.9 occ:1.00 CL1 B:OWZ602 0.0 31.9 1.0 C11 B:OWZ602 1.8 26.4 1.0 C06 B:OWZ602 2.8 21.4 1.0 C10 B:OWZ602 2.8 24.1 1.0 C05 B:OWZ602 3.1 25.1 1.0 O B:HOH815 3.3 26.7 1.0 CA B:HIS427 3.5 23.8 1.0 CB B:HIS427 3.5 21.2 1.0 C B:HIS427 3.6 16.2 1.0 O B:TRP428 3.7 18.2 1.0 O B:HIS427 3.8 17.8 1.0 O B:HOH860 4.1 38.4 1.0 C07 B:OWZ602 4.1 21.0 1.0 C09 B:OWZ602 4.1 22.3 1.0 O13 B:OWZ602 4.1 24.5 1.0 C04 B:OWZ602 4.1 27.9 1.0 CG B:HIS427 4.2 31.2 1.0 CD2 B:HIS427 4.3 26.6 1.0 N B:TRP428 4.3 17.3 1.0 C08 B:OWZ602 4.6 19.1 1.0 C B:TRP428 4.6 17.1 1.0 O B:HOH841 4.8 21.8 1.0 N B:HIS427 4.9 21.4 1.0 C14 B:OWZ602 4.9 21.4 1.0 N03 B:OWZ602 4.9 28.2 1.0

R.K.Bedi, D.Huang, L.Wiedmer, A.Caflisch. Crystal Structure of YTHDC1 with Compound DHU_DC1_011 To Be Published.