Chlorine in PDB 6h15: Structure of LRP6 P3E3P4E4 in Complex with Vhh L-P2-B10

The structure of Structure of LRP6 P3E3P4E4 in Complex with Vhh L-P2-B10, PDB code: 6h15 was solved by P.Gros, R.C.Van Scherpenzeel, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	94.81 / 2.60
Space group	P 65
Cell size a, b, c (Å), α, β, γ (°)	118.314, 118.314, 249.951, 90.00, 90.00, 120.00
R / Rfree (%)	19.8 / 24.7

The binding sites of Chlorine atom in the Structure of LRP6 P3E3P4E4 in Complex with Vhh L-P2-B10 (pdb code 6h15). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 7 binding sites of Chlorine where determined in the Structure of LRP6 P3E3P4E4 in Complex with Vhh L-P2-B10, PDB code: 6h15:
Jump to Chlorine binding site number: 1; 2; 3; 4; 5; 6; 7;

Chlorine binding site 1 out of 7 in the Structure of LRP6 P3E3P4E4 in Complex with Vhh L-P2-B10


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Structure of LRP6 P3E3P4E4 in Complex with Vhh L-P2-B10 within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl1309 b:77.5 occ:1.00 N A:VAL1138 3.2 37.3 1.0 CD1 A:ILE1137 3.4 59.3 1.0 CG2 A:VAL1138 3.6 32.3 1.0 CB A:VAL1138 3.7 30.6 1.0 CA A:ILE1137 4.0 42.8 1.0 CA A:VAL1138 4.1 33.9 1.0 C A:ILE1137 4.1 40.1 1.0 CG1 A:ILE1137 4.2 53.3 1.0 O A:VAL1138 4.7 37.4 1.0 CB A:ILE1137 4.7 45.1 1.0 C A:VAL1138 4.9 34.1 1.0 O A:ARG1136 4.9 42.3 1.0

Chlorine binding site 2 out of 7 in the Structure of LRP6 P3E3P4E4 in Complex with Vhh L-P2-B10


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Structure of LRP6 P3E3P4E4 in Complex with Vhh L-P2-B10 within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl1310 b:85.2 occ:1.00 N A:ALA1183 2.9 43.2 1.0 CG A:GLN1182 3.5 41.7 1.0 CA A:GLN1182 3.5 42.2 1.0 O A:ALA1183 3.6 40.1 1.0 C A:GLN1182 3.7 40.1 1.0 CA A:ALA1183 3.9 39.3 1.0 CB A:GLN1182 4.1 39.3 1.0 C A:ALA1183 4.1 38.5 1.0 CB A:ALA1183 4.2 31.4 1.0 CD A:GLN1182 4.7 42.9 1.0 N A:GLN1182 4.7 40.9 1.0 O A:VAL1181 4.8 46.5 1.0 O A:GLN1182 4.9 36.9 1.0

Chlorine binding site 3 out of 7 in the Structure of LRP6 P3E3P4E4 in Complex with Vhh L-P2-B10


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Structure of LRP6 P3E3P4E4 in Complex with Vhh L-P2-B10 within 5.0Å range: probe atom residue distance (Å) B Occ C:Cl201 b:67.8 occ:1.00 N C:THR59 3.4 46.1 1.0 O C:THR59 3.5 39.8 1.0 CB C:GLN58 3.5 50.1 1.0 CA C:GLN58 3.6 51.9 1.0 CG C:GLN58 3.9 50.1 1.0 C C:GLN58 3.9 49.5 1.0 C C:THR59 4.3 37.1 1.0 CA C:THR59 4.4 43.5 1.0 CD2 A:HIS834 4.5 37.2 1.0 OG1 C:THR59 4.6 45.8 1.0 CZ C:TYR60 4.6 35.5 1.0 CE2 C:TYR60 4.7 33.8 1.0 OH C:TYR60 4.7 34.8 1.0 N C:GLN58 4.9 51.3 1.0

Chlorine binding site 4 out of 7 in the Structure of LRP6 P3E3P4E4 in Complex with Vhh L-P2-B10


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 4 of Structure of LRP6 P3E3P4E4 in Complex with Vhh L-P2-B10 within 5.0Å range: probe atom residue distance (Å) B Occ C:Cl202 b:73.7 occ:1.00 N C:ARG73 3.1 47.7 1.0 NE C:ARG73 3.5 69.4 1.0 CA C:SER72 3.7 42.8 1.0 CB C:SER72 3.8 42.8 1.0 C C:SER72 3.9 44.0 1.0 CB C:ARG73 4.0 56.0 1.0 CA C:ARG73 4.0 50.9 1.0 O C:ARG73 4.0 48.6 1.0 NH2 C:ARG73 4.1 67.4 1.0 CG C:ARG73 4.1 63.2 1.0 CD1 C:ILE52 4.2 41.7 1.0 CZ C:ARG73 4.2 66.2 1.0 CD C:ARG73 4.4 67.4 1.0 C C:ARG73 4.5 51.5 1.0 O C:ILE71 5.0 41.6 1.0

Chlorine binding site 5 out of 7 in the Structure of LRP6 P3E3P4E4 in Complex with Vhh L-P2-B10


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 5 of Structure of LRP6 P3E3P4E4 in Complex with Vhh L-P2-B10 within 5.0Å range: probe atom residue distance (Å) B Occ B:Cl1312 b:72.9 occ:1.00 N B:VAL661 3.4 42.2 1.0 N B:GLY660 3.4 40.8 1.0 CA B:THR659 3.5 45.8 1.0 O B:LEU658 3.6 40.5 1.0 C B:THR659 3.6 45.0 1.0 O B:VAL661 3.8 46.4 1.0 N B:THR659 3.9 40.1 1.0 CB B:VAL661 3.9 38.2 1.0 C B:LEU658 3.9 39.3 1.0 CA B:VAL661 4.1 38.5 1.0 O B:ALA640 4.2 54.0 1.0 C B:GLY660 4.3 45.5 1.0 CA B:GLY660 4.3 42.1 1.0 CG2 B:VAL661 4.3 24.3 1.0 C B:VAL661 4.4 41.1 1.0 O B:THR659 4.5 54.3 1.0 CB B:THR659 4.8 53.4 1.0 OG1 B:THR659 4.9 62.6 1.0

Chlorine binding site 6 out of 7 in the Structure of LRP6 P3E3P4E4 in Complex with Vhh L-P2-B10


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 6 of Structure of LRP6 P3E3P4E4 in Complex with Vhh L-P2-B10 within 5.0Å range: probe atom residue distance (Å) B Occ B:Cl1313 b:85.5 occ:1.00 O B:TRP890 3.3 42.2 1.0 N B:TRP890 3.4 35.9 1.0 CB B:ALA758 3.8 35.0 1.0 CA B:GLY889 3.8 33.9 1.0 C B:GLY889 4.1 33.7 1.0 C B:TRP890 4.2 40.6 1.0 CA B:TRP890 4.2 38.8 1.0 O B:ALA758 4.3 48.2 1.0 CA B:ALA758 4.5 42.6 1.0 CB B:TRP890 4.6 43.6 1.0 C B:ALA758 4.8 46.3 1.0

Chlorine binding site 7 out of 7 in the Structure of LRP6 P3E3P4E4 in Complex with Vhh L-P2-B10


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 7 of Structure of LRP6 P3E3P4E4 in Complex with Vhh L-P2-B10 within 5.0Å range: probe atom residue distance (Å) B Occ B:Cl1314 b:82.3 occ:1.00 O B:HOH1451 3.0 42.1 1.0 CG2 B:ILE958 3.6 43.4 1.0 N B:ILE958 3.7 33.5 1.0 NH1 B:ARG728 3.7 43.8 1.0 NH2 B:ARG739 3.8 32.2 1.0 CA B:ILE957 3.9 35.5 1.0 CB B:ILE957 3.9 36.1 1.0 OE2 B:GLU730 4.0 50.1 1.0 CZ B:ARG739 4.0 36.7 1.0 CG2 B:ILE957 4.3 32.4 1.0 C B:ILE957 4.3 35.3 1.0 NE B:ARG739 4.3 38.5 1.0 CA B:GLY703 4.5 27.9 1.0 O B:ILE958 4.5 42.8 1.0 NH1 B:ARG739 4.6 32.9 1.0 CA B:ILE958 4.7 39.2 1.0 O B:HOH1473 4.7 34.5 1.0 CB B:ILE958 4.7 39.7 1.0 O B:ASP956 4.8 49.4 1.0 CZ B:ARG728 4.9 41.6 1.0 O B:GLY703 4.9 42.3 1.0

N.Fenderico, R.C.Van Scherpenzeel, M.Goldflam, D.Proverbio, I.Jordens, T.Kralj, S.Stryeck, T.Z.Bass, G.Hermans, C.Ullman, T.Aastrup, P.Gros, M.M.Maurice. Anti-LRP5/6 Vhhs Promote Differentiation of Wnt-Hypersensitive Intestinal Stem Cells. Nat Commun V. 10 365 2019.
ISSN: ESSN 2041-1723
PubMed: 30664649
DOI: 10.1038/S41467-018-08172-Z