Chlorine in PDB 5jka: Crystal Structure of Human Juno (Crystal Form 1)

The structure of Crystal Structure of Human Juno (Crystal Form 1), PDB code: 5jka was solved by U.Ohto, H.Ishida, T.Shimizu, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	50.00 / 2.00
Space group	I 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	51.920, 81.038, 235.084, 90.00, 90.00, 90.00
R / Rfree (%)	19.7 / 21.8

The binding sites of Chlorine atom in the Crystal Structure of Human Juno (Crystal Form 1) (pdb code 5jka). 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 Human Juno (Crystal Form 1), PDB code: 5jka:
Jump to Chlorine binding site number: 1; 2; 3;

Chlorine binding site 1 out of 3 in the Crystal Structure of Human Juno (Crystal Form 1)


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 Human Juno (Crystal Form 1) within 5.0Å range: probe atom residue distance (Å) B Occ B:Cl305 b:43.6 occ:1.00 OG B:SER100 2.9 47.1 1.0 ND2 B:ASN219 3.1 52.1 1.0 ND2 B:ASN217 3.1 55.8 1.0 OD1 B:ASN102 3.2 46.1 1.0 NE1 B:TRP50 3.2 40.6 1.0 CB B:SER100 3.6 42.0 1.0 OD1 B:ASN217 3.7 59.3 1.0 CB B:ASN219 3.7 50.4 1.0 CD1 B:TRP50 3.8 39.1 1.0 CG B:ASN217 3.8 59.0 1.0 CG B:ASN219 3.9 51.2 1.0 CG B:ASN102 4.0 49.4 1.0 CB B:ASN102 4.1 47.1 1.0 CE1 B:PHE96 4.1 46.4 1.0 CA B:SER100 4.1 40.4 1.0 CD B:PRO101 4.2 41.3 1.0 CE2 B:TRP50 4.4 39.1 1.0 CE1 B:PHE211 4.4 47.8 1.0 CD1 B:PHE96 4.4 43.6 1.0 N B:PRO101 4.8 41.5 1.0 N B:ASN102 4.8 45.2 1.0 C B:SER100 4.9 40.2 1.0 O B:HOH444 5.0 41.5 1.0 CZ2 B:TRP50 5.0 38.8 1.0 CZ B:PHE211 5.0 50.2 1.0

Chlorine binding site 2 out of 3 in the Crystal Structure of Human Juno (Crystal Form 1)


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 Human Juno (Crystal Form 1) within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl301 b:26.7 occ:1.00 OG A:SER100 2.9 25.1 1.0 NE1 A:TRP50 3.2 23.6 1.0 ND2 A:ASN219 3.2 25.5 1.0 ND2 A:ASN217 3.2 30.9 1.0 OD1 A:ASN102 3.3 31.7 1.0 CB A:SER100 3.5 24.3 1.0 CB A:ASN219 3.7 26.6 1.0 OD1 A:ASN217 3.8 32.7 1.0 CD1 A:TRP50 3.9 23.8 1.0 CG A:ASN217 3.9 33.7 1.0 CG A:ASN219 4.0 27.2 1.0 CA A:SER100 4.0 25.2 1.0 CB A:ASN102 4.0 25.5 1.0 CE1 A:PHE96 4.0 22.7 1.0 CG A:ASN102 4.1 27.0 1.0 CD A:PRO101 4.2 25.1 1.0 CE2 A:TRP50 4.3 23.0 1.0 CD1 A:PHE96 4.3 21.2 1.0 CE1 A:PHE211 4.5 28.6 1.0 N A:PRO101 4.7 25.3 1.0 N A:ASN102 4.7 24.8 1.0 C A:SER100 4.8 26.3 1.0 CZ2 A:TRP50 4.8 21.5 1.0

Chlorine binding site 3 out of 3 in the Crystal Structure of Human Juno (Crystal Form 1)


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 Human Juno (Crystal Form 1) within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl302 b:39.0 occ:1.00 NE A:ARG87 3.1 36.5 1.0 NE B:ARG87 3.2 41.4 1.0 NH2 A:ARG87 3.2 34.8 1.0 NH2 B:ARG87 3.4 39.8 1.0 CA A:PRO84 3.5 31.9 1.0 CA B:PRO84 3.5 33.2 1.0 CZ A:ARG87 3.6 34.5 1.0 CZ B:ARG87 3.8 40.9 1.0 CB A:PRO84 3.8 33.2 1.0 CG A:PRO84 3.8 33.2 1.0 CB B:PRO84 3.9 33.4 1.0 CG B:PRO84 4.0 32.6 1.0 N B:PRO84 4.1 33.1 1.0 CD A:ARG87 4.1 34.6 1.0 CB A:ARG87 4.1 29.9 1.0 CB B:ARG87 4.2 36.6 1.0 N A:PRO84 4.2 30.3 1.0 CD B:ARG87 4.2 41.2 1.0 CD B:PRO84 4.4 32.2 1.0 CD A:PRO84 4.5 31.5 1.0 O A:PRO84 4.5 30.4 1.0 CG A:ARG87 4.6 30.9 1.0 C A:PRO84 4.6 32.0 1.0 C B:PRO84 4.6 33.9 1.0 O B:PRO84 4.6 33.1 1.0 CG B:ARG87 4.7 40.3 1.0 C B:MET83 4.7 34.2 1.0 O B:MET83 4.8 34.5 1.0 CZ A:PHE77 4.9 29.5 1.0 C A:MET83 4.9 31.3 1.0 CZ B:PHE77 4.9 36.2 1.0 NH1 A:ARG87 4.9 37.0 1.0 O B:LEU82 5.0 35.3 1.0

U.Ohto, H.Ishida, E.Krayukhina, S.Uchiyama, N.Inoue, T.Shimizu. Structure of IZUMO1-Juno Reveals Sperm-Oocyte Recognition During Mammalian Fertilization Nature V. 534 566 2016.
ISSN: ESSN 1476-4687
PubMed: 27309808
DOI: 10.1038/NATURE18596