Iodine in PDB 5cmw: Crystal Structure of Yeast ENT5 N-Terminal Domain-Soaked in Ki

The structure of Crystal Structure of Yeast ENT5 N-Terminal Domain-Soaked in Ki, PDB code: 5cmw was solved by F.Zhang, Y.Song, X.Li, M.K.Teng, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	38.49 / 2.20
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	29.290, 51.760, 59.080, 90.00, 103.42, 90.00
R / Rfree (%)	20.5 / 25.8

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 14;

Binding sites:

The binding sites of Iodine atom in the Crystal Structure of Yeast ENT5 N-Terminal Domain-Soaked in Ki (pdb code 5cmw). This binding sites where shown within 5.0 Angstroms radius around Iodine atom.
In total 14 binding sites of Iodine where determined in the Crystal Structure of Yeast ENT5 N-Terminal Domain-Soaked in Ki, PDB code: 5cmw:
Jump to Iodine binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Iodine binding site 1 out of 14 in the Crystal Structure of Yeast ENT5 N-Terminal Domain-Soaked in Ki


Mono view


Stereo pair view

A full contact list of Iodine with other atoms in the I binding site number 1 of Crystal Structure of Yeast ENT5 N-Terminal Domain-Soaked in Ki within 5.0Å range: probe atom residue distance (Å) B Occ A:I202 b:19.1 occ:0.75 N A:TRP102 3.6 20.2 1.0 NH1 A:ARG83 3.7 23.4 1.0 N A:LYS149 3.8 26.3 1.0 CB A:TRP102 3.8 18.9 1.0 CD A:ARG83 3.9 24.0 1.0 CB A:VAL148 4.1 20.4 1.0 CA A:VAL148 4.1 20.1 1.0 CD1 A:TRP102 4.1 19.8 1.0 CA A:TRP102 4.2 19.2 1.0 N A:GLU101 4.3 26.0 1.0 O A:GLY99 4.3 27.7 1.0 CG A:TRP102 4.4 19.5 1.0 C A:GLU101 4.4 22.4 1.0 CB A:GLU101 4.4 26.1 1.0 C A:GLY99 4.4 27.3 1.0 CB A:LYS149 4.5 29.8 1.0 C A:VAL148 4.5 21.0 1.0 CA A:GLU101 4.6 24.6 1.0 CG2 A:VAL148 4.7 19.9 1.0 CZ A:ARG83 4.7 22.7 1.0 CA A:GLY99 4.7 26.9 1.0 CZ A:PHE146 4.8 13.0 1.0 CA A:LYS149 4.8 29.6 1.0 NE A:ARG83 4.8 23.7 1.0 CD A:LYS149 4.9 29.9 1.0 CE2 A:PHE146 4.9 13.3 1.0 N A:SER100 4.9 27.4 1.0 CG A:LYS149 4.9 29.7 1.0 O A:LYS147 5.0 16.3 1.0

Iodine binding site 2 out of 14 in the Crystal Structure of Yeast ENT5 N-Terminal Domain-Soaked in Ki


Mono view


Stereo pair view

A full contact list of Iodine with other atoms in the I binding site number 2 of Crystal Structure of Yeast ENT5 N-Terminal Domain-Soaked in Ki within 5.0Å range: probe atom residue distance (Å) B Occ A:I203 b:18.6 occ:0.61 CG A:LEU67 4.0 9.8 1.0 CG A:PRO64 4.0 12.8 1.0 CB A:PRO64 4.1 12.2 1.0 CB A:TYR66 4.2 9.0 1.0 CD2 A:LEU67 4.4 10.1 1.0 CD1 A:LEU67 4.5 9.7 1.0 CD1 A:TYR66 4.5 8.9 1.0 CG A:TYR66 4.6 8.9 1.0 N A:LEU67 4.9 9.1 1.0

Iodine binding site 3 out of 14 in the Crystal Structure of Yeast ENT5 N-Terminal Domain-Soaked in Ki


Mono view


Stereo pair view

A full contact list of Iodine with other atoms in the I binding site number 3 of Crystal Structure of Yeast ENT5 N-Terminal Domain-Soaked in Ki within 5.0Å range: probe atom residue distance (Å) B Occ A:I204 b:16.9 occ:0.59 O A:LYS165 4.0 11.2 1.0 CA A:LYS166 4.1 11.9 1.0 C A:LYS165 4.1 11.4 1.0 NZ A:LYS166 4.1 15.5 1.0 N A:LYS166 4.1 11.4 1.0 CB A:LYS165 4.2 11.9 1.0 CD2 A:LEU169 4.2 13.4 1.0 CE A:LYS166 4.3 14.9 1.0 CD A:LYS166 4.4 14.3 1.0 CE A:LYS165 4.4 13.4 1.0 NZ A:LYS165 4.5 13.8 1.0 CB A:LEU169 4.5 12.3 1.0 CB A:LYS166 4.7 12.6 1.0 CA A:LYS165 4.8 11.3 1.0 CG A:LEU169 4.9 13.2 1.0

Iodine binding site 4 out of 14 in the Crystal Structure of Yeast ENT5 N-Terminal Domain-Soaked in Ki


Mono view


Stereo pair view

A full contact list of Iodine with other atoms in the I binding site number 4 of Crystal Structure of Yeast ENT5 N-Terminal Domain-Soaked in Ki within 5.0Å range: probe atom residue distance (Å) B Occ A:I205 b:22.5 occ:0.47 CG A:ARG161 3.7 24.9 1.0 CA A:ARG161 3.9 18.6 1.0 CB A:ARG161 4.0 21.5 1.0 CD A:ARG164 4.2 10.3 1.0 N A:ARG161 4.4 18.4 1.0 CB A:ARG164 4.8 10.1 1.0 CD A:ARG161 4.8 27.2 1.0 C A:GLU160 4.9 18.7 1.0 NH1 A:ARG164 4.9 11.4 1.0 CG A:ARG164 4.9 10.1 1.0 O A:GLU160 4.9 17.2 1.0

Iodine binding site 5 out of 14 in the Crystal Structure of Yeast ENT5 N-Terminal Domain-Soaked in Ki


Mono view


Stereo pair view

A full contact list of Iodine with other atoms in the I binding site number 5 of Crystal Structure of Yeast ENT5 N-Terminal Domain-Soaked in Ki within 5.0Å range: probe atom residue distance (Å) B Occ A:I206 b:19.1 occ:0.37 CB A:LYS55 3.9 16.5 1.0 O A:LYS51 3.9 14.3 1.0 CD2 A:HIS52 4.0 15.5 1.0 CG A:LYS55 4.0 18.7 1.0 CD A:LYS55 4.1 20.1 1.0 NH1 A:ARG39 4.1 18.1 1.0 CD A:ARG39 4.2 17.8 1.0 C A:LYS51 4.2 15.1 1.0 CG A:LYS51 4.3 21.4 1.0 CA A:HIS52 4.4 13.7 1.0 CZ A:ARG39 4.4 19.0 1.0 N A:HIS52 4.4 13.7 1.0 NE A:ARG39 4.4 18.6 1.0 O A:HOH314 4.6 14.1 1.0 CD A:LYS51 4.6 24.3 1.0 CE A:LYS51 4.6 26.3 1.0 CB A:LYS51 4.7 18.5 1.0 NE2 A:HIS52 4.9 16.0 1.0 CG A:HIS52 5.0 15.3 1.0

Iodine binding site 6 out of 14 in the Crystal Structure of Yeast ENT5 N-Terminal Domain-Soaked in Ki


Mono view


Stereo pair view

A full contact list of Iodine with other atoms in the I binding site number 6 of Crystal Structure of Yeast ENT5 N-Terminal Domain-Soaked in Ki within 5.0Å range: probe atom residue distance (Å) B Occ A:I207 b:20.5 occ:0.37 NH2 A:ARG164 3.3 11.5 1.0 O A:HOH325 3.5 14.2 1.0 NH1 A:ARG164 3.5 11.4 1.0 CZ A:ARG164 3.9 11.0 1.0 CD A:LYS147 4.8 20.2 1.0 O A:GLN145 4.9 13.6 1.0 CA A:GLN145 5.0 12.7 1.0

Iodine binding site 7 out of 14 in the Crystal Structure of Yeast ENT5 N-Terminal Domain-Soaked in Ki


Mono view


Stereo pair view

A full contact list of Iodine with other atoms in the I binding site number 7 of Crystal Structure of Yeast ENT5 N-Terminal Domain-Soaked in Ki within 5.0Å range: probe atom residue distance (Å) B Occ A:I208 b:21.6 occ:0.31 O A:HOH301 3.0 10.9 1.0 ND2 A:ASN42 3.8 19.4 1.0 CG A:ARG39 3.8 16.8 1.0 CA A:ARG39 3.9 14.9 1.0 CB A:ARG39 4.1 15.8 1.0 NH1 A:ARG38 4.5 34.6 1.0 O A:ARG39 4.6 13.9 1.0 CB A:ASN42 4.6 17.7 1.0 CG A:ASN42 4.7 18.9 1.0 C A:ARG39 4.8 14.5 1.0 N A:ARG39 4.8 14.7 1.0 CD A:ARG39 4.9 17.8 1.0

Iodine binding site 8 out of 14 in the Crystal Structure of Yeast ENT5 N-Terminal Domain-Soaked in Ki


Mono view


Stereo pair view

A full contact list of Iodine with other atoms in the I binding site number 8 of Crystal Structure of Yeast ENT5 N-Terminal Domain-Soaked in Ki within 5.0Å range: probe atom residue distance (Å) B Occ A:I209 b:24.4 occ:0.33 C A:ASN86 3.3 30.1 1.0 CA A:ASN86 3.5 31.2 1.0 O A:ASN86 3.5 28.8 1.0 N A:ASN86 3.7 32.1 1.0 N A:LEU87 3.8 29.2 1.0 O A:PRO84 4.0 25.3 1.0 CD A:LYS90 4.0 24.1 1.0 C A:LYS85 4.1 32.2 1.0 O A:LYS85 4.2 34.8 1.0 NZ A:LYS149 4.3 29.1 1.0 CG A:PRO84 4.3 24.7 1.0 CE A:LYS90 4.3 25.0 1.0 CB A:PRO84 4.4 24.4 1.0 C A:PRO84 4.4 26.5 1.0 CB A:LYS90 4.4 22.0 1.0 CA A:LEU87 4.4 28.5 1.0 CG A:LYS149 4.7 29.7 1.0 CD A:LYS149 4.7 29.9 1.0 O A:HOH336 4.7 27.4 1.0 CG A:LYS90 4.8 23.2 1.0 N A:LYS85 4.9 29.7 1.0 CB A:ASN86 4.9 32.1 1.0 CA A:LYS85 4.9 31.7 1.0

Iodine binding site 9 out of 14 in the Crystal Structure of Yeast ENT5 N-Terminal Domain-Soaked in Ki


Mono view


Stereo pair view

A full contact list of Iodine with other atoms in the I binding site number 9 of Crystal Structure of Yeast ENT5 N-Terminal Domain-Soaked in Ki within 5.0Å range: probe atom residue distance (Å) B Occ A:I210 b:23.9 occ:0.31 CA A:GLU89 3.8 22.9 1.0 CB A:GLU89 3.8 24.4 1.0 CG A:GLU89 4.0 25.5 1.0 CB A:ARG92 4.1 20.4 1.0 O A:GLU89 4.2 19.4 1.0 C A:GLU89 4.5 21.2 1.0 CE A:LYS93 4.8 32.5 1.0 N A:LYS93 4.8 27.1 1.0 C A:ARG92 4.8 23.2 1.0 CD A:GLU89 4.9 28.1 1.0 N A:GLU89 4.9 23.2 1.0 CA A:ARG92 5.0 20.9 1.0

Iodine binding site 10 out of 14 in the Crystal Structure of Yeast ENT5 N-Terminal Domain-Soaked in Ki


Mono view


Stereo pair view

A full contact list of Iodine with other atoms in the I binding site number 10 of Crystal Structure of Yeast ENT5 N-Terminal Domain-Soaked in Ki within 5.0Å range: probe atom residue distance (Å) B Occ A:I211 b:20.6 occ:0.37 CA A:PHE179 3.9 14.1 1.0 O A:HOH302 4.1 28.4 1.0 N A:PHE179 4.3 15.1 1.0 O A:GLN178 4.3 15.0 1.0 CB A:PHE179 4.4 14.2 1.0 CD1 A:PHE179 4.4 14.2 1.0 CB A:LYS182 4.4 13.6 1.0 C A:GLN178 4.5 16.0 1.0 CG A:GLN178 4.7 17.5 1.0 CG A:LYS182 4.7 14.3 1.0 CG A:PHE179 4.9 13.8 1.0

F.Zhang, Y.Song, M.Ebrahimi, L.Niu, M.K.Teng, X.Li. Structural and Functional Insight Into the N-Terminal Domain of the Clathrin Adaptor ENT5 From Saccharomyces Cerevisiae Biochem.Biophys.Res.Commun. V. 477 786 2016.
ISSN: ESSN 1090-2104
PubMed: 27369074
DOI: 10.1016/J.BBRC.2016.06.136