Zinc in PDB 7d2u: Crystal Structure of RSU1/PINCH1_LIM45C Complex

The structure of Crystal Structure of RSU1/PINCH1_LIM45C Complex, PDB code: 7d2u was solved by H.Yang, Z.Wei, Y.Cong, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	28.53 / 3.15
Space group	I 2 2 2
Cell size a, b, c (Å), α, β, γ (°)	51.354, 144.397, 185.043, 90, 90, 90
R / Rfree (%)	19.2 / 21.6

The binding sites of Zinc atom in the Crystal Structure of RSU1/PINCH1_LIM45C Complex (pdb code 7d2u). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the Crystal Structure of RSU1/PINCH1_LIM45C Complex, PDB code: 7d2u:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in the Crystal Structure of RSU1/PINCH1_LIM45C Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure of RSU1/PINCH1_LIM45C Complex within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn401 b:139.0 occ:1.00 ND1 B:HIS216 2.2 150.3 1.0 ND1 B:HIS213 2.4 167.3 1.0 SG B:CYS193 2.7 148.4 1.0 SG B:CYS196 2.7 182.1 1.0 CB B:HIS213 3.0 188.3 1.0 CE1 B:HIS216 3.0 150.4 1.0 CG B:HIS213 3.0 184.4 1.0 CG B:HIS216 3.1 150.1 1.0 CB B:CYS193 3.1 145.5 1.0 CB B:HIS216 3.5 174.2 1.0 CE1 B:HIS213 3.5 164.1 1.0 CB B:CYS196 3.9 143.3 1.0 NE2 B:HIS216 4.1 154.1 1.0 CD2 B:HIS216 4.1 150.3 1.0 CD2 B:HIS213 4.3 185.6 1.0 CA B:HIS213 4.3 178.7 1.0 N B:HIS213 4.3 180.2 1.0 N B:CYS196 4.4 147.9 1.0 NE2 B:HIS213 4.5 172.5 1.0 CA B:CYS193 4.6 147.1 1.0 CA B:CYS196 4.7 154.8 1.0 O B:ARG198 4.9 164.0 1.0 CA B:HIS216 5.0 185.8 1.0

Zinc binding site 2 out of 4 in the Crystal Structure of RSU1/PINCH1_LIM45C Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystal Structure of RSU1/PINCH1_LIM45C Complex within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn402 b:214.2 occ:1.00 ND1 B:HIS243 2.2 201.8 1.0 SG B:CYS222 2.5 238.3 1.0 SG B:CYS240 2.5 260.1 1.0 SG B:CYS219 2.5 256.4 1.0 CE1 B:HIS243 3.1 196.2 1.0 CG B:HIS243 3.2 206.7 1.0 CB B:CYS219 3.2 223.8 1.0 CB B:CYS240 3.6 239.1 1.0 CB B:HIS243 3.6 216.3 1.0 N B:CYS222 3.7 264.9 1.0 CB B:CYS222 3.8 263.2 1.0 N B:CYS240 4.0 232.5 1.0 CB B:LYS221 4.1 272.8 1.0 O B:CYS222 4.1 243.8 1.0 NE2 B:HIS243 4.2 195.3 1.0 CA B:CYS222 4.3 260.7 1.0 CD2 B:HIS243 4.3 200.5 1.0 CA B:CYS240 4.4 237.2 1.0 C B:CYS222 4.7 248.1 1.0 CA B:CYS219 4.7 208.4 1.0 C B:LYS221 4.7 262.2 1.0 N B:LYS221 4.8 246.4 1.0 CA B:LYS221 4.8 262.1 1.0 CA B:HIS243 4.9 229.0 1.0

Zinc binding site 3 out of 4 in the Crystal Structure of RSU1/PINCH1_LIM45C Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Crystal Structure of RSU1/PINCH1_LIM45C Complex within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn403 b:131.4 occ:1.00 SG B:CYS255 2.4 159.1 1.0 SG B:CYS275 2.5 134.1 1.0 SG B:CYS252 2.5 150.4 1.0 SG B:CYS272 2.6 162.4 1.0 CB B:CYS272 3.1 147.1 1.0 CB B:CYS275 3.2 129.3 1.0 CB B:CYS252 3.2 151.1 1.0 CB B:CYS255 3.6 149.6 1.0 N B:CYS272 4.1 152.8 1.0 N B:CYS255 4.1 151.8 1.0 CA B:CYS272 4.2 149.1 1.0 CA B:CYS255 4.5 148.8 1.0 CA B:CYS275 4.6 130.8 1.0 CA B:CYS252 4.7 151.2 1.0 CB B:HIS254 4.9 148.2 1.0 N B:CYS275 5.0 141.9 1.0

Zinc binding site 4 out of 4 in the Crystal Structure of RSU1/PINCH1_LIM45C Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Crystal Structure of RSU1/PINCH1_LIM45C Complex within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn404 b:104.3 occ:1.00 SG B:CYS300 2.3 130.3 1.0 SG B:CYS281 2.3 115.2 1.0 SG B:CYS278 2.4 115.5 1.0 SG B:CYS303 2.4 99.8 1.0 CB B:CYS300 3.1 92.2 1.0 CB B:CYS278 3.2 127.8 1.0 CB B:CYS281 3.2 128.9 1.0 CB B:CYS303 3.3 104.3 1.0 OG1 B:THR280 3.3 106.5 1.0 N B:CYS281 3.8 114.3 1.0 N B:CYS300 3.8 87.0 1.0 CA B:CYS300 4.0 109.1 1.0 CA B:CYS281 4.1 123.5 1.0 C B:THR280 4.4 103.8 1.0 N B:CYS303 4.5 103.5 1.0 CA B:CYS303 4.5 105.5 1.0 O B:CYS300 4.5 113.8 1.0 CB B:THR280 4.5 98.7 1.0 C B:CYS300 4.6 101.6 1.0 CA B:CYS278 4.7 120.9 1.0 N B:THR280 4.8 110.9 1.0 CA B:THR280 4.8 101.1 1.0 C B:CYS281 4.8 122.8 1.0 C B:VAL299 4.9 105.5 1.0

H.Yang, L.Lin, K.Sun, T.Zhang, W.Chen, L.Li, Y.Xie, C.Wu, Z.Wei, C.Yu. Complex Structures of RSU1 and PINCH1 Reveal A Regulatory Mechanism of the Ilk/Pinch/Parvin Complex For F-Actin Dynamics. Elife V. 10 2021.
ISSN: ESSN 2050-084X
PubMed: 33587032
DOI: 10.7554/ELIFE.64395