Zinc in PDB 6eyc: Re-Refinement of the MCM2-7 Double Hexamer Using Isolde

All present enzymatic activity of Re-Refinement of the MCM2-7 Double Hexamer Using Isolde:
3.6.4.12;

The binding sites of Zinc atom in the Re-Refinement of the MCM2-7 Double Hexamer Using Isolde (pdb code 6eyc). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 5 binding sites of Zinc where determined in the Re-Refinement of the MCM2-7 Double Hexamer Using Isolde, PDB code: 6eyc:
Jump to Zinc binding site number: 1; 2; 3; 4; 5;

Zinc binding site 1 out of 5 in the Re-Refinement of the MCM2-7 Double Hexamer Using Isolde


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Re-Refinement of the MCM2-7 Double Hexamer Using Isolde within 5.0Å range: probe atom residue distance (Å) B Occ 2:Zn901 b:0.8 occ:1.00 SG 2:CYS344 2.5 0.1 1.0 SG 2:CYS364 2.6 0.1 1.0 HB3 2:CYS344 2.6 0.1 1.0 SG 2:CYS367 2.7 0.2 1.0 SG 2:CYS341 2.7 95.9 1.0 CB 2:CYS344 3.0 0.1 1.0 HG 2:SER369 3.2 0.2 1.0 H 2:CYS344 3.4 0.1 1.0 N 2:CYS344 3.5 0.1 1.0 HB3 2:CYS341 3.5 95.9 1.0 HB3 2:CYS364 3.6 0.1 1.0 CB 2:CYS364 3.7 0.1 1.0 HB2 2:LYS343 3.7 96.8 1.0 CB 2:CYS341 3.8 95.9 1.0 HB2 2:ASN366 3.8 0.9 1.0 HB2 2:CYS344 3.8 0.1 1.0 HB2 2:CYS364 3.8 0.1 1.0 CA 2:CYS344 3.8 0.1 1.0 OG 2:SER369 3.9 0.2 1.0 C 2:LYS343 3.9 96.8 1.0 HB2 2:CYS341 4.1 95.9 1.0 HE1 2:PHE373 4.3 93.0 1.0 CB 2:CYS367 4.3 0.2 1.0 O 2:LYS343 4.4 96.8 1.0 HB3 2:CYS367 4.4 0.2 1.0 H 2:ASN366 4.4 0.9 1.0 HD21 2:ASN366 4.4 0.9 1.0 H 2:LYS343 4.4 96.8 1.0 CB 2:LYS343 4.5 96.8 1.0 HA 2:CYS344 4.6 0.1 1.0 CA 2:LYS343 4.6 96.8 1.0 H 2:CYS367 4.6 0.2 1.0 HB3 2:SER369 4.6 0.2 1.0 N 2:LYS343 4.7 96.8 1.0 C 2:CYS344 4.7 0.1 1.0 CB 2:ASN366 4.7 0.9 1.0 HB3 2:LYS343 4.8 96.8 1.0 O 2:CYS344 4.8 0.1 1.0 N 2:CYS367 4.8 0.2 1.0 CB 2:SER369 4.8 0.2 1.0 HB2 2:CYS367 4.9 0.2 1.0

Zinc binding site 2 out of 5 in the Re-Refinement of the MCM2-7 Double Hexamer Using Isolde


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Re-Refinement of the MCM2-7 Double Hexamer Using Isolde within 5.0Å range: probe atom residue distance (Å) B Occ 4:Zn1001 b:0.7 occ:1.00 HG23 4:VAL351 1.8 98.7 1.0 HG22 4:VAL351 2.2 98.7 1.0 CG2 4:VAL351 2.3 98.7 1.0 SG 4:CYS371 2.4 95.7 1.0 SG 4:CYS352 2.4 0.7 1.0 SG 4:CYS349 2.5 86.5 1.0 HG21 4:VAL351 2.7 98.7 1.0 HB3 4:CYS352 3.2 0.7 1.0 OE1 4:GLU378 3.2 0.8 1.0 CB 4:CYS352 3.5 0.7 1.0 O 4:VAL351 3.7 98.7 1.0 CB 4:VAL351 3.7 98.7 1.0 C 4:VAL351 3.8 98.7 1.0 H 4:VAL351 3.9 98.7 1.0 CD 4:GLU378 4.0 0.8 1.0 HB 4:VAL351 4.0 98.7 1.0 HB2 4:CYS352 4.1 0.7 1.0 CB 4:CYS371 4.1 95.7 1.0 CB 4:CYS349 4.2 86.5 1.0 CA 4:VAL351 4.2 98.7 1.0 OE2 4:GLU378 4.3 0.8 1.0 N 4:VAL351 4.3 98.7 1.0 SG 4:CYS376 4.4 0.4 1.0 HB2 4:CYS371 4.4 95.7 1.0 N 4:CYS352 4.4 0.7 1.0 HB3 4:CYS349 4.4 86.5 1.0 HB3 4:CYS371 4.4 95.7 1.0 CA 4:CYS352 4.5 0.7 1.0 HB2 4:GLU378 4.5 0.8 1.0 HB2 4:CYS349 4.6 86.5 1.0 HG13 4:VAL351 4.7 98.7 1.0 O 4:CYS371 4.8 95.7 1.0 CG1 4:VAL351 4.8 98.7 1.0 O 4:SER381 4.9 97.8 1.0

Zinc binding site 3 out of 5 in the Re-Refinement of the MCM2-7 Double Hexamer Using Isolde


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Re-Refinement of the MCM2-7 Double Hexamer Using Isolde within 5.0Å range: probe atom residue distance (Å) B Occ 5:Zn801 b:66.7 occ:1.00 HB3 5:CYS211 2.2 45.7 1.0 SG 5:CYS186 2.5 39.8 1.0 SG 5:CYS183 2.6 37.5 1.0 CB 5:CYS211 2.7 45.7 1.0 SG 5:CYS211 2.7 45.7 1.0 HB2 5:CYS186 2.7 39.8 1.0 HB2 5:CYS211 2.7 45.7 1.0 SG 5:CYS236 3.0 47.3 1.0 HB2 5:CYS183 3.1 37.5 1.0 CB 5:CYS186 3.1 39.8 1.0 CB 5:CYS183 3.3 37.5 1.0 HB3 5:CYS183 3.6 37.5 1.0 HB3 5:CYS186 3.6 39.8 1.0 H 5:CYS186 3.8 39.8 1.0 HE1 5:TYR241 4.1 38.1 1.0 CA 5:CYS211 4.1 45.7 1.0 H 5:CYS211 4.1 45.7 1.0 HB3 5:CYS236 4.2 47.3 1.0 HB3 5:HIS188 4.2 36.7 1.0 HB2 5:PRO240 4.3 42.0 1.0 CB 5:CYS236 4.3 47.3 1.0 CA 5:CYS186 4.4 39.8 1.0 N 5:CYS186 4.4 39.8 1.0 HA 5:CYS211 4.5 45.7 1.0 HG3 5:PRO240 4.5 42.0 1.0 HB2 5:CYS236 4.6 47.3 1.0 N 5:CYS211 4.6 45.7 1.0 CA 5:CYS183 4.8 37.5 1.0 CE1 5:TYR241 4.8 38.1 1.0 HG2 5:PRO240 4.9 42.0 1.0 HA 5:CYS183 4.9 37.5 1.0 CB 5:PRO240 4.9 42.0 1.0 HA 5:CYS186 4.9 39.8 1.0 CG 5:PRO240 5.0 42.0 1.0 HD2 5:HIS188 5.0 36.7 1.0

Zinc binding site 4 out of 5 in the Re-Refinement of the MCM2-7 Double Hexamer Using Isolde


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Re-Refinement of the MCM2-7 Double Hexamer Using Isolde within 5.0Å range: probe atom residue distance (Å) B Occ 6:Zn1101 b:0.6 occ:1.00 SG 6:CYS333 2.5 0.7 1.0 SG 6:CYS338 2.8 0.7 1.0 SG 6:CYS314 2.9 0.5 1.0 SG 6:CYS311 3.1 0.2 1.0 HB2 6:CYS311 3.4 0.2 1.0 HB3 6:CYS311 3.5 0.2 1.0 CB 6:CYS311 3.6 0.2 1.0 HB2 6:MET313 3.7 0.1 1.0 HB2 6:ALA316 3.8 0.5 1.0 CB 6:CYS333 3.9 0.7 1.0 HB2 6:CYS333 4.0 0.7 1.0 HB3 6:CYS333 4.2 0.7 1.0 H 6:CYS314 4.2 0.5 1.0 CB 6:CYS314 4.4 0.5 1.0 CB 6:CYS338 4.4 0.7 1.0 HB3 6:CYS338 4.5 0.7 1.0 HB3 6:CYS314 4.5 0.5 1.0 N 6:CYS314 4.5 0.5 1.0 CB 6:MET313 4.6 0.1 1.0 CB 6:ALA316 4.7 0.5 1.0 O 6:SER337 4.8 0.1 1.0 O 6:ASN335 4.8 0.8 1.0 H 6:MET313 4.8 0.1 1.0 HB3 6:MET313 4.9 0.1 1.0 HD2 6:PRO334 4.9 0.3 1.0 HB1 6:ALA316 5.0 0.5 1.0 HB2 6:ASN335 5.0 0.8 1.0 HB2 6:CYS338 5.0 0.7 1.0 CA 6:CYS314 5.0 0.5 1.0

Zinc binding site 5 out of 5 in the Re-Refinement of the MCM2-7 Double Hexamer Using Isolde


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Re-Refinement of the MCM2-7 Double Hexamer Using Isolde within 5.0Å range: probe atom residue distance (Å) B Occ 7:Zn901 b:58.8 occ:1.00 SG 7:CYS265 2.4 48.3 1.0 SG 7:CYS284 2.4 50.2 1.0 SG 7:CYS262 2.4 44.6 1.0 HB2 7:CYS265 2.5 48.3 1.0 HB2 7:SER286 2.6 51.2 1.0 HB3 7:SER286 2.7 51.2 1.0 HB3 7:CYS262 2.8 44.6 1.0 CB 7:CYS265 2.9 48.3 1.0 CB 7:CYS262 3.0 44.6 1.0 CB 7:SER286 3.0 51.2 1.0 HB2 7:CYS262 3.1 44.6 1.0 HG 7:SER286 3.1 51.2 1.0 HB3 7:CYS265 3.5 48.3 1.0 OG 7:SER286 3.5 51.2 1.0 H 7:CYS265 3.6 48.3 1.0 H 7:SER286 4.0 51.2 1.0 CB 7:CYS284 4.0 50.2 1.0 SG 7:CYS289 4.0 54.6 1.0 HB2 7:CYS289 4.0 54.6 1.0 N 7:CYS265 4.1 48.3 1.0 CA 7:CYS265 4.1 48.3 1.0 HB2 7:CYS284 4.2 50.2 1.0 HB3 7:CYS284 4.3 50.2 1.0 CA 7:SER286 4.4 51.2 1.0 HB2 7:TYR267 4.4 46.1 1.0 CA 7:CYS262 4.5 44.6 1.0 O 7:GLY296 4.5 56.2 1.0 CB 7:CYS289 4.6 54.6 1.0 N 7:SER286 4.6 51.2 1.0 HA 7:CYS265 4.6 48.3 1.0 HD23 7:LEU298 4.7 45.4 1.0 O 7:TYR267 4.8 46.1 1.0 HG23 7:VAL269 4.8 41.3 1.0 HA 7:CYS262 4.8 44.6 1.0 H 7:TYR267 4.9 46.1 1.0 HA 7:SER286 4.9 51.2 1.0 H 7:CYS289 4.9 54.6 1.0 HB2 7:GLN264 4.9 48.0 1.0 C 7:CYS262 5.0 44.6 1.0

T.I.Croll, T.I.Croll. N/A N/A.
ISSN: ISSN 2059-7983
PubMed: 29872003
DOI: 10.1107/S2059798318002425