Zinc in PDB 5t00: Human Ctcf ZNF3-7 and Methylated Dna Complex

The structure of Human Ctcf ZNF3-7 and Methylated Dna Complex, PDB code: 5t00 was solved by H.Hashimoto, D.Wang, X.Cheng, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	41.96 / 2.19
Space group	P 1
Cell size a, b, c (Å), α, β, γ (°)	40.990, 44.910, 86.800, 98.33, 92.40, 94.80
R / Rfree (%)	21.8 / 24.3

The binding sites of Zinc atom in the Human Ctcf ZNF3-7 and Methylated Dna Complex (pdb code 5t00). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 10 binding sites of Zinc where determined in the Human Ctcf ZNF3-7 and Methylated Dna Complex, PDB code: 5t00:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Zinc binding site 1 out of 10 in the Human Ctcf ZNF3-7 and Methylated Dna Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Human Ctcf ZNF3-7 and Methylated Dna Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn501 b:72.7 occ:1.00 NE2 A:HIS345 2.0 93.1 1.0 NE2 A:HIS340 2.0 79.2 1.0 SG A:CYS324 2.3 0.5 1.0 SG A:CYS327 2.3 89.9 1.0 CD2 A:HIS345 2.8 94.7 1.0 HD2 A:HIS345 2.9 0.7 1.0 CE1 A:HIS340 3.0 73.3 1.0 CE1 A:HIS345 3.1 89.5 1.0 CD2 A:HIS340 3.1 79.6 1.0 HE1 A:HIS340 3.1 87.9 1.0 HB3 A:CYS324 3.2 0.6 1.0 CB A:CYS324 3.2 0.3 1.0 HB2 A:CYS324 3.3 0.6 1.0 HD2 A:HIS340 3.3 95.5 1.0 HE1 A:HIS345 3.4 0.4 1.0 HB2 A:MET329 3.7 0.7 1.0 CB A:CYS327 3.7 92.0 1.0 HB3 A:CYS327 3.7 0.4 1.0 HB2 A:ASP326 3.8 0.0 1.0 H A:CYS327 3.9 0.0 1.0 CG A:HIS345 4.0 91.9 1.0 ND1 A:HIS345 4.0 88.6 1.0 ND1 A:HIS340 4.1 69.9 1.0 N A:CYS327 4.2 95.0 1.0 CG A:HIS340 4.2 73.8 1.0 H A:ASP326 4.4 0.4 1.0 HG2 A:ARG341 4.4 0.1 1.0 HB2 A:CYS327 4.4 0.4 1.0 HB2 A:LYS344 4.5 89.9 1.0 H A:MET329 4.5 0.5 1.0 CA A:CYS327 4.5 96.4 1.0 CB A:MET329 4.6 0.1 1.0 HA A:ARG341 4.7 93.9 1.0 CA A:CYS324 4.7 0.5 1.0 CB A:ASP326 4.7 0.0 1.0 HE2 A:PHE331 4.7 0.3 1.0 C A:ASP326 4.8 0.1 1.0 HD1 A:HIS345 4.8 0.3 1.0 HD1 A:HIS340 4.8 83.9 1.0 C A:CYS327 5.0 0.0 1.0 HA A:CYS324 5.0 0.6 1.0

Zinc binding site 2 out of 10 in the Human Ctcf ZNF3-7 and Methylated Dna Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Human Ctcf ZNF3-7 and Methylated Dna Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn502 b:46.6 occ:1.00 NE2 A:HIS369 2.0 45.0 1.0 NE2 A:HIS373 2.0 47.0 1.0 SG A:CYS353 2.3 49.9 1.0 SG A:CYS356 2.3 45.8 1.0 HD2 A:HIS369 2.6 54.3 1.0 CD2 A:HIS369 2.6 45.3 1.0 CE1 A:HIS373 2.9 47.8 1.0 HE1 A:HIS373 3.0 57.4 1.0 CD2 A:HIS373 3.0 46.2 1.0 CE1 A:HIS369 3.2 40.9 1.0 HB3 A:CYS353 3.2 60.7 1.0 CB A:CYS353 3.3 50.6 1.0 HD2 A:HIS373 3.3 55.4 1.0 HB2 A:CYS353 3.4 60.7 1.0 HB3 A:CYS356 3.4 59.2 1.0 CB A:CYS356 3.5 49.3 1.0 HB3 A:TYR358 3.5 59.6 1.0 H A:CYS356 3.5 68.7 1.0 HB2 A:MET355 3.6 76.6 1.0 HE1 A:HIS369 3.6 49.1 1.0 N A:CYS356 3.7 57.2 1.0 CG A:HIS369 3.9 41.7 1.0 ND1 A:HIS373 3.9 47.9 1.0 HD13 A:ILE370 4.0 56.7 1.0 H A:MET355 4.0 81.8 1.0 CG A:HIS373 4.1 46.9 1.0 CA A:CYS356 4.1 54.5 1.0 ND1 A:HIS369 4.1 38.8 1.0 HE3 A:MET355 4.1 73.0 1.0 C A:MET355 4.2 63.3 1.0 H A:TYR358 4.2 65.7 1.0 HB2 A:TYR358 4.3 59.6 1.0 HB2 A:CYS356 4.3 59.2 1.0 CB A:TYR358 4.3 49.6 1.0 CB A:MET355 4.3 63.8 1.0 HB3 A:MET355 4.5 76.6 1.0 C A:CYS356 4.6 54.6 1.0 CA A:MET355 4.6 66.7 1.0 HA A:ILE370 4.7 46.1 1.0 N A:MET355 4.7 68.2 1.0 HD1 A:HIS373 4.7 57.4 1.0 CA A:CYS353 4.7 55.0 1.0 O A:CYS356 4.7 57.3 1.0 HD1 A:TYR358 4.8 58.3 1.0 O A:MET355 4.8 62.6 1.0 CD1 A:ILE370 4.8 47.2 1.0 HD11 A:ILE370 4.9 56.7 1.0 HA A:CYS356 4.9 65.3 1.0 HD1 A:HIS369 5.0 46.6 1.0 N A:TYR358 5.0 54.8 1.0

Zinc binding site 3 out of 10 in the Human Ctcf ZNF3-7 and Methylated Dna Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Human Ctcf ZNF3-7 and Methylated Dna Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn503 b:45.4 occ:1.00 NE2 A:HIS401 2.0 47.8 1.0 NE2 A:HIS397 2.0 42.4 1.0 SG A:CYS381 2.3 41.2 1.0 SG A:CYS384 2.3 46.5 1.0 CD2 A:HIS401 2.9 48.4 1.0 CE1 A:HIS397 2.9 38.9 1.0 HD2 A:HIS401 3.0 58.1 1.0 HE1 A:HIS397 3.0 46.6 1.0 CE1 A:HIS401 3.1 47.8 1.0 CD2 A:HIS397 3.1 43.0 1.0 HB3 A:CYS381 3.2 51.1 1.0 HB3 A:TYR386 3.3 44.9 1.0 CB A:CYS381 3.3 42.6 1.0 HD2 A:HIS397 3.4 51.5 1.0 HE1 A:HIS401 3.4 57.4 1.0 HB2 A:LEU383 3.5 64.4 1.0 HB2 A:CYS381 3.5 51.1 1.0 H A:CYS384 3.5 68.2 1.0 CB A:CYS384 3.6 52.5 1.0 HB3 A:CYS384 3.6 63.0 1.0 N A:CYS384 3.8 56.8 1.0 H A:LEU383 3.9 69.3 1.0 CG A:HIS401 4.1 49.0 1.0 ND1 A:HIS397 4.1 37.3 1.0 ND1 A:HIS401 4.2 48.6 1.0 H A:TYR386 4.2 56.0 1.0 CA A:CYS384 4.2 57.6 1.0 CG A:HIS397 4.2 39.7 1.0 CB A:TYR386 4.2 37.4 1.0 O A:HOH614 4.3 50.5 1.0 C A:LEU383 4.3 58.4 1.0 HD2 A:TYR386 4.3 39.1 1.0 CB A:LEU383 4.3 53.6 1.0 HB2 A:CYS384 4.3 63.0 1.0 HB2 A:TYR386 4.4 44.9 1.0 N A:LEU383 4.6 57.7 1.0 HB3 A:LEU383 4.6 64.4 1.0 CA A:LEU383 4.6 58.1 1.0 CA A:CYS381 4.7 46.5 1.0 C A:CYS384 4.7 59.0 1.0 HG1 A:THR400 4.7 54.2 1.0 SD A:MET398 4.8 50.5 1.0 HD1 A:HIS397 4.8 44.8 1.0 HE1 A:MET398 4.8 63.9 1.0 N A:TYR386 4.9 46.7 1.0 OG1 A:THR400 4.9 45.1 1.0 CD2 A:TYR386 4.9 32.6 1.0 HD12 A:LEU383 4.9 59.6 1.0 HA A:MET398 4.9 51.6 1.0 HD1 A:HIS401 5.0 58.3 1.0 O A:CYS384 5.0 60.4 1.0 O A:LEU383 5.0 60.2 1.0

Zinc binding site 4 out of 10 in the Human Ctcf ZNF3-7 and Methylated Dna Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Human Ctcf ZNF3-7 and Methylated Dna Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn504 b:38.8 occ:1.00 NE2 A:HIS430 2.0 41.8 1.0 NE2 A:HIS425 2.0 32.2 1.0 SG A:CYS412 2.3 43.1 1.0 SG A:CYS409 2.3 41.5 1.0 HD2 A:HIS430 2.6 49.9 1.0 CD2 A:HIS430 2.6 41.6 1.0 CD2 A:HIS425 2.7 31.4 1.0 HD2 A:HIS425 2.8 37.7 1.0 H A:CYS412 2.8 60.5 1.0 HB3 A:CYS409 2.9 50.1 1.0 HB3 A:CYS412 3.0 55.5 1.0 CB A:CYS409 3.1 41.8 1.0 CB A:CYS412 3.2 46.2 1.0 CE1 A:HIS430 3.2 42.1 1.0 CE1 A:HIS425 3.2 31.1 1.0 HB2 A:CYS409 3.2 50.1 1.0 N A:CYS412 3.5 50.4 1.0 HE1 A:HIS430 3.6 50.5 1.0 HE1 A:HIS425 3.6 37.3 1.0 HB A:ILE411 3.7 61.4 1.0 CA A:CYS412 3.8 50.4 1.0 CG A:HIS430 3.9 41.8 1.0 H A:ALA414 3.9 56.8 1.0 H A:HIS413 4.0 65.4 1.0 HB2 A:CYS412 4.0 55.5 1.0 CG A:HIS425 4.0 30.4 1.0 HB3 A:ALA414 4.0 49.5 1.0 ND1 A:HIS430 4.1 42.0 1.0 H A:ILE411 4.2 65.8 1.0 ND1 A:HIS425 4.2 30.3 1.0 HB2 A:LYS429 4.3 62.1 1.0 C A:CYS412 4.4 52.0 1.0 HZ A:PHE416 4.4 37.2 1.0 N A:HIS413 4.4 54.5 1.0 HG12 A:ILE426 4.5 52.5 1.0 CA A:CYS409 4.5 45.4 1.0 HB3 A:LYS429 4.6 62.1 1.0 C A:ILE411 4.6 53.9 1.0 CB A:ILE411 4.6 51.1 1.0 HA A:ILE426 4.6 45.8 1.0 HA A:CYS412 4.7 60.4 1.0 HB2 A:ALA414 4.7 49.5 1.0 N A:ALA414 4.7 47.3 1.0 HG22 A:ILE411 4.8 61.2 1.0 CB A:ALA414 4.8 41.3 1.0 N A:ILE411 4.9 54.8 1.0 HE2 A:PHE416 4.9 40.1 1.0 CA A:ILE411 4.9 54.5 1.0 CB A:LYS429 4.9 51.7 1.0 C A:CYS409 4.9 49.4 1.0 HG13 A:ILE426 4.9 52.5 1.0 HD1 A:HIS430 4.9 50.4 1.0 HA A:CYS409 4.9 54.4 1.0 O A:CYS409 5.0 51.0 1.0

Zinc binding site 5 out of 10 in the Human Ctcf ZNF3-7 and Methylated Dna Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Human Ctcf ZNF3-7 and Methylated Dna Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn505 b:47.9 occ:1.00 HE1 A:HIS460 1.9 75.1 1.0 NE2 A:HIS455 2.0 43.0 1.0 NE2 A:HIS460 2.0 62.6 1.0 CE1 A:HIS460 2.2 62.6 1.0 SG A:CYS442 2.2 53.0 1.0 SG A:CYS439 2.2 49.2 1.0 HB3 A:CYS442 2.9 64.8 1.0 CD2 A:HIS455 2.9 41.1 1.0 CE1 A:HIS455 2.9 43.2 1.0 HD2 A:HIS455 3.1 49.3 1.0 CB A:CYS442 3.1 54.0 1.0 H A:CYS442 3.1 66.0 1.0 HE1 A:HIS455 3.2 51.8 1.0 HB3 A:CYS439 3.4 56.6 1.0 CB A:CYS439 3.4 47.2 1.0 CD2 A:HIS460 3.4 64.5 1.0 N A:CYS442 3.5 55.0 1.0 HB2 A:HIS441 3.5 82.0 1.0 ND1 A:HIS460 3.5 64.3 1.0 HB2 A:CYS439 3.6 56.6 1.0 HG1 A:THR444 3.6 60.1 1.0 CA A:CYS442 3.8 56.3 1.0 HB2 A:CYS442 3.9 64.8 1.0 HD2 A:HIS460 4.0 77.3 1.0 H A:HIS441 4.0 78.4 1.0 ND1 A:HIS455 4.0 41.7 1.0 CG A:HIS455 4.0 40.4 1.0 CG A:HIS460 4.1 65.6 1.0 HD1 A:HIS460 4.1 77.2 1.0 OG1 A:THR444 4.2 50.1 1.0 C A:HIS441 4.2 69.9 1.0 CB A:HIS441 4.4 68.4 1.0 HB2 A:GLN459 4.5 88.8 1.0 HD23 A:LEU456 4.6 62.1 1.0 HA A:CYS442 4.6 67.6 1.0 C A:CYS442 4.6 56.8 1.0 CA A:HIS441 4.6 68.9 1.0 N A:HIS441 4.7 65.3 1.0 CA A:CYS439 4.8 46.4 1.0 HD1 A:HIS455 4.8 50.1 1.0 HB3 A:GLN459 4.8 88.8 1.0 HG3 A:GLN459 4.8 86.6 1.0 H A:THR444 4.8 63.7 1.0 HD2 A:HIS441 4.9 76.7 1.0 HB3 A:HIS441 4.9 82.0 1.0 HG23 A:THR444 4.9 67.1 1.0 H A:ASP443 4.9 83.3 1.0

Zinc binding site 6 out of 10 in the Human Ctcf ZNF3-7 and Methylated Dna Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of Human Ctcf ZNF3-7 and Methylated Dna Complex within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn501 b:89.8 occ:1.00 HB2 D:CYS327 1.3 0.5 1.0 CB D:CYS327 1.7 0.1 1.0 HB3 D:CYS327 1.7 0.5 1.0 NE2 D:HIS340 2.0 0.9 1.0 NE2 D:HIS345 2.0 72.3 1.0 HE1 D:HIS345 2.3 88.6 1.0 SG D:CYS324 2.4 0.7 1.0 CE1 D:HIS345 2.4 73.8 1.0 SG D:CYS327 2.4 0.3 1.0 CD2 D:HIS340 2.8 0.7 1.0 HD2 D:HIS340 2.8 0.3 1.0 CA D:CYS327 3.1 0.5 1.0 HB3 D:CYS324 3.2 0.1 1.0 CE1 D:HIS340 3.2 0.4 1.0 CB D:CYS324 3.3 0.5 1.0 CD2 D:HIS345 3.3 73.3 1.0 HB2 D:CYS324 3.5 0.1 1.0 HE1 D:HIS340 3.5 0.5 1.0 N D:CYS327 3.6 0.3 1.0 HA D:CYS327 3.6 0.5 1.0 ND1 D:HIS345 3.7 75.5 1.0 HD2 D:HIS345 3.8 88.0 1.0 C D:ASP326 3.9 0.7 1.0 O D:ASP326 4.0 0.4 1.0 CG D:HIS340 4.0 98.5 1.0 H D:MET329 4.0 0.7 1.0 HB2 D:MET329 4.0 0.7 1.0 H D:CYS327 4.0 0.8 1.0 CG D:HIS345 4.1 75.3 1.0 C D:CYS327 4.1 0.3 1.0 ND1 D:HIS340 4.2 97.1 1.0 H D:ASP328 4.2 0.1 1.0 HD1 D:HIS345 4.3 90.6 1.0 N D:ASP328 4.4 0.2 1.0 H D:ASP326 4.5 0.9 1.0 HB2 D:ASP326 4.5 0.2 1.0 HE1 D:PHE331 4.6 0.1 1.0 HB2 D:LYS344 4.6 95.7 1.0 CA D:CYS324 4.7 0.1 1.0 N D:MET329 4.8 0.3 1.0 HG3 D:MET329 4.9 0.9 1.0 CB D:MET329 4.9 0.2 1.0 CA D:ASP326 4.9 0.6 1.0 N D:ASP326 5.0 0.6 1.0 O D:CYS327 5.0 0.1 1.0 HD1 D:HIS340 5.0 0.5 1.0

Zinc binding site 7 out of 10 in the Human Ctcf ZNF3-7 and Methylated Dna Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 7 of Human Ctcf ZNF3-7 and Methylated Dna Complex within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn502 b:94.0 occ:1.00 NE2 D:HIS369 1.5 0.4 1.0 HE2 D:HIS373 1.7 0.1 1.0 NE2 D:HIS373 2.0 0.5 1.0 CE1 D:HIS369 2.1 0.9 1.0 HE1 D:HIS369 2.1 0.7 1.0 SG D:CYS356 2.3 0.9 1.0 SG D:CYS353 2.4 0.0 1.0 CD2 D:HIS373 2.4 0.9 1.0 HD2 D:HIS373 2.4 0.9 1.0 CD2 D:HIS369 2.9 0.4 1.0 CE1 D:HIS373 3.1 0.7 1.0 HB3 D:TYR358 3.3 0.6 1.0 ND1 D:HIS369 3.3 0.5 1.0 HD2 D:HIS369 3.4 0.7 1.0 CB D:CYS353 3.5 0.8 1.0 HB2 D:CYS353 3.5 0.7 1.0 CG D:HIS373 3.6 0.2 1.0 HB3 D:CYS353 3.6 0.7 1.0 HE1 D:HIS373 3.6 0.3 1.0 CB D:CYS356 3.7 0.3 1.0 HB3 D:CYS356 3.7 0.2 1.0 CG D:HIS369 3.7 0.1 1.0 ND1 D:HIS373 3.9 0.5 1.0 HB2 D:MET355 3.9 0.4 1.0 H D:CYS356 4.0 0.1 1.0 HD1 D:HIS369 4.0 1.0 1.0 CB D:TYR358 4.1 0.5 1.0 HB2 D:TYR358 4.1 0.6 1.0 N D:CYS356 4.2 0.1 1.0 CA D:CYS356 4.4 0.0 1.0 HB2 D:CYS356 4.4 0.2 1.0 HD1 D:TYR358 4.5 0.5 1.0 H D:MET355 4.5 0.4 1.0 C D:MET355 4.7 0.6 1.0 CG D:TYR358 4.8 0.2 1.0 HB2 D:HIS373 4.8 0.1 1.0 CB D:HIS373 4.8 0.4 1.0 C D:CYS356 4.8 0.4 1.0 CB D:MET355 4.8 0.7 1.0 CD1 D:TYR358 4.9 0.9 1.0 CA D:CYS353 4.9 0.4 1.0 H D:TYR358 5.0 0.4 1.0

Zinc binding site 8 out of 10 in the Human Ctcf ZNF3-7 and Methylated Dna Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 8 of Human Ctcf ZNF3-7 and Methylated Dna Complex within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn503 b:74.5 occ:1.00 HE1 D:HIS401 1.3 0.4 1.0 CE1 D:HIS401 1.8 87.0 1.0 NE2 D:HIS397 2.0 73.9 1.0 NE2 D:HIS401 2.1 86.4 1.0 SG D:CYS384 2.3 83.2 1.0 SG D:CYS381 2.4 78.7 1.0 H D:CYS384 2.8 0.5 1.0 CE1 D:HIS397 2.8 65.7 1.0 HB3 D:CYS384 2.9 0.8 1.0 HE1 D:HIS397 3.0 78.8 1.0 CD2 D:HIS397 3.1 73.9 1.0 CB D:CYS384 3.1 89.0 1.0 ND1 D:HIS401 3.1 88.8 1.0 N D:CYS384 3.3 0.7 1.0 HD2 D:HIS397 3.4 88.7 1.0 CD2 D:HIS401 3.4 87.8 1.0 HB2 D:LEU383 3.5 0.8 1.0 HD1 D:HIS401 3.6 0.6 1.0 CA D:CYS384 3.7 0.5 1.0 CB D:CYS381 3.8 84.1 1.0 HB3 D:CYS381 3.8 0.9 1.0 CG D:HIS401 3.9 89.8 1.0 ND1 D:HIS397 3.9 61.1 1.0 HB2 D:CYS384 3.9 0.8 1.0 HB2 D:CYS381 4.0 0.9 1.0 H D:LEU383 4.0 0.3 1.0 HB3 D:LEU383 4.0 0.8 1.0 CG D:HIS397 4.1 65.7 1.0 HD2 D:HIS401 4.1 0.4 1.0 HB3 D:TYR386 4.1 0.4 1.0 CB D:LEU383 4.1 85.6 1.0 C D:LEU383 4.2 93.3 1.0 C D:CYS384 4.4 0.4 1.0 HG1 D:THR400 4.5 92.2 1.0 HA D:MET398 4.5 92.0 1.0 O D:CYS384 4.5 0.3 1.0 OG1 D:THR400 4.5 76.8 1.0 HA D:CYS384 4.5 0.8 1.0 CA D:LEU383 4.6 94.2 1.0 N D:LEU383 4.6 96.9 1.0 HD1 D:HIS397 4.6 73.3 1.0 HD2 D:TYR386 4.7 0.2 1.0 O D:HIS397 4.8 63.9 1.0 SD D:MET398 4.8 99.0 1.0

Zinc binding site 9 out of 10 in the Human Ctcf ZNF3-7 and Methylated Dna Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 9 of Human Ctcf ZNF3-7 and Methylated Dna Complex within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn504 b:54.4 occ:1.00 NE2 D:HIS430 2.0 64.0 1.0 NE2 D:HIS425 2.1 55.5 1.0 SG D:CYS412 2.3 62.1 1.0 SG D:CYS409 2.3 52.6 1.0 HD2 D:HIS430 2.6 76.3 1.0 CD2 D:HIS430 2.6 63.6 1.0 H D:CYS412 2.9 95.6 1.0 CE1 D:HIS425 3.0 50.2 1.0 HB3 D:CYS412 3.0 84.8 1.0 HB3 D:CYS409 3.1 63.4 1.0 CD2 D:HIS425 3.1 55.1 1.0 HE1 D:HIS425 3.1 60.2 1.0 CB D:CYS409 3.2 52.8 1.0 CB D:CYS412 3.2 70.7 1.0 CE1 D:HIS430 3.2 63.8 1.0 HB2 D:CYS409 3.3 63.4 1.0 HD2 D:HIS425 3.3 66.2 1.0 HE1 D:HIS430 3.6 76.6 1.0 N D:CYS412 3.7 79.7 1.0 HB D:ILE411 3.7 87.2 1.0 HB3 D:ALA414 3.8 67.9 1.0 CG D:HIS430 3.9 62.8 1.0 CA D:CYS412 4.0 80.7 1.0 HB2 D:CYS412 4.0 84.8 1.0 H D:ALA414 4.0 81.3 1.0 ND1 D:HIS425 4.1 46.6 1.0 HZ D:PHE416 4.1 55.4 1.0 ND1 D:HIS430 4.1 63.0 1.0 CG D:HIS425 4.2 49.8 1.0 H D:ILE411 4.4 95.8 1.0 H D:HIS413 4.5 77.7 1.0 HB2 D:ALA414 4.5 67.9 1.0 C D:CYS412 4.6 84.7 1.0 CA D:CYS409 4.6 57.0 1.0 CB D:ALA414 4.6 56.6 1.0 CB D:ILE411 4.7 72.7 1.0 HE2 D:PHE416 4.7 57.9 1.0 N D:HIS413 4.8 64.8 1.0 HB2 D:LYS429 4.8 81.6 1.0 HA D:CYS412 4.8 96.9 1.0 C D:ILE411 4.8 81.0 1.0 HG12 D:ILE426 4.8 69.2 1.0 N D:ALA414 4.8 67.8 1.0 HG22 D:ILE411 4.9 87.8 1.0 HD1 D:HIS425 4.9 55.9 1.0 HA D:ILE426 4.9 55.4 1.0 CZ D:PHE416 4.9 46.1 1.0 HD1 D:HIS430 5.0 75.6 1.0 HB3 D:LYS429 5.0 81.6 1.0 HA D:CYS409 5.0 68.4 1.0

Zinc binding site 10 out of 10 in the Human Ctcf ZNF3-7 and Methylated Dna Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 10 of Human Ctcf ZNF3-7 and Methylated Dna Complex within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn505 b:39.9 occ:1.00 NE2 D:HIS455 2.0 34.5 1.0 NE2 D:HIS460 2.0 43.7 1.0 SG D:CYS442 2.2 39.8 1.0 SG D:CYS439 2.3 37.4 1.0 HB3 D:CYS442 2.7 52.3 1.0 CD2 D:HIS455 2.9 33.9 1.0 CE1 D:HIS460 2.9 46.4 1.0 CB D:CYS442 2.9 43.6 1.0 CE1 D:HIS455 3.0 34.0 1.0 HE1 D:HIS460 3.0 55.7 1.0 HD2 D:HIS455 3.0 40.7 1.0 HB3 D:CYS439 3.1 44.5 1.0 CD2 D:HIS460 3.1 45.4 1.0 CB D:CYS439 3.2 37.1 1.0 HE1 D:HIS455 3.3 40.9 1.0 HB2 D:CYS439 3.3 44.5 1.0 HD2 D:HIS460 3.4 54.4 1.0 H D:CYS442 3.4 56.8 1.0 N D:CYS442 3.5 47.4 1.0 CA D:CYS442 3.7 47.0 1.0 HB D:THR444 3.7 58.5 1.0 HB2 D:CYS442 3.8 52.3 1.0 H D:HIS441 3.9 63.8 1.0 HB2 D:HIS441 3.9 64.7 1.0 HG1 D:THR444 3.9 58.8 1.0 C D:HIS441 4.0 53.0 1.0 CG D:HIS455 4.1 33.1 1.0 ND1 D:HIS460 4.1 49.8 1.0 ND1 D:HIS455 4.1 33.2 1.0 H D:THR444 4.1 65.5 1.0 C D:CYS442 4.2 47.5 1.0 CG D:HIS460 4.2 49.1 1.0 HB3 D:GLN459 4.3 72.7 1.0 OG1 D:THR444 4.3 49.0 1.0 O D:CYS442 4.4 47.8 1.0 CB D:THR444 4.5 48.8 1.0 O D:HIS441 4.5 54.4 1.0 HA D:CYS442 4.5 56.4 1.0 N D:HIS441 4.6 53.2 1.0 HB2 D:GLN459 4.6 72.7 1.0 CA D:HIS441 4.6 54.5 1.0 CA D:CYS439 4.6 39.9 1.0 CB D:HIS441 4.7 53.9 1.0 HD1 D:HIS460 4.8 59.7 1.0 HD1 D:HIS455 4.9 39.9 1.0 CB D:GLN459 4.9 60.6 1.0 N D:THR444 4.9 54.6 1.0 HG2 D:GLN459 4.9 71.9 1.0 N D:ASP443 5.0 65.3 1.0

H.Hashimoto, D.Wang, J.R.Horton, X.Zhang, V.G.Corces, X.Cheng. Structural Basis For the Versatile and Methylation-Dependent Binding of Ctcf to Dna. Mol. Cell V. 66 711 2017.
ISSN: ISSN 1097-4164
PubMed: 28529057
DOI: 10.1016/J.MOLCEL.2017.05.004