Zinc in PDB 6wmi: ZNF410 Zinc Fingers 1-5 with 17 Mer Blunt Dna Oligonucleotide

The structure of ZNF410 Zinc Fingers 1-5 with 17 Mer Blunt Dna Oligonucleotide, PDB code: 6wmi was solved by R.Ren, J.R.Horton, X.Cheng, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	41.92 / 2.75
Space group	P 62
Cell size a, b, c (Å), α, β, γ (°)	186.257, 186.257, 46.950, 90.00, 90.00, 120.00
R / Rfree (%)	15.9 / 19.4

The binding sites of Zinc atom in the ZNF410 Zinc Fingers 1-5 with 17 Mer Blunt Dna Oligonucleotide (pdb code 6wmi). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 10 binding sites of Zinc where determined in the ZNF410 Zinc Fingers 1-5 with 17 Mer Blunt Dna Oligonucleotide, PDB code: 6wmi:
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 ZNF410 Zinc Fingers 1-5 with 17 Mer Blunt Dna Oligonucleotide


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of ZNF410 Zinc Fingers 1-5 with 17 Mer Blunt Dna Oligonucleotide within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn402 b:44.5 occ:1.00 NE2 A:HIS299 2.0 54.5 1.0 NE2 A:HIS303 2.0 59.5 1.0 SG A:CYS286 2.2 40.6 1.0 SG A:CYS281 2.3 45.9 1.0 CE1 A:HIS299 2.9 35.0 1.0 CD2 A:HIS303 3.0 49.9 1.0 CD2 A:HIS299 3.0 45.0 1.0 CE1 A:HIS303 3.1 55.2 1.0 CB A:CYS286 3.1 39.2 1.0 CB A:CYS281 3.2 40.0 1.0 ND1 A:HIS299 4.1 43.9 1.0 CB A:GLU283 4.1 54.9 1.0 CG A:HIS303 4.1 50.9 1.0 ND1 A:HIS303 4.1 54.3 1.0 CG A:HIS299 4.1 44.9 1.0 CA A:CYS286 4.6 41.4 1.0 CA A:CYS281 4.6 35.6 1.0 CG A:GLU283 4.9 50.3 1.0 CD1 A:ILE302 5.0 49.0 1.0

Zinc binding site 2 out of 10 in the ZNF410 Zinc Fingers 1-5 with 17 Mer Blunt Dna Oligonucleotide


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of ZNF410 Zinc Fingers 1-5 with 17 Mer Blunt Dna Oligonucleotide within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn403 b:59.5 occ:1.00 NE2 A:HIS243 2.0 67.5 1.0 NE2 A:HIS239 2.1 71.2 1.0 SG A:CYS226 2.2 58.0 1.0 SG A:CYS221 2.4 54.5 1.0 CD2 A:HIS239 2.8 53.8 1.0 CD2 A:HIS243 2.8 57.5 1.0 CE1 A:HIS243 3.1 68.9 1.0 CB A:CYS226 3.1 59.0 1.0 CE1 A:HIS239 3.2 50.0 1.0 CB A:CYS221 3.3 51.1 1.0 CG A:HIS243 4.0 62.2 1.0 CG A:HIS239 4.0 49.4 1.0 ND1 A:HIS243 4.1 70.7 1.0 ND1 A:HIS239 4.1 52.8 1.0 CG2 A:VAL223 4.5 58.0 1.0 CA A:CYS226 4.5 70.9 1.0 CB A:VAL223 4.6 61.0 1.0 CA A:CYS221 4.8 52.2 1.0

Zinc binding site 3 out of 10 in the ZNF410 Zinc Fingers 1-5 with 17 Mer Blunt Dna Oligonucleotide


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of ZNF410 Zinc Fingers 1-5 with 17 Mer Blunt Dna Oligonucleotide within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn404 b:73.7 occ:1.00 NE2 A:HIS333 2.1 0.3 1.0 NE2 A:HIS329 2.1 94.2 1.0 SG A:CYS316 2.3 96.2 1.0 SG A:CYS311 2.3 72.2 1.0 CD2 A:HIS329 2.9 77.9 1.0 CD2 A:HIS333 3.0 0.9 1.0 CE1 A:HIS333 3.0 0.8 1.0 CB A:CYS316 3.0 84.3 1.0 CE1 A:HIS329 3.2 76.6 1.0 CB A:CYS311 3.3 84.2 1.0 ND1 A:HIS333 4.0 1.0 1.0 CG A:HIS333 4.1 0.8 1.0 CG A:HIS329 4.1 75.2 1.0 ND1 A:HIS329 4.2 74.1 1.0 CB A:ALA313 4.2 81.0 1.0 CA A:CYS316 4.5 89.0 1.0 CA A:CYS311 4.8 78.9 1.0 CB A:ARG318 4.8 74.1 1.0

Zinc binding site 4 out of 10 in the ZNF410 Zinc Fingers 1-5 with 17 Mer Blunt Dna Oligonucleotide


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of ZNF410 Zinc Fingers 1-5 with 17 Mer Blunt Dna Oligonucleotide within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn405 b:51.9 occ:1.00 NE2 A:HIS269 2.0 54.5 1.0 NE2 A:HIS273 2.0 63.9 1.0 SG A:CYS256 2.3 73.4 1.0 SG A:CYS251 2.4 54.9 1.0 CD2 A:HIS269 2.9 43.8 1.0 CD2 A:HIS273 2.9 54.1 1.0 CE1 A:HIS273 3.1 56.4 1.0 CE1 A:HIS269 3.1 51.0 1.0 CB A:CYS256 3.2 63.4 1.0 CB A:CYS251 3.3 51.4 1.0 CG A:HIS269 4.1 40.7 1.0 CG A:HIS273 4.1 62.2 1.0 ND1 A:HIS269 4.2 49.3 1.0 ND1 A:HIS273 4.2 62.3 1.0 CB A:ALA253 4.5 56.3 1.0 CA A:CYS256 4.6 66.1 1.0 CA A:CYS251 4.8 46.8 1.0 OG1 A:THR272 5.0 69.9 1.0

Zinc binding site 5 out of 10 in the ZNF410 Zinc Fingers 1-5 with 17 Mer Blunt Dna Oligonucleotide


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of ZNF410 Zinc Fingers 1-5 with 17 Mer Blunt Dna Oligonucleotide within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn406 b:0.6 occ:1.00 NE2 A:HIS361 2.1 0.6 1.0 NE2 A:HIS357 2.1 0.8 1.0 SG A:CYS344 2.4 0.4 1.0 SG A:CYS341 2.5 0.4 1.0 CD2 A:HIS357 2.7 0.8 1.0 CD2 A:HIS361 2.8 0.9 1.0 CE1 A:HIS361 3.0 0.7 1.0 CB A:CYS344 3.0 0.7 1.0 CE1 A:HIS357 3.3 0.8 1.0 N A:CYS344 3.6 0.1 1.0 CB A:CYS341 3.6 0.0 1.0 CG A:HIS361 3.9 1.0 1.0 CA A:CYS344 3.9 0.5 1.0 ND1 A:HIS361 3.9 0.9 1.0 CG A:HIS357 4.0 0.6 1.0 ND1 A:HIS357 4.2 0.1 1.0 CB A:VAL343 4.4 0.3 1.0 C A:VAL343 4.7 0.5 1.0 N A:GLY345 4.8 0.4 1.0 C A:CYS344 4.9 0.4 1.0 O A:HIS357 4.9 0.3 1.0 CA A:VAL343 4.9 0.9 1.0

Zinc binding site 6 out of 10 in the ZNF410 Zinc Fingers 1-5 with 17 Mer Blunt Dna Oligonucleotide


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of ZNF410 Zinc Fingers 1-5 with 17 Mer Blunt Dna Oligonucleotide within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn401 b:45.0 occ:1.00 NE2 D:HIS303 2.0 50.7 1.0 NE2 D:HIS299 2.1 50.8 1.0 SG D:CYS286 2.2 43.4 1.0 SG D:CYS281 2.3 43.6 1.0 CD2 D:HIS303 2.8 41.1 1.0 CE1 D:HIS299 3.0 40.6 1.0 CD2 D:HIS299 3.0 40.3 1.0 CB D:CYS286 3.1 43.1 1.0 CE1 D:HIS303 3.1 53.3 1.0 CB D:CYS281 3.3 40.9 1.0 CG D:HIS303 4.0 48.6 1.0 CB D:GLU283 4.1 64.9 1.0 ND1 D:HIS299 4.1 44.9 1.0 ND1 D:HIS303 4.1 51.6 1.0 CG D:HIS299 4.2 38.8 1.0 CA D:CYS286 4.5 57.8 1.0 CA D:CYS281 4.8 40.5 1.0 CG D:GLU283 4.8 67.9 1.0 CD1 D:ILE302 4.8 45.0 1.0

Zinc binding site 7 out of 10 in the ZNF410 Zinc Fingers 1-5 with 17 Mer Blunt Dna Oligonucleotide


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 7 of ZNF410 Zinc Fingers 1-5 with 17 Mer Blunt Dna Oligonucleotide within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn402 b:44.9 occ:1.00 NE2 D:HIS273 2.0 47.3 1.0 NE2 D:HIS269 2.1 48.5 1.0 SG D:CYS256 2.2 57.9 1.0 SG D:CYS251 2.4 42.9 1.0 CE1 D:HIS269 3.0 33.9 1.0 CD2 D:HIS273 3.0 41.4 1.0 CE1 D:HIS273 3.0 45.7 1.0 CD2 D:HIS269 3.1 36.1 1.0 CB D:CYS256 3.2 44.4 1.0 CB D:CYS251 3.3 46.1 1.0 ND1 D:HIS269 4.1 39.0 1.0 ND1 D:HIS273 4.1 49.4 1.0 CG D:HIS273 4.2 48.8 1.0 CG D:HIS269 4.2 36.2 1.0 CB D:ALA253 4.4 39.9 1.0 CA D:CYS256 4.7 56.8 1.0 CA D:CYS251 4.8 43.8 1.0 CG D:LYS258 4.9 45.8 1.0 CB D:LYS258 4.9 43.3 1.0

Zinc binding site 8 out of 10 in the ZNF410 Zinc Fingers 1-5 with 17 Mer Blunt Dna Oligonucleotide


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 8 of ZNF410 Zinc Fingers 1-5 with 17 Mer Blunt Dna Oligonucleotide within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn403 b:77.3 occ:1.00 NE2 D:HIS329 2.0 97.3 1.0 NE2 D:HIS333 2.1 0.7 1.0 SG D:CYS316 2.2 98.1 1.0 SG D:CYS311 2.3 74.6 1.0 CD2 D:HIS329 2.8 74.7 1.0 CE1 D:HIS333 2.9 0.4 1.0 CB D:CYS316 3.0 96.2 1.0 CD2 D:HIS333 3.1 1.0 1.0 CE1 D:HIS329 3.2 86.9 1.0 CB D:CYS311 3.4 84.6 1.0 ND1 D:HIS333 4.0 0.4 1.0 CG D:HIS329 4.0 72.8 1.0 CG D:HIS333 4.1 0.1 1.0 ND1 D:HIS329 4.2 84.1 1.0 CA D:CYS316 4.5 95.6 1.0 CB D:ALA313 4.6 99.7 1.0 CA D:CYS311 4.8 89.6 1.0 CB D:ARG318 4.8 66.1 1.0

Zinc binding site 9 out of 10 in the ZNF410 Zinc Fingers 1-5 with 17 Mer Blunt Dna Oligonucleotide


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 9 of ZNF410 Zinc Fingers 1-5 with 17 Mer Blunt Dna Oligonucleotide within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn404 b:0.0 occ:1.00 NE2 D:HIS361 2.1 0.7 1.0 NE2 D:HIS357 2.1 0.2 1.0 CD2 D:HIS361 2.3 0.8 1.0 SG D:CYS344 2.4 0.7 1.0 SG D:CYS341 2.5 0.5 1.0 CE1 D:HIS357 2.9 0.4 1.0 CD2 D:HIS357 3.0 0.2 1.0 CB D:CYS344 3.1 0.2 1.0 CE1 D:HIS361 3.3 0.2 1.0 CG D:HIS361 3.6 0.4 1.0 CB D:CYS341 3.8 0.9 1.0 N D:CYS344 3.9 0.8 1.0 ND1 D:HIS357 3.9 0.2 1.0 CG D:HIS357 4.0 0.3 1.0 ND1 D:HIS361 4.1 0.1 1.0 CA D:CYS344 4.1 0.2 1.0 CB D:VAL343 4.6 0.8 1.0 CB D:HIS361 4.8 0.0 1.0 CG D:MET358 4.8 0.7 1.0 C D:VAL343 4.9 0.2 1.0

Zinc binding site 10 out of 10 in the ZNF410 Zinc Fingers 1-5 with 17 Mer Blunt Dna Oligonucleotide


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 10 of ZNF410 Zinc Fingers 1-5 with 17 Mer Blunt Dna Oligonucleotide within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn405 b:59.5 occ:1.00 NE2 D:HIS243 2.1 58.4 1.0 NE2 D:HIS239 2.1 63.7 1.0 SG D:CYS226 2.3 59.7 1.0 SG D:CYS221 2.3 63.5 1.0 CD2 D:HIS239 3.0 46.5 1.0 CD2 D:HIS243 3.0 54.2 1.0 CE1 D:HIS243 3.0 59.6 1.0 CE1 D:HIS239 3.0 49.8 1.0 CB D:CYS226 3.2 64.7 1.0 CB D:CYS221 3.4 59.5 1.0 CG D:HIS239 4.1 40.3 1.0 ND1 D:HIS243 4.1 51.9 1.0 ND1 D:HIS239 4.1 45.6 1.0 CG D:HIS243 4.1 50.7 1.0 CB D:VAL223 4.3 50.1 1.0 CG2 D:VAL223 4.5 43.5 1.0 CA D:CYS226 4.7 68.3 1.0 CA D:CYS221 4.8 51.1 1.0

R.Ren, J.R.Horton, X.Cheng. Zinc Finger To Be Published.