Zinc in PDB 7n5s: ZBTB7A Zinc Finger Domain Bound to -200 Site of Fetal Globin Promoter (Oligo 6)

Protein crystallography data

The structure of ZBTB7A Zinc Finger Domain Bound to -200 Site of Fetal Globin Promoter (Oligo 6), PDB code: 7n5s was solved by J.R.Horton, R.Ren, X.Cheng, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 36.32 / 2.86
Space group P 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 46.938, 36.963, 74.257, 90, 100.01, 90
R / Rfree (%) 22.6 / 27.2

Zinc Binding Sites:

The binding sites of Zinc atom in the ZBTB7A Zinc Finger Domain Bound to -200 Site of Fetal Globin Promoter (Oligo 6) (pdb code 7n5s). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the ZBTB7A Zinc Finger Domain Bound to -200 Site of Fetal Globin Promoter (Oligo 6), PDB code: 7n5s:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in 7n5s

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Zinc binding site 1 out of 4 in the ZBTB7A Zinc Finger Domain Bound to -200 Site of Fetal Globin Promoter (Oligo 6)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of ZBTB7A Zinc Finger Domain Bound to -200 Site of Fetal Globin Promoter (Oligo 6) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn601

b:101.5
occ:1.00
NE2 A:HIS432 2.0 130.1 1.0
NE2 A:HIS428 2.0 108.5 1.0
SG A:CYS415 2.3 102.0 1.0
SG A:CYS412 2.3 115.7 1.0
CD2 A:HIS428 2.6 97.4 1.0
CD2 A:HIS432 2.7 138.1 1.0
CE1 A:HIS432 3.0 131.0 1.0
CB A:CYS412 3.1 120.5 1.0
CB A:CYS415 3.2 96.9 1.0
CE1 A:HIS428 3.3 104.8 1.0
N A:CYS415 3.3 122.5 1.0
CG A:HIS432 3.8 140.3 1.0
CA A:CYS415 3.8 115.8 1.0
CG A:HIS428 3.9 91.2 1.0
ND1 A:HIS432 3.9 138.0 1.0
ND1 A:HIS428 4.1 104.0 1.0
CB A:ILE414 4.2 110.1 1.0
C A:ILE414 4.4 122.9 1.0
N A:ILE414 4.6 124.1 1.0
CA A:CYS412 4.6 112.6 1.0
C A:CYS415 4.6 113.6 1.0
CA A:ILE414 4.6 124.3 1.0
N A:LYS416 4.7 112.0 1.0
C A:CYS412 4.9 126.6 1.0
CG2 A:ILE414 5.0 102.2 1.0

Zinc binding site 2 out of 4 in 7n5s

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Zinc binding site 2 out of 4 in the ZBTB7A Zinc Finger Domain Bound to -200 Site of Fetal Globin Promoter (Oligo 6)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of ZBTB7A Zinc Finger Domain Bound to -200 Site of Fetal Globin Promoter (Oligo 6) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn602

b:77.2
occ:1.00
NE2 A:HIS404 2.0 88.6 1.0
NE2 A:HIS400 2.0 93.9 1.0
SG A:CYS387 2.2 83.2 1.0
SG A:CYS384 2.3 88.0 1.0
CE1 A:HIS404 2.8 75.4 1.0
CE1 A:HIS400 2.8 98.6 1.0
CD2 A:HIS404 2.9 85.5 1.0
CD2 A:HIS400 2.9 99.5 1.0
CB A:CYS387 3.3 105.8 1.0
CB A:CYS384 3.4 108.6 1.0
N A:CYS387 3.8 102.5 1.0
ND1 A:HIS404 3.8 73.6 1.0
ND1 A:HIS400 3.8 91.0 1.0
CG A:HIS404 3.9 67.8 1.0
CG A:HIS400 3.9 81.9 1.0
CA A:CYS387 4.2 108.1 1.0
CB A:ILE386 4.2 91.5 1.0
C A:ILE386 4.6 103.2 1.0
CG2 A:ILE386 4.7 110.6 1.0
O A:HIS400 4.7 103.4 1.0
CA A:CYS384 4.8 109.3 1.0
CA A:ILE386 4.8 97.6 1.0
N A:ILE386 4.9 100.0 1.0

Zinc binding site 3 out of 4 in 7n5s

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Zinc binding site 3 out of 4 in the ZBTB7A Zinc Finger Domain Bound to -200 Site of Fetal Globin Promoter (Oligo 6)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of ZBTB7A Zinc Finger Domain Bound to -200 Site of Fetal Globin Promoter (Oligo 6) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn603

b:138.7
occ:1.00
NE2 A:HIS456 2.0 128.4 1.0
NE2 A:HIS460 2.0 147.2 1.0
SG A:CYS443 2.3 138.3 1.0
SG A:CYS440 2.3 123.9 1.0
CD2 A:HIS456 2.4 138.9 1.0
CD2 A:HIS460 2.8 149.2 1.0
CE1 A:HIS460 3.0 135.6 1.0
CB A:CYS440 3.2 141.0 1.0
CE1 A:HIS456 3.2 133.0 1.0
CB A:CYS443 3.5 121.6 1.0
CG A:HIS456 3.6 130.1 1.0
N A:CYS443 3.9 135.1 1.0
CG A:HIS460 3.9 142.0 1.0
ND1 A:HIS460 3.9 131.8 1.0
ND1 A:HIS456 4.0 139.5 1.0
CA A:CYS443 4.2 134.2 1.0
CA A:CYS440 4.6 140.2 1.0
CB A:ALA445 4.6 139.5 1.0
CB A:GLN442 4.7 123.2 1.0
O A:HIS456 4.7 136.2 1.0
C A:GLN442 4.8 138.9 1.0
C A:CYS443 4.8 144.4 1.0
N A:GLY444 4.9 136.1 1.0
CB A:HIS456 4.9 122.2 1.0
N A:ALA445 4.9 148.4 1.0

Zinc binding site 4 out of 4 in 7n5s

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Zinc binding site 4 out of 4 in the ZBTB7A Zinc Finger Domain Bound to -200 Site of Fetal Globin Promoter (Oligo 6)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of ZBTB7A Zinc Finger Domain Bound to -200 Site of Fetal Globin Promoter (Oligo 6) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn604

b:142.1
occ:1.00
NE2 A:HIS484 2.0 148.0 1.0
SG A:CYS471 2.3 132.5 1.0
SG A:CYS468 2.3 125.0 1.0
SG A:CYS490 2.3 162.6 1.0
CD2 A:HIS484 2.6 154.2 1.0
CB A:CYS471 3.1 130.3 1.0
CE1 A:HIS484 3.3 151.5 1.0
CB A:CYS468 3.6 120.2 1.0
CB A:CYS490 3.6 165.2 1.0
N A:CYS471 3.9 139.3 1.0
CG A:HIS484 3.9 144.6 1.0
CA A:CYS471 4.1 129.2 1.0
ND1 A:HIS484 4.2 146.1 1.0
CB A:SER470 4.7 179.1 1.0
CB A:ASP488 4.8 163.8 1.0
C A:SER470 4.9 190.2 1.0
C A:CYS471 4.9 125.1 1.0
CA A:CYS490 4.9 177.8 1.0
CA A:CYS468 4.9 127.3 1.0

Reference:

Y.Yang, R.Ren, L.Ly, J.R.Horton, L.F.Dong, K.Quinlan, M.Crossley, Y.Shi, X.Cheng. Structural Basis For Human ZBTB7A Action at the Fetal Globin Promoter Cell Rep 2021.
ISSN: ESSN 2211-1247
Page generated: Fri Sep 24 17:08:04 2021

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