Zinc in PDB 7n5t: ZBTB7A Zinc Finger Domain Bound to -200 Site of Fetal Globin Promoter (Oligo 5)

Protein crystallography data

The structure of ZBTB7A Zinc Finger Domain Bound to -200 Site of Fetal Globin Promoter (Oligo 5), PDB code: 7n5t 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) 36.37 / 2.90
Space group P 2 2 21
Cell size a, b, c (Å), α, β, γ (°) 35.479, 36.366, 176.377, 90, 90, 90
R / Rfree (%) 24.7 / 30.9

Zinc Binding Sites:

The binding sites of Zinc atom in the ZBTB7A Zinc Finger Domain Bound to -200 Site of Fetal Globin Promoter (Oligo 5) (pdb code 7n5t). 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 5), PDB code: 7n5t:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in 7n5t

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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 5)


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 5) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn601

b:116.9
occ:1.00
NE2 A:HIS432 2.0 125.9 1.0
NE2 A:HIS428 2.0 110.8 1.0
SG A:CYS415 2.3 104.2 1.0
SG A:CYS412 2.4 120.0 1.0
CD2 A:HIS432 2.5 125.5 1.0
CD2 A:HIS428 2.9 108.1 1.0
CE1 A:HIS428 3.0 121.3 1.0
CB A:CYS415 3.2 114.1 1.0
CE1 A:HIS432 3.3 132.9 1.0
N A:CYS415 3.4 117.8 1.0
CB A:CYS412 3.4 109.2 1.0
CG A:HIS432 3.8 133.1 1.0
CA A:CYS415 3.9 118.6 1.0
CG A:HIS428 4.0 103.6 1.0
ND1 A:HIS428 4.0 117.7 1.0
ND1 A:HIS432 4.1 142.9 1.0
CB A:ILE414 4.1 117.7 1.0
C A:ILE414 4.4 119.9 1.0
CA A:ILE414 4.6 122.9 1.0
N A:ILE414 4.6 127.3 1.0
C A:CYS415 4.8 125.0 1.0
CG2 A:ILE414 4.8 115.0 1.0
CA A:CYS412 4.8 107.0 1.0
N A:LYS416 5.0 128.0 1.0

Zinc binding site 2 out of 4 in 7n5t

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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 5)


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 5) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn602

b:115.5
occ:1.00
NE2 A:HIS400 2.0 106.1 1.0
NE2 A:HIS404 2.1 100.6 1.0
SG A:CYS387 2.3 121.4 1.0
SG A:CYS384 2.4 108.2 1.0
CE1 A:HIS400 2.5 104.1 1.0
CD2 A:HIS404 2.7 98.2 1.0
CE1 A:HIS404 3.0 101.6 1.0
CD2 A:HIS400 3.2 102.4 1.0
CB A:CYS387 3.4 123.2 1.0
CB A:CYS384 3.6 121.7 1.0
N A:CYS387 3.6 120.7 1.0
ND1 A:HIS400 3.6 101.4 1.0
CG A:HIS404 3.8 85.8 1.0
ND1 A:HIS404 3.9 87.5 1.0
CG A:HIS400 4.0 102.1 1.0
CB A:ILE386 4.1 123.5 1.0
CA A:CYS387 4.1 131.2 1.0
CG2 A:ILE386 4.3 126.8 1.0
C A:ILE386 4.6 131.6 1.0
CE A:LYS389 4.6 148.7 1.0
CA A:ILE386 4.8 130.3 1.0
O A:HIS400 4.9 98.5 1.0
N A:ILE386 4.9 127.3 1.0
CA A:CYS384 5.0 109.9 1.0

Zinc binding site 3 out of 4 in 7n5t

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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 5)


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 5) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn603

b:122.1
occ:1.00
NE2 A:HIS460 2.0 150.1 1.0
NE2 A:HIS456 2.1 111.6 1.0
CD2 A:HIS460 2.2 147.3 1.0
SG A:CYS443 2.3 126.6 1.0
SG A:CYS440 2.4 164.4 1.0
CD2 A:HIS456 2.4 120.0 1.0
CE1 A:HIS456 3.3 113.2 1.0
CE1 A:HIS460 3.4 148.3 1.0
CB A:CYS440 3.4 146.0 1.0
CB A:CYS443 3.5 131.7 1.0
CG A:HIS460 3.6 142.8 1.0
CG A:HIS456 3.7 113.4 1.0
N A:CYS443 3.9 152.4 1.0
ND1 A:HIS460 4.1 139.8 1.0
ND1 A:HIS456 4.1 110.1 1.0
CA A:CYS443 4.3 143.2 1.0
CB A:GLN442 4.6 152.5 1.0
O A:HIS456 4.6 118.8 1.0
CB A:HIS460 4.8 140.2 1.0
CA A:CYS440 4.9 145.1 1.0
C A:GLN442 4.9 150.5 1.0
CB A:ALA445 4.9 129.1 1.0
C A:CYS443 4.9 146.0 1.0
CB A:HIS456 5.0 118.0 1.0

Zinc binding site 4 out of 4 in 7n5t

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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 5)


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 5) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn604

b:143.8
occ:1.00
NE2 A:HIS484 2.0 137.7 1.0
SG A:CYS468 2.3 112.7 1.0
SG A:CYS490 2.3 174.2 1.0
SG A:CYS471 2.3 123.8 1.0
CD2 A:HIS484 2.5 138.5 1.0
CB A:CYS471 3.0 130.1 1.0
CB A:CYS490 3.2 176.4 1.0
CE1 A:HIS484 3.3 137.5 1.0
CB A:CYS468 3.4 112.7 1.0
CG A:HIS484 3.8 140.1 1.0
N A:CYS471 3.8 128.6 1.0
CA A:CYS471 4.0 130.4 1.0
ND1 A:HIS484 4.1 138.2 1.0
CA A:CYS490 4.7 189.2 1.0
CA A:CYS468 4.8 116.5 1.0
CB A:SER470 4.8 143.1 1.0
C A:SER470 4.9 129.9 1.0
C A:CYS471 4.9 124.1 1.0
N A:CYS490 5.0 189.2 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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