Zinc in PDB 5tbn: Solution uc(Nmr) Structure of PHF20 Phd Domain in Complex with A Histone H3K4ME2 Peptide

Zinc Binding Sites:

The binding sites of Zinc atom in the Solution uc(Nmr) Structure of PHF20 Phd Domain in Complex with A Histone H3K4ME2 Peptide (pdb code 5tbn). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Solution uc(Nmr) Structure of PHF20 Phd Domain in Complex with A Histone H3K4ME2 Peptide, PDB code: 5tbn:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 5tbn

Go back to Zinc Binding Sites List in 5tbn
Zinc binding site 1 out of 2 in the Solution uc(Nmr) Structure of PHF20 Phd Domain in Complex with A Histone H3K4ME2 Peptide


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Solution uc(Nmr) Structure of PHF20 Phd Domain in Complex with A Histone H3K4ME2 Peptide within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn800

b:0.0
occ:1.00
SG A:CYS51 2.3 0.0 1.0
SG A:CYS23 2.3 0.0 1.0
SG A:CYS26 2.4 0.0 1.0
SG A:CYS48 2.4 0.0 1.0
H A:CYS26 2.9 0.0 1.0
HB2 A:CYS51 3.2 0.0 1.0
HB3 A:GLU25 3.2 0.0 1.0
H A:CYS48 3.3 0.0 1.0
CB A:CYS23 3.4 0.0 1.0
HB3 A:CYS48 3.4 0.0 1.0
CB A:CYS51 3.4 0.0 1.0
HB3 A:CYS23 3.4 0.0 1.0
HB3 A:CYS26 3.4 0.0 1.0
CB A:CYS26 3.4 0.0 1.0
HB2 A:CYS23 3.5 0.0 1.0
CB A:CYS48 3.5 0.0 1.0
HG12 A:VAL50 3.5 0.0 1.0
H A:CYS51 3.6 0.0 1.0
SG A:CYS28 3.6 0.0 1.0
HG A:CYS28 3.7 0.0 1.0
N A:CYS26 3.7 0.0 1.0
N A:CYS51 4.0 0.0 1.0
CA A:CYS26 4.1 0.0 1.0
N A:CYS48 4.2 0.0 1.0
HB3 A:CYS51 4.2 0.0 1.0
HB A:VAL50 4.3 0.0 1.0
H A:CYS28 4.3 0.0 1.0
H A:GLU25 4.3 0.0 1.0
CB A:GLU25 4.3 0.0 1.0
HB2 A:CYS48 4.3 0.0 1.0
CA A:CYS51 4.3 0.0 1.0
CA A:CYS48 4.3 0.0 1.0
HB2 A:CYS26 4.4 0.0 1.0
O A:CYS48 4.4 0.0 1.0
CG1 A:VAL50 4.5 0.0 1.0
HG3 A:GLU25 4.5 0.0 1.0
HG11 A:VAL50 4.7 0.0 1.0
H A:GLN27 4.7 0.0 1.0
C A:GLU25 4.7 0.0 1.0
C A:VAL50 4.8 0.0 1.0
C A:CYS48 4.8 0.0 1.0
C A:CYS26 4.8 0.0 1.0
CA A:CYS23 4.8 0.0 1.0
HA A:CYS51 4.8 0.0 1.0
CB A:VAL50 4.8 0.0 1.0
HB2 A:GLU25 4.8 0.0 1.0
HA A:THR47 4.9 0.0 1.0
CA A:GLU25 4.9 0.0 1.0
CG A:GLU25 4.9 0.0 1.0
N A:GLU25 4.9 0.0 1.0

Zinc binding site 2 out of 2 in 5tbn

Go back to Zinc Binding Sites List in 5tbn
Zinc binding site 2 out of 2 in the Solution uc(Nmr) Structure of PHF20 Phd Domain in Complex with A Histone H3K4ME2 Peptide


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Solution uc(Nmr) Structure of PHF20 Phd Domain in Complex with A Histone H3K4ME2 Peptide within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn801

b:0.0
occ:1.00
ND1 A:HIS31 2.1 0.0 1.0
SG A:CYS34 2.3 0.0 1.0
SG A:CYS11 2.3 0.0 1.0
SG A:CYS9 2.3 0.0 1.0
HB2 A:CYS11 2.8 0.0 1.0
HB2 A:HIS31 3.0 0.0 1.0
CE1 A:HIS31 3.1 0.0 1.0
CG A:HIS31 3.1 0.0 1.0
CB A:CYS34 3.3 0.0 1.0
CB A:CYS11 3.3 0.0 1.0
HB2 A:CYS34 3.3 0.0 1.0
HD12 A:ILE10 3.3 0.0 1.0
HB3 A:CYS34 3.3 0.0 1.0
HE1 A:HIS31 3.3 0.0 1.0
HB3 A:CYS9 3.5 0.0 1.0
CB A:CYS9 3.5 0.0 1.0
CB A:HIS31 3.6 0.0 1.0
H A:HIS31 3.7 0.0 1.0
H A:CYS11 3.8 0.0 1.0
HB2 A:CYS9 3.8 0.0 1.0
HB3 A:CYS11 3.9 0.0 1.0
NE2 A:HIS31 4.2 0.0 1.0
CD2 A:HIS31 4.2 0.0 1.0
HD11 A:ILE10 4.2 0.0 1.0
CD1 A:ILE10 4.2 0.0 1.0
HB3 A:HIS31 4.3 0.0 1.0
N A:CYS11 4.4 0.0 1.0
HG13 A:ILE10 4.4 0.0 1.0
HG12 A:VAL13 4.4 0.0 1.0
CA A:CYS11 4.4 0.0 1.0
N A:HIS31 4.5 0.0 1.0
CA A:HIS31 4.6 0.0 1.0
HD21 A:ASN17 4.7 0.0 1.0
CA A:CYS34 4.7 0.0 1.0
O A:HIS31 4.8 0.0 1.0
HA A:CYS11 4.9 0.0 1.0
CA A:CYS9 4.9 0.0 1.0
H A:CYS34 4.9 0.0 1.0
H A:ILE10 4.9 0.0 1.0
HA A:CYS34 4.9 0.0 1.0
CG1 A:ILE10 4.9 0.0 1.0

Reference:

B.J.Klein, X.Wang, G.Cui, C.Yuan, M.V.Botuyan, K.Lin, Y.Lu, X.Wang, Y.Zhao, C.J.Bruns, G.Mer, X.Shi, T.G.Kutateladze. PHF20 Readers Link Methylation of Histone H3K4 and P53 with H4K16 Acetylation. Cell Rep V. 17 1158 2016.
ISSN: ESSN 2211-1247
PubMed: 27760318
DOI: 10.1016/J.CELREP.2016.09.056
Page generated: Wed Dec 16 10:55:39 2020

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