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Zinc in PDB 7crq: NSD3 Bearing E1181K/T1232A Dual Mutation in Complex with 187-Bp Ncp (2:1 Binding Mode)

Zinc Binding Sites:

The binding sites of Zinc atom in the NSD3 Bearing E1181K/T1232A Dual Mutation in Complex with 187-Bp Ncp (2:1 Binding Mode) (pdb code 7crq). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 6 binding sites of Zinc where determined in the NSD3 Bearing E1181K/T1232A Dual Mutation in Complex with 187-Bp Ncp (2:1 Binding Mode), PDB code: 7crq:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6;

Zinc binding site 1 out of 6 in 7crq

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Zinc binding site 1 out of 6 in the NSD3 Bearing E1181K/T1232A Dual Mutation in Complex with 187-Bp Ncp (2:1 Binding Mode)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of NSD3 Bearing E1181K/T1232A Dual Mutation in Complex with 187-Bp Ncp (2:1 Binding Mode) within 5.0Å range:
probe atom residue distance (Å) B Occ
I:Zn1502

b:75.6
occ:1.00
 SG I:CYS1114 2.4 51.7 1.0
SG I:CYS1100 2.4 68.6 1.0
CB I:CYS1098 2.4 57.8 1.0
SG I:CYS1098 2.5 57.8 1.0
SG I:CYS1108 3.2 67.4 1.0
CB I:CYS1100 3.7 68.6 1.0
CA I:CYS1098 3.8 57.8 1.0
CB I:CYS1114 3.8 51.7 1.0
CB I:CYS1108 4.1 67.4 1.0
N I:CYS1100 4.1 68.6 1.0
CA I:CYS1114 4.2 51.7 1.0
N I:ASN1099 4.2 62.2 1.0
ZN I:ZN1503 4.3 81.4 1.0
C I:CYS1098 4.4 57.8 1.0
N I:LEU1115 4.5 40.8 1.0
CA I:CYS1100 4.5 68.6 1.0
CA I:CYS1108 4.6 67.4 1.0
C I:CYS1114 4.7 51.7 1.0
SG I:CYS1123 4.8 65.1 1.0
N I:CYS1098 4.8 57.8 1.0
N I:ASN1116 4.9 42.6 1.0

Zinc binding site 2 out of 6 in 7crq

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Zinc binding site 2 out of 6 in the NSD3 Bearing E1181K/T1232A Dual Mutation in Complex with 187-Bp Ncp (2:1 Binding Mode)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of NSD3 Bearing E1181K/T1232A Dual Mutation in Complex with 187-Bp Ncp (2:1 Binding Mode) within 5.0Å range:
probe atom residue distance (Å) B Occ
I:Zn1503

b:81.4
occ:1.00
 SG I:CYS1108 2.4 67.4 1.0
SG I:CYS1128 2.4 69.3 1.0
SG I:CYS1123 2.9 65.1 1.0
CB I:CYS1108 3.2 67.4 1.0
CB I:CYS1134 3.2 74.6 1.0
SG I:CYS1134 3.7 74.6 1.0
CB I:CYS1123 3.7 65.1 1.0
CB I:CYS1128 3.7 69.3 1.0
SG I:CYS1098 4.1 57.8 1.0
ZN I:ZN1502 4.3 75.6 1.0
CB I:ASN1136 4.6 63.9 1.0
CA I:CYS1134 4.6 74.6 1.0
CA I:CYS1108 4.7 67.4 1.0
CA I:CYS1128 4.9 69.3 1.0
CB I:ALA1130 5.0 67.7 1.0
SG I:CYS1114 5.0 51.7 1.0

Zinc binding site 3 out of 6 in 7crq

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Zinc binding site 3 out of 6 in the NSD3 Bearing E1181K/T1232A Dual Mutation in Complex with 187-Bp Ncp (2:1 Binding Mode)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of NSD3 Bearing E1181K/T1232A Dual Mutation in Complex with 187-Bp Ncp (2:1 Binding Mode) within 5.0Å range:
probe atom residue distance (Å) B Occ
I:Zn1504

b:0.1
occ:1.00
 CB I:CYS1275 2.5 92.5 1.0
SG I:CYS1273 2.5 95.5 1.0
O I:CYS1280 2.9 84.0 1.0
CB I:CYS1280 3.0 84.0 1.0
CA I:CYS1280 3.3 84.0 1.0
N I:CYS1275 3.4 92.5 1.0
SG I:CYS1275 3.4 92.5 1.0
CA I:CYS1275 3.4 92.5 1.0
C I:CYS1280 3.4 84.0 1.0
O I:CYS1273 3.8 95.5 1.0
N I:CYS1226 3.9 86.3 1.0
C I:CYS1275 3.9 92.5 1.0
CB I:CYS1273 4.1 95.5 1.0
C I:CYS1273 4.2 95.5 1.0
SG I:CYS1226 4.3 86.3 1.0
CB I:CYS1226 4.3 86.3 1.0
O I:CYS1275 4.3 92.5 1.0
SG I:CYS1280 4.3 84.0 1.0
OG I:SER1225 4.5 85.0 1.0
N I:GLY1276 4.6 80.8 1.0
C I:HIS1274 4.6 0.5 1.0
CA I:SER1225 4.6 85.0 1.0
N I:CYS1280 4.7 84.0 1.0
N I:SER1281 4.7 83.3 1.0
CA I:CYS1226 4.7 86.3 1.0
C I:SER1225 4.8 85.0 1.0
CA I:CYS1273 4.8 95.5 1.0
N I:HIS1274 4.8 0.5 1.0

Zinc binding site 4 out of 6 in 7crq

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Zinc binding site 4 out of 6 in the NSD3 Bearing E1181K/T1232A Dual Mutation in Complex with 187-Bp Ncp (2:1 Binding Mode)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of NSD3 Bearing E1181K/T1232A Dual Mutation in Complex with 187-Bp Ncp (2:1 Binding Mode) within 5.0Å range:
probe atom residue distance (Å) B Occ
L:Zn1501

b:0.0
occ:1.00
 O L:CYS1280 2.1 89.8 1.0
SG L:CYS1273 2.6 94.1 1.0
CB L:CYS1273 2.9 94.1 1.0
CB L:CYS1280 2.9 89.8 1.0
O L:CYS1273 2.9 94.1 1.0
C L:CYS1280 2.9 89.8 1.0
CA L:CYS1280 3.1 89.8 1.0
C L:CYS1273 3.3 94.1 1.0
CB L:CYS1275 3.5 93.9 1.0
N L:CYS1275 3.5 93.9 1.0
CA L:CYS1273 3.7 94.1 1.0
SG L:CYS1226 4.0 87.1 1.0
CA L:CYS1275 4.0 93.9 1.0
CB L:CYS1226 4.0 87.1 1.0
N L:SER1281 4.1 84.8 1.0
O L:CYS1275 4.1 93.9 1.0
SG L:CYS1280 4.2 89.8 1.0
N L:HIS1274 4.2 96.5 1.0
O L:SER1281 4.4 84.8 1.0
C L:CYS1275 4.4 93.9 1.0
N L:CYS1226 4.5 87.1 1.0
N L:CYS1280 4.6 89.8 1.0
NE2 L:HIS1224 4.6 85.7 1.0
C L:HIS1274 4.6 96.5 1.0
C L:SER1281 4.6 84.8 1.0
N L:CYS1273 4.7 94.1 1.0
CA L:SER1281 4.7 84.8 1.0
CA L:HIS1274 4.8 96.5 1.0
CA L:CYS1226 4.9 87.1 1.0
CD2 L:HIS1224 5.0 85.7 1.0

Zinc binding site 5 out of 6 in 7crq

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Zinc binding site 5 out of 6 in the NSD3 Bearing E1181K/T1232A Dual Mutation in Complex with 187-Bp Ncp (2:1 Binding Mode)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of NSD3 Bearing E1181K/T1232A Dual Mutation in Complex with 187-Bp Ncp (2:1 Binding Mode) within 5.0Å range:
probe atom residue distance (Å) B Occ
L:Zn1502

b:96.2
occ:1.00
 SG L:CYS1114 2.4 63.9 1.0
SG L:CYS1108 2.4 74.2 1.0
SG L:CYS1098 2.4 61.9 1.0
SG L:CYS1100 2.4 71.3 1.0
CB L:CYS1098 2.9 61.9 1.0
CB L:CYS1100 3.6 71.3 1.0
CB L:CYS1114 3.7 63.9 1.0
CB L:CYS1108 3.8 74.2 1.0
CA L:CYS1114 4.1 63.9 1.0
CA L:CYS1108 4.2 74.2 1.0
N L:CYS1100 4.3 71.3 1.0
ZN L:ZN1503 4.3 85.2 1.0
CA L:CYS1098 4.4 61.9 1.0
CA L:CYS1100 4.6 71.3 1.0
N L:ASN1099 4.6 63.5 1.0
N L:LEU1115 4.7 48.0 1.0
SG L:CYS1123 4.7 67.1 1.0
C L:CYS1114 4.7 63.9 1.0
N L:CYS1108 4.9 74.2 1.0
C L:CYS1098 4.9 61.9 1.0
SG L:CYS1128 4.9 71.3 1.0
N L:ASN1116 5.0 49.2 1.0

Zinc binding site 6 out of 6 in 7crq

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Zinc binding site 6 out of 6 in the NSD3 Bearing E1181K/T1232A Dual Mutation in Complex with 187-Bp Ncp (2:1 Binding Mode)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of NSD3 Bearing E1181K/T1232A Dual Mutation in Complex with 187-Bp Ncp (2:1 Binding Mode) within 5.0Å range:
probe atom residue distance (Å) B Occ
L:Zn1503

b:85.2
occ:1.00
 SG L:CYS1108 2.4 74.2 1.0
SG L:CYS1128 2.4 71.3 1.0
CB L:CYS1108 2.6 74.2 1.0
CB L:CYS1134 2.9 80.2 1.0
SG L:CYS1134 3.2 80.2 1.0
SG L:CYS1123 3.5 67.1 1.0
CB L:CYS1123 3.8 67.1 1.0
CB L:ASN1136 3.8 70.2 1.0
CB L:CYS1128 3.9 71.3 1.0
CA L:CYS1108 4.1 74.2 1.0
CA L:CYS1134 4.3 80.2 1.0
ZN L:ZN1502 4.3 96.2 1.0
SG L:CYS1098 4.6 61.9 1.0
O L:CYS1108 4.7 74.2 1.0
N L:ASN1136 4.7 70.2 1.0
ND2 L:ASN1136 4.7 70.2 1.0
N L:CYS1108 4.8 74.2 1.0
CG L:ASN1136 4.8 70.2 1.0
C L:CYS1108 4.9 74.2 1.0
CA L:ASN1136 4.9 70.2 1.0
O L:PRO1107 4.9 81.6 1.0
C L:CYS1134 4.9 80.2 1.0
SG L:CYS1114 5.0 63.9 1.0

Reference:

W.Li, W.Tian, G.Yuan, P.Deng, O.Gozani, D.Patel, Z.Wang. Molecular Basis of Nucleosomal H3K36 Methylation By Nsd Methyltransferases To Be Published.
Page generated: Tue Oct 29 18:26:26 2024

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