Zinc in PDB 8pr4: Dynactin Pointed End Bound to JIP3

Zinc Binding Sites:

The binding sites of Zinc atom in the Dynactin Pointed End Bound to JIP3 (pdb code 8pr4). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 3 binding sites of Zinc where determined in the Dynactin Pointed End Bound to JIP3, PDB code: 8pr4:
Jump to Zinc binding site number: 1; 2; 3;

Zinc binding site 1 out of 3 in 8pr4

Go back to Zinc Binding Sites List in 8pr4
Zinc binding site 1 out of 3 in the Dynactin Pointed End Bound to JIP3


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Dynactin Pointed End Bound to JIP3 within 5.0Å range:
probe atom residue distance (Å) B Occ
Y:Zn501

b:148.3
occ:1.00
 SG Y:CYS33 2.3 124.8 1.0
SG Y:CYS287 2.3 123.3 1.0
SG Y:CYS30 2.3 119.9 1.0
SG Y:CYS284 2.3 116.6 1.0
CB Y:CYS284 3.4 116.6 1.0
CB Y:CYS30 3.4 119.9 1.0
O Y:CYS287 3.8 123.3 1.0
N Y:CYS287 3.9 123.3 1.0
CB Y:CYS33 3.9 124.8 1.0
CB Y:CYS287 3.9 123.3 1.0
N Y:CYS33 4.1 124.8 1.0
CA Y:CYS287 4.3 123.3 1.0
C Y:CYS287 4.6 123.3 1.0
CA Y:CYS33 4.6 124.8 1.0
NH2 Y:ARG37 4.6 112.1 1.0
CB Y:GLN286 4.6 118.0 1.0
NE Y:ARG37 4.7 112.1 1.0
O Y:CYS33 4.7 124.8 1.0
CA Y:CYS284 4.8 116.6 1.0
CA Y:CYS30 4.8 119.9 1.0
C Y:GLN286 5.0 118.0 1.0
CB Y:TYR32 5.0 125.2 1.0

Zinc binding site 2 out of 3 in 8pr4

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Zinc binding site 2 out of 3 in the Dynactin Pointed End Bound to JIP3


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Dynactin Pointed End Bound to JIP3 within 5.0Å range:
probe atom residue distance (Å) B Occ
Y:Zn502

b:157.4
occ:1.00
 SG Y:CYS73 2.3 101.6 1.0
SG Y:CYS54 2.3 119.0 1.0
SG Y:CYS51 2.3 110.9 1.0
SG Y:CYS70 2.3 105.4 1.0
CB Y:CYS51 3.3 110.9 1.0
CB Y:CYS73 3.5 101.6 1.0
CB Y:CYS70 3.5 105.4 1.0
N Y:CYS54 3.8 119.0 1.0
CB Y:CYS54 3.8 119.0 1.0
OE2 Y:GLU56 4.0 120.6 1.0
N Y:CYS73 4.1 101.6 1.0
O Y:CYS54 4.2 119.0 1.0
CA Y:CYS54 4.3 119.0 1.0
CA Y:CYS73 4.4 101.6 1.0
CB Y:SER53 4.4 117.2 1.0
CB Y:ASN72 4.7 106.9 1.0
C Y:CYS54 4.7 119.0 1.0
CA Y:CYS51 4.8 110.9 1.0
OG Y:SER53 4.8 117.2 1.0
C Y:SER53 4.8 117.2 1.0
N Y:ASN72 4.8 106.9 1.0
C Y:ASN72 4.9 106.9 1.0
N Y:SER53 4.9 117.2 1.0
CA Y:CYS70 4.9 105.4 1.0
CA Y:SER53 5.0 117.2 1.0

Zinc binding site 3 out of 3 in 8pr4

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Zinc binding site 3 out of 3 in the Dynactin Pointed End Bound to JIP3


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Dynactin Pointed End Bound to JIP3 within 5.0Å range:
probe atom residue distance (Å) B Occ
Y:Zn503

b:128.7
occ:1.00
 SG Y:CYS76 2.3 97.7 1.0
SG Y:CYS79 2.3 106.1 1.0
SG Y:CYS111 2.3 98.3 1.0
SG Y:CYS114 2.3 94.5 1.0
CB Y:CYS111 3.3 98.3 1.0
CB Y:CYS76 3.5 97.7 1.0
N Y:CYS79 3.7 106.1 1.0
CB Y:CYS114 3.8 94.5 1.0
N Y:CYS114 3.9 94.5 1.0
CB Y:CYS79 3.9 106.1 1.0
CA Y:CYS79 4.3 106.1 1.0
CA Y:CYS114 4.3 94.5 1.0
CB Y:HIS81 4.3 100.3 1.0
O Y:CYS114 4.6 94.5 1.0
ND1 Y:HIS81 4.6 100.3 1.0
CB Y:PHE113 4.6 95.6 1.0
C Y:CYS79 4.7 106.1 1.0
C Y:GLY78 4.7 101.6 1.0
CA Y:CYS111 4.8 98.3 1.0
C Y:CYS114 4.8 94.5 1.0
CA Y:GLY78 4.8 101.6 1.0
N Y:GLY78 4.9 101.6 1.0
N Y:PHE113 4.9 95.6 1.0
CA Y:CYS76 4.9 97.7 1.0
O Y:CYS79 4.9 106.1 1.0
C Y:PHE113 4.9 95.6 1.0
CG Y:HIS81 5.0 100.3 1.0

Reference:

K.Singh, C.K.Lau, G.Manigrasso, R.Gassmann, A.P.Carter. Molecular Mechanism of Dynein-Dynactin Complex Assembly By LIS1 Science 2024.
ISSN: ESSN 1095-9203
DOI: 10.1126/SCIENCE.ADK8544
Page generated: Thu Oct 31 09:46:00 2024

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