Atomistry » Zinc » PDB 7odu-7oo3 » 7oni
Atomistry »
  Zinc »
    PDB 7odu-7oo3 »
      7oni »

Zinc in PDB 7oni: Structure of Neddylated CUL5 C-Terminal Region-RBX2-ARIH2*

Enzymatic activity of Structure of Neddylated CUL5 C-Terminal Region-RBX2-ARIH2*

All present enzymatic activity of Structure of Neddylated CUL5 C-Terminal Region-RBX2-ARIH2*:
2.3.2.31;

Zinc Binding Sites:

The binding sites of Zinc atom in the Structure of Neddylated CUL5 C-Terminal Region-RBX2-ARIH2* (pdb code 7oni). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 7 binding sites of Zinc where determined in the Structure of Neddylated CUL5 C-Terminal Region-RBX2-ARIH2*, PDB code: 7oni:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6; 7;

Zinc binding site 1 out of 7 in 7oni

Go back to Zinc Binding Sites List in 7oni
Zinc binding site 1 out of 7 in the Structure of Neddylated CUL5 C-Terminal Region-RBX2-ARIH2*


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Structure of Neddylated CUL5 C-Terminal Region-RBX2-ARIH2* within 5.0Å range:
probe atom residue distance (Å) B Occ
H:Zn501

b:101.6
occ:1.00
 NE2 H:HIS265 2.0 69.7 1.0
SG H:CYS260 2.3 90.6 1.0
SG H:CYS270 2.3 79.1 1.0
SG H:CYS257 2.3 87.8 1.0
CE1 H:HIS265 2.5 69.7 1.0
CD2 H:HIS265 3.3 69.7 1.0
CB H:CYS257 3.3 87.8 1.0
CB H:CYS270 3.3 79.1 1.0
CB H:CYS260 3.7 90.6 1.0
ND1 H:HIS265 3.8 69.7 1.0
N H:CYS260 3.8 90.6 1.0
CA H:CYS270 3.9 79.1 1.0
O H:CYS260 4.0 90.6 1.0
CG H:HIS265 4.2 69.7 1.0
CA H:CYS260 4.2 90.6 1.0
N H:CYS270 4.5 79.1 1.0
C H:CYS260 4.6 90.6 1.0
CB H:ALA244 4.6 82.7 1.0
CA H:CYS257 4.7 87.8 1.0
CB H:LYS259 4.8 87.9 1.0
C H:LYS259 4.9 87.9 1.0

Zinc binding site 2 out of 7 in 7oni

Go back to Zinc Binding Sites List in 7oni
Zinc binding site 2 out of 7 in the Structure of Neddylated CUL5 C-Terminal Region-RBX2-ARIH2*


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Structure of Neddylated CUL5 C-Terminal Region-RBX2-ARIH2* within 5.0Å range:
probe atom residue distance (Å) B Occ
H:Zn502

b:311.3
occ:1.00
 SG H:CYS161 2.3 269.4 1.0
SG H:CYS139 2.3 299.9 1.0
SG H:CYS164 2.3 253.4 1.0
SG H:CYS142 2.3 303.5 1.0
CB H:CYS139 2.9 299.9 1.0
CB H:CYS164 3.1 253.4 1.0
CB H:CYS142 3.2 303.5 1.0
CB H:CYS161 3.6 269.4 1.0
N H:CYS142 3.9 303.5 1.0
N H:CYS161 3.9 269.4 1.0
CA H:CYS142 4.2 303.5 1.0
CA H:CYS161 4.2 269.4 1.0
CA H:CYS164 4.2 253.4 1.0
N H:CYS164 4.2 253.4 1.0
CA H:CYS139 4.4 299.9 1.0
O H:CYS161 4.4 269.4 1.0
C H:CYS161 4.7 269.4 1.0
C H:VAL141 4.8 298.9 1.0
C H:CYS139 5.0 299.9 1.0

Zinc binding site 3 out of 7 in 7oni

Go back to Zinc Binding Sites List in 7oni
Zinc binding site 3 out of 7 in the Structure of Neddylated CUL5 C-Terminal Region-RBX2-ARIH2*


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Structure of Neddylated CUL5 C-Terminal Region-RBX2-ARIH2* within 5.0Å range:
probe atom residue distance (Å) B Occ
H:Zn503

b:147.1
occ:1.00
 SG H:CYS252 2.3 121.8 1.0
SG H:CYS228 2.3 117.4 1.0
SG H:CYS249 2.3 120.1 1.0
SG H:CYS233 2.3 130.2 1.0
CB H:CYS249 3.0 120.1 1.0
CB H:CYS233 3.4 130.2 1.0
CB H:CYS252 3.6 121.8 1.0
CB H:CYS228 3.7 117.4 1.0
N H:CYS252 4.0 121.8 1.0
CA H:CYS252 4.3 121.8 1.0
CA H:CYS249 4.4 120.1 1.0
CB H:MET235 4.6 126.6 1.0
CG H:MET235 4.7 126.6 1.0
CB H:ARG251 4.7 123.0 1.0
O H:CYS249 4.8 120.1 1.0
OE1 H:GLU254 4.8 113.0 1.0
CA H:CYS233 4.8 130.2 1.0
C H:CYS249 4.8 120.1 1.0
C H:ARG251 5.0 123.0 1.0
C H:CYS252 5.0 121.8 1.0
CA H:CYS228 5.0 117.4 1.0

Zinc binding site 4 out of 7 in 7oni

Go back to Zinc Binding Sites List in 7oni
Zinc binding site 4 out of 7 in the Structure of Neddylated CUL5 C-Terminal Region-RBX2-ARIH2*


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Structure of Neddylated CUL5 C-Terminal Region-RBX2-ARIH2* within 5.0Å range:
probe atom residue distance (Å) B Occ
H:Zn504

b:253.5
occ:1.00
 ND1 H:HIS158 2.0 250.1 1.0
SG H:CYS156 2.3 241.8 1.0
SG H:CYS188 2.3 228.4 1.0
SG H:CYS183 2.3 234.3 1.0
CE1 H:HIS158 2.9 250.1 1.0
CG H:HIS158 3.0 250.1 1.0
CB H:CYS183 3.0 234.3 1.0
CB H:CYS156 3.2 241.8 1.0
CB H:CYS188 3.3 228.4 1.0
CB H:HIS158 3.4 250.1 1.0
NE2 H:HIS158 3.9 250.1 1.0
CD2 H:HIS158 4.0 250.1 1.0
CB H:ALA185 4.2 240.6 1.0
CA H:CYS183 4.5 234.3 1.0
CA H:CYS156 4.6 241.8 1.0
CA H:HIS158 4.7 250.1 1.0
CA H:CYS188 4.7 228.4 1.0
N H:HIS158 4.8 250.1 1.0
CB H:LEU190 4.9 216.1 1.0
N H:ALA185 4.9 240.6 1.0

Zinc binding site 5 out of 7 in 7oni

Go back to Zinc Binding Sites List in 7oni
Zinc binding site 5 out of 7 in the Structure of Neddylated CUL5 C-Terminal Region-RBX2-ARIH2*


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Structure of Neddylated CUL5 C-Terminal Region-RBX2-ARIH2* within 5.0Å range:
probe atom residue distance (Å) B Occ
R:Zn201

b:67.5
occ:1.00
 ND1 R:HIS85 2.0 63.8 1.0
SG R:CYS50 2.3 60.3 1.0
SG R:CYS53 2.3 61.2 1.0
SG R:CYS88 2.3 69.8 1.0
CB R:CYS50 2.9 60.3 1.0
CE1 R:HIS85 2.9 63.8 1.0
CG R:HIS85 3.0 63.8 1.0
CB R:HIS85 3.4 63.8 1.0
CB R:CYS88 3.5 69.8 1.0
CB R:CYS53 3.9 61.2 1.0
NE2 R:HIS85 4.0 63.8 1.0
CD2 R:HIS85 4.0 63.8 1.0
N R:CYS53 4.1 61.2 1.0
N R:HIS85 4.3 63.8 1.0
CA R:CYS50 4.4 60.3 1.0
CA R:HIS85 4.4 63.8 1.0
CA R:CYS53 4.6 61.2 1.0
CB R:ILE52 4.6 56.6 1.0
CB R:CYS61 4.7 73.5 1.0
CA R:CYS88 4.9 69.8 1.0
C R:CYS50 5.0 60.3 1.0

Zinc binding site 6 out of 7 in 7oni

Go back to Zinc Binding Sites List in 7oni
Zinc binding site 6 out of 7 in the Structure of Neddylated CUL5 C-Terminal Region-RBX2-ARIH2*


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of Structure of Neddylated CUL5 C-Terminal Region-RBX2-ARIH2* within 5.0Å range:
probe atom residue distance (Å) B Occ
R:Zn202

b:111.3
occ:1.00
 SG R:CYS61 2.3 73.5 1.0
SG R:CYS64 2.3 74.9 1.0
SG R:CYS73 2.3 78.7 1.0
SG R:CYS87 2.3 73.6 1.0
CB R:CYS64 3.2 74.9 1.0
CB R:CYS73 3.2 78.7 1.0
CB R:CYS61 3.5 73.5 1.0
CB R:CYS87 3.6 73.6 1.0
CA R:CYS73 4.1 78.7 1.0
N R:CYS64 4.3 74.9 1.0
CA R:CYS64 4.3 74.9 1.0
N R:CYS61 4.3 73.5 1.0
CA R:CYS61 4.4 73.5 1.0
CA R:CYS87 4.9 73.6 1.0
O R:CYS61 4.9 73.5 1.0
N R:CYS87 4.9 73.6 1.0
C R:CYS61 4.9 73.5 1.0

Zinc binding site 7 out of 7 in 7oni

Go back to Zinc Binding Sites List in 7oni
Zinc binding site 7 out of 7 in the Structure of Neddylated CUL5 C-Terminal Region-RBX2-ARIH2*


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 7 of Structure of Neddylated CUL5 C-Terminal Region-RBX2-ARIH2* within 5.0Å range:
probe atom residue distance (Å) B Occ
R:Zn203

b:97.3
occ:1.00
 ND1 R:HIS82 2.0 73.2 1.0
SG R:CYS80 2.3 83.5 1.0
SG R:CYS99 2.3 73.8 1.0
SG R:CYS102 2.3 80.2 1.0
CE1 R:HIS82 2.9 73.2 1.0
CB R:CYS80 3.1 83.5 1.0
CB R:CYS99 3.1 73.8 1.0
CG R:HIS82 3.1 73.2 1.0
CB R:HIS82 3.6 73.2 1.0
CB R:CYS102 3.8 80.2 1.0
N R:CYS102 3.8 80.2 1.0
NE2 R:HIS82 4.0 73.2 1.0
O R:CYS102 4.1 80.2 1.0
CD2 R:HIS82 4.2 73.2 1.0
CA R:CYS102 4.3 80.2 1.0
CA R:CYS80 4.4 83.5 1.0
CB R:LEU101 4.4 70.4 1.0
O R:CYS80 4.5 83.5 1.0
C R:CYS80 4.6 83.5 1.0
CA R:CYS99 4.6 73.8 1.0
C R:CYS102 4.7 80.2 1.0
C R:LEU101 4.9 70.4 1.0
CA R:HIS82 4.9 73.2 1.0
N R:HIS82 5.0 73.2 1.0
N R:LEU101 5.0 70.4 1.0

Reference:

S.P.Kostrhon, J.R.Prabu. CUL5-ARIH2 E3-E3 Ubiquitin Ligase Structure Reveals Cullin-Specific NEDD8 Activation To Be Published.
DOI: 10.1038/S41589-021-00858-8
Page generated: Wed Oct 30 08:35:39 2024

Last articles

Zn in 9JYW
Zn in 9IR4
Zn in 9IR3
Zn in 9GMX
Zn in 9GMW
Zn in 9JEJ
Zn in 9ERF
Zn in 9ERE
Zn in 9EGV
Zn in 9EGW
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy