Zinc in PDB 8ij1: Protomer 1 and 2 of the Asymmetry Trimer of the CUL2-RBX1-Elobc-FEM1B Ubiquitin Ligase Complex

All present enzymatic activity of Protomer 1 and 2 of the Asymmetry Trimer of the CUL2-RBX1-Elobc-FEM1B Ubiquitin Ligase Complex:
2.3.2.27; 2.3.2.32;

The binding sites of Zinc atom in the Protomer 1 and 2 of the Asymmetry Trimer of the CUL2-RBX1-Elobc-FEM1B Ubiquitin Ligase Complex (pdb code 8ij1). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 5 binding sites of Zinc where determined in the Protomer 1 and 2 of the Asymmetry Trimer of the CUL2-RBX1-Elobc-FEM1B Ubiquitin Ligase Complex, PDB code: 8ij1:
Jump to Zinc binding site number: 1; 2; 3; 4; 5;

Zinc binding site 1 out of 5 in the Protomer 1 and 2 of the Asymmetry Trimer of the CUL2-RBX1-Elobc-FEM1B Ubiquitin Ligase Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Protomer 1 and 2 of the Asymmetry Trimer of the CUL2-RBX1-Elobc-FEM1B Ubiquitin Ligase Complex within 5.0Å range: probe atom residue distance (Å) B Occ R:Zn201 b:938.4 occ:1.00 ND1 R:HIS80 2.1 671.4 1.0 SG R:CYS45 2.3 515.9 1.0 SG R:CYS83 2.3 688.4 1.0 SG R:CYS42 2.3 511.5 1.0 CE1 R:HIS80 2.5 671.4 1.0 CG R:HIS80 3.0 671.4 1.0 CB R:CYS42 3.1 511.5 1.0 NE2 R:HIS80 3.5 671.4 1.0 CB R:CYS45 3.7 515.9 1.0 CD2 R:HIS80 3.8 671.4 1.0 CB R:HIS80 3.8 671.4 1.0 CB R:CYS83 3.8 688.4 1.0 CB R:CYS53 4.2 581.9 1.0 CA R:CYS53 4.2 581.9 1.0 CB R:ASN47 4.4 499.9 1.0 N R:CYS45 4.6 515.9 1.0 N R:HIS80 4.6 671.4 1.0 CA R:CYS42 4.6 511.5 1.0 CA R:CYS45 4.6 515.9 1.0 SG R:CYS53 4.8 581.9 1.0 CA R:HIS80 4.9 671.4 1.0 O R:HIS48 4.9 447.5 1.0 OD1 R:ASN47 4.9 499.9 1.0

Zinc binding site 2 out of 5 in the Protomer 1 and 2 of the Asymmetry Trimer of the CUL2-RBX1-Elobc-FEM1B Ubiquitin Ligase Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Protomer 1 and 2 of the Asymmetry Trimer of the CUL2-RBX1-Elobc-FEM1B Ubiquitin Ligase Complex within 5.0Å range: probe atom residue distance (Å) B Occ R:Zn202 b:689.3 occ:1.00 SG R:CYS68 2.1 707.2 1.0 ND1 R:HIS82 2.4 673.4 1.0 SG R:CYS53 2.5 581.9 1.0 SG R:CYS56 2.6 589.0 1.0 CE1 R:HIS82 2.6 673.4 1.0 CB R:CYS68 3.4 707.2 1.0 CG R:HIS82 3.5 673.4 1.0 CB R:CYS56 3.5 589.0 1.0 NE2 R:HIS82 3.7 673.4 1.0 N R:CYS53 4.1 581.9 1.0 CD2 R:HIS82 4.1 673.4 1.0 CB R:CYS53 4.2 581.9 1.0 CB R:HIS82 4.3 673.4 1.0 N R:THR69 4.7 682.1 1.0 CA R:CYS68 4.7 707.2 1.0 CA R:LEU52 4.8 557.3 1.0 CA R:CYS53 4.8 581.9 1.0 CB R:HIS80 4.9 671.4 1.0 C R:LEU52 4.9 557.3 1.0 CA R:CYS56 5.0 589.0 1.0

Zinc binding site 3 out of 5 in the Protomer 1 and 2 of the Asymmetry Trimer of the CUL2-RBX1-Elobc-FEM1B Ubiquitin Ligase Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Protomer 1 and 2 of the Asymmetry Trimer of the CUL2-RBX1-Elobc-FEM1B Ubiquitin Ligase Complex within 5.0Å range: probe atom residue distance (Å) B Occ R:Zn203 b:615.5 occ:1.00 CB R:CYS75 2.1 656.5 1.0 SG R:CYS75 2.3 656.5 1.0 ND1 R:HIS77 3.0 623.0 1.0 O R:CYS75 3.2 656.5 1.0 NH2 R:ARG99 3.2 716.6 1.0 CA R:CYS75 3.3 656.5 1.0 CB R:TRP101 3.4 620.8 1.0 CZ R:ARG99 3.5 716.6 1.0 C R:CYS75 3.6 656.5 1.0 CB R:HIS77 3.6 623.0 1.0 CG R:HIS77 3.6 623.0 1.0 NH1 R:ARG99 3.7 716.6 1.0 SG R:CYS94 3.9 709.5 1.0 CE1 R:HIS77 4.0 623.0 1.0 CA R:TRP101 4.3 620.8 1.0 NE R:ARG99 4.3 716.6 1.0 N R:HIS77 4.3 623.0 1.0 N R:CYS75 4.5 656.5 1.0 CA R:HIS77 4.6 623.0 1.0 CB R:CYS94 4.6 709.5 1.0 N R:ASN76 4.7 640.8 1.0 CD2 R:HIS77 4.7 623.0 1.0 OD2 R:ASP97 4.7 720.2 1.0 NE2 R:HIS77 4.9 623.0 1.0 CE2 R:PHE79 5.0 605.4 1.0

Zinc binding site 4 out of 5 in the Protomer 1 and 2 of the Asymmetry Trimer of the CUL2-RBX1-Elobc-FEM1B Ubiquitin Ligase Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Protomer 1 and 2 of the Asymmetry Trimer of the CUL2-RBX1-Elobc-FEM1B Ubiquitin Ligase Complex within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn701 b:157.4 occ:1.00 NE2 D:HIS627 2.1 94.7 1.0 NE2 D:HIS565 2.1 82.3 1.0 OD2 D:ASP567 2.4 84.9 1.0 SG D:CYS599 2.4 107.2 1.0 CE1 D:HIS627 2.6 94.7 1.0 CB D:CYS599 2.8 107.2 1.0 CE1 D:HIS565 2.9 82.3 1.0 CD2 D:HIS565 3.2 82.3 1.0 CD2 D:HIS627 3.3 94.7 1.0 CG D:ASP567 3.4 84.9 1.0 CA D:CYS599 3.6 160.0 1.0 OD1 D:ASP567 3.8 84.9 1.0 ND1 D:HIS627 3.9 94.7 1.0 ND1 D:HIS565 4.1 82.3 1.0 O D:ASP567 4.1 84.9 1.0 CG D:HIS627 4.2 94.7 1.0 CG D:HIS565 4.3 82.3 1.0 CZ D:PHE623 4.5 111.0 1.0 C D:CYS599 4.5 160.0 1.0 CB D:ASP567 4.6 84.9 1.0 O D:CYS599 4.7 160.0 1.0 N D:CYS599 4.8 160.0 1.0 NH2 D:ARG603 4.9 121.5 1.0 CE1 D:PHE623 4.9 111.0 1.0

Zinc binding site 5 out of 5 in the Protomer 1 and 2 of the Asymmetry Trimer of the CUL2-RBX1-Elobc-FEM1B Ubiquitin Ligase Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Protomer 1 and 2 of the Asymmetry Trimer of the CUL2-RBX1-Elobc-FEM1B Ubiquitin Ligase Complex within 5.0Å range: probe atom residue distance (Å) B Occ I:Zn701 b:133.6 occ:1.00 CE1 I:HIS627 1.8 67.7 1.0 NE2 I:HIS627 2.1 67.7 1.0 NE2 I:HIS565 2.2 38.7 1.0 SG I:CYS599 2.5 48.7 1.0 CD2 I:HIS565 2.7 38.7 1.0 ND1 I:HIS627 3.1 67.7 1.0 CE1 I:HIS565 3.2 38.7 1.0 OD1 I:ASP567 3.3 51.1 1.0 CD2 I:HIS627 3.5 67.7 1.0 CB I:CYS599 3.8 48.7 1.0 CG I:HIS565 3.8 38.7 1.0 CG I:HIS627 3.9 67.7 1.0 ND1 I:HIS565 4.0 38.7 1.0 CG I:ASP567 4.1 51.1 1.0 CE2 I:PHE623 4.1 89.5 1.0 CA I:CYS599 4.2 160.0 1.0 OD2 I:ASP567 4.3 51.1 1.0 O I:ASP567 4.4 51.1 1.0 CZ I:PHE623 4.5 89.5 1.0 N I:CYS599 4.8 160.0 1.0

Z.Dai, L.Liang, W.Wang, P.Zuo, S.Yu, Y.Liu, X.Zhao, Y.Lu, Y.Jin, F.Zhang, D.Ding, W.Deng, Y.Yin. Structural Insights Into the Ubiquitylation Strategy of the Oligomeric CRL2 FEM1B E3 Ubiquitin Ligase. Embo J. 2024.
ISSN: ESSN 1460-2075
PubMed: 38360992
DOI: 10.1038/S44318-024-00047-Y