Zinc in PDB 6v5b: Human Drosha and DGCR8 in Complex with Primary Microrna (Mp/Rna Complex) - Active State

Enzymatic activity of Human Drosha and DGCR8 in Complex with Primary Microrna (Mp/Rna Complex) - Active State

All present enzymatic activity of Human Drosha and DGCR8 in Complex with Primary Microrna (Mp/Rna Complex) - Active State:
3.1.26.3;

Other elements in 6v5b:

The structure of Human Drosha and DGCR8 in Complex with Primary Microrna (Mp/Rna Complex) - Active State also contains other interesting chemical elements:

Calcium (Ca) 1 atom

Zinc Binding Sites:

The binding sites of Zinc atom in the Human Drosha and DGCR8 in Complex with Primary Microrna (Mp/Rna Complex) - Active State (pdb code 6v5b). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Human Drosha and DGCR8 in Complex with Primary Microrna (Mp/Rna Complex) - Active State, PDB code: 6v5b:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 6v5b

Go back to Zinc Binding Sites List in 6v5b
Zinc binding site 1 out of 2 in the Human Drosha and DGCR8 in Complex with Primary Microrna (Mp/Rna Complex) - Active State


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Human Drosha and DGCR8 in Complex with Primary Microrna (Mp/Rna Complex) - Active State within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn1401

b:0.8
occ:1.00
NE2 A:HIS609 2.2 0.5 1.0
CE1 A:HIS680 2.3 1.0 1.0
CE1 A:HIS609 2.5 0.5 1.0
SG A:CYS561 2.5 0.1 1.0
CB A:CYS561 2.7 0.1 1.0
SG A:CYS676 3.0 0.4 1.0
NE2 A:HIS680 3.2 1.0 1.0
CB A:CYS676 3.3 0.4 1.0
ND1 A:HIS680 3.3 1.0 1.0
CD2 A:HIS609 3.5 0.5 1.0
N A:CYS561 3.7 0.1 1.0
CA A:CYS561 3.8 0.1 1.0
ND1 A:HIS609 3.8 0.5 1.0
CG A:HIS609 4.3 0.5 1.0
CD2 A:HIS680 4.3 1.0 1.0
CG A:HIS680 4.4 1.0 1.0
CA A:CYS676 4.8 0.4 1.0
C A:PRO560 4.9 0.1 1.0
C A:CYS561 4.9 0.1 1.0
CG1 A:VAL642 4.9 0.0 1.0
N A:ARG562 5.0 0.2 1.0

Zinc binding site 2 out of 2 in 6v5b

Go back to Zinc Binding Sites List in 6v5b
Zinc binding site 2 out of 2 in the Human Drosha and DGCR8 in Complex with Primary Microrna (Mp/Rna Complex) - Active State


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Human Drosha and DGCR8 in Complex with Primary Microrna (Mp/Rna Complex) - Active State within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn1402

b:0.6
occ:1.00
OG A:SER539 2.1 0.9 1.0
N A:ALA542 2.2 0.5 1.0
N A:LYS541 2.3 0.6 1.0
C A:ALA540 2.3 0.5 1.0
C A:SER539 2.3 0.9 1.0
N A:ALA540 2.5 0.5 1.0
O A:SER539 2.5 0.9 1.0
CA A:ALA540 2.6 0.5 1.0
C A:LYS541 3.0 0.6 1.0
O A:ALA540 3.1 0.5 1.0
CA A:LYS541 3.1 0.6 1.0
CA A:ALA542 3.1 0.5 1.0
CB A:SER539 3.2 0.9 1.0
CA A:SER539 3.2 0.9 1.0
N A:ARG543 3.2 0.1 1.0
CB A:ALA542 3.5 0.5 1.0
C A:ALA542 3.5 0.5 1.0
CG A:ARG543 3.6 0.1 1.0
N A:SER539 3.6 0.9 1.0
CD A:ARG543 3.8 0.1 1.0
O A:LYS541 4.1 0.6 1.0
CB A:ALA540 4.1 0.5 1.0
CB A:LYS541 4.3 0.6 1.0
CB A:ARG543 4.4 0.1 1.0
CA A:ARG543 4.4 0.1 1.0
CG A:LYS541 4.5 0.6 1.0
O A:ALA542 4.6 0.5 1.0
C A:CYS538 4.9 0.4 1.0

Reference:

A.C.Partin, K.Zhang, B.C.Jeong, E.Herrell, S.Li, W.Chiu, Y.Nam. Cryo-Em Structures of Human Drosha and DGCR8 in Complex with Primary Microrna. Mol.Cell 2020.
ISSN: ISSN 1097-2765
PubMed: 32220646
DOI: 10.1016/J.MOLCEL.2020.02.016
Page generated: Wed Dec 16 13:00:52 2020

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