Atomistry » Zinc » PDB 6d5q-6dis » 6dbr
Atomistry »
  Zinc »
    PDB 6d5q-6dis »
      6dbr »

Zinc in PDB 6dbr: Cryo-Em Structure of Rag in Complex with One Melted Rss and One Unmelted Rss

Enzymatic activity of Cryo-Em Structure of Rag in Complex with One Melted Rss and One Unmelted Rss

All present enzymatic activity of Cryo-Em Structure of Rag in Complex with One Melted Rss and One Unmelted Rss:
2.3.2.27;

Other elements in 6dbr:

The structure of Cryo-Em Structure of Rag in Complex with One Melted Rss and One Unmelted Rss also contains other interesting chemical elements:

Calcium (Ca) 4 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the Cryo-Em Structure of Rag in Complex with One Melted Rss and One Unmelted Rss (pdb code 6dbr). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Cryo-Em Structure of Rag in Complex with One Melted Rss and One Unmelted Rss, PDB code: 6dbr:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 6dbr

Go back to Zinc Binding Sites List in 6dbr
Zinc binding site 1 out of 2 in the Cryo-Em Structure of Rag in Complex with One Melted Rss and One Unmelted Rss


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Cryo-Em Structure of Rag in Complex with One Melted Rss and One Unmelted Rss within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn1101

b:59.3
occ:1.00
NE2 A:HIS964 2.0 57.7 1.0
NE2 A:HIS959 2.0 47.7 1.0
SG A:CYS749 2.3 57.9 1.0
SG A:CYS752 2.3 76.4 1.0
CE1 A:HIS964 2.3 60.8 1.0
CB A:CYS752 2.9 75.6 1.0
CE1 A:HIS959 2.9 52.3 1.0
CB A:CYS749 2.9 58.5 1.0
CD2 A:HIS959 3.1 47.0 1.0
CD2 A:HIS964 3.4 56.7 1.0
N A:CYS752 3.5 74.2 1.0
ND1 A:HIS964 3.6 58.0 1.0
CA A:CYS752 3.8 81.9 1.0
ND1 A:HIS959 4.0 50.1 1.0
CG A:HIS964 4.1 57.6 1.0
CG A:HIS959 4.2 46.4 1.0
OG A:SER754 4.3 77.7 1.0
CA A:CYS749 4.4 57.2 1.0
C A:CYS752 4.5 76.0 1.0
CB A:ALA963 4.6 73.7 1.0
C A:LEU751 4.7 62.9 1.0
O A:CYS752 4.8 70.2 1.0
CB A:HIS766 4.9 73.1 1.0
C A:CYS749 5.0 52.8 1.0
CG A:HIS766 5.0 74.6 1.0
N A:LEU751 5.0 54.0 1.0

Zinc binding site 2 out of 2 in 6dbr

Go back to Zinc Binding Sites List in 6dbr
Zinc binding site 2 out of 2 in the Cryo-Em Structure of Rag in Complex with One Melted Rss and One Unmelted Rss


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Cryo-Em Structure of Rag in Complex with One Melted Rss and One Unmelted Rss within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn1101

b:23.7
occ:1.00
NE2 C:HIS964 1.8 29.9 1.0
NE2 C:HIS959 1.9 24.5 1.0
SG C:CYS752 2.0 59.7 1.0
SG C:CYS749 2.3 61.3 1.0
CE1 C:HIS959 2.4 25.9 1.0
CE1 C:HIS964 2.5 32.4 1.0
CB C:CYS752 2.9 52.6 1.0
CB C:CYS749 2.9 26.0 1.0
CD2 C:HIS964 3.1 26.0 1.0
CD2 C:HIS959 3.2 24.8 1.0
ND1 C:HIS959 3.7 24.1 1.0
ND1 C:HIS964 3.8 31.3 1.0
CA C:CYS752 4.0 48.2 1.0
N C:CYS752 4.0 47.4 1.0
CG C:HIS964 4.0 30.2 1.0
CG C:HIS959 4.1 20.9 1.0
CA C:CYS749 4.4 24.3 1.0
CD2 C:HIS766 4.4 58.8 1.0
CB C:HIS766 4.4 54.0 1.0
CG C:HIS766 4.5 59.2 1.0
C C:CYS752 4.5 46.2 1.0
O C:CYS752 4.6 44.3 1.0

Reference:

H.Ru, W.Mi, P.Zhang, F.W.Alt, D.G.Schatz, M.Liao, H.Wu. Dna Melting Initiates the Rag Catalytic Pathway. Nat. Struct. Mol. Biol. V. 25 732 2018.
ISSN: ESSN 1545-9985
PubMed: 30061602
DOI: 10.1038/S41594-018-0098-5
Page generated: Mon Oct 28 19:24:26 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