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Zinc in PDB 5ze1: Hairpin Forming Complex, RAG1/2-Nicked 12RSS/23RSS Complex in 2MM MN2+ For 10 Min at 4'C

Enzymatic activity of Hairpin Forming Complex, RAG1/2-Nicked 12RSS/23RSS Complex in 2MM MN2+ For 10 Min at 4'C

All present enzymatic activity of Hairpin Forming Complex, RAG1/2-Nicked 12RSS/23RSS Complex in 2MM MN2+ For 10 Min at 4'C:
2.3.2.27;

Protein crystallography data

The structure of Hairpin Forming Complex, RAG1/2-Nicked 12RSS/23RSS Complex in 2MM MN2+ For 10 Min at 4'C, PDB code: 5ze1 was solved by M.S.Kim, W.Chuenchor, X.Chen, M.Gellert, W.Yang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 36.68 / 3.00
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 132.760, 108.600, 157.090, 90.00, 114.20, 90.00
R / Rfree (%) 19.7 / 23.2

Other elements in 5ze1:

The structure of Hairpin Forming Complex, RAG1/2-Nicked 12RSS/23RSS Complex in 2MM MN2+ For 10 Min at 4'C also contains other interesting chemical elements:

Potassium (K) 2 atoms
Manganese (Mn) 4 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the Hairpin Forming Complex, RAG1/2-Nicked 12RSS/23RSS Complex in 2MM MN2+ For 10 Min at 4'C (pdb code 5ze1). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Hairpin Forming Complex, RAG1/2-Nicked 12RSS/23RSS Complex in 2MM MN2+ For 10 Min at 4'C, PDB code: 5ze1:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 5ze1

Go back to Zinc Binding Sites List in 5ze1
Zinc binding site 1 out of 2 in the Hairpin Forming Complex, RAG1/2-Nicked 12RSS/23RSS Complex in 2MM MN2+ For 10 Min at 4'C


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Hairpin Forming Complex, RAG1/2-Nicked 12RSS/23RSS Complex in 2MM MN2+ For 10 Min at 4'C within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn2001

b:66.5
occ:1.00
NE2 A:HIS942 1.9 65.2 1.0
SG A:CYS730 2.1 61.6 1.0
NE2 A:HIS937 2.2 68.3 1.0
SG A:CYS727 2.2 63.6 1.0
CE1 A:HIS942 2.8 68.1 1.0
CB A:CYS727 2.8 58.1 1.0
CD2 A:HIS937 2.8 67.6 1.0
CD2 A:HIS942 3.0 64.8 1.0
CB A:CYS730 3.4 63.5 1.0
CE1 A:HIS937 3.4 76.0 1.0
ND1 A:HIS942 3.9 65.6 1.0
N A:CYS730 3.9 60.2 1.0
CG A:HIS942 4.0 64.4 1.0
CG2 A:THR732 4.1 68.5 1.0
CG A:HIS937 4.1 68.3 1.0
CA A:CYS730 4.2 65.6 1.0
CA A:CYS727 4.3 65.0 1.0
ND1 A:HIS937 4.3 69.5 1.0
C A:LEU729 4.6 64.4 1.0
CB A:LEU729 4.7 60.8 1.0
CB A:HIS744 4.7 77.6 1.0
C A:CYS730 4.8 67.1 1.0
N A:LEU729 5.0 67.5 1.0
CA A:LEU729 5.0 65.0 1.0

Zinc binding site 2 out of 2 in 5ze1

Go back to Zinc Binding Sites List in 5ze1
Zinc binding site 2 out of 2 in the Hairpin Forming Complex, RAG1/2-Nicked 12RSS/23RSS Complex in 2MM MN2+ For 10 Min at 4'C


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Hairpin Forming Complex, RAG1/2-Nicked 12RSS/23RSS Complex in 2MM MN2+ For 10 Min at 4'C within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn2001

b:71.6
occ:1.00
NE2 C:HIS942 1.7 59.4 1.0
SG C:CYS730 2.0 58.9 1.0
NE2 C:HIS937 2.1 61.7 1.0
SG C:CYS727 2.3 59.2 1.0
CD2 C:HIS942 2.7 59.5 1.0
CD2 C:HIS937 2.8 57.8 1.0
CE1 C:HIS942 2.8 65.1 1.0
CB C:CYS730 3.2 57.8 1.0
CE1 C:HIS937 3.2 69.1 1.0
CB C:CYS727 3.3 54.7 1.0
N C:CYS730 3.5 67.7 1.0
CG C:HIS942 3.8 58.9 1.0
ND1 C:HIS942 3.8 65.2 1.0
CA C:CYS730 3.9 64.2 1.0
CG C:HIS937 4.0 55.8 1.0
ND1 C:HIS937 4.2 65.8 1.0
CB C:LEU729 4.3 65.5 1.0
C C:LEU729 4.4 65.8 1.0
C C:CYS730 4.6 63.9 1.0
CA C:CYS727 4.7 58.0 1.0
CB C:ALA941 4.7 58.8 1.0
CG2 C:THR732 4.8 62.5 1.0
CA C:LEU729 4.8 65.1 1.0
O C:CYS730 4.8 65.3 1.0
N C:LEU729 4.9 62.8 1.0
CB C:HIS744 4.9 74.8 1.0

Reference:

M.S.Kim, W.Chuenchor, X.Chen, Y.Cui, X.Zhang, Z.H.Zhou, M.Gellert, W.Yang. Cracking the Dna Code For V(D)J Recombination Mol. Cell V. 70 358 2018.
ISSN: ISSN 1097-4164
PubMed: 29628308
DOI: 10.1016/J.MOLCEL.2018.03.008
Page generated: Wed Dec 16 11:26:11 2020

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