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Zinc in PDB 3ujp: Structure of Mntc Protein at 2.7A

Protein crystallography data

The structure of Structure of Mntc Protein at 2.7A, PDB code: 3ujp was solved by M.Kanteev, N.Adir, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 36.80 / 2.70
Space group P 31 2 1
Cell size a, b, c (Å), α, β, γ (°) 127.520, 127.520, 89.730, 90.00, 90.00, 120.00
R / Rfree (%) 23.1 / 28.4

Other elements in 3ujp:

The structure of Structure of Mntc Protein at 2.7A also contains other interesting chemical elements:

Arsenic (As) 4 atoms
Manganese (Mn) 3 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the Structure of Mntc Protein at 2.7A (pdb code 3ujp). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 6 binding sites of Zinc where determined in the Structure of Mntc Protein at 2.7A, PDB code: 3ujp:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6;

Zinc binding site 1 out of 6 in 3ujp

Go back to Zinc Binding Sites List in 3ujp
Zinc binding site 1 out of 6 in the Structure of Mntc Protein at 2.7A


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Structure of Mntc Protein at 2.7A within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn2

b:88.7
occ:0.60
OE1 A:GLU92 1.9 92.5 1.0
CD A:GLU92 3.0 92.7 1.0
O A:HOH23 3.2 64.7 1.0
OE2 A:GLU92 3.4 86.7 1.0
CG A:GLU92 4.2 85.6 1.0
OE1 A:GLN120 4.3 93.3 1.0
CD A:PRO93 4.8 71.5 1.0

Zinc binding site 2 out of 6 in 3ujp

Go back to Zinc Binding Sites List in 3ujp
Zinc binding site 2 out of 6 in the Structure of Mntc Protein at 2.7A


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Structure of Mntc Protein at 2.7A within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn3

b:0.8
occ:0.60
OD2 A:ASP105 2.2 0.5 1.0
CG A:ASP105 3.1 89.2 1.0
OD1 A:ASP105 3.2 85.4 1.0
O A:ASP103 4.4 0.3 1.0
CB A:ASP105 4.5 78.6 1.0

Zinc binding site 3 out of 6 in 3ujp

Go back to Zinc Binding Sites List in 3ujp
Zinc binding site 3 out of 6 in the Structure of Mntc Protein at 2.7A


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Structure of Mntc Protein at 2.7A within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn5

b:0.8
occ:1.00
OE2 A:GLU119 1.9 0.4 1.0
CD A:GLU119 2.9 0.1 1.0
OE1 A:GLU119 3.2 0.8 1.0
CG A:GLU119 4.2 99.8 1.0
CB A:GLU119 5.0 99.4 1.0

Zinc binding site 4 out of 6 in 3ujp

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Zinc binding site 4 out of 6 in the Structure of Mntc Protein at 2.7A


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Structure of Mntc Protein at 2.7A within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn331

b:0.7
occ:1.00
OD2 A:ASP74 2.5 98.4 1.0
OD1 A:ASP74 2.6 88.5 1.0
CG A:ASP74 2.9 94.1 1.0
OE1 B:GLU138 3.0 86.3 1.0
NZ A:LYS75 3.6 86.3 1.0
CD B:GLU138 4.3 85.2 1.0
NH2 B:ARG228 4.4 97.5 1.0
CB A:ASP74 4.4 80.5 1.0
CE A:LYS75 4.9 83.2 1.0

Zinc binding site 5 out of 6 in 3ujp

Go back to Zinc Binding Sites List in 3ujp
Zinc binding site 5 out of 6 in the Structure of Mntc Protein at 2.7A


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Structure of Mntc Protein at 2.7A within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn4

b:0.1
occ:1.00
OE1 C:GLU135 2.2 0.3 1.0
OE2 C:GLU135 2.3 0.2 1.0
CD C:GLU135 2.6 0.3 1.0
OE1 C:GLN171 3.3 86.0 1.0
CG C:GLU135 4.1 88.0 1.0
OD1 C:ASN168 4.5 81.2 1.0
CD C:GLN171 4.5 82.1 1.0
CB C:GLU135 4.9 81.4 1.0

Zinc binding site 6 out of 6 in 3ujp

Go back to Zinc Binding Sites List in 3ujp
Zinc binding site 6 out of 6 in the Structure of Mntc Protein at 2.7A


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of Structure of Mntc Protein at 2.7A within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn331

b:0.2
occ:1.00
OE1 A:GLU207 2.4 0.2 1.0
OE2 A:GLU207 2.7 0.7 1.0
OE1 C:GLU300 2.7 0.6 1.0
CD A:GLU207 2.8 0.1 1.0
CB C:GLU300 2.9 0.2 1.0
OD2 B:ASP127 3.3 0.9 1.0
CD C:GLU300 3.4 0.9 1.0
CG C:GLU300 3.5 0.1 1.0
CA C:GLU300 3.9 0.9 1.0
N C:GLU300 3.9 0.6 1.0
N C:GLU301 4.2 0.7 1.0
CG A:GLU207 4.3 0.1 1.0
C C:GLU300 4.3 0.4 1.0
CG2 C:THR299 4.4 0.0 1.0
CG B:ASP127 4.4 0.4 1.0
CG C:GLU301 4.4 0.3 1.0
OE2 C:GLU300 4.4 0.8 1.0
OE2 C:GLU301 4.7 0.5 1.0
CB A:GLU207 4.8 99.0 1.0
OD1 B:ASP127 4.9 0.3 1.0
CA A:ALA204 4.9 94.5 1.0
O A:GLY203 5.0 0.2 1.0

Reference:

M.Kanteev, N.Adir. Arginine 116 Stabilizes the Entrance to the Metal Ion-Binding Site of the Mntc Protein. Acta Crystallogr.,Sect.F V. 69 237 2013.
ISSN: ESSN 1744-3091
PubMed: 23519795
DOI: 10.1107/S174430911300153X
Page generated: Wed Dec 16 04:54:51 2020

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