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Zinc in PDB 3ir9: C-Terminal Domain of Peptide Chain Release Factor From Methanosarcina Mazei.

Protein crystallography data

The structure of C-Terminal Domain of Peptide Chain Release Factor From Methanosarcina Mazei., PDB code: 3ir9 was solved by J.Osipiuk, E.Rakowski, L.Freeman, A.Joachimiak, Midwest Center Forstructural Genomics (Mcsg), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 41.10 / 2.21
Space group H 3
Cell size a, b, c (Å), α, β, γ (°) 116.124, 116.124, 71.454, 90.00, 90.00, 120.00
R / Rfree (%) 15.6 / 20.3

Zinc Binding Sites:

The binding sites of Zinc atom in the C-Terminal Domain of Peptide Chain Release Factor From Methanosarcina Mazei. (pdb code 3ir9). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the C-Terminal Domain of Peptide Chain Release Factor From Methanosarcina Mazei., PDB code: 3ir9:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 3ir9

Go back to Zinc Binding Sites List in 3ir9
Zinc binding site 1 out of 2 in the C-Terminal Domain of Peptide Chain Release Factor From Methanosarcina Mazei.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of C-Terminal Domain of Peptide Chain Release Factor From Methanosarcina Mazei. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn501

b:61.1
occ:1.00
SG A:CYS358 2.3 61.6 1.0
SG A:CYS355 2.3 52.5 1.0
SG A:CYS330 2.4 58.2 1.0
SG A:CYS333 2.6 74.9 1.0
CB A:CYS355 3.1 51.2 1.0
CB A:CYS358 3.2 56.4 1.0
CB A:CYS333 3.4 69.5 1.0
CB A:CYS330 3.5 44.5 1.0
N A:CYS358 3.6 69.0 1.0
N A:CYS333 3.8 78.9 1.0
CA A:CYS358 3.9 46.5 1.0
CG2 A:VAL332 4.1 72.7 1.0
CA A:CYS333 4.1 68.5 1.0
CB A:LYS357 4.4 59.0 1.0
CB A:TYR335 4.4 36.3 1.0
CB A:SER360 4.5 76.0 1.0
C A:CYS358 4.5 62.6 1.0
CA A:CYS355 4.6 82.8 1.0
N A:SER360 4.6 95.5 1.0
C A:CYS333 4.6 43.8 1.0
C A:LYS357 4.6 53.3 1.0
N A:GLY359 4.6 50.2 1.0
OG A:SER360 4.7 55.8 1.0
O A:CYS333 4.9 52.7 1.0
CA A:CYS330 4.9 61.5 1.0
CA A:LYS357 4.9 47.0 1.0

Zinc binding site 2 out of 2 in 3ir9

Go back to Zinc Binding Sites List in 3ir9
Zinc binding site 2 out of 2 in the C-Terminal Domain of Peptide Chain Release Factor From Methanosarcina Mazei.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of C-Terminal Domain of Peptide Chain Release Factor From Methanosarcina Mazei. within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn501

b:60.1
occ:1.00
SG B:CYS330 2.2 51.7 1.0
SG B:CYS358 2.3 73.5 1.0
SG B:CYS355 2.5 56.7 1.0
SG B:CYS333 2.5 61.9 1.0
CB B:CYS355 3.1 37.1 1.0
CB B:CYS330 3.1 59.8 1.0
CB B:CYS358 3.3 50.4 1.0
N B:CYS358 3.7 59.6 1.0
CB B:CYS333 3.7 92.7 1.0
N B:CYS333 3.8 51.4 1.0
CA B:CYS358 4.0 68.1 1.0
CA B:CYS333 4.2 97.8 1.0
CB B:TYR335 4.4 73.9 1.0
CB B:SER360 4.4 55.2 1.0
C B:CYS358 4.5 42.8 1.0
CB B:LYS357 4.5 40.7 1.0
N B:GLY359 4.5 50.8 1.0
N B:SER360 4.6 61.1 1.0
CA B:CYS330 4.6 57.5 1.0
CB B:VAL332 4.6 0.6 1.0
CA B:CYS355 4.6 61.2 1.0
O B:CYS333 4.7 75.3 1.0
OG B:SER360 4.7 0.7 1.0
C B:CYS333 4.7 81.2 1.0
C B:LYS357 4.7 56.9 1.0
C B:VAL332 4.8 68.3 1.0
N B:VAL332 4.9 72.3 1.0
CA B:SER360 5.0 46.2 1.0

Reference:

J.Osipiuk, E.Rakowski, L.Freeman, A.Joachimiak. X-Ray Crystal Structure of C-Terminal Domain of Peptide Chain Release Factor From Methanosarcina Mazei. To Be Published.
Page generated: Wed Dec 16 04:26:58 2020

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