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Zinc in PDB 3j7y: Structure of the Large Ribosomal Subunit From Human Mitochondria

Other elements in 3j7y:

The structure of Structure of the Large Ribosomal Subunit From Human Mitochondria also contains other interesting chemical elements:

Magnesium (Mg) 66 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the Structure of the Large Ribosomal Subunit From Human Mitochondria (pdb code 3j7y). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 3 binding sites of Zinc where determined in the Structure of the Large Ribosomal Subunit From Human Mitochondria, PDB code: 3j7y:
Jump to Zinc binding site number: 1; 2; 3;

Zinc binding site 1 out of 3 in 3j7y

Go back to Zinc Binding Sites List in 3j7y
Zinc binding site 1 out of 3 in the Structure of the Large Ribosomal Subunit From Human Mitochondria


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Structure of the Large Ribosomal Subunit From Human Mitochondria within 5.0Å range:
probe atom residue distance (Å) B Occ
0:Zn200

b:90.9
occ:1.00
SG 0:CYS110 1.8 48.9 1.0
SG 0:CYS126 1.8 49.8 1.0
SG 0:CYS123 2.4 48.8 1.0
CB 0:CYS123 2.8 46.9 1.0
CB 0:CYS126 2.8 49.7 1.0
SG 0:CYS113 3.0 49.1 1.0
CB 0:CYS110 3.2 48.5 1.0
O 0:GLU112 3.3 53.0 1.0
CB 0:CYS113 3.7 50.1 1.0
CA 0:CYS126 3.9 50.3 1.0
N 0:CYS126 3.9 50.7 1.0
CA 0:CYS123 4.3 45.5 1.0
CA 0:CYS110 4.4 48.5 1.0
C 0:GLU112 4.4 52.6 1.0
CA 0:CYS113 4.8 50.2 1.0
C 0:CYS123 4.9 45.6 1.0
CD2 0:TYR125 4.9 54.9 1.0
C 0:CYS110 5.0 49.4 1.0

Zinc binding site 2 out of 3 in 3j7y

Go back to Zinc Binding Sites List in 3j7y
Zinc binding site 2 out of 3 in the Structure of the Large Ribosomal Subunit From Human Mitochondria


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Structure of the Large Ribosomal Subunit From Human Mitochondria within 5.0Å range:
probe atom residue distance (Å) B Occ
4:Zn200

b:25.5
occ:1.00
SG 4:CYS79 1.7 49.9 1.0
SG 4:CYS76 2.2 65.1 1.0
SG 4:CYS92 2.6 51.0 1.0
CD2 4:HIS98 2.9 36.9 1.0
CB 4:CYS76 3.1 63.3 1.0
CB 4:CYS92 3.1 48.9 1.0
CB 4:CYS79 3.4 48.7 1.0
CG 4:HIS98 3.6 37.0 1.0
N 4:CYS79 3.8 50.8 1.0
N 4:CYS76 3.9 61.8 1.0
CB 4:HIS98 3.9 37.1 1.0
NE2 4:HIS98 3.9 37.0 1.0
CA 4:CYS76 4.0 63.0 1.0
CA 4:CYS79 4.0 48.5 1.0
CB 4:HIS95 4.0 52.5 1.0
O 4:HIS95 4.2 50.8 1.0
C 4:CYS76 4.5 63.5 1.0
CA 4:CYS92 4.6 48.1 1.0
O 4:CYS76 4.6 63.9 1.0
OG1 4:THR94 4.6 56.3 1.0
C 4:ASP78 4.6 54.0 1.0
ND1 4:HIS98 4.7 37.2 1.0
N 4:HIS95 4.8 52.6 1.0
CA 4:HIS95 4.8 51.9 1.0
CE1 4:HIS98 4.8 37.0 1.0
CG 4:HIS95 4.9 53.3 1.0
CB 4:ASP78 4.9 58.4 1.0
C 4:HIS95 4.9 50.3 1.0
C 4:ARG75 5.0 60.7 1.0

Zinc binding site 3 out of 3 in 3j7y

Go back to Zinc Binding Sites List in 3j7y
Zinc binding site 3 out of 3 in the Structure of the Large Ribosomal Subunit From Human Mitochondria


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Structure of the Large Ribosomal Subunit From Human Mitochondria within 5.0Å range:
probe atom residue distance (Å) B Occ
r:Zn200

b:57.9
occ:1.00
SG r:CYS70 2.1 62.5 1.0
CB r:CYS73 2.6 61.9 1.0
SG r:CYS108 2.9 61.0 1.0
SG r:CYS73 3.1 61.5 1.0
CA r:CYS73 3.7 61.5 1.0
CB r:CYS70 3.7 62.0 1.0
CB r:CYS108 3.9 60.6 1.0
SG I:CYS64 3.9 1.0 1.0
N r:CYS73 4.1 60.2 1.0
N r:CYS70 4.6 65.3 1.0
CB I:CYS64 4.6 0.1 1.0
CA r:CYS70 4.7 62.7 1.0
CA I:CYS64 4.7 0.4 1.0
C r:CYS73 5.0 60.8 1.0
OG I:SER63 5.0 0.2 1.0

Reference:

A.Brown, A.Amunts, X.C.Bai, Y.Sugimoto, P.C.Edwards, G.Murshudov, S.H.Scheres, V.Ramakrishnan. Structure of the Large Ribosomal Subunit From Human Mitochondria. Science 2014.
ISSN: ESSN 1095-9203
PubMed: 25278503
DOI: 10.1126/SCIENCE.1258026
Page generated: Wed Dec 16 04:27:30 2020

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