Zinc in PDB 5mq0: Structure of A Spliceosome Remodeled For Exon Ligation

Enzymatic activity of Structure of A Spliceosome Remodeled For Exon Ligation

All present enzymatic activity of Structure of A Spliceosome Remodeled For Exon Ligation:
3.6.4.13;

Other elements in 5mq0:

The structure of Structure of A Spliceosome Remodeled For Exon Ligation also contains other interesting chemical elements:

Magnesium (Mg) 3 atoms
Potassium (K) 2 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the Structure of A Spliceosome Remodeled For Exon Ligation (pdb code 5mq0). 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 A Spliceosome Remodeled For Exon Ligation, PDB code: 5mq0:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6;

Zinc binding site 1 out of 6 in 5mq0

Go back to Zinc Binding Sites List in 5mq0
Zinc binding site 1 out of 6 in the Structure of A Spliceosome Remodeled For Exon Ligation


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Structure of A Spliceosome Remodeled For Exon Ligation within 5.0Å range:
probe atom residue distance (Å) B Occ
L:Zn1000

b:80.7
occ:1.00
 SG L:CYS104 2.3 75.4 1.0
SG L:CYS148 2.3 84.4 1.0
SG L:CYS108 2.3 75.0 1.0
SG L:CYS105 2.3 94.6 1.0
CB L:CYS148 3.3 86.2 1.0
CB L:CYS108 3.3 78.8 1.0
N L:CYS105 3.4 89.2 1.0
CB L:CYS105 3.4 91.2 1.0
CB L:CYS104 3.4 80.6 1.0
CA L:CYS105 3.7 90.2 1.0
O L:CYS105 3.8 90.0 1.0
ZN L:ZN1001 4.0 83.7 1.0
ZN L:ZN1002 4.0 80.2 1.0
C L:CYS105 4.0 89.7 1.0
N L:CYS108 4.0 87.6 1.0
C L:CYS104 4.0 90.0 1.0
CA L:CYS108 4.3 82.2 1.0
CA L:CYS104 4.3 84.8 1.0
N L:CYS148 4.3 91.8 1.0
CA L:CYS148 4.4 91.3 1.0
CB L:HIS147 4.8 0.9 1.0
C L:HIS147 4.8 90.9 1.0
O L:CYS104 4.9 96.5 1.0
C L:ARG107 4.9 91.2 1.0
SG L:CYS145 4.9 99.5 1.0
N L:LEU106 5.0 87.1 1.0

Zinc binding site 2 out of 6 in 5mq0

Go back to Zinc Binding Sites List in 5mq0
Zinc binding site 2 out of 6 in the Structure of A Spliceosome Remodeled For Exon Ligation


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Structure of A Spliceosome Remodeled For Exon Ligation within 5.0Å range:
probe atom residue distance (Å) B Occ
L:Zn1001

b:83.7
occ:1.00
 SG L:CYS104 2.3 75.4 1.0
SG L:CYS150 2.3 83.9 1.0
SG L:CYS122 2.3 79.1 1.0
SG L:CYS153 2.3 0.4 1.0
ZN L:ZN1002 2.9 80.2 1.0
CB L:CYS153 3.2 0.9 1.0
CB L:CYS122 3.2 80.6 1.0
CB L:CYS150 3.3 89.3 1.0
CB L:CYS104 3.3 80.6 1.0
SG L:CYS108 3.6 75.0 1.0
CB L:CYS108 3.8 78.8 1.0
ZN L:ZN1000 4.0 80.7 1.0
CA L:CYS153 4.0 0.5 1.0
SG L:CYS148 4.2 84.4 1.0
N L:CYS104 4.3 82.9 1.0
CA L:CYS104 4.4 84.8 1.0
CA L:CYS122 4.5 82.1 1.0
N L:CYS153 4.6 0.2 1.0
CD L:ARG123 4.6 83.5 1.0
SG L:CYS120 4.7 81.6 1.0
C L:CYS122 4.7 85.2 1.0
CA L:CYS150 4.7 92.4 1.0
N L:ARG123 4.9 85.9 1.0
SG L:CYS145 4.9 99.5 1.0

Zinc binding site 3 out of 6 in 5mq0

Go back to Zinc Binding Sites List in 5mq0
Zinc binding site 3 out of 6 in the Structure of A Spliceosome Remodeled For Exon Ligation


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Structure of A Spliceosome Remodeled For Exon Ligation within 5.0Å range:
probe atom residue distance (Å) B Occ
L:Zn1002

b:80.2
occ:1.00
 SG L:CYS108 2.3 75.0 1.0
SG L:CYS122 2.3 79.1 1.0
SG L:CYS120 2.3 81.6 1.0
SG L:CYS145 2.3 99.5 1.0
ZN L:ZN1001 2.9 83.7 1.0
CB L:CYS108 3.4 78.8 1.0
CB L:CYS122 3.4 80.6 1.0
CB L:CYS145 3.4 0.5 1.0
CB L:CYS120 3.4 84.7 1.0
CB L:CYS150 3.7 89.3 1.0
SG L:CYS148 4.0 84.4 1.0
ZN L:ZN1000 4.0 80.7 1.0
SG L:CYS104 4.0 75.4 1.0
SG L:CYS150 4.1 83.9 1.0
CA L:CYS108 4.5 82.2 1.0
CA L:CYS122 4.6 82.1 1.0
N L:CYS122 4.6 80.6 1.0
O L:CYS148 4.8 99.5 1.0
CA L:CYS145 4.8 0.0 1.0
CA L:CYS120 4.8 87.0 1.0
N L:CYS148 4.9 91.8 1.0

Zinc binding site 4 out of 6 in 5mq0

Go back to Zinc Binding Sites List in 5mq0
Zinc binding site 4 out of 6 in the Structure of A Spliceosome Remodeled For Exon Ligation


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Structure of A Spliceosome Remodeled For Exon Ligation within 5.0Å range:
probe atom residue distance (Å) B Occ
M:Zn1000

b:88.4
occ:1.00
 NE2 M:HIS91 2.1 0.5 1.0
SG M:CYS73 2.3 81.6 1.0
CE1 M:HIS91 2.3 0.5 1.0
SG M:CYS87 2.3 0.8 1.0
SG M:CYS81 2.3 83.6 1.0
CB M:CYS87 3.1 0.1 1.0
CB M:CYS73 3.2 84.9 1.0
CD2 M:HIS91 3.3 0.9 1.0
CB M:CYS81 3.3 83.1 1.0
ND1 M:HIS91 3.5 97.8 1.0
CG M:HIS91 4.0 96.0 1.0
O M:TYR89 4.0 94.4 1.0
N6 6:A35 4.2 0.9 1.0
CA M:CYS87 4.5 0.8 1.0
CA M:CYS73 4.6 87.2 1.0
CA M:CYS81 4.7 84.0 1.0
CB M:TYR89 4.8 0.5 1.0
O M:GLY84 4.8 0.0 1.0
CB M:LEU83 4.9 0.6 1.0
C M:TYR89 4.9 97.0 1.0
O M:LEU90 4.9 96.5 1.0
N M:PHE76 4.9 0.6 1.0

Zinc binding site 5 out of 6 in 5mq0

Go back to Zinc Binding Sites List in 5mq0
Zinc binding site 5 out of 6 in the Structure of A Spliceosome Remodeled For Exon Ligation


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Structure of A Spliceosome Remodeled For Exon Ligation within 5.0Å range:
probe atom residue distance (Å) B Occ
N:Zn401

b:85.2
occ:1.00
 SG N:CYS34 2.3 79.2 1.0
SG N:CYS64 2.3 0.8 1.0
SG N:CYS37 2.3 94.6 1.0
SG N:CYS61 2.3 90.5 1.0
CB N:CYS34 3.2 86.1 1.0
CB N:CYS64 3.3 98.8 1.0
CB N:CYS61 3.4 86.4 1.0
CB N:CYS37 3.4 94.2 1.0
N N:CYS37 3.5 85.0 1.0
N N:CYS61 3.8 75.3 1.0
CA N:CYS37 4.0 86.5 1.0
OG N:SER114 4.1 93.2 1.0
CB N:ILE36 4.2 78.5 1.0
CA N:CYS61 4.2 81.5 1.0
CA N:CYS64 4.5 97.0 1.0
C N:ILE36 4.5 82.7 1.0
N N:ILE36 4.6 78.9 1.0
CA N:CYS34 4.6 88.3 1.0
CA N:ILE36 4.6 79.5 1.0
C N:CYS37 4.7 80.6 1.0
N N:CYS64 4.7 97.2 1.0
CB N:SER114 4.8 98.5 1.0
CG2 N:ILE36 4.8 79.8 1.0
C N:ILE60 4.9 70.3 1.0
C N:CYS61 4.9 82.5 1.0
CB N:LEU39 4.9 85.8 1.0
O N:CYS61 4.9 82.1 1.0
CB N:ILE60 4.9 71.9 1.0

Zinc binding site 6 out of 6 in 5mq0

Go back to Zinc Binding Sites List in 5mq0
Zinc binding site 6 out of 6 in the Structure of A Spliceosome Remodeled For Exon Ligation


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of Structure of A Spliceosome Remodeled For Exon Ligation within 5.0Å range:
probe atom residue distance (Å) B Occ
N:Zn402

b:0.1
occ:1.00
 SG N:CYS71 2.3 0.3 1.0
SG N:CYS16 2.3 0.8 1.0
SG N:CYS74 2.3 0.1 1.0
SG N:CYS13 2.3 0.9 1.0
CB N:CYS16 2.7 0.8 1.0
CB N:CYS71 3.3 0.6 1.0
CB N:CYS74 3.4 0.5 1.0
CB N:CYS13 3.5 0.7 1.0
N N:CYS13 3.5 0.2 1.0
N N:CYS74 3.6 0.2 1.0
CA N:CYS13 3.9 1.0 1.0
CG2 N:ILE12 4.0 0.3 1.0
CB N:CYS73 4.0 0.9 1.0
CA N:CYS74 4.1 0.3 1.0
CA N:CYS16 4.3 0.4 1.0
C N:CYS13 4.4 0.6 1.0
O N:CYS13 4.4 0.9 1.0
C N:CYS73 4.4 0.5 1.0
N N:CYS73 4.5 0.5 1.0
CA N:CYS73 4.6 0.7 1.0
C N:ILE12 4.6 0.0 1.0
CA N:CYS71 4.6 0.8 1.0
CA N:ILE12 4.7 0.0 1.0
N N:CYS16 4.8 0.0 1.0

Reference:

S.M.Fica, C.Oubridge, W.P.Galej, M.E.Wilkinson, X.C.Bai, A.J.Newman, K.Nagai. Structure of A Spliceosome Remodelled For Exon Ligation. Nature V. 542 377 2017.
ISSN: ESSN 1476-4687
PubMed: 28076345
DOI: 10.1038/NATURE21078
Page generated: Wed Dec 16 06:33:36 2020

Last articles

Zn in 8WB0
Zn in 8WAX
Zn in 8WAU
Zn in 8WAZ
Zn in 8WAY
Zn in 8WAV
Zn in 8WAW
Zn in 8WAT
Zn in 8W7M
Zn in 8WD3
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy