Atomistry » Zinc » PDB 6eom-6ezf » 6exn
Atomistry »
  Zinc »
    PDB 6eom-6ezf »
      6exn »

Zinc in PDB 6exn: Post-Catalytic P Complex Spliceosome with 3' Splice Site Docked

Enzymatic activity of Post-Catalytic P Complex Spliceosome with 3' Splice Site Docked

All present enzymatic activity of Post-Catalytic P Complex Spliceosome with 3' Splice Site Docked:
2.3.2.27; 3.6.4.13;

Other elements in 6exn:

The structure of Post-Catalytic P Complex Spliceosome with 3' Splice Site Docked also contains other interesting chemical elements:

Magnesium (Mg) 1 atom

Zinc Binding Sites:

The binding sites of Zinc atom in the Post-Catalytic P Complex Spliceosome with 3' Splice Site Docked (pdb code 6exn). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 7 binding sites of Zinc where determined in the Post-Catalytic P Complex Spliceosome with 3' Splice Site Docked, PDB code: 6exn:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6; 7;

Zinc binding site 1 out of 7 in 6exn

Go back to Zinc Binding Sites List in 6exn
Zinc binding site 1 out of 7 in the Post-Catalytic P Complex Spliceosome with 3' Splice Site Docked


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Post-Catalytic P Complex Spliceosome with 3' Splice Site Docked within 5.0Å range:
probe atom residue distance (Å) B Occ
L:Zn1000

b:75.7
occ:1.00
 SG L:CYS104 2.3 59.6 1.0
SG L:CYS148 2.3 58.3 1.0
SG L:CYS108 2.3 59.7 1.0
SG L:CYS105 2.3 60.6 1.0
CB L:CYS108 2.9 59.7 1.0
CB L:CYS104 3.2 59.6 1.0
N L:CYS105 3.5 60.6 1.0
CB L:CYS105 3.5 60.6 1.0
CB L:CYS148 3.7 58.3 1.0
ZN L:ZN1001 3.7 71.2 1.0
ZN L:ZN1002 3.9 68.6 1.0
N L:CYS108 3.9 59.7 1.0
CA L:CYS105 4.0 60.6 1.0
CA L:CYS108 4.0 59.7 1.0
C L:CYS104 4.0 59.6 1.0
O L:CYS105 4.2 60.6 1.0
CA L:CYS104 4.2 59.6 1.0
SG L:CYS122 4.3 64.2 1.0
C L:CYS105 4.4 60.6 1.0
N L:CYS148 4.4 58.3 1.0
SG L:CYS150 4.4 60.7 1.0
CB L:HIS147 4.5 55.4 1.0
CA L:CYS148 4.6 58.3 1.0
SG L:CYS145 4.7 60.0 1.0
C L:ARG107 4.9 54.3 1.0
O L:CYS104 4.9 59.6 1.0

Zinc binding site 2 out of 7 in 6exn

Go back to Zinc Binding Sites List in 6exn
Zinc binding site 2 out of 7 in the Post-Catalytic P Complex Spliceosome with 3' Splice Site Docked


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Post-Catalytic P Complex Spliceosome with 3' Splice Site Docked within 5.0Å range:
probe atom residue distance (Å) B Occ
L:Zn1001

b:71.2
occ:1.00
 SG L:CYS153 2.3 60.6 1.0
SG L:CYS122 2.3 64.2 1.0
SG L:CYS150 2.3 60.7 1.0
SG L:CYS104 2.3 59.6 1.0
CB L:CYS104 2.4 59.6 1.0
CB L:CYS122 3.0 64.2 1.0
CB L:CYS153 3.4 60.6 1.0
ZN L:ZN1000 3.7 75.7 1.0
CA L:CYS104 3.8 59.6 1.0
N L:CYS104 3.9 59.6 1.0
ZN L:ZN1002 4.0 68.6 1.0
CB L:CYS150 4.0 60.7 1.0
CB L:CYS108 4.0 59.7 1.0
SG L:CYS148 4.2 58.3 1.0
CA L:CYS122 4.2 64.2 1.0
C L:CYS122 4.3 64.2 1.0
SG L:CYS108 4.4 59.7 1.0
O L:CYS122 4.4 64.2 1.0
CA L:CYS153 4.6 60.6 1.0
N L:CYS153 4.7 60.6 1.0
C L:CYS104 4.8 59.6 1.0
N L:ARG123 4.9 63.1 1.0
N L:CYS105 4.9 60.6 1.0
SG L:CYS145 4.9 60.0 1.0
O L:CYS150 5.0 60.7 1.0
CD L:ARG123 5.0 63.1 1.0

Zinc binding site 3 out of 7 in 6exn

Go back to Zinc Binding Sites List in 6exn
Zinc binding site 3 out of 7 in the Post-Catalytic P Complex Spliceosome with 3' Splice Site Docked


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Post-Catalytic P Complex Spliceosome with 3' Splice Site Docked within 5.0Å range:
probe atom residue distance (Å) B Occ
L:Zn1002

b:68.6
occ:1.00
 SG L:CYS145 2.3 60.0 1.0
SG L:CYS120 2.3 63.1 1.0
SG L:CYS108 2.3 59.7 1.0
SG L:CYS122 2.3 64.2 1.0
CB L:CYS108 3.0 59.7 1.0
CB L:CYS120 3.2 63.1 1.0
CB L:CYS122 3.6 64.2 1.0
CB L:CYS145 3.7 60.0 1.0
ZN L:ZN1000 3.9 75.7 1.0
ZN L:ZN1001 4.0 71.2 1.0
ND1 L:HIS147 4.0 55.4 1.0
CA L:CYS108 4.1 59.7 1.0
N L:CYS122 4.2 64.2 1.0
CA L:CYS122 4.5 64.2 1.0
SG L:CYS148 4.5 58.3 1.0
SG L:CYS104 4.5 59.6 1.0
CA L:CYS120 4.6 63.1 1.0
N L:ILE121 4.7 62.0 1.0
CE1 L:HIS147 4.8 55.4 1.0
SG L:CYS150 4.8 60.7 1.0
C L:CYS120 4.9 63.1 1.0
O L:CYS108 4.9 59.7 1.0
CA L:CYS145 4.9 60.0 1.0
CG L:HIS147 4.9 55.4 1.0
CB L:HIS147 4.9 55.4 1.0
N L:VAL146 5.0 57.5 1.0

Zinc binding site 4 out of 7 in 6exn

Go back to Zinc Binding Sites List in 6exn
Zinc binding site 4 out of 7 in the Post-Catalytic P Complex Spliceosome with 3' Splice Site Docked


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Post-Catalytic P Complex Spliceosome with 3' Splice Site Docked within 5.0Å range:
probe atom residue distance (Å) B Occ
M:Zn1000

b:72.1
occ:1.00
 SG M:CYS73 2.0 62.3 1.0
NE2 M:HIS91 2.0 65.6 1.0
SG M:CYS81 2.3 68.1 1.0
SG M:CYS87 2.3 66.3 1.0
CE1 M:HIS91 2.3 65.6 1.0
CB M:CYS87 2.9 66.3 1.0
CD2 M:HIS91 3.2 65.6 1.0
CB M:CYS73 3.4 62.3 1.0
ND1 M:HIS91 3.5 65.6 1.0
CB M:CYS81 3.7 68.1 1.0
CG M:HIS91 4.0 65.6 1.0
O M:LEU83 4.4 68.8 1.0
N6 6:A35 4.4 67.0 1.0
CA M:CYS87 4.4 66.3 1.0
N M:PHE76 4.6 65.8 1.0
CA M:CYS73 4.6 62.3 1.0
CB M:PHE76 4.9 65.8 1.0
CA M:CYS81 5.0 68.1 1.0

Zinc binding site 5 out of 7 in 6exn

Go back to Zinc Binding Sites List in 6exn
Zinc binding site 5 out of 7 in the Post-Catalytic P Complex Spliceosome with 3' Splice Site Docked


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Post-Catalytic P Complex Spliceosome with 3' Splice Site Docked within 5.0Å range:
probe atom residue distance (Å) B Occ
N:Zn401

b:77.0
occ:1.00
 SG N:CYS64 2.3 65.8 1.0
SG N:CYS34 2.3 55.3 1.0
SG N:CYS37 2.3 57.0 1.0
SG N:CYS61 2.3 64.5 1.0
CB N:CYS37 3.3 57.0 1.0
CB N:CYS64 3.3 65.8 1.0
CB N:CYS34 3.5 55.3 1.0
N N:CYS37 3.6 57.0 1.0
CB N:CYS61 3.9 64.5 1.0
CA N:CYS37 4.0 57.0 1.0
N N:CYS61 4.2 64.5 1.0
CB N:SER114 4.4 60.0 1.0
CB N:ILE36 4.4 58.5 1.0
N N:CYS64 4.5 65.8 1.0
CA N:CYS64 4.5 65.8 1.0
C N:ILE36 4.6 58.5 1.0
CA N:CYS61 4.6 64.5 1.0
C N:CYS37 4.6 57.0 1.0
OG N:SER114 4.7 60.0 1.0
CA N:CYS34 4.8 55.3 1.0
N N:THR38 4.8 53.7 1.0
CG N:ARG63 4.8 66.5 1.0
CA N:ILE36 4.9 58.5 1.0
N N:ILE36 4.9 58.5 1.0
CG2 N:ILE36 4.9 58.5 1.0

Zinc binding site 6 out of 7 in 6exn

Go back to Zinc Binding Sites List in 6exn
Zinc binding site 6 out of 7 in the Post-Catalytic P Complex Spliceosome with 3' Splice Site Docked


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of Post-Catalytic P Complex Spliceosome with 3' Splice Site Docked within 5.0Å range:
probe atom residue distance (Å) B Occ
N:Zn402

b:88.5
occ:1.00
 SG N:CYS74 2.3 71.7 1.0
SG N:CYS16 2.3 71.5 1.0
SG N:CYS71 2.3 68.1 1.0
SG N:CYS13 2.3 72.8 1.0
CB N:CYS74 2.8 71.7 1.0
N N:CYS74 3.3 71.7 1.0
CA N:CYS74 3.5 71.7 1.0
CB N:CYS71 3.6 68.1 1.0
CB N:CYS13 3.8 72.8 1.0
CB N:CYS16 3.9 71.5 1.0
N N:CYS13 4.1 72.8 1.0
C N:CYS74 4.2 71.7 1.0
CD2 N:HIS81 4.4 77.7 1.0
N N:MET75 4.4 69.3 1.0
N N:CYS16 4.4 71.5 1.0
C N:CYS73 4.5 68.9 1.0
CA N:CYS13 4.5 72.8 1.0
NE2 N:HIS81 4.6 77.7 1.0
CA N:CYS16 4.7 71.5 1.0
N N:CYS73 4.9 68.9 1.0
CB N:CYS73 4.9 68.9 1.0
CA N:CYS71 4.9 68.1 1.0
N N:LEU76 4.9 73.0 1.0
O N:CYS74 4.9 71.7 1.0
CA N:CYS73 5.0 68.9 1.0
C N:CYS13 5.0 72.8 1.0

Zinc binding site 7 out of 7 in 6exn

Go back to Zinc Binding Sites List in 6exn
Zinc binding site 7 out of 7 in the Post-Catalytic P Complex Spliceosome with 3' Splice Site Docked


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 7 of Post-Catalytic P Complex Spliceosome with 3' Splice Site Docked within 5.0Å range:
probe atom residue distance (Å) B Occ
c:Zn400

b:91.3
occ:1.00
 NE2 c:HIS130 2.0 74.7 1.0
SG c:CYS122 2.3 84.2 1.0
SG c:CYS125 2.3 79.0 1.0
SG c:CYS135 2.3 64.5 1.0
CD2 c:HIS130 2.8 74.7 1.0
CB c:CYS122 3.0 84.2 1.0
CE1 c:HIS130 3.1 74.7 1.0
CB c:CYS135 3.2 64.5 1.0
CB c:CYS125 3.6 79.0 1.0
N c:CYS125 3.8 79.0 1.0
CA c:CYS135 3.9 64.5 1.0
CG c:HIS130 4.0 74.7 1.0
ND1 c:HIS130 4.1 74.7 1.0
CB c:ASN124 4.2 74.5 1.0
CA c:CYS125 4.3 79.0 1.0
CA c:CYS122 4.5 84.2 1.0
N c:MET136 4.6 59.8 1.0
O c:LYS131 4.7 66.2 1.0
C c:ASN124 4.8 74.5 1.0
C c:CYS135 4.8 64.5 1.0
CA c:ASN124 4.9 74.5 1.0
N c:ASN124 4.9 74.5 1.0
ND2 c:ASN124 4.9 74.5 1.0
N c:GLY126 5.0 84.8 1.0
N c:CYS135 5.0 64.5 1.0
CG c:ASN124 5.0 74.5 1.0

Reference:

M.E.Wilkinson, S.M.Fica, W.P.Galej, C.M.Norman, A.J.Newman, K.Nagai. Postcatalytic Spliceosome Structure Reveals Mechanism of 3'-Splice Site Selection. Science V. 358 1283 2017.
ISSN: ESSN 1095-9203
PubMed: 29146871
DOI: 10.1126/SCIENCE.AAR3729
Page generated: Mon Oct 28 20:28:00 2024

Last articles

Zn in 9JPJ
Zn in 9JP7
Zn in 9JPK
Zn in 9JPL
Zn in 9GN6
Zn in 9GN7
Zn in 9GKU
Zn in 9GKW
Zn in 9GKX
Zn in 9GL0
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy