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Zinc in PDB 7onb: Structure of the U2 5' Module of the A3'-Ssa Complex

Zinc Binding Sites:

The binding sites of Zinc atom in the Structure of the U2 5' Module of the A3'-Ssa Complex (pdb code 7onb). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 5 binding sites of Zinc where determined in the Structure of the U2 5' Module of the A3'-Ssa Complex, PDB code: 7onb:
Jump to Zinc binding site number: 1; 2; 3; 4; 5;

Zinc binding site 1 out of 5 in 7onb

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Zinc binding site 1 out of 5 in the Structure of the U2 5' Module of the A3'-Ssa Complex


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 U2 5' Module of the A3'-Ssa Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn1402

b:109.8
occ:1.00
SG D:CYS46 2.3 86.3 1.0
SG D:CYS49 2.3 99.0 1.0
SG D:CYS11 2.3 81.4 1.0
SG D:CYS85 2.3 77.0 1.0
CB D:CYS11 3.1 81.4 1.0
CB D:CYS85 3.2 77.0 1.0
CB D:CYS49 3.3 99.0 1.0
CB D:CYS46 3.4 86.3 1.0
N D:CYS46 4.1 86.3 1.0
CB D:LYS87 4.1 82.0 1.0
CA D:CYS46 4.3 86.3 1.0
N D:CYS49 4.4 99.0 1.0
CA D:CYS49 4.4 99.0 1.0
CA D:CYS11 4.5 81.4 1.0
CB D:LYS13 4.6 74.5 1.0
CA D:CYS85 4.6 77.0 1.0
O D:CYS85 4.7 77.0 1.0
CD D:LYS13 4.8 74.5 1.0
CG D:LYS87 4.8 82.0 1.0
C D:CYS85 4.9 77.0 1.0
C D:CYS46 4.9 86.3 1.0
N D:LYS13 4.9 74.5 1.0
C D:CYS11 4.9 81.4 1.0
O D:CYS46 5.0 86.3 1.0
N D:LYS87 5.0 82.0 1.0

Zinc binding site 2 out of 5 in 7onb

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Zinc binding site 2 out of 5 in the Structure of the U2 5' Module of the A3'-Ssa Complex


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 U2 5' Module of the A3'-Ssa Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn1403

b:134.7
occ:1.00
SG D:CYS72 2.3 84.6 1.0
SG D:CYS33 2.3 90.5 1.0
SG D:CYS75 2.3 80.8 1.0
SG D:CYS30 2.3 93.8 1.0
CB D:CYS72 3.3 84.6 1.0
CB D:CYS75 3.3 80.8 1.0
CB D:CYS33 3.3 90.5 1.0
CB D:CYS30 3.4 93.8 1.0
N D:CYS33 3.7 90.5 1.0
N D:CYS72 3.7 84.6 1.0
CA D:CYS72 4.0 84.6 1.0
N D:CYS75 4.1 80.8 1.0
CA D:CYS33 4.1 90.5 1.0
CA D:CYS75 4.2 80.8 1.0
CB D:ILE32 4.5 81.7 1.0
C D:CYS72 4.6 84.6 1.0
O D:CYS72 4.7 84.6 1.0
CA D:CYS30 4.8 93.8 1.0
C D:ILE32 4.8 81.7 1.0
C D:CYS33 4.8 90.5 1.0
N D:ILE32 4.9 81.7 1.0
C D:TYR71 4.9 78.8 1.0
CA D:ILE32 5.0 81.7 1.0

Zinc binding site 3 out of 5 in 7onb

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Zinc binding site 3 out of 5 in the Structure of the U2 5' Module of the A3'-Ssa Complex


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 U2 5' Module of the A3'-Ssa Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn1404

b:129.3
occ:1.00
SG D:CYS23 2.3 106.1 1.0
SG D:CYS58 2.3 109.3 1.0
SG D:CYS61 2.3 114.8 1.0
CB D:CYS23 3.2 106.1 1.0
CB D:CYS61 3.2 114.8 1.0
CB D:CYS58 3.3 109.3 1.0
N D:CYS61 3.6 114.8 1.0
SG D:CYS26 3.8 112.2 1.0
N D:CYS23 4.0 106.1 1.0
CA D:CYS61 4.0 114.8 1.0
CA D:CYS23 4.2 106.1 1.0
CB D:ILE60 4.3 100.3 1.0
C D:ILE60 4.5 100.3 1.0
C23 D:SJT1401 4.6 110.8 1.0
CB D:CYS26 4.7 112.2 1.0
CA D:CYS58 4.7 109.3 1.0
CA D:ILE60 4.8 100.3 1.0
N D:ILE60 4.8 100.3 1.0
C D:CYS61 4.9 114.8 1.0
CG1 D:ILE60 4.9 100.3 1.0

Zinc binding site 4 out of 5 in 7onb

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Zinc binding site 4 out of 5 in the Structure of the U2 5' Module of the A3'-Ssa Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Structure of the U2 5' Module of the A3'-Ssa Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
M:Zn501

b:197.7
occ:1.00
NE2 M:HIS72 2.0 201.5 1.0
ND1 M:HIS78 2.0 179.7 1.0
SG M:CYS59 2.3 166.7 1.0
SG M:CYS56 2.3 166.3 1.0
CE1 M:HIS78 2.4 179.7 1.0
CD2 M:HIS72 2.5 201.5 1.0
CB M:CYS59 3.1 166.7 1.0
CB M:CYS56 3.1 166.3 1.0
CE1 M:HIS72 3.2 201.5 1.0
CG M:HIS78 3.3 179.7 1.0
NE2 M:HIS78 3.7 179.7 1.0
CG M:HIS72 3.7 201.5 1.0
OG1 M:THR61 3.8 173.4 1.0
N M:CYS59 4.0 166.7 1.0
ND1 M:HIS72 4.1 201.5 1.0
CB M:HIS78 4.1 179.7 1.0
CD2 M:HIS78 4.1 179.7 1.0
CA M:CYS59 4.2 166.7 1.0
CE1 M:TYR69 4.2 185.6 1.0
CA M:CYS56 4.5 166.3 1.0
CA M:HIS78 4.7 179.7 1.0
NE2 M:HIS63 4.7 184.6 1.0
CD1 M:TYR69 4.8 185.6 1.0
CB M:LEU58 4.9 162.5 1.0
C M:LEU58 4.9 162.5 1.0
C M:CYS56 5.0 166.3 1.0

Zinc binding site 5 out of 5 in 7onb

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Zinc binding site 5 out of 5 in the Structure of the U2 5' Module of the A3'-Ssa Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Structure of the U2 5' Module of the A3'-Ssa Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
N:Zn601

b:167.9
occ:1.00
NE2 N:HIS425 2.0 137.0 1.0
ND1 N:HIS431 2.0 146.2 1.0
SG N:CYS408 2.3 140.0 1.0
SG N:CYS411 2.3 146.6 1.0
CD2 N:HIS425 2.5 137.0 1.0
CE1 N:HIS431 2.6 146.2 1.0
CB N:CYS408 3.0 140.0 1.0
CE1 N:HIS425 3.3 137.0 1.0
CG N:HIS431 3.3 146.2 1.0
CB N:CYS411 3.3 146.6 1.0
CG N:HIS425 3.8 137.0 1.0
NE2 N:HIS431 3.8 146.2 1.0
CB N:HIS431 3.9 146.2 1.0
N N:CYS411 4.0 146.6 1.0
ND1 N:HIS425 4.1 137.0 1.0
CD2 N:HIS431 4.2 146.2 1.0
CA N:CYS411 4.2 146.6 1.0
CE2 N:TYR416 4.2 139.8 1.0
CA N:CYS408 4.5 140.0 1.0
CA N:HIS431 4.6 146.2 1.0
CE1 N:PHE426 4.6 135.9 1.0
C N:ILE410 4.8 144.2 1.0
CD1 N:PHE426 4.8 135.9 1.0
OH N:TYR416 4.9 139.8 1.0
CB N:ILE410 4.9 144.2 1.0
CZ N:TYR416 5.0 139.8 1.0
CD2 N:TYR416 5.0 139.8 1.0
C N:CYS408 5.0 140.0 1.0

Reference:

C.Cretu, P.Gee, X.Liu, A.Agrawal, T.V.Nguyen, A.K.Ghosh, A.Cook, M.Jurica, N.A.Larsen, V.Pena. Structural Basis of Intron Selection By U2 Snrnp in the Presence of Covalent Inhibitors. Nat Commun V. 12 4491 2021.
ISSN: ESSN 2041-1723
PubMed: 34301950
DOI: 10.1038/S41467-021-24741-1
Page generated: Sun Aug 22 09:53:11 2021

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