Zinc in PDB 8jce: Cryo-Em Structure of Chikungunya Virus Nonstructural Protein 1 with M7GPPPAMU

Other elements in 8jce:

The structure of Cryo-Em Structure of Chikungunya Virus Nonstructural Protein 1 with M7GPPPAMU also contains other interesting chemical elements:

Magnesium (Mg) 12 atoms

Zinc Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 12;

Binding sites:

The binding sites of Zinc atom in the Cryo-Em Structure of Chikungunya Virus Nonstructural Protein 1 with M7GPPPAMU (pdb code 8jce). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 12 binding sites of Zinc where determined in the Cryo-Em Structure of Chikungunya Virus Nonstructural Protein 1 with M7GPPPAMU, PDB code: 8jce:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Zinc binding site 1 out of 12 in 8jce

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Zinc binding site 1 out of 12 in the Cryo-Em Structure of Chikungunya Virus Nonstructural Protein 1 with M7GPPPAMU


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Cryo-Em Structure of Chikungunya Virus Nonstructural Protein 1 with M7GPPPAMU within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn1001

b:96.5
occ:1.00
 NE2 A:HIS79 2.3 70.4 1.0
SG A:CYS141 2.3 74.9 1.0
SG A:CYS134 2.3 77.7 1.0
OE1 A:GLU129 2.5 81.3 1.0
OE2 A:GLU129 3.1 81.3 1.0
CB A:CYS134 3.1 77.7 1.0
CD A:GLU129 3.2 81.3 1.0
CE1 A:HIS79 3.2 70.4 1.0
CD2 A:HIS79 3.3 70.4 1.0
CB A:CYS141 3.5 74.9 1.0
CB A:GLN143 4.3 74.9 1.0
CA A:CYS141 4.3 74.9 1.0
CG2 A:VAL81 4.4 72.6 1.0
ND1 A:HIS79 4.4 70.4 1.0
CG A:HIS79 4.5 70.4 1.0
N A:ARG142 4.6 73.7 1.0
CA A:CYS134 4.6 77.7 1.0
N A:GLN143 4.6 74.9 1.0
CG A:GLU129 4.6 81.3 1.0
ND1 A:HIS136 4.7 80.8 1.0
C A:CYS141 4.9 74.9 1.0
N A:CYS134 5.0 77.7 1.0
CG1 A:VAL81 5.0 72.6 1.0

Zinc binding site 2 out of 12 in 8jce

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Zinc binding site 2 out of 12 in the Cryo-Em Structure of Chikungunya Virus Nonstructural Protein 1 with M7GPPPAMU


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Cryo-Em Structure of Chikungunya Virus Nonstructural Protein 1 with M7GPPPAMU within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn602

b:96.4
occ:1.00
 NE2 B:HIS79 2.3 69.9 1.0
SG B:CYS141 2.3 71.4 1.0
SG B:CYS134 2.3 77.7 1.0
OE1 B:GLU129 2.4 79.7 1.0
OE2 B:GLU129 3.0 79.7 1.0
CD B:GLU129 3.1 79.7 1.0
CB B:CYS134 3.1 77.7 1.0
CE1 B:HIS79 3.2 69.9 1.0
CD2 B:HIS79 3.3 69.9 1.0
CB B:CYS141 3.5 71.4 1.0
CB B:GLN143 4.2 72.5 1.0
CA B:CYS141 4.3 71.4 1.0
ND1 B:HIS79 4.4 69.9 1.0
CG2 B:VAL81 4.4 71.6 1.0
CG B:HIS79 4.4 69.9 1.0
N B:ARG142 4.5 71.7 1.0
N B:GLN143 4.5 72.5 1.0
CG B:GLU129 4.5 79.7 1.0
CA B:CYS134 4.6 77.7 1.0
ND1 B:HIS136 4.7 78.3 1.0
C B:CYS141 4.9 71.4 1.0
N B:CYS134 5.0 77.7 1.0
CG1 B:VAL81 5.0 71.6 1.0

Zinc binding site 3 out of 12 in 8jce

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Zinc binding site 3 out of 12 in the Cryo-Em Structure of Chikungunya Virus Nonstructural Protein 1 with M7GPPPAMU


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Cryo-Em Structure of Chikungunya Virus Nonstructural Protein 1 with M7GPPPAMU within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn602

b:96.4
occ:1.00
 NE2 C:HIS79 2.3 70.6 1.0
SG C:CYS141 2.3 71.1 1.0
SG C:CYS134 2.3 77.8 1.0
OE1 C:GLU129 2.4 80.2 1.0
OE2 C:GLU129 3.0 80.2 1.0
CD C:GLU129 3.1 80.2 1.0
CB C:CYS134 3.1 77.8 1.0
CE1 C:HIS79 3.2 70.6 1.0
CD2 C:HIS79 3.3 70.6 1.0
CB C:CYS141 3.5 71.1 1.0
CB C:GLN143 4.3 72.6 1.0
CA C:CYS141 4.3 71.1 1.0
ND1 C:HIS79 4.4 70.6 1.0
CG2 C:VAL81 4.4 71.4 1.0
CG C:HIS79 4.4 70.6 1.0
N C:ARG142 4.5 70.8 1.0
CG C:GLU129 4.5 80.2 1.0
CA C:CYS134 4.6 77.8 1.0
N C:GLN143 4.6 72.6 1.0
ND1 C:HIS136 4.7 80.4 1.0
C C:CYS141 4.9 71.1 1.0
CG1 C:VAL81 4.9 71.4 1.0
N C:CYS134 5.0 77.8 1.0

Zinc binding site 4 out of 12 in 8jce

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Zinc binding site 4 out of 12 in the Cryo-Em Structure of Chikungunya Virus Nonstructural Protein 1 with M7GPPPAMU


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Cryo-Em Structure of Chikungunya Virus Nonstructural Protein 1 with M7GPPPAMU within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn602

b:97.2
occ:1.00
 NE2 D:HIS79 2.3 70.4 1.0
SG D:CYS141 2.3 75.1 1.0
SG D:CYS134 2.3 77.8 1.0
OE1 D:GLU129 2.5 81.1 1.0
OE2 D:GLU129 3.1 81.1 1.0
CB D:CYS134 3.1 77.8 1.0
CD D:GLU129 3.2 81.1 1.0
CE1 D:HIS79 3.2 70.4 1.0
CD2 D:HIS79 3.3 70.4 1.0
CB D:CYS141 3.5 75.1 1.0
CB D:GLN143 4.3 74.8 1.0
CA D:CYS141 4.3 75.1 1.0
CG2 D:VAL81 4.3 73.0 1.0
ND1 D:HIS79 4.4 70.4 1.0
CG D:HIS79 4.4 70.4 1.0
N D:ARG142 4.6 73.7 1.0
CA D:CYS134 4.6 77.8 1.0
N D:GLN143 4.6 74.8 1.0
CG D:GLU129 4.6 81.1 1.0
ND1 D:HIS136 4.7 81.0 1.0
C D:CYS141 4.9 75.1 1.0
N D:CYS134 5.0 77.8 1.0
CG1 D:VAL81 5.0 73.0 1.0

Zinc binding site 5 out of 12 in 8jce

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Zinc binding site 5 out of 12 in the Cryo-Em Structure of Chikungunya Virus Nonstructural Protein 1 with M7GPPPAMU


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Cryo-Em Structure of Chikungunya Virus Nonstructural Protein 1 with M7GPPPAMU within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Zn602

b:96.4
occ:1.00
 NE2 E:HIS79 2.3 69.9 1.0
SG E:CYS141 2.3 71.6 1.0
SG E:CYS134 2.3 77.6 1.0
OE1 E:GLU129 2.4 80.0 1.0
OE2 E:GLU129 3.0 80.0 1.0
CD E:GLU129 3.1 80.0 1.0
CB E:CYS134 3.1 77.6 1.0
CE1 E:HIS79 3.2 69.9 1.0
CD2 E:HIS79 3.3 69.9 1.0
CB E:CYS141 3.5 71.6 1.0
CB E:GLN143 4.2 72.4 1.0
CA E:CYS141 4.3 71.6 1.0
ND1 E:HIS79 4.4 69.9 1.0
CG2 E:VAL81 4.4 71.7 1.0
CG E:HIS79 4.4 69.9 1.0
N E:ARG142 4.5 71.8 1.0
N E:GLN143 4.5 72.4 1.0
CG E:GLU129 4.5 80.0 1.0
CA E:CYS134 4.6 77.6 1.0
ND1 E:HIS136 4.7 78.4 1.0
C E:CYS141 4.8 71.6 1.0
N E:CYS134 5.0 77.6 1.0
CG1 E:VAL81 5.0 71.7 1.0

Zinc binding site 6 out of 12 in 8jce

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Zinc binding site 6 out of 12 in the Cryo-Em Structure of Chikungunya Virus Nonstructural Protein 1 with M7GPPPAMU


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of Cryo-Em Structure of Chikungunya Virus Nonstructural Protein 1 with M7GPPPAMU within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Zn602

b:96.3
occ:1.00
 NE2 F:HIS79 2.3 70.5 1.0
SG F:CYS141 2.3 70.8 1.0
SG F:CYS134 2.3 77.8 1.0
OE1 F:GLU129 2.4 80.0 1.0
OE2 F:GLU129 3.0 80.0 1.0
CD F:GLU129 3.1 80.0 1.0
CB F:CYS134 3.1 77.8 1.0
CE1 F:HIS79 3.2 70.5 1.0
CD2 F:HIS79 3.3 70.5 1.0
CB F:CYS141 3.5 70.8 1.0
CB F:GLN143 4.3 72.3 1.0
CA F:CYS141 4.3 70.8 1.0
ND1 F:HIS79 4.4 70.5 1.0
CG2 F:VAL81 4.4 71.3 1.0
CG F:HIS79 4.4 70.5 1.0
N F:ARG142 4.5 70.5 1.0
CG F:GLU129 4.5 80.0 1.0
CA F:CYS134 4.6 77.8 1.0
N F:GLN143 4.6 72.3 1.0
ND1 F:HIS136 4.7 80.2 1.0
C F:CYS141 4.9 70.8 1.0
CG1 F:VAL81 4.9 71.3 1.0
N F:CYS134 5.0 77.8 1.0

Zinc binding site 7 out of 12 in 8jce

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Zinc binding site 7 out of 12 in the Cryo-Em Structure of Chikungunya Virus Nonstructural Protein 1 with M7GPPPAMU


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 7 of Cryo-Em Structure of Chikungunya Virus Nonstructural Protein 1 with M7GPPPAMU within 5.0Å range:
probe atom residue distance (Å) B Occ
G:Zn602

b:96.3
occ:1.00
 NE2 G:HIS79 2.3 70.2 1.0
SG G:CYS141 2.3 74.9 1.0
SG G:CYS134 2.3 77.4 1.0
OE1 G:GLU129 2.5 80.8 1.0
OE2 G:GLU129 3.1 80.8 1.0
CB G:CYS134 3.1 77.4 1.0
CD G:GLU129 3.2 80.8 1.0
CE1 G:HIS79 3.2 70.2 1.0
CD2 G:HIS79 3.3 70.2 1.0
CB G:CYS141 3.5 74.9 1.0
CB G:GLN143 4.3 74.6 1.0
CA G:CYS141 4.3 74.9 1.0
CG2 G:VAL81 4.4 72.6 1.0
ND1 G:HIS79 4.4 70.2 1.0
CG G:HIS79 4.4 70.2 1.0
N G:ARG142 4.6 73.4 1.0
CA G:CYS134 4.6 77.4 1.0
N G:GLN143 4.6 74.6 1.0
CG G:GLU129 4.6 80.8 1.0
ND1 G:HIS136 4.7 80.8 1.0
C G:CYS141 4.9 74.9 1.0
N G:CYS134 5.0 77.4 1.0
CG1 G:VAL81 5.0 72.6 1.0

Zinc binding site 8 out of 12 in 8jce

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Zinc binding site 8 out of 12 in the Cryo-Em Structure of Chikungunya Virus Nonstructural Protein 1 with M7GPPPAMU


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 8 of Cryo-Em Structure of Chikungunya Virus Nonstructural Protein 1 with M7GPPPAMU within 5.0Å range:
probe atom residue distance (Å) B Occ
H:Zn602

b:96.5
occ:1.00
 NE2 H:HIS79 2.3 70.1 1.0
SG H:CYS141 2.3 71.7 1.0
SG H:CYS134 2.3 77.7 1.0
OE1 H:GLU129 2.4 80.1 1.0
OE2 H:GLU129 3.0 80.1 1.0
CD H:GLU129 3.1 80.1 1.0
CB H:CYS134 3.1 77.7 1.0
CE1 H:HIS79 3.2 70.1 1.0
CD2 H:HIS79 3.3 70.1 1.0
CB H:CYS141 3.5 71.7 1.0
CB H:GLN143 4.2 72.7 1.0
CA H:CYS141 4.3 71.7 1.0
ND1 H:HIS79 4.4 70.1 1.0
CG2 H:VAL81 4.4 71.9 1.0
CG H:HIS79 4.4 70.1 1.0
N H:ARG142 4.5 71.8 1.0
N H:GLN143 4.5 72.7 1.0
CG H:GLU129 4.5 80.1 1.0
CA H:CYS134 4.6 77.7 1.0
ND1 H:HIS136 4.7 78.7 1.0
C H:CYS141 4.8 71.7 1.0
N H:CYS134 5.0 77.7 1.0
CG1 H:VAL81 5.0 71.9 1.0

Zinc binding site 9 out of 12 in 8jce

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Zinc binding site 9 out of 12 in the Cryo-Em Structure of Chikungunya Virus Nonstructural Protein 1 with M7GPPPAMU


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 9 of Cryo-Em Structure of Chikungunya Virus Nonstructural Protein 1 with M7GPPPAMU within 5.0Å range:
probe atom residue distance (Å) B Occ
I:Zn602

b:96.2
occ:1.00
 NE2 I:HIS79 2.3 70.6 1.0
SG I:CYS141 2.3 70.9 1.0
SG I:CYS134 2.3 77.8 1.0
OE1 I:GLU129 2.5 80.2 1.0
OE2 I:GLU129 3.0 80.2 1.0
CD I:GLU129 3.1 80.2 1.0
CB I:CYS134 3.1 77.8 1.0
CE1 I:HIS79 3.2 70.6 1.0
CD2 I:HIS79 3.3 70.6 1.0
CB I:CYS141 3.5 70.9 1.0
CB I:GLN143 4.3 72.6 1.0
CA I:CYS141 4.3 70.9 1.0
CG2 I:VAL81 4.4 71.4 1.0
ND1 I:HIS79 4.4 70.6 1.0
CG I:HIS79 4.4 70.6 1.0
N I:ARG142 4.6 70.7 1.0
CG I:GLU129 4.6 80.2 1.0
CA I:CYS134 4.6 77.8 1.0
N I:GLN143 4.6 72.6 1.0
ND1 I:HIS136 4.7 80.4 1.0
C I:CYS141 4.9 70.9 1.0
CG1 I:VAL81 4.9 71.4 1.0
N I:CYS134 5.0 77.8 1.0

Zinc binding site 10 out of 12 in 8jce

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Zinc binding site 10 out of 12 in the Cryo-Em Structure of Chikungunya Virus Nonstructural Protein 1 with M7GPPPAMU


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 10 of Cryo-Em Structure of Chikungunya Virus Nonstructural Protein 1 with M7GPPPAMU within 5.0Å range:
probe atom residue distance (Å) B Occ
J:Zn602

b:96.4
occ:1.00
 NE2 J:HIS79 2.3 70.3 1.0
SG J:CYS141 2.3 75.0 1.0
SG J:CYS134 2.3 77.5 1.0
OE1 J:GLU129 2.5 80.8 1.0
OE2 J:GLU129 3.1 80.8 1.0
CB J:CYS134 3.1 77.5 1.0
CD J:GLU129 3.1 80.8 1.0
CE1 J:HIS79 3.2 70.3 1.0
CD2 J:HIS79 3.3 70.3 1.0
CB J:CYS141 3.5 75.0 1.0
CB J:GLN143 4.3 74.6 1.0
CA J:CYS141 4.3 75.0 1.0
CG2 J:VAL81 4.4 72.5 1.0
ND1 J:HIS79 4.4 70.3 1.0
CG J:HIS79 4.5 70.3 1.0
N J:ARG142 4.6 73.5 1.0
CA J:CYS134 4.6 77.5 1.0
N J:GLN143 4.6 74.6 1.0
CG J:GLU129 4.6 80.8 1.0
ND1 J:HIS136 4.7 80.7 1.0
C J:CYS141 4.9 75.0 1.0
N J:CYS134 5.0 77.5 1.0
CG1 J:VAL81 5.0 72.5 1.0

Reference:

M.C.Y.Law, K.Zhang, Y.B.Tan, T.M.Nguyen, D.Luo. Chikungunya Virus Non-Structural Protein 1 Is A Versatile Rna Capping and Decapping Enzyme. J.Biol.Chem. 05415 2023.
ISSN: ESSN 1083-351X
PubMed: 37918803
DOI: 10.1016/J.JBC.2023.105415
Page generated: Thu Oct 31 08:15:36 2024

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