Zinc in PDB 8yqw: Asfv Rna Polymerase-M1249L COMPLEX3

Enzymatic activity of Asfv Rna Polymerase-M1249L COMPLEX3

All present enzymatic activity of Asfv Rna Polymerase-M1249L COMPLEX3:
2.7.7.6;

Other elements in 8yqw:

The structure of Asfv Rna Polymerase-M1249L COMPLEX3 also contains other interesting chemical elements:

Magnesium (Mg) 1 atom

Zinc Binding Sites:

The binding sites of Zinc atom in the Asfv Rna Polymerase-M1249L COMPLEX3 (pdb code 8yqw). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 9 binding sites of Zinc where determined in the Asfv Rna Polymerase-M1249L COMPLEX3, PDB code: 8yqw:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9;

Zinc binding site 1 out of 9 in 8yqw

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Zinc binding site 1 out of 9 in the Asfv Rna Polymerase-M1249L COMPLEX3


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Asfv Rna Polymerase-M1249L COMPLEX3 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn2002

b:69.8
occ:1.00
 NE2 A:HIS72 2.1 39.2 1.0
SG A:CYS59 2.3 48.4 1.0
SG A:CYS62 2.3 49.5 1.0
SG A:CYS69 2.3 44.1 1.0
CD2 A:HIS72 2.9 39.5 1.0
CB A:CYS59 2.9 38.6 1.0
CE1 A:HIS72 3.2 36.7 1.0
CB A:CYS69 3.4 37.7 1.0
CB A:CYS62 3.6 40.1 1.0
N A:CYS62 3.9 43.5 1.0
CG A:HIS72 4.1 35.6 1.0
CA A:CYS69 4.1 35.0 1.0
ND1 A:HIS72 4.2 35.2 1.0
CA A:GLY51 4.3 39.5 1.0
CA A:CYS62 4.3 38.4 1.0
CA A:CYS59 4.4 41.0 1.0
N A:GLY71 4.5 39.1 1.0
CB A:THR61 4.5 36.5 1.0
N A:MET70 4.7 39.9 1.0
C A:CYS69 4.7 42.0 1.0
N A:GLY51 4.8 42.1 1.0
CA A:GLY71 4.9 33.1 1.0
C A:THR61 4.9 41.2 1.0
C A:CYS62 5.0 40.7 1.0

Zinc binding site 2 out of 9 in 8yqw

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Zinc binding site 2 out of 9 in the Asfv Rna Polymerase-M1249L COMPLEX3


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Asfv Rna Polymerase-M1249L COMPLEX3 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn2003

b:133.7
occ:1.00
 SG A:CYS102 2.3 79.1 1.0
SG A:CYS137 2.3 93.0 1.0
SG A:CYS99 2.3 78.1 1.0
SG A:CYS134 2.3 86.5 1.0
CB A:CYS99 3.1 71.6 1.0
CB A:CYS134 3.2 86.5 1.0
CB A:CYS137 3.4 88.4 1.0
CB A:CYS102 3.5 72.9 1.0
N A:CYS102 3.9 73.7 1.0
N A:CYS137 4.1 88.2 1.0
CA A:CYS137 4.2 90.3 1.0
CA A:CYS102 4.2 74.4 1.0
CG2 A:VAL136 4.4 87.4 1.0
CA A:CYS99 4.6 69.4 1.0
CA A:CYS134 4.6 86.3 1.0
CB A:ALA139 4.7 79.6 1.0
C A:CYS137 4.7 90.0 1.0
C A:ASN101 4.8 72.8 1.0
CB A:ASN101 4.8 69.5 1.0
N A:LYS138 4.9 87.1 1.0
C A:CYS102 4.9 77.8 1.0
N A:GLY103 5.0 71.2 1.0
N A:ASN101 5.0 70.8 1.0
CB A:ALA104 5.0 65.6 1.0

Zinc binding site 3 out of 9 in 8yqw

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Zinc binding site 3 out of 9 in the Asfv Rna Polymerase-M1249L COMPLEX3


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Asfv Rna Polymerase-M1249L COMPLEX3 within 5.0Å range:

Zinc binding site 4 out of 9 in 8yqw

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Zinc binding site 4 out of 9 in the Asfv Rna Polymerase-M1249L COMPLEX3


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Asfv Rna Polymerase-M1249L COMPLEX3 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn1301

b:68.6
occ:1.00
 SG B:CYS1183 2.3 47.5 1.0
SG B:CYS1198 2.3 57.4 1.0
SG B:CYS1180 2.3 44.5 1.0
SG B:CYS1201 2.3 51.2 1.0
CB B:CYS1180 3.0 26.1 1.0
CB B:CYS1198 3.3 43.2 1.0
CB B:CYS1201 3.6 55.8 1.0
CB B:CYS1183 3.8 32.4 1.0
N B:CYS1201 4.1 53.3 1.0
N B:CYS1183 4.2 29.4 1.0
CA B:CYS1201 4.5 56.9 1.0
CA B:CYS1180 4.5 17.2 1.0
CB B:ASN1182 4.5 42.0 1.0
CA B:ALA1205 4.5 33.1 1.0
CA B:CYS1183 4.6 31.7 1.0
CB B:ASN1200 4.7 43.8 1.0
CA B:CYS1198 4.7 44.7 1.0
CB B:ALA1205 4.8 35.3 1.0
C B:ASN1200 4.9 53.9 1.0
C B:ASN1182 4.9 35.1 1.0
N B:ASP1202 4.9 57.6 1.0
O B:GLN1204 5.0 53.8 1.0
N B:ASN1182 5.0 37.0 1.0
N B:ASN1200 5.0 51.0 1.0

Zinc binding site 5 out of 9 in 8yqw

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Zinc binding site 5 out of 9 in the Asfv Rna Polymerase-M1249L COMPLEX3


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Asfv Rna Polymerase-M1249L COMPLEX3 within 5.0Å range:
probe atom residue distance (Å) B Occ
H:Zn101

b:70.2
occ:1.00
 SG H:CYS10 2.3 31.4 1.0
SG H:CYS66 2.3 41.8 1.0
SG H:CYS7 2.3 28.6 1.0
SG H:CYS65 2.3 40.8 1.0
CB H:CYS7 3.1 19.3 1.0
N H:CYS66 3.3 32.5 1.0
CB H:CYS65 3.4 32.3 1.0
CB H:CYS10 3.5 24.3 1.0
CB H:CYS66 3.6 26.9 1.0
CA H:CYS66 3.6 26.0 1.0
N H:CYS10 3.8 19.2 1.0
C H:CYS65 3.9 30.6 1.0
NE H:ARG63 4.1 35.0 1.0
CA H:CYS65 4.2 24.4 1.0
CA H:CYS10 4.2 21.5 1.0
CB H:THR9 4.6 24.9 1.0
CA H:CYS7 4.6 18.3 1.0
O H:CYS65 4.6 30.1 1.0
CD H:ARG63 4.6 37.6 1.0
N H:GLY11 4.7 14.4 1.0
CB H:PHE12 4.7 28.4 1.0
CB H:ARG63 4.7 36.6 1.0
N H:CYS65 4.8 31.0 1.0
N H:PHE12 4.8 31.0 1.0
C H:CYS10 4.8 30.0 1.0
C H:THR9 4.9 24.1 1.0
CG2 H:THR9 5.0 28.7 1.0

Zinc binding site 6 out of 9 in 8yqw

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Zinc binding site 6 out of 9 in the Asfv Rna Polymerase-M1249L COMPLEX3


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of Asfv Rna Polymerase-M1249L COMPLEX3 within 5.0Å range:
probe atom residue distance (Å) B Occ
G:Zn201

b:110.8
occ:1.00
 SG G:CYS73 2.3 64.0 1.0
SG G:CYS96 2.3 62.6 1.0
SG G:CYS76 2.3 70.8 1.0
SG G:CYS98 2.3 65.7 1.0
CB G:CYS96 3.1 50.7 1.0
CB G:CYS98 3.3 58.8 1.0
CB G:CYS73 3.3 61.0 1.0
CB G:CYS76 3.5 69.8 1.0
N G:CYS76 3.8 71.0 1.0
N G:CYS98 4.1 54.6 1.0
CA G:CYS76 4.2 70.7 1.0
CA G:CYS98 4.3 56.9 1.0
CB G:TYR100 4.4 55.0 1.0
CA G:CYS96 4.5 51.4 1.0
CB G:ASN75 4.6 69.9 1.0
CA G:CYS73 4.7 59.3 1.0
C G:CYS96 4.8 50.7 1.0
C G:CYS76 4.9 69.7 1.0
N G:ARG97 4.9 51.7 1.0
CB G:LEU78 4.9 56.8 1.0
C G:ASN75 4.9 65.5 1.0
N G:HIS77 5.0 69.6 1.0

Zinc binding site 7 out of 9 in 8yqw

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Zinc binding site 7 out of 9 in the Asfv Rna Polymerase-M1249L COMPLEX3


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 7 of Asfv Rna Polymerase-M1249L COMPLEX3 within 5.0Å range:
probe atom residue distance (Å) B Occ
G:Zn202

b:124.1
occ:1.00
 SG G:CYS7 2.3 75.8 1.0
SG G:CYS26 2.3 87.4 1.0
SG G:CYS4 2.3 70.0 1.0
SG G:CYS24 2.3 73.9 1.0
CB G:CYS4 3.1 68.1 1.0
CB G:CYS24 3.2 74.6 1.0
CB G:CYS26 3.5 78.1 1.0
CB G:CYS7 3.9 70.2 1.0
N G:CYS7 4.1 68.5 1.0
N G:CYS26 4.2 79.2 1.0
CB G:SER9 4.4 64.8 1.0
CA G:CYS26 4.5 77.7 1.0
CA G:CYS7 4.6 68.0 1.0
CB G:ALA6 4.6 71.1 1.0
CA G:CYS4 4.6 67.2 1.0
CA G:CYS24 4.6 73.5 1.0
CB G:GLU28 4.6 79.1 1.0
N G:SER25 4.9 71.6 1.0
CD1 J:TYR1078 5.0 72.3 1.0

Zinc binding site 8 out of 9 in 8yqw

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Zinc binding site 8 out of 9 in the Asfv Rna Polymerase-M1249L COMPLEX3


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 8 of Asfv Rna Polymerase-M1249L COMPLEX3 within 5.0Å range:
probe atom residue distance (Å) B Occ
J:Zn1301

b:117.0
occ:1.00
 ND1 J:HIS943 2.1 66.1 1.0
SG J:CYS953 2.3 79.0 1.0
SG J:CYS950 2.3 87.2 1.0
SG J:CYS937 2.3 69.1 1.0
CE1 J:HIS943 2.8 63.8 1.0
CB J:CYS950 3.1 81.2 1.0
CG J:HIS943 3.3 66.8 1.0
CB J:CYS953 3.5 78.1 1.0
CB J:CYS937 3.7 59.8 1.0
N J:CYS953 3.8 79.0 1.0
CB J:HIS943 3.9 66.1 1.0
CA J:HIS943 3.9 63.9 1.0
NE2 J:HIS943 4.0 63.7 1.0
CA J:CYS953 4.2 79.7 1.0
CA J:CYS937 4.2 59.7 1.0
CD2 J:HIS943 4.2 65.1 1.0
CD J:PRO938 4.3 66.1 1.0
CB J:LYS952 4.5 75.1 1.0
CA J:CYS950 4.6 81.6 1.0
N J:ASP944 4.7 74.6 1.0
CB J:LEU955 4.7 73.2 1.0
C J:LYS952 4.7 76.4 1.0
C J:CYS953 4.8 79.7 1.0
N J:HIS943 4.8 63.9 1.0
C J:HIS943 4.9 67.9 1.0
N J:LYS952 4.9 75.8 1.0
CA J:LYS952 5.0 76.7 1.0
N J:PRO938 5.0 67.3 1.0

Zinc binding site 9 out of 9 in 8yqw

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Zinc binding site 9 out of 9 in the Asfv Rna Polymerase-M1249L COMPLEX3


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 9 of Asfv Rna Polymerase-M1249L COMPLEX3 within 5.0Å range:
probe atom residue distance (Å) B Occ
J:Zn1302

b:99.7
occ:1.00
 SG J:CYS901 2.3 61.4 1.0
SG J:CYS898 2.3 71.2 1.0
ND1 J:HIS857 2.3 60.0 1.0
CE1 J:HIS857 3.0 62.1 1.0
CB J:CYS898 3.3 63.7 1.0
CB J:CYS901 3.3 65.2 1.0
N J:CYS901 3.4 64.3 1.0
CG J:HIS857 3.4 55.7 1.0
CA J:HIS857 3.6 59.0 1.0
CA J:CYS901 3.9 62.4 1.0
CB J:HIS857 3.9 55.6 1.0
CB J:VAL900 4.0 62.4 1.0
O J:PRO856 4.1 59.8 1.0
NE2 J:HIS857 4.2 58.1 1.0
CB J:ASP851 4.3 58.7 1.0
OD2 J:ASP851 4.3 64.2 1.0
N J:HIS857 4.3 56.9 1.0
C J:VAL900 4.4 65.7 1.0
CD2 J:HIS857 4.5 53.9 1.0
C J:PRO856 4.5 57.0 1.0
CG J:ASP851 4.5 62.5 1.0
CA J:VAL900 4.6 63.0 1.0
N J:LYS858 4.6 60.8 1.0
N J:VAL900 4.6 64.2 1.0
CG1 J:VAL900 4.6 65.8 1.0
C J:HIS857 4.7 63.5 1.0
CA J:CYS898 4.7 63.2 1.0
C J:CYS901 4.8 64.2 1.0
N J:HIS902 4.8 69.0 1.0
O J:LEU855 4.9 63.7 1.0
CG2 J:VAL900 5.0 60.5 1.0

Reference:

X.Y.Feng, X.Y.Feng. N/A N/A.
Page generated: Wed Nov 13 13:55:43 2024

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