Zinc in PDB 8w8f: Human Co-Transcriptional Rna Capping Enzyme Rngtt-CMTR1

Enzymatic activity of Human Co-Transcriptional Rna Capping Enzyme Rngtt-CMTR1

All present enzymatic activity of Human Co-Transcriptional Rna Capping Enzyme Rngtt-CMTR1:
2.1.1.57; 2.7.7.50; 2.7.7.6; 3.6.1.74;

Other elements in 8w8f:

The structure of Human Co-Transcriptional Rna Capping Enzyme Rngtt-CMTR1 also contains other interesting chemical elements:

Magnesium (Mg) 1 atom

Zinc Binding Sites:

The binding sites of Zinc atom in the Human Co-Transcriptional Rna Capping Enzyme Rngtt-CMTR1 (pdb code 8w8f). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 8 binding sites of Zinc where determined in the Human Co-Transcriptional Rna Capping Enzyme Rngtt-CMTR1, PDB code: 8w8f:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Zinc binding site 1 out of 8 in 8w8f

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Zinc binding site 1 out of 8 in the Human Co-Transcriptional Rna Capping Enzyme Rngtt-CMTR1


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Human Co-Transcriptional Rna Capping Enzyme Rngtt-CMTR1 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn2002

b:73.4
occ:1.00
 SG A:CYS114 2.3 60.6 1.0
SG A:CYS111 2.3 52.1 1.0
CB A:CYS114 2.4 60.6 1.0
CA A:CYS114 3.5 60.6 1.0
N A:CYS114 3.5 60.6 1.0
CB A:CYS111 3.6 52.1 1.0
N A:GLY183 3.9 54.3 1.0
CD2 A:TYR187 4.0 59.8 1.0
CG A:LYS116 4.1 54.4 1.0
CE2 A:TYR187 4.2 59.8 1.0
C A:CYS114 4.3 60.6 1.0
CB A:LYS116 4.4 54.4 1.0
CA A:GLY183 4.4 54.3 1.0
N A:SER115 4.7 54.1 1.0
SG A:CYS184 4.7 56.0 1.0
C A:PHE113 4.8 58.8 1.0
N A:LYS116 4.8 54.4 1.0
C A:GLY183 4.9 54.3 1.0
CA A:CYS111 4.9 52.1 1.0

Zinc binding site 2 out of 8 in 8w8f

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Zinc binding site 2 out of 8 in the Human Co-Transcriptional Rna Capping Enzyme Rngtt-CMTR1


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Human Co-Transcriptional Rna Capping Enzyme Rngtt-CMTR1 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn2003

b:68.5
occ:1.00
 NE2 A:HIS84 2.1 32.7 1.0
SG A:CYS74 2.3 35.3 1.0
SG A:CYS71 2.3 41.2 1.0
SG A:CYS81 2.3 35.8 1.0
CD2 A:HIS84 2.6 32.7 1.0
CB A:CYS71 3.0 41.2 1.0
CE1 A:HIS84 3.3 32.7 1.0
CB A:CYS81 3.7 35.8 1.0
CG A:HIS84 3.9 32.7 1.0
CB A:CYS74 3.9 35.3 1.0
N A:CYS74 4.0 35.3 1.0
ND1 A:HIS84 4.2 32.7 1.0
CA A:GLY63 4.2 38.7 1.0
CA A:CYS81 4.4 35.8 1.0
CA A:CYS74 4.4 35.3 1.0
CA A:CYS71 4.5 41.2 1.0
O A:GLN62 4.5 37.1 1.0
N A:GLY83 4.7 32.7 1.0
CB A:THR73 4.7 38.3 1.0
C A:CYS74 4.8 35.3 1.0
CD A:PRO82 4.8 30.6 1.0
O A:CYS74 4.8 35.3 1.0
O A:ARG61 4.9 39.9 1.0
N A:GLY63 4.9 38.7 1.0
C A:CYS81 4.9 35.8 1.0
C A:GLY63 4.9 38.7 1.0
C A:GLN62 5.0 37.1 1.0
N A:GLY76 5.0 37.3 1.0
CA A:GLY83 5.0 32.7 1.0

Zinc binding site 3 out of 8 in 8w8f

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Zinc binding site 3 out of 8 in the Human Co-Transcriptional Rna Capping Enzyme Rngtt-CMTR1


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Human Co-Transcriptional Rna Capping Enzyme Rngtt-CMTR1 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn2000

b:58.5
occ:1.00
 SG B:CYS1122 2.2 36.0 1.0
SG B:CYS1137 2.3 48.8 1.0
SG B:CYS1119 2.3 32.2 1.0
CB B:CYS1140 2.9 47.0 1.0
CB B:CYS1137 3.2 48.8 1.0
SG B:CYS1140 3.5 47.0 1.0
CB B:CYS1119 3.7 32.2 1.0
CB B:CYS1122 3.8 36.0 1.0
N B:CYS1122 4.1 36.0 1.0
O B:CYS1122 4.2 36.0 1.0
CA B:CYS1140 4.3 47.0 1.0
CA B:CYS1122 4.4 36.0 1.0
ND2 B:ASN1142 4.5 49.2 1.0
N B:CYS1140 4.6 47.0 1.0
CA B:CYS1137 4.6 48.8 1.0
CD1 B:ILE1124 4.7 29.4 1.0
C B:CYS1122 4.7 36.0 1.0
O B:CYS1137 4.7 48.8 1.0
CG1 B:ILE1124 4.9 29.4 1.0
CB B:LEU1121 4.9 36.2 1.0
OD1 B:ASN1142 4.9 49.2 1.0
C B:CYS1137 4.9 48.8 1.0
CG B:ASN1142 5.0 49.2 1.0

Zinc binding site 4 out of 8 in 8w8f

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Zinc binding site 4 out of 8 in the Human Co-Transcriptional Rna Capping Enzyme Rngtt-CMTR1


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Human Co-Transcriptional Rna Capping Enzyme Rngtt-CMTR1 within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn401

b:67.0
occ:1.00
 SG C:CYS97 2.3 16.6 1.0
SG C:CYS90 2.3 37.8 1.0
SG C:CYS88 2.4 27.2 1.0
SG C:CYS94 2.4 23.1 1.0
CB C:CYS88 2.9 27.2 1.0
CB C:CYS90 3.0 37.8 1.0
CB C:CYS97 3.5 16.6 1.0
CB C:CYS94 3.6 23.1 1.0
N C:CYS94 3.9 23.1 1.0
N C:CYS97 4.1 16.6 1.0
CA C:CYS90 4.2 37.8 1.0
N C:CYS90 4.2 37.8 1.0
CA C:CYS94 4.2 23.1 1.0
C C:PHE93 4.3 26.0 1.0
CA C:CYS88 4.4 27.2 1.0
CA C:CYS97 4.4 16.6 1.0
NZ Z:LYS718 4.5 17.1 1.0
O C:CYS94 4.5 23.1 1.0
CA C:PHE93 4.7 26.0 1.0
C C:CYS94 4.7 23.1 1.0
C C:CYS88 4.7 27.2 1.0
C C:GLU96 4.8 20.3 1.0
N C:PHE93 4.9 26.0 1.0
CB C:GLU96 4.9 20.3 1.0
O C:PHE93 5.0 26.0 1.0

Zinc binding site 5 out of 8 in 8w8f

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Zinc binding site 5 out of 8 in the Human Co-Transcriptional Rna Capping Enzyme Rngtt-CMTR1


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Human Co-Transcriptional Rna Capping Enzyme Rngtt-CMTR1 within 5.0Å range:
probe atom residue distance (Å) B Occ
I:Zn200

b:66.8
occ:1.00
 SG I:CYS39 2.3 39.0 1.0
SG I:CYS17 2.3 39.9 1.0
SG I:CYS20 2.3 42.0 1.0
SG I:CYS42 2.3 43.2 1.0
CB I:CYS39 3.0 39.0 1.0
CB I:CYS17 3.2 39.9 1.0
CB I:CYS42 3.7 43.2 1.0
N I:CYS42 3.9 43.2 1.0
CB I:CYS20 3.9 42.0 1.0
N I:CYS20 4.2 42.0 1.0
CA I:CYS42 4.3 43.2 1.0
CA I:CYS39 4.5 39.0 1.0
CA I:CYS20 4.6 42.0 1.0
CA I:CYS17 4.7 39.9 1.0
C I:CYS42 4.7 43.2 1.0
CB I:ASN41 4.8 46.0 1.0
N I:ASN22 4.8 39.4 1.0
CB I:ASN22 4.8 39.4 1.0
N I:ASN21 4.8 37.0 1.0
CB I:TYR44 4.9 39.4 1.0
O I:CYS42 4.9 43.2 1.0
C I:CYS20 4.9 42.0 1.0
OD1 I:ASN22 5.0 39.4 1.0

Zinc binding site 6 out of 8 in 8w8f

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Zinc binding site 6 out of 8 in the Human Co-Transcriptional Rna Capping Enzyme Rngtt-CMTR1


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of Human Co-Transcriptional Rna Capping Enzyme Rngtt-CMTR1 within 5.0Å range:
probe atom residue distance (Å) B Occ
I:Zn201

b:58.9
occ:1.00
 SG I:CYS119 2.3 38.6 1.0
SG I:CYS89 2.3 31.6 1.0
SG I:CYS86 2.3 32.1 1.0
SG I:CYS114 3.0 26.9 1.0
CB I:CYS114 3.2 26.9 1.0
CB I:CYS86 3.4 32.1 1.0
CB I:CYS119 3.4 38.6 1.0
CB I:HIS121 3.6 26.1 1.0
CB I:CYS89 3.7 31.6 1.0
N I:HIS121 4.0 26.1 1.0
N I:CYS89 4.1 31.6 1.0
CA I:HIS121 4.4 26.1 1.0
CA I:CYS89 4.5 31.6 1.0
CG I:HIS121 4.6 26.1 1.0
N I:GLY120 4.7 29.4 1.0
CA I:CYS119 4.7 38.6 1.0
C I:CYS119 4.7 38.6 1.0
CA I:CYS114 4.7 26.9 1.0
CB I:LYS88 4.7 28.1 1.0
CA I:CYS86 4.8 32.1 1.0
O I:HIS121 4.8 26.1 1.0
CB I:ALA116 5.0 33.2 1.0
CD2 I:HIS121 5.0 26.1 1.0

Zinc binding site 7 out of 8 in 8w8f

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Zinc binding site 7 out of 8 in the Human Co-Transcriptional Rna Capping Enzyme Rngtt-CMTR1


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 7 of Human Co-Transcriptional Rna Capping Enzyme Rngtt-CMTR1 within 5.0Å range:
probe atom residue distance (Å) B Occ
L:Zn101

b:66.3
occ:1.00
 CB L:CYS22 2.3 35.7 1.0
SG L:CYS36 2.3 38.0 1.0
SG L:CYS22 2.3 35.7 1.0
CG2 L:THR24 2.9 34.0 1.0
CG L:GLU38 2.9 40.0 1.0
CB L:GLU38 2.9 40.0 1.0
CB L:CYS19 3.5 35.8 1.0
CA L:CYS22 3.9 35.7 1.0
N L:GLU38 3.9 40.0 1.0
SG L:CYS19 4.0 35.8 1.0
CB L:CYS36 4.0 38.0 1.0
CA L:GLU38 4.0 40.0 1.0
CB L:THR24 4.3 34.0 1.0
CD L:GLU38 4.4 40.0 1.0
C L:CYS22 4.6 35.7 1.0
O L:CYS19 4.6 35.8 1.0
N L:CYS39 4.6 37.4 1.0
N L:CYS22 4.7 35.7 1.0
N L:THR24 4.8 34.0 1.0
C L:GLU38 4.8 40.0 1.0
CA L:CYS19 5.0 35.8 1.0
N L:ARG37 5.0 41.8 1.0
O L:CYS22 5.0 35.7 1.0

Zinc binding site 8 out of 8 in 8w8f

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Zinc binding site 8 out of 8 in the Human Co-Transcriptional Rna Capping Enzyme Rngtt-CMTR1


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 8 of Human Co-Transcriptional Rna Capping Enzyme Rngtt-CMTR1 within 5.0Å range:
probe atom residue distance (Å) B Occ
Y:Zn201

b:123.3
occ:1.00
 SG Y:CYS19 2.3 84.5 1.0
SG Y:CYS16 2.3 81.2 1.0
SG Y:CYS33 2.3 73.7 1.0
CB Y:CYS16 3.2 81.2 1.0
N Y:CYS19 3.7 84.5 1.0
CB Y:CYS19 3.8 84.5 1.0
CB Y:CYS33 3.8 73.7 1.0
CB Y:LEU18 4.2 79.2 1.0
CA Y:CYS19 4.3 84.5 1.0
CD1 Y:LEU40 4.4 85.1 1.0
CB Y:LEU21 4.4 77.5 1.0
CA Y:CYS16 4.6 81.2 1.0
C Y:LEU18 4.7 79.2 1.0
N Y:LEU18 4.7 79.2 1.0
CA Y:LEU18 4.8 79.2 1.0
C Y:CYS19 4.8 84.5 1.0
N Y:LEU21 4.8 77.5 1.0
N Y:SER20 4.9 78.2 1.0
CA Y:CYS33 4.9 73.7 1.0
CD2 Y:LEU18 4.9 79.2 1.0
N Y:CYS36 4.9 80.7 1.0
CG Y:LEU18 4.9 79.2 1.0

Reference:

Y.Li, Q.Wang, Y.Xu, Z.Li. Strcutures of Co-Transcriptional Rna Capping Enzymes on Paused Transcription Complex To Be Published.
Page generated: Thu Oct 31 13:12:00 2024

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