Zinc in PDB 8h35: Cryo-Em Structure of the KBTBD2-CUL3-RBX1 Octameric Complex

Enzymatic activity of Cryo-Em Structure of the KBTBD2-CUL3-RBX1 Octameric Complex

All present enzymatic activity of Cryo-Em Structure of the KBTBD2-CUL3-RBX1 Octameric Complex:
2.3.2.27; 2.3.2.32;

Zinc Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 24;

Binding sites:

The binding sites of Zinc atom in the Cryo-Em Structure of the KBTBD2-CUL3-RBX1 Octameric Complex (pdb code 8h35). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 24 binding sites of Zinc where determined in the Cryo-Em Structure of the KBTBD2-CUL3-RBX1 Octameric Complex, PDB code: 8h35:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Zinc binding site 1 out of 24 in 8h35

Go back to Zinc Binding Sites List in 8h35
Zinc binding site 1 out of 24 in the Cryo-Em Structure of the KBTBD2-CUL3-RBX1 Octameric Complex


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 the KBTBD2-CUL3-RBX1 Octameric Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Zn4001

b:104.2
occ:1.00
 ND1 E:HIS80 2.1 112.2 1.0
SG E:CYS45 2.3 137.7 1.0
SG E:CYS83 2.3 118.1 1.0
SG E:CYS42 2.3 136.0 1.0
CE1 E:HIS80 2.8 112.3 1.0
CB E:CYS42 3.0 136.2 1.0
CB E:CYS45 3.0 137.7 1.0
CG E:HIS80 3.2 112.4 1.0
CB E:CYS83 3.6 117.6 1.0
CB E:HIS80 3.7 112.5 1.0
N E:CYS45 3.7 137.4 1.0
CA E:CYS45 3.9 137.8 1.0
NE2 E:HIS80 4.0 112.3 1.0
CD2 E:HIS80 4.2 112.3 1.0
CB E:CYS53 4.2 143.4 1.0
N E:HIS80 4.3 112.2 1.0
CA E:CYS42 4.5 136.3 1.0
C E:CYS45 4.6 138.1 1.0
CA E:HIS80 4.6 112.5 1.0
N E:ARG46 4.6 138.5 1.0
O E:HIS48 4.7 141.4 1.0
C E:ILE44 4.8 137.0 1.0
CA E:CYS53 4.9 143.5 1.0
CB E:ILE44 4.9 136.6 1.0

Zinc binding site 2 out of 24 in 8h35

Go back to Zinc Binding Sites List in 8h35
Zinc binding site 2 out of 24 in the Cryo-Em Structure of the KBTBD2-CUL3-RBX1 Octameric Complex


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 the KBTBD2-CUL3-RBX1 Octameric Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Zn4002

b:92.5
occ:1.00
 OD2 E:ASP97 2.1 131.3 1.0
SG E:CYS75 2.3 115.9 1.0
ND1 E:HIS77 2.3 113.1 1.0
SG E:CYS94 2.3 129.2 1.0
CB E:CYS94 2.9 130.0 1.0
CG E:ASP97 3.1 131.3 1.0
CE1 E:HIS77 3.2 113.2 1.0
CG E:HIS77 3.3 112.9 1.0
OD1 E:ASP97 3.4 131.1 1.0
CB E:CYS75 3.4 116.0 1.0
CB E:HIS77 3.5 112.9 1.0
CE3 E:TRP101 4.3 129.1 1.0
NE2 E:HIS77 4.3 113.1 1.0
CA E:CYS94 4.4 130.1 1.0
CD2 E:HIS77 4.4 113.0 1.0
CZ3 E:TRP101 4.4 128.8 1.0
CB E:ASP97 4.4 131.3 1.0
CZ3 E:TRP35 4.5 160.4 1.0
CE3 E:TRP35 4.7 160.4 1.0
O E:CYS75 4.7 115.6 1.0
CA E:CYS75 4.7 116.0 1.0
C E:CYS94 4.8 130.2 1.0
CA E:HIS77 4.9 112.9 1.0
O E:CYS94 4.9 130.2 1.0
N E:ASP97 4.9 131.1 1.0
C E:CYS75 5.0 115.6 1.0
N E:HIS77 5.0 113.4 1.0

Zinc binding site 3 out of 24 in 8h35

Go back to Zinc Binding Sites List in 8h35
Zinc binding site 3 out of 24 in the Cryo-Em Structure of the KBTBD2-CUL3-RBX1 Octameric Complex


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 the KBTBD2-CUL3-RBX1 Octameric Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Zn4003

b:104.9
occ:1.00
 ND1 E:HIS82 2.1 115.0 1.0
SG E:CYS56 2.3 146.0 1.0
SG E:CYS68 2.3 133.8 1.0
SG E:CYS53 2.3 143.1 1.0
CE1 E:HIS82 2.8 114.9 1.0
CG E:HIS82 3.0 115.1 1.0
CB E:CYS56 3.1 146.0 1.0
NH1 C:ARG751 3.5 170.4 1.0
CB E:HIS82 3.5 115.4 1.0
CB E:CYS68 3.7 134.2 1.0
CB E:CYS53 3.8 143.4 1.0
NE2 E:HIS82 3.9 114.7 1.0
CD2 E:HIS82 4.0 114.8 1.0
N E:CYS53 4.2 143.3 1.0
CA E:CYS56 4.3 146.0 1.0
N E:CYS56 4.3 145.7 1.0
CA E:CYS68 4.6 134.1 1.0
CA E:CYS53 4.6 143.5 1.0
CZ C:ARG751 4.8 170.4 1.0
C E:GLU55 4.9 145.4 1.0
CA E:HIS82 4.9 115.5 1.0
C E:LEU52 5.0 143.2 1.0

Zinc binding site 4 out of 24 in 8h35

Go back to Zinc Binding Sites List in 8h35
Zinc binding site 4 out of 24 in the Cryo-Em Structure of the KBTBD2-CUL3-RBX1 Octameric Complex


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 the KBTBD2-CUL3-RBX1 Octameric Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn4001

b:104.2
occ:1.00
 ND1 D:HIS80 2.1 112.2 1.0
SG D:CYS83 2.3 118.1 1.0
SG D:CYS42 2.3 136.0 1.0
SG D:CYS45 2.3 137.7 1.0
CE1 D:HIS80 2.5 112.3 1.0
CG D:HIS80 3.3 112.4 1.0
CB D:CYS42 3.4 136.2 1.0
CB D:CYS45 3.4 137.7 1.0
NE2 D:HIS80 3.7 112.3 1.0
CB D:CYS83 3.7 117.6 1.0
N D:CYS45 3.9 137.4 1.0
CD2 D:HIS80 4.1 112.3 1.0
CB D:HIS80 4.1 112.5 1.0
CA D:CYS45 4.2 137.8 1.0
N D:HIS80 4.2 112.2 1.0
O D:HIS48 4.3 141.4 1.0
O D:CYS42 4.6 136.3 1.0
CA D:CYS42 4.6 136.3 1.0
C D:CYS45 4.6 138.1 1.0
CB D:ASN47 4.7 139.8 1.0
CB D:CYS53 4.7 143.4 1.0
N D:ARG46 4.8 138.5 1.0
CA D:HIS80 4.8 112.5 1.0
C D:CYS42 4.9 136.2 1.0
N D:ASN47 4.9 139.5 1.0
C D:ILE44 5.0 137.0 1.0

Zinc binding site 5 out of 24 in 8h35

Go back to Zinc Binding Sites List in 8h35
Zinc binding site 5 out of 24 in the Cryo-Em Structure of the KBTBD2-CUL3-RBX1 Octameric Complex


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 the KBTBD2-CUL3-RBX1 Octameric Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn4002

b:92.5
occ:1.00
 OD2 D:ASP97 2.1 131.3 1.0
ND1 D:HIS77 2.3 113.1 1.0
SG D:CYS94 2.3 129.2 1.0
SG D:CYS75 2.3 115.9 1.0
OD1 D:ASP97 2.6 131.1 1.0
CG D:ASP97 2.7 131.3 1.0
CB D:CYS75 2.7 116.0 1.0
CE1 D:HIS77 3.1 113.2 1.0
CG D:HIS77 3.4 112.9 1.0
CB D:CYS94 3.4 130.0 1.0
CB D:HIS77 3.8 112.9 1.0
O D:CYS75 3.9 115.6 1.0
CA D:CYS75 4.1 116.0 1.0
CB D:ASP97 4.1 131.3 1.0
NE2 D:HIS77 4.3 113.1 1.0
O D:CYS94 4.3 130.2 1.0
C D:CYS75 4.3 115.6 1.0
CD2 D:HIS77 4.4 113.0 1.0
N D:ASP97 4.5 131.1 1.0
CA D:CYS94 4.7 130.1 1.0
CB D:ARG99 4.8 132.2 1.0
N D:HIS77 4.8 113.4 1.0
C D:CYS94 4.9 130.2 1.0
CB D:LEU96 4.9 130.6 1.0
CG D:ARG99 4.9 132.8 1.0
CA D:ASP97 4.9 131.3 1.0
C D:LEU96 4.9 130.8 1.0
CA D:HIS77 4.9 112.9 1.0
N D:CYS75 5.0 116.6 1.0

Zinc binding site 6 out of 24 in 8h35

Go back to Zinc Binding Sites List in 8h35
Zinc binding site 6 out of 24 in the Cryo-Em Structure of the KBTBD2-CUL3-RBX1 Octameric Complex


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 the KBTBD2-CUL3-RBX1 Octameric Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn4003

b:104.9
occ:1.00
 ND1 D:HIS82 2.1 115.0 1.0
SG D:CYS56 2.3 146.0 1.0
SG D:CYS68 2.3 133.8 1.0
SG D:CYS53 2.3 143.1 1.0
CG D:HIS82 2.9 115.1 1.0
CE1 D:HIS82 3.0 114.9 1.0
CB D:HIS82 3.2 115.4 1.0
NH1 F:ARG751 3.2 204.2 1.0
CB D:CYS56 3.4 146.0 1.0
CB D:CYS68 3.4 134.2 1.0
CB D:CYS53 3.7 143.4 1.0
CD2 D:HIS82 3.9 114.8 1.0
NE2 D:HIS82 4.0 114.7 1.0
N D:CYS56 4.3 145.7 1.0
CA D:CYS56 4.3 146.0 1.0
N D:CYS53 4.4 143.3 1.0
CZ F:ARG751 4.5 204.2 1.0
CA D:CYS68 4.6 134.1 1.0
C D:GLU55 4.6 145.4 1.0
CA D:CYS53 4.6 143.5 1.0
CA D:HIS82 4.6 115.5 1.0
O D:GLU55 4.9 145.5 1.0

Zinc binding site 7 out of 24 in 8h35

Go back to Zinc Binding Sites List in 8h35
Zinc binding site 7 out of 24 in the Cryo-Em Structure of the KBTBD2-CUL3-RBX1 Octameric Complex


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 the KBTBD2-CUL3-RBX1 Octameric Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
L:Zn4001

b:104.2
occ:1.00
 ND1 L:HIS80 2.1 112.2 1.0
SG L:CYS45 2.3 137.7 1.0
SG L:CYS83 2.3 118.1 1.0
SG L:CYS42 2.3 136.0 1.0
CE1 L:HIS80 2.8 112.3 1.0
CB L:CYS42 3.0 136.2 1.0
CB L:CYS45 3.0 137.7 1.0
CG L:HIS80 3.2 112.4 1.0
CB L:CYS83 3.6 117.6 1.0
CB L:HIS80 3.7 112.5 1.0
N L:CYS45 3.7 137.4 1.0
CA L:CYS45 3.9 137.8 1.0
NE2 L:HIS80 4.0 112.3 1.0
CD2 L:HIS80 4.2 112.3 1.0
CB L:CYS53 4.2 143.4 1.0
N L:HIS80 4.3 112.2 1.0
CA L:CYS42 4.5 136.3 1.0
C L:CYS45 4.6 138.1 1.0
CA L:HIS80 4.6 112.5 1.0
N L:ARG46 4.6 138.5 1.0
O L:HIS48 4.7 141.4 1.0
C L:ILE44 4.8 137.0 1.0
CA L:CYS53 4.9 143.5 1.0
CB L:ILE44 4.9 136.6 1.0

Zinc binding site 8 out of 24 in 8h35

Go back to Zinc Binding Sites List in 8h35
Zinc binding site 8 out of 24 in the Cryo-Em Structure of the KBTBD2-CUL3-RBX1 Octameric Complex


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 the KBTBD2-CUL3-RBX1 Octameric Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
L:Zn4002

b:92.5
occ:1.00
 SG L:CYS75 2.3 115.9 1.0
ND1 L:HIS77 2.3 113.1 1.0
CB L:CYS94 2.9 130.0 1.0
CE1 L:HIS77 3.2 113.2 1.0
CG L:HIS77 3.3 112.9 1.0
CB L:CYS75 3.4 116.0 1.0
CB L:HIS77 3.5 112.9 1.0
CE3 L:TRP101 4.3 129.1 1.0
NE2 L:HIS77 4.3 113.1 1.0
CA L:CYS94 4.4 130.1 1.0
CD2 L:HIS77 4.4 113.0 1.0
CZ3 L:TRP101 4.4 128.8 1.0
CB L:ASP97 4.4 131.3 1.0
CZ3 L:TRP35 4.5 160.4 1.0
CE3 L:TRP35 4.7 160.4 1.0
O L:CYS75 4.7 115.6 1.0
CA L:CYS75 4.7 116.0 1.0
C L:CYS94 4.8 130.2 1.0
CA L:HIS77 4.9 112.9 1.0
O L:CYS94 4.9 130.2 1.0
N L:ASP97 4.9 131.1 1.0
C L:CYS75 5.0 115.6 1.0
N L:HIS77 5.0 113.4 1.0

Zinc binding site 9 out of 24 in 8h35

Go back to Zinc Binding Sites List in 8h35
Zinc binding site 9 out of 24 in the Cryo-Em Structure of the KBTBD2-CUL3-RBX1 Octameric Complex


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 the KBTBD2-CUL3-RBX1 Octameric Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
L:Zn4003

b:104.9
occ:1.00
 ND1 L:HIS82 2.1 115.0 1.0
SG L:CYS56 2.3 146.0 1.0
SG L:CYS68 2.3 133.8 1.0
SG L:CYS53 2.3 143.1 1.0
CE1 L:HIS82 2.8 114.9 1.0
CG L:HIS82 3.0 115.1 1.0
CB L:CYS56 3.1 146.0 1.0
NH1 I:ARG751 3.5 170.4 1.0
CB L:HIS82 3.5 115.4 1.0
CB L:CYS68 3.7 134.2 1.0
CB L:CYS53 3.8 143.4 1.0
NE2 L:HIS82 3.9 114.7 1.0
CD2 L:HIS82 4.0 114.8 1.0
N L:CYS53 4.2 143.3 1.0
CA L:CYS56 4.3 146.0 1.0
N L:CYS56 4.3 145.7 1.0
CA L:CYS68 4.6 134.1 1.0
CA L:CYS53 4.6 143.5 1.0
CZ I:ARG751 4.8 170.4 1.0
C L:GLU55 4.9 145.4 1.0
CA L:HIS82 4.9 115.5 1.0
C L:LEU52 5.0 143.2 1.0

Zinc binding site 10 out of 24 in 8h35

Go back to Zinc Binding Sites List in 8h35
Zinc binding site 10 out of 24 in the Cryo-Em Structure of the KBTBD2-CUL3-RBX1 Octameric Complex


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 the KBTBD2-CUL3-RBX1 Octameric Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
K:Zn4001

b:104.2
occ:1.00
 ND1 K:HIS80 2.1 112.2 1.0
CB K:CYS42 2.2 136.2 1.0
SG K:CYS45 2.3 137.7 1.0
SG K:CYS83 2.3 118.1 1.0
SG K:CYS42 2.3 136.0 1.0
CE1 K:HIS80 2.5 112.3 1.0
CB K:CYS45 2.8 137.7 1.0
CG K:HIS80 3.3 112.4 1.0
N K:CYS45 3.4 137.4 1.0
NE2 K:HIS80 3.7 112.3 1.0
CA K:CYS45 3.7 137.8 1.0
CB K:CYS83 3.7 117.6 1.0
CA K:CYS42 3.7 136.3 1.0
CD2 K:HIS80 4.1 112.3 1.0
CB K:HIS80 4.1 112.5 1.0
N K:HIS80 4.2 112.2 1.0
C K:CYS42 4.3 136.2 1.0
C K:CYS45 4.4 138.1 1.0
O K:HIS48 4.4 141.4 1.0
N K:ARG46 4.5 138.5 1.0
N K:CYS42 4.5 136.5 1.0
C K:ILE44 4.5 137.0 1.0
O K:CYS42 4.6 136.3 1.0
CB K:ILE44 4.7 136.6 1.0
CB K:CYS53 4.7 143.4 1.0
N K:ILE44 4.7 136.5 1.0
CA K:HIS80 4.8 112.5 1.0
ND2 K:ASN47 4.9 139.8 1.0
CA K:ILE44 4.9 136.8 1.0

Reference:

Y.Hu, Q.Mao, Z.Chen, L.Sun. Cryo-Em Structure of the KBTBD2-CUL3-RBX1 Octameric Complex To Be Published.
Page generated: Thu Oct 31 06:56:18 2024

Last articles

Zn in 9JYW
Zn in 9IR4
Zn in 9IR3
Zn in 9GMX
Zn in 9GMW
Zn in 9JEJ
Zn in 9ERF
Zn in 9ERE
Zn in 9EGV
Zn in 9EGW
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy