Atomistry » Zinc » PDB 3zs2-4a3g » 4a0c
Atomistry »
  Zinc »
    PDB 3zs2-4a3g »
      4a0c »

Zinc in PDB 4a0c: Structure of the CAND1-CUL4B-RBX1 Complex

Protein crystallography data

The structure of Structure of the CAND1-CUL4B-RBX1 Complex, PDB code: 4a0c was solved by A.Scrima, E.S.Fischer, M.Faty, H.Gut, N.H.Thoma, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 47.76 / 3.80
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 77.090, 152.360, 263.010, 90.00, 89.37, 90.00
R / Rfree (%) 23.8 / 31.9

Zinc Binding Sites:

The binding sites of Zinc atom in the Structure of the CAND1-CUL4B-RBX1 Complex (pdb code 4a0c). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 6 binding sites of Zinc where determined in the Structure of the CAND1-CUL4B-RBX1 Complex, PDB code: 4a0c:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6;

Zinc binding site 1 out of 6 in 4a0c

Go back to Zinc Binding Sites List in 4a0c
Zinc binding site 1 out of 6 in the Structure of the CAND1-CUL4B-RBX1 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 CAND1-CUL4B-RBX1 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn4001

b:0.2
occ:1.00
 ND1 D:HIS80 2.0 0.2 1.0
SG D:CYS42 2.0 1.0 1.0
SG D:CYS45 2.4 0.7 1.0
SG D:CYS83 2.6 0.1 1.0
CE1 D:HIS80 3.0 0.3 1.0
CB D:CYS42 3.0 0.2 1.0
CG D:HIS80 3.0 0.4 1.0
CB D:CYS83 3.2 0.6 1.0
CB D:CYS45 3.4 0.7 1.0
CB D:HIS80 3.4 0.5 1.0
N D:CYS45 3.9 0.4 1.0
N D:HIS80 4.0 0.2 1.0
NE2 D:HIS80 4.1 0.3 1.0
CB D:CYS53 4.1 0.4 1.0
CD2 D:HIS80 4.1 0.3 1.0
CA D:CYS45 4.2 0.8 1.0
CA D:HIS80 4.3 0.5 1.0
CA D:CYS42 4.4 0.3 1.0
CA D:CYS83 4.6 0.7 1.0
O D:CYS42 4.7 0.3 1.0
C D:CYS42 4.8 0.2 1.0
CB D:ILE44 4.8 0.6 1.0
CA D:CYS53 4.9 0.5 1.0
C D:ILE44 4.9 0.0 1.0
C D:CYS45 4.9 0.1 1.0
N D:ARG46 5.0 0.5 1.0
N D:CYS83 5.0 0.9 1.0
O D:HIS80 5.0 0.9 1.0

Zinc binding site 2 out of 6 in 4a0c

Go back to Zinc Binding Sites List in 4a0c
Zinc binding site 2 out of 6 in the Structure of the CAND1-CUL4B-RBX1 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 CAND1-CUL4B-RBX1 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn4002

b:92.5
occ:1.00
 ND1 D:HIS77 2.1 0.1 1.0
SG D:CYS75 2.4 0.9 1.0
SG D:CYS94 2.6 0.2 1.0
OD1 D:ASP97 2.8 0.1 1.0
CE1 D:HIS77 2.9 0.2 1.0
OD2 D:ASP97 3.0 0.3 1.0
CB D:CYS75 3.0 0.0 1.0
CG D:ASP97 3.1 0.3 1.0
CG D:HIS77 3.2 0.9 1.0
CB D:HIS77 3.7 0.9 1.0
CB D:CYS94 3.9 1.0 1.0
NE2 D:HIS77 4.1 0.1 1.0
CD2 D:HIS77 4.3 0.0 1.0
CA D:CYS75 4.4 0.0 1.0
O D:CYS75 4.4 0.6 1.0
CB D:ASP97 4.4 0.3 1.0
C D:CYS75 4.5 0.6 1.0
CB D:LEU96 4.6 0.6 1.0
N D:HIS77 4.7 0.4 1.0
N D:ASP97 4.7 0.1 1.0
C D:LEU96 4.7 0.8 1.0
CA D:HIS77 4.8 0.9 1.0
CA D:LEU96 5.0 0.6 1.0

Zinc binding site 3 out of 6 in 4a0c

Go back to Zinc Binding Sites List in 4a0c
Zinc binding site 3 out of 6 in the Structure of the CAND1-CUL4B-RBX1 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 CAND1-CUL4B-RBX1 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn4003

b:0.9
occ:1.00
 SG D:CYS56 2.3 0.0 1.0
SG D:CYS53 2.6 0.1 1.0
SG D:CYS68 2.8 0.8 1.0
CG D:HIS82 3.1 0.1 1.0
CD2 D:HIS82 3.1 0.8 1.0
CB D:HIS82 3.5 0.4 1.0
CB D:CYS56 3.5 0.0 1.0
ND1 D:HIS82 3.6 0.0 1.0
CB D:CYS68 3.6 0.2 1.0
NE2 D:HIS82 3.6 0.7 1.0
CE1 D:HIS82 3.9 0.9 1.0
CB D:CYS53 3.9 0.4 1.0
N D:CYS53 4.4 0.3 1.0
O D:GLU55 4.4 0.5 1.0
C D:GLU55 4.5 0.4 1.0
N D:CYS56 4.5 0.7 1.0
CA D:CYS56 4.6 0.0 1.0
CA D:CYS68 4.6 0.1 1.0
CA D:CYS53 4.7 0.5 1.0
CA D:HIS82 4.9 0.5 1.0

Zinc binding site 4 out of 6 in 4a0c

Go back to Zinc Binding Sites List in 4a0c
Zinc binding site 4 out of 6 in the Structure of the CAND1-CUL4B-RBX1 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 CAND1-CUL4B-RBX1 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Zn4001

b:0.1
occ:1.00
 SG F:CYS45 1.7 0.9 1.0
SG F:CYS42 2.4 0.5 1.0
ND1 F:HIS80 2.5 0.1 1.0
CG F:HIS80 3.0 0.3 1.0
CB F:HIS80 3.1 0.4 1.0
CB F:CYS42 3.2 0.7 1.0
CB F:CYS45 3.2 0.8 1.0
CE1 F:HIS80 3.5 0.1 1.0
SG F:CYS83 3.5 0.9 1.0
N F:CYS45 3.8 0.3 1.0
CB F:CYS83 3.8 0.8 1.0
CB F:CYS53 3.9 0.7 1.0
N F:HIS80 3.9 0.8 1.0
CA F:CYS45 4.0 0.8 1.0
CD2 F:HIS80 4.1 0.2 1.0
CA F:HIS80 4.1 0.5 1.0
NE2 F:HIS80 4.3 0.0 1.0
CA F:CYS42 4.7 0.8 1.0
C F:CYS45 4.7 0.1 1.0
O F:LEU52 4.8 0.5 1.0
CA F:CYS53 4.8 0.7 1.0
N F:ARG46 4.8 0.5 1.0
O F:HIS80 4.9 0.1 1.0
C F:ILE44 5.0 0.7 1.0
C F:HIS80 5.0 1.0 1.0

Zinc binding site 5 out of 6 in 4a0c

Go back to Zinc Binding Sites List in 4a0c
Zinc binding site 5 out of 6 in the Structure of the CAND1-CUL4B-RBX1 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 CAND1-CUL4B-RBX1 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Zn4002

b:0.2
occ:1.00
 SG F:CYS75 2.1 0.8 1.0
SG F:CYS94 2.4 0.7 1.0
ND1 F:HIS77 2.7 0.3 1.0
CB F:CYS94 2.9 0.8 1.0
CB F:ASP97 3.0 0.7 1.0
OD2 F:ASP97 3.1 0.6 1.0
CB F:CYS75 3.2 0.5 1.0
CE1 F:HIS77 3.3 0.3 1.0
N F:ASP97 3.3 0.7 1.0
CG F:ASP97 3.5 0.8 1.0
CG F:HIS77 3.6 0.1 1.0
CA F:ASP97 3.8 0.7 1.0
CB F:HIS77 4.1 0.0 1.0
CA F:CYS94 4.3 0.7 1.0
NE2 F:HIS77 4.4 0.2 1.0
C F:LEU96 4.4 0.7 1.0
CZ3 F:TRP101 4.5 0.6 1.0
CB F:LEU96 4.5 0.7 1.0
CD2 F:HIS77 4.5 0.1 1.0
N F:LEU96 4.6 0.9 1.0
CA F:CYS75 4.6 0.5 1.0
OD1 F:ASP97 4.7 0.0 1.0
C F:CYS94 4.7 0.5 1.0
C F:ASP97 4.7 0.7 1.0
CA F:LEU96 4.7 0.7 1.0
CE3 F:TRP101 4.8 0.8 1.0
C F:CYS75 4.9 0.6 1.0
O F:CYS94 4.9 0.5 1.0
N F:HIS77 4.9 1.0 1.0

Zinc binding site 6 out of 6 in 4a0c

Go back to Zinc Binding Sites List in 4a0c
Zinc binding site 6 out of 6 in the Structure of the CAND1-CUL4B-RBX1 Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of Structure of the CAND1-CUL4B-RBX1 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Zn4003

b:0.1
occ:1.00
 SG F:CYS68 2.5 0.9 1.0
SG F:CYS56 2.5 0.1 1.0
SG F:CYS53 2.7 0.9 1.0
CB F:CYS56 3.0 0.2 1.0
CD2 F:HIS82 3.1 0.3 1.0
CB F:CYS68 3.2 0.1 1.0
NE2 F:HIS82 3.5 0.6 1.0
CG F:HIS82 3.6 0.9 1.0
CA F:CYS68 3.9 0.1 1.0
N F:CYS53 4.0 0.1 1.0
CB F:CYS53 4.1 0.7 1.0
CE1 F:HIS82 4.2 0.6 1.0
ND1 F:HIS82 4.2 0.4 1.0
CB F:HIS82 4.2 0.4 1.0
CA F:CYS56 4.4 0.2 1.0
C F:LEU52 4.5 0.6 1.0
CA F:LEU52 4.5 0.2 1.0
CA F:CYS53 4.6 0.7 1.0
CD2 F:HIS80 4.7 0.2 1.0
O F:GLU55 4.7 0.1 1.0
N F:CYS56 4.9 0.2 1.0
N F:CYS68 4.9 0.2 1.0
C F:CYS68 5.0 0.0 1.0

Reference:

A.Scrima, E.S.Fischer, S.Iwai, H.Gut, N.H.Thoma. The Molecular Basis of CRL4(DDB2/Csa) Ubiquitin Ligase Architecture, Targeting, and Activation Cell(Cambridge,Mass.) V. 147 1024 2011.
ISSN: ISSN 0092-8674
PubMed: 22118460
DOI: 10.1016/J.CELL.2011.10.035
Page generated: Sat Oct 26 18:45:57 2024

Last articles

Zn in 9J0N
Zn in 9J0O
Zn in 9J0P
Zn in 9FJX
Zn in 9EKB
Zn in 9C0F
Zn in 9CAH
Zn in 9CH0
Zn in 9CH3
Zn in 9CH1
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy