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Zinc in PDB 4ccg: Structure of An E2-E3 Complex

Protein crystallography data

The structure of Structure of An E2-E3 Complex, PDB code: 4ccg was solved by C.Hodson, A.Purkiss, H.Walden, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 46.817 / 2.40
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 109.224, 109.224, 117.728, 90.00, 90.00, 90.00
R / Rfree (%) 21.24 / 24.76

Other elements in 4ccg:

The structure of Structure of An E2-E3 Complex also contains other interesting chemical elements:

Chlorine (Cl) 1 atom
Sodium (Na) 1 atom

Zinc Binding Sites:

The binding sites of Zinc atom in the Structure of An E2-E3 Complex (pdb code 4ccg). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the Structure of An E2-E3 Complex, PDB code: 4ccg:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in 4ccg

Go back to Zinc Binding Sites List in 4ccg
Zinc binding site 1 out of 4 in the Structure of An E2-E3 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 An E2-E3 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
X:Zn1374

b:38.7
occ:1.00
 ND1 X:HIS334 2.1 42.3 1.0
SG X:CYS337 2.3 44.4 1.0
SG X:CYS310 2.3 39.2 1.0
SG X:CYS307 2.3 36.1 1.0
CB X:CYS307 2.9 30.9 1.0
CE1 X:HIS334 3.0 45.4 1.0
CG X:HIS334 3.1 41.6 1.0
CB X:CYS310 3.3 43.1 1.0
CB X:CYS337 3.3 38.8 1.0
CB X:HIS334 3.4 34.7 1.0
N X:CYS310 3.8 34.2 1.0
N X:HIS334 4.1 38.9 1.0
CA X:CYS310 4.1 37.0 1.0
NE2 X:HIS334 4.2 44.1 1.0
CD2 X:HIS334 4.2 39.1 1.0
CD2 X:LEU315 4.3 48.7 1.0
CA X:HIS334 4.4 37.1 1.0
CA X:CYS307 4.4 30.5 1.0
CA X:CYS337 4.6 40.0 1.0
N X:CYS337 4.8 43.2 1.0
C X:ILE309 4.9 36.1 1.0
CB X:ILE309 4.9 33.0 1.0
C X:CYS307 4.9 34.0 1.0
O X:ALA312 4.9 42.9 1.0
C X:CYS310 4.9 33.7 1.0
CB X:LEU315 5.0 47.5 1.0

Zinc binding site 2 out of 4 in 4ccg

Go back to Zinc Binding Sites List in 4ccg
Zinc binding site 2 out of 4 in the Structure of An E2-E3 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 An E2-E3 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
X:Zn1375

b:48.9
occ:1.00
 SG X:CYS359 2.2 49.5 1.0
SG X:CYS324 2.3 55.9 1.0
SG X:CYS329 2.3 50.6 1.0
SG X:CYS362 2.3 46.0 1.0
CB X:CYS329 3.0 46.9 1.0
CB X:CYS359 3.1 40.3 1.0
CB X:CYS324 3.2 42.5 1.0
CB X:CYS362 3.3 38.3 1.0
N X:CYS362 3.7 48.9 1.0
CA X:CYS362 4.1 47.2 1.0
CA X:CYS329 4.5 50.4 1.0
CB X:TYR361 4.5 44.5 1.0
CB X:ASN326 4.5 52.9 1.0
N X:GLY330 4.5 45.6 1.0
CA X:CYS359 4.6 43.3 1.0
CA X:CYS324 4.6 46.8 1.0
N X:GLN331 4.8 44.8 1.0
C X:TYR361 4.8 52.3 1.0
CB X:GLN331 4.8 40.7 1.0
ND2 X:ASN326 4.9 59.8 1.0
O X:HOH2016 4.9 53.1 1.0
C X:CYS329 4.9 46.5 1.0
C X:CYS362 4.9 51.9 1.0
CA X:TYR361 5.0 47.0 1.0

Zinc binding site 3 out of 4 in 4ccg

Go back to Zinc Binding Sites List in 4ccg
Zinc binding site 3 out of 4 in the Structure of An E2-E3 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 An E2-E3 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
Y:Zn1372

b:63.4
occ:1.00
 ND1 Y:HIS334 2.0 64.4 1.0
SG Y:CYS337 2.3 67.7 1.0
SG Y:CYS310 2.3 62.4 1.0
SG Y:CYS307 2.4 63.1 1.0
CB Y:CYS307 2.8 64.1 1.0
CE1 Y:HIS334 3.0 63.8 1.0
CG Y:HIS334 3.0 63.3 1.0
CB Y:CYS310 3.3 55.6 1.0
CB Y:HIS334 3.4 59.6 1.0
CB Y:CYS337 3.4 71.2 1.0
N Y:CYS310 3.8 53.0 1.0
N Y:HIS334 4.0 65.0 1.0
CD2 Y:LEU315 4.1 72.2 1.0
NE2 Y:HIS334 4.1 65.7 1.0
CA Y:CYS310 4.1 52.5 1.0
CD2 Y:HIS334 4.2 64.1 1.0
CA Y:HIS334 4.3 62.9 1.0
CA Y:CYS307 4.3 61.5 1.0
CA Y:CYS337 4.7 72.0 1.0
O Y:ALA312 4.8 69.0 1.0
CB Y:ILE309 4.8 55.2 1.0
C Y:ILE309 4.9 55.3 1.0
C Y:CYS310 4.9 55.1 1.0
C Y:CYS307 4.9 59.6 1.0
N Y:CYS337 5.0 76.0 1.0
CB Y:LEU315 5.0 77.6 1.0

Zinc binding site 4 out of 4 in 4ccg

Go back to Zinc Binding Sites List in 4ccg
Zinc binding site 4 out of 4 in the Structure of An E2-E3 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 An E2-E3 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
Y:Zn1373

b:58.0
occ:1.00
 SG Y:CYS359 2.3 59.5 1.0
SG Y:CYS362 2.3 59.2 1.0
SG Y:CYS324 2.3 64.9 1.0
SG Y:CYS329 2.4 61.3 1.0
CB Y:CYS329 2.9 51.9 1.0
CB Y:CYS359 3.0 57.9 1.0
CB Y:CYS324 3.3 59.5 1.0
CB Y:CYS362 3.3 58.6 1.0
N Y:CYS362 3.7 60.1 1.0
CA Y:CYS362 4.1 58.9 1.0
CB Y:TYR361 4.4 53.0 1.0
CA Y:CYS329 4.4 54.1 1.0
N Y:GLY330 4.4 58.8 1.0
CB Y:ASN326 4.5 58.4 1.0
CA Y:CYS359 4.5 56.8 1.0
CA Y:CYS324 4.7 61.8 1.0
C Y:TYR361 4.7 55.8 1.0
N Y:GLN331 4.8 56.7 1.0
C Y:CYS329 4.9 60.5 1.0
ND2 Y:ASN326 4.9 57.9 1.0
CA Y:TYR361 4.9 56.6 1.0
C Y:CYS362 4.9 60.6 1.0
N Y:TYR361 4.9 58.0 1.0

Reference:

C.Hodson, A.Purkiss, J.A.Miles, H.Walden. Structure of the Human Fancl Ring-UBE2T Complex Reveals Determinants of Cognate E3-E2 Selection. Structure V. 22 337 2014.
ISSN: ISSN 0969-2126
PubMed: 24389026
DOI: 10.1016/J.STR.2013.12.004
Page generated: Sat Oct 26 20:45:33 2024

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