Zinc in PDB 4auq: Structure of BIRC7-UBCH5B-Ub Complex.

All present enzymatic activity of Structure of BIRC7-UBCH5B-Ub Complex.:
6.3.2.19;

The structure of Structure of BIRC7-UBCH5B-Ub Complex., PDB code: 4auq was solved by H.Dou, L.Buetow, G.J.Sibbet, K.Cameron, D.T.Huang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	29.50 / 2.18
Space group	P 43 21 2
Cell size a, b, c (Å), α, β, γ (°)	100.640, 100.640, 123.899, 90.00, 90.00, 90.00
R / Rfree (%)	20.2 / 25

The binding sites of Zinc atom in the Structure of BIRC7-UBCH5B-Ub Complex. (pdb code 4auq). 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 BIRC7-UBCH5B-Ub Complex., PDB code: 4auq:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in the Structure of BIRC7-UBCH5B-Ub 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 BIRC7-UBCH5B-Ub Complex. within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn1299 b:32.3 occ:1.00 SG B:CYS272 2.3 27.8 1.0 SG B:CYS255 2.4 29.2 1.0 SG B:CYS275 2.4 30.3 1.0 SG B:CYS252 2.4 25.6 1.0 CB B:CYS252 3.1 22.9 1.0 CB B:CYS275 3.2 30.9 1.0 CB B:CYS255 3.3 29.5 1.0 CB B:CYS272 3.4 28.1 1.0 N B:CYS255 3.7 30.9 1.0 N B:CYS272 4.0 25.9 1.0 CA B:CYS255 4.1 25.6 1.0 N B:CYS275 4.2 33.8 1.0 NH2 B:ARG258 4.2 55.1 1.0 CA B:CYS272 4.2 26.7 1.0 CA B:CYS275 4.3 38.9 1.0 NE B:ARG258 4.3 66.2 1.0 CA B:CYS252 4.5 32.6 1.0 CB B:VAL254 4.6 24.6 1.0 CZ B:ARG258 4.7 63.0 1.0 C B:VAL254 4.8 31.9 1.0 C B:CYS272 4.8 32.4 1.0 O B:CYS272 4.8 32.5 1.0 O B:HOH2008 4.8 51.0 1.0 CB B:ARG258 4.8 32.4 1.0 C B:CYS252 4.9 28.6 1.0 C B:CYS255 5.0 31.0 1.0 N B:VAL254 5.0 25.1 1.0

Zinc binding site 2 out of 4 in the Structure of BIRC7-UBCH5B-Ub 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 BIRC7-UBCH5B-Ub Complex. within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn1300 b:38.7 occ:1.00 ND1 B:HIS269 1.9 28.9 1.0 SG B:CYS267 2.2 34.8 1.0 SG B:CYS285 2.4 41.8 1.0 SG B:CYS282 2.4 38.5 1.0 CE1 B:HIS269 2.9 37.2 1.0 CG B:HIS269 3.0 27.2 1.0 CB B:CYS267 3.1 35.7 1.0 CB B:CYS282 3.2 34.9 1.0 CB B:HIS269 3.3 30.4 1.0 CB B:CYS285 3.5 39.6 1.0 N B:CYS285 3.7 36.7 1.0 NE2 B:HIS269 4.0 36.6 1.0 CD2 B:HIS269 4.1 29.6 1.0 CA B:CYS285 4.1 47.6 1.0 N B:HIS269 4.3 34.4 1.0 CB B:ILE284 4.4 33.5 1.0 CA B:HIS269 4.4 34.6 1.0 CA B:CYS267 4.4 43.4 1.0 CA B:CYS282 4.6 38.2 1.0 C B:CYS267 4.6 36.0 1.0 C B:ILE284 4.7 40.6 1.0 CB B:ALA287 4.8 46.2 1.0 C B:CYS285 4.8 48.3 1.0 O B:CYS267 4.8 39.1 1.0 N B:ARG286 4.8 43.1 1.0 N B:ALA287 4.9 51.2 1.0 CA B:ILE284 4.9 32.3 1.0 N B:ILE284 5.0 35.9 1.0 C B:CYS282 5.0 43.9 1.0

Zinc binding site 3 out of 4 in the Structure of BIRC7-UBCH5B-Ub 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 BIRC7-UBCH5B-Ub Complex. within 5.0Å range: probe atom residue distance (Å) B Occ E:Zn1299 b:32.9 occ:1.00 SG E:CYS272 2.2 28.4 1.0 SG E:CYS255 2.4 33.0 1.0 SG E:CYS252 2.4 30.9 1.0 SG E:CYS275 2.4 34.2 1.0 CB E:CYS252 3.1 32.7 1.0 CB E:CYS275 3.2 31.0 1.0 CB E:CYS255 3.3 27.3 1.0 CB E:CYS272 3.3 28.7 1.0 N E:CYS255 3.6 29.7 1.0 N E:CYS272 4.0 30.6 1.0 CA E:CYS255 4.0 26.7 1.0 O E:HOH2008 4.2 45.5 1.0 CA E:CYS272 4.2 30.3 1.0 N E:CYS275 4.2 36.1 1.0 CA E:CYS275 4.3 35.6 1.0 CB E:VAL254 4.5 30.5 1.0 CA E:CYS252 4.6 37.3 1.0 O E:HOH2021 4.6 38.7 1.0 C E:VAL254 4.7 35.0 1.0 O E:CYS272 4.7 29.3 1.0 C E:CYS272 4.7 30.4 1.0 N E:VAL254 4.9 33.6 1.0 C E:CYS252 4.9 36.1 1.0 CA E:VAL254 4.9 35.8 1.0 CB E:ARG258 5.0 40.9 1.0 C E:CYS255 5.0 36.5 1.0 O E:CYS252 5.0 33.5 1.0

Zinc binding site 4 out of 4 in the Structure of BIRC7-UBCH5B-Ub 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 BIRC7-UBCH5B-Ub Complex. within 5.0Å range: probe atom residue distance (Å) B Occ E:Zn1300 b:36.5 occ:1.00 ND1 E:HIS269 1.9 36.5 1.0 SG E:CYS285 2.3 39.9 1.0 SG E:CYS267 2.4 37.3 1.0 SG E:CYS282 2.4 35.4 1.0 CE1 E:HIS269 2.8 40.6 1.0 CG E:HIS269 3.0 38.6 1.0 CB E:CYS282 3.1 29.1 1.0 CB E:CYS267 3.1 31.3 1.0 CB E:CYS285 3.4 31.9 1.0 CB E:HIS269 3.5 35.8 1.0 N E:CYS285 3.6 34.7 1.0 NE2 E:HIS269 4.0 43.6 1.0 CA E:CYS285 4.1 38.6 1.0 CD2 E:HIS269 4.1 36.9 1.0 CB E:ILE284 4.3 38.6 1.0 N E:HIS269 4.3 31.8 1.0 CA E:CYS267 4.5 38.5 1.0 CA E:HIS269 4.5 34.0 1.0 CA E:CYS282 4.5 33.1 1.0 CB E:ALA287 4.6 41.2 1.0 C E:CYS267 4.7 38.1 1.0 C E:ILE284 4.7 37.2 1.0 C E:CYS285 4.8 36.3 1.0 O E:HOH2025 4.8 51.2 1.0 N E:ARG286 4.9 36.0 1.0 CG2 E:ILE284 4.9 33.3 1.0 CA E:ILE284 4.9 35.4 1.0 O E:CYS267 4.9 36.1 1.0

H.Dou, L.Buetow, G.J.Sibbet, K.Cameron, D.T.Huang. BIRC7-E2 Ubiquitin Conjugate Structure Reveals the Mechanism of Ubiquitin Transfer By A Ring Dimer. Nat.Struct.Mol.Biol. V. 19 876 2012.
ISSN: ISSN 1545-9993
PubMed: 22902369
DOI: 10.1038/NSMB.2379