Zinc in PDB 1pv8: Crystal Structure of A Low Activity F12L Mutant of Human Porphobilinogen Synthase

All present enzymatic activity of Crystal Structure of A Low Activity F12L Mutant of Human Porphobilinogen Synthase:
4.2.1.24;

The structure of Crystal Structure of A Low Activity F12L Mutant of Human Porphobilinogen Synthase, PDB code: 1pv8 was solved by S.Breinig, J.Kervinen, L.Stith, A.S.Wasson, R.Fairman, A.Wlodawer, A.Zdanov, E.K.Jaffe, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	45.00 / 2.20
Space group	P 63
Cell size a, b, c (Å), α, β, γ (°)	89.571, 89.571, 153.190, 90.00, 90.00, 120.00
R / Rfree (%)	19.9 / 28.4

The binding sites of Zinc atom in the Crystal Structure of A Low Activity F12L Mutant of Human Porphobilinogen Synthase (pdb code 1pv8). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Crystal Structure of A Low Activity F12L Mutant of Human Porphobilinogen Synthase, PDB code: 1pv8:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Crystal Structure of A Low Activity F12L Mutant of Human Porphobilinogen Synthase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure of A Low Activity F12L Mutant of Human Porphobilinogen Synthase within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn401 b:92.0 occ:0.50 CB A:CYS122 2.9 77.2 1.0 SG A:CYS122 3.1 82.2 1.0 OG A:SER168 3.4 38.0 1.0 SG A:CYS124 3.5 90.9 1.0 N A:ASP169 3.7 63.4 1.0 CA A:ASP169 3.9 69.0 1.0 N12 A:PB1350 3.9 88.7 1.0 CA A:CYS122 4.0 34.0 1.0 OD1 A:ASP169 4.1 79.6 1.0 CB A:ASP169 4.1 91.7 1.0 CB A:SER168 4.2 56.9 1.0 C A:SER168 4.3 92.0 1.0 C A:CYS122 4.5 91.9 1.0 O A:HOH662 4.5 48.5 1.0 CG A:ASP169 4.6 92.0 1.0 N A:CYS124 4.8 92.0 1.0 N A:LEU123 4.8 92.0 1.0 CA A:SER168 4.9 92.0 1.0 O A:SER168 5.0 74.3 1.0

Zinc binding site 2 out of 2 in the Crystal Structure of A Low Activity F12L Mutant of Human Porphobilinogen Synthase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystal Structure of A Low Activity F12L Mutant of Human Porphobilinogen Synthase within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn401 b:92.0 occ:0.50 O B:SER168 3.7 71.5 1.0 O B:HOH713 3.7 50.1 1.0 CB B:SER168 3.8 92.0 1.0 OG B:SER168 3.9 43.7 1.0 NZ B:LYS199 4.0 92.0 1.0 SG B:CYS122 4.2 86.8 1.0 CB B:CYS122 4.6 50.5 1.0 C B:SER168 4.7 92.0 1.0 CA B:SER168 4.9 92.0 1.0

S.Breinig, J.Kervinen, L.Stith, A.S.Wasson, R.Fairman, A.Wlodawer, A.Zdanov, E.K.Jaffe. Control of Tetrapyrrole Biosynthesis By Alternate Quaternary Forms of Porphobilinogen Synthase. Nat.Struct.Biol. V. 10 757 2003.
ISSN: ISSN 1072-8368
PubMed: 12897770
DOI: 10.1038/NSB963