Zinc in PDB 2obo: Structure of Hepatitis C Viral NS3 Protease Domain Complexed with NS4A Peptide and Ketoamide SCH476776

The structure of Structure of Hepatitis C Viral NS3 Protease Domain Complexed with NS4A Peptide and Ketoamide SCH476776, PDB code: 2obo was solved by A.J.Prongay, Z.Guo, N.Yao, T.Fischmann, C.Strickland, J.Myers Jr., P.C.Weber, B.Malcolm, B.M.Beyer, R.Ingram, J.Pichardo, Z.Hong, W.W.Prosise, L.Ramanathan, S.S.Taremi, T.Yarosh-Tomaine, R.Zhang, M.Senior, R.Yang, A.Arasappan, F.Bennett, S.F.Bogen, K.Chen, E.Jao, Y.Liu, R.G.Love, A.K.Saksena, S.Venkatraman, V.Girijavallabhan, F.G.Njoroge, V.Madison, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	8.00 / 2.60
Space group	H 3 2
Cell size a, b, c (Å), α, β, γ (°)	224.271, 224.271, 75.205, 90.00, 90.00, 120.00
R / Rfree (%)	17.8 / 29.5

The binding sites of Zinc atom in the Structure of Hepatitis C Viral NS3 Protease Domain Complexed with NS4A Peptide and Ketoamide SCH476776 (pdb code 2obo). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Structure of Hepatitis C Viral NS3 Protease Domain Complexed with NS4A Peptide and Ketoamide SCH476776, PDB code: 2obo:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Structure of Hepatitis C Viral NS3 Protease Domain Complexed with NS4A Peptide and Ketoamide SCH476776


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Structure of Hepatitis C Viral NS3 Protease Domain Complexed with NS4A Peptide and Ketoamide SCH476776 within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn901 b:42.3 occ:1.00 O A:HOH1000 1.5 9.9 1.0 SG A:CYS97 1.9 26.7 1.0 SG A:CYS145 2.3 35.7 1.0 SG A:CYS99 2.5 32.7 1.0 CB A:CYS97 3.3 33.1 1.0 CB A:CYS145 3.4 35.4 1.0 N A:THR98 3.5 44.3 1.0 CB A:CYS99 3.6 31.1 1.0 CA A:CYS97 3.6 35.5 1.0 N A:CYS99 3.9 38.8 1.0 C A:CYS97 4.0 42.3 1.0 O A:HOH1048 4.0 21.8 1.0 C A:THR98 4.2 44.5 1.0 CA A:CYS99 4.3 35.4 1.0 CB A:HIS149 4.5 29.9 1.0 CA A:THR98 4.5 45.6 1.0 CB A:ALA147 4.5 23.4 1.0 OG A:SER101 4.5 54.1 1.0 O A:THR98 4.6 48.5 1.0 CG A:HIS149 4.8 27.6 1.0 CA A:CYS145 4.8 32.8 1.0 C A:CYS99 4.9 37.1 1.0 CD2 A:HIS149 5.0 27.0 1.0

Zinc binding site 2 out of 2 in the Structure of Hepatitis C Viral NS3 Protease Domain Complexed with NS4A Peptide and Ketoamide SCH476776


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Structure of Hepatitis C Viral NS3 Protease Domain Complexed with NS4A Peptide and Ketoamide SCH476776 within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn201 b:32.0 occ:1.00 O C:HOH301 1.9 3.6 1.0 SG C:CYS145 2.1 22.9 1.0 SG C:CYS97 2.1 23.3 1.0 SG C:CYS99 2.2 32.4 1.0 CB C:CYS99 3.3 36.9 1.0 CB C:CYS145 3.4 14.9 1.0 CB C:CYS97 3.5 30.0 1.0 N C:CYS99 3.7 38.4 1.0 CA C:CYS97 3.9 32.5 1.0 N C:THR98 3.9 39.0 1.0 CA C:CYS99 4.0 37.0 1.0 CB C:ALA147 4.1 15.8 1.0 CB C:HIS149 4.2 24.5 1.0 C C:CYS97 4.4 36.0 1.0 N C:GLY100 4.6 33.2 1.0 CG C:HIS149 4.6 26.5 1.0 ND1 C:HIS149 4.7 17.7 1.0 C C:THR98 4.7 38.9 1.0 C C:CYS99 4.7 38.3 1.0 CG A:PRO115 4.8 34.3 1.0 CA C:CYS145 4.8 15.5 1.0 N C:ALA147 4.8 24.2 1.0 CA C:THR98 4.9 39.1 1.0 CB A:PRO115 5.0 35.9 1.0 CE1 A:TYR105 5.0 43.2 1.0

A.J.Prongay, Z.Guo, N.Yao, J.Pichardo, T.Fischmann, C.Strickland, J.Myers Jr., P.C.Weber, B.M.Beyer, R.Ingram, Z.Hong, W.W.Prosise, L.Ramanathan, S.S.Taremi, T.Yarosh-Tomaine, R.Zhang, M.Senior, R.S.Yang, B.Malcolm, A.Arasappan, F.Bennett, S.L.Bogen, K.Chen, E.Jao, Y.T.Liu, R.G.Lovey, A.K.Saksena, S.Venkatraman, V.Girijavallabhan, F.G.Njoroge, V.Madison. Discovery of the Hcv NS3/4A Protease Inhibitor (1R,5S)-N-[3-Amino-1-(Cyclobutylmethyl)-2,3-Dioxopropyl]-3- [2(S)-[[[(1,1-Dimethylethyl)Amino]Carbonyl]Amino]-3,3- Dimethyl-1-Oxobutyl]- 6,6-Dimethyl-3-Azabicyclo[3.1.0]Hexan-2(S)-Carboxamide (Sch 503034) II. Key Steps in Structure-Based Optimization. J.Med.Chem. V. 50 2310 2007.
ISSN: ISSN 0022-2623
PubMed: 17444623
DOI: 10.1021/JM060173K