Manganese in PDB 5c5u: The Crystal Structure of Viral Collagen Prolyl Hydroxylase Vcph From Paramecium Bursaria Chlorella Virus-1 - Truncated Construct

The structure of The Crystal Structure of Viral Collagen Prolyl Hydroxylase Vcph From Paramecium Bursaria Chlorella Virus-1 - Truncated Construct, PDB code: 5c5u was solved by J.E.Longbotham, C.W.Levy, L.O.Johannisen, H.Tarhonskaya, S.Jiang, C.Loenarz, E.Flashman, S.Hay, C.J.Schofiled, N.S.Scrutton, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	28.40 / 1.70
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	33.770, 157.670, 41.010, 90.00, 90.02, 90.00
R / Rfree (%)	15.6 / 20.2

The binding sites of Manganese atom in the The Crystal Structure of Viral Collagen Prolyl Hydroxylase Vcph From Paramecium Bursaria Chlorella Virus-1 - Truncated Construct (pdb code 5c5u). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 2 binding sites of Manganese where determined in the The Crystal Structure of Viral Collagen Prolyl Hydroxylase Vcph From Paramecium Bursaria Chlorella Virus-1 - Truncated Construct, PDB code: 5c5u:
Jump to Manganese binding site number: 1; 2;

Manganese binding site 1 out of 2 in the The Crystal Structure of Viral Collagen Prolyl Hydroxylase Vcph From Paramecium Bursaria Chlorella Virus-1 - Truncated Construct


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of The Crystal Structure of Viral Collagen Prolyl Hydroxylase Vcph From Paramecium Bursaria Chlorella Virus-1 - Truncated Construct within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn301 b:12.6 occ:1.00 OD2 A:ASP154 2.2 7.8 1.0 NE2 A:HIS221 2.2 5.6 1.0 O A:HOH447 2.3 16.1 1.0 NE2 A:HIS152 2.3 5.8 1.0 O A:HOH576 2.3 13.6 1.0 O A:HOH578 2.5 14.5 1.0 CE1 A:HIS221 3.1 5.8 1.0 CG A:ASP154 3.2 7.3 1.0 CE1 A:HIS152 3.2 6.0 1.0 CD2 A:HIS152 3.2 6.1 1.0 CD2 A:HIS221 3.3 5.6 1.0 OD1 A:ASP154 3.4 6.7 1.0 ND1 A:HIS221 4.2 5.9 1.0 ND1 A:HIS152 4.3 6.3 1.0 CG A:HIS221 4.3 5.8 1.0 CG A:HIS152 4.4 6.4 1.0 UNK A:UNX305 4.5 30.0 1.0 UNK A:UNX307 4.5 30.0 1.0 CB A:ASP154 4.6 7.8 1.0 O A:HOH409 4.7 24.9 1.0 CA A:ASP154 4.9 8.7 1.0 CZ2 A:TRP237 4.9 7.5 1.0 O A:HOH434 4.9 38.4 1.0

Manganese binding site 2 out of 2 in the The Crystal Structure of Viral Collagen Prolyl Hydroxylase Vcph From Paramecium Bursaria Chlorella Virus-1 - Truncated Construct


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 2 of The Crystal Structure of Viral Collagen Prolyl Hydroxylase Vcph From Paramecium Bursaria Chlorella Virus-1 - Truncated Construct within 5.0Å range: probe atom residue distance (Å) B Occ B:Mn307 b:11.5 occ:1.00 O B:HOH535 2.2 18.5 1.0 OD1 B:ASP154 2.2 7.2 1.0 O B:HOH476 2.2 15.4 1.0 NE2 B:HIS221 2.3 6.7 1.0 NE2 B:HIS152 2.3 5.7 1.0 O B:HOH585 2.6 20.1 1.0 CG B:ASP154 3.2 7.0 1.0 CE1 B:HIS221 3.2 7.2 1.0 CE1 B:HIS152 3.2 5.8 1.0 CD2 B:HIS221 3.3 6.7 1.0 CD2 B:HIS152 3.3 6.0 1.0 OD2 B:ASP154 3.4 6.3 1.0 ND1 B:HIS221 4.3 7.5 1.0 ND1 B:HIS152 4.3 6.2 1.0 CG B:HIS221 4.4 7.1 1.0 UNK B:UNX302 4.4 30.0 1.0 CG B:HIS152 4.4 6.3 1.0 O B:HOH459 4.4 16.3 1.0 UNK B:UNX303 4.5 30.0 1.0 CB B:ASP154 4.5 7.7 1.0 CZ2 B:TRP237 4.8 6.4 1.0 CA B:ASP154 4.9 8.8 1.0

J.E.Longbotham, C.Levy, L.O.Johannissen, H.Tarhonskaya, S.Jiang, C.Loenarz, E.Flashman, S.Hay, C.J.Schofield, N.S.Scrutton. Structure and Mechanism of A Viral Collagen Prolyl Hydroxylase. Biochemistry V. 54 6093 2015.
ISSN: ISSN 0006-2960
PubMed: 26368022
DOI: 10.1021/ACS.BIOCHEM.5B00789