Sodium in PDB 1hf4: Structural Effects of Monovalent Anions on Polymorphic Lysozyme Crystals

All present enzymatic activity of Structural Effects of Monovalent Anions on Polymorphic Lysozyme Crystals:
3.2.1.17;

The structure of Structural Effects of Monovalent Anions on Polymorphic Lysozyme Crystals, PDB code: 1hf4 was solved by M.C.Vaney, I.Broutin, M.Ries-Kautt, A.Ducruix, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	6.00 / 1.45
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	27.940, 62.730, 60.250, 90.00, 90.76, 90.00
R / Rfree (%)	21.5 / 25.6

The binding sites of Sodium atom in the Structural Effects of Monovalent Anions on Polymorphic Lysozyme Crystals (pdb code 1hf4). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 3 binding sites of Sodium where determined in the Structural Effects of Monovalent Anions on Polymorphic Lysozyme Crystals, PDB code: 1hf4:
Jump to Sodium binding site number: 1; 2; 3;

Sodium binding site 1 out of 3 in the Structural Effects of Monovalent Anions on Polymorphic Lysozyme Crystals


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Structural Effects of Monovalent Anions on Polymorphic Lysozyme Crystals within 5.0Å range: probe atom residue distance (Å) B Occ A:Na150 b:29.9 occ:0.84 O A:HOH2065 2.3 28.8 1.0 O A:SER60 2.4 10.9 1.0 O A:ARG73 2.4 20.2 1.0 O A:CYS64 2.6 11.8 1.0 O A:HOH2058 2.7 13.8 1.0 CB A:SER72 2.8 22.4 1.0 OG A:SER72 2.9 24.6 1.0 C A:ARG73 3.3 19.7 1.0 N A:ARG73 3.5 21.3 1.0 C A:SER60 3.5 10.5 1.0 C A:SER72 3.5 21.9 1.0 C A:CYS64 3.5 10.3 1.0 CA A:SER72 3.7 22.5 1.0 O A:ARG61 3.9 16.1 1.0 CA A:ASN65 3.9 12.0 1.0 C A:ARG61 4.0 14.5 1.0 CA A:ARG73 4.1 21.4 1.0 O A:SER72 4.1 22.3 1.0 N A:ASN65 4.1 11.4 1.0 N A:ASN74 4.2 17.3 1.0 N A:TRP62 4.3 15.0 1.0 CA A:ARG61 4.4 14.0 1.0 N A:CYS64 4.4 10.3 1.0 N A:ARG61 4.4 11.8 1.0 CA A:SER60 4.4 9.9 1.0 CA A:ASN74 4.4 15.8 1.0 CA A:CYS64 4.6 10.6 1.0 O A:HOH2063 4.6 16.9 1.0 CB A:ASN65 4.6 13.2 1.0 ND2 A:ASN65 4.7 15.3 1.0 CA A:TRP62 4.8 15.5 1.0 C A:TRP62 4.8 14.4 1.0 CB A:ASN74 4.8 14.1 1.0 CB A:SER60 4.8 9.3 1.0 N A:TRP63 4.9 13.4 1.0 N A:ASP66 4.9 11.0 1.0 N A:SER72 5.0 22.0 1.0

Sodium binding site 2 out of 3 in the Structural Effects of Monovalent Anions on Polymorphic Lysozyme Crystals


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Structural Effects of Monovalent Anions on Polymorphic Lysozyme Crystals within 5.0Å range: probe atom residue distance (Å) B Occ B:Na150 b:20.2 occ:0.58 NA B:NA150 0.0 20.2 0.6 NA B:NA150 0.9 23.1 0.4 O B:ARG73 2.2 19.4 0.6 O B:SER60 2.2 12.7 1.0 O B:CYS64 2.4 10.2 1.0 O B:HOH2076 2.5 32.9 1.0 O B:HOH2072 2.6 14.7 1.0 O B:HOH2069 2.6 21.7 1.0 C B:ARG73 3.3 19.8 0.6 C B:SER60 3.4 12.4 1.0 C B:CYS64 3.5 9.8 1.0 N B:ASN74 3.6 16.2 0.4 N B:ARG73 3.6 24.1 0.4 N B:ARG73 3.7 24.4 0.6 O B:ARG61 4.0 14.9 1.0 CA B:ASN65 4.0 10.9 1.0 C B:ARG61 4.1 13.4 1.0 CA B:ARG73 4.1 21.8 0.6 N B:ASN65 4.1 9.8 1.0 N B:ASN74 4.3 16.8 0.6 CA B:SER60 4.3 11.5 1.0 N B:CYS64 4.3 7.8 1.0 CA B:ARG73 4.3 21.4 0.4 CA B:ASN74 4.3 14.1 0.4 N B:ARG61 4.4 13.2 1.0 CB B:ARG73 4.4 22.8 0.4 N B:TRP62 4.4 10.7 1.0 C B:ARG73 4.4 19.4 0.4 CA B:ARG61 4.4 14.0 1.0 O B:HOH2074 4.4 25.0 1.0 C B:SER72 4.4 26.2 0.6 CB B:THR69 4.5 20.6 1.0 CA B:ASN74 4.5 14.2 0.6 C B:SER72 4.5 26.2 0.4 CA B:SER72 4.5 28.6 0.4 CA B:CYS64 4.5 9.5 1.0 CA B:SER72 4.6 28.6 0.6 CB B:SER60 4.6 10.6 1.0 CB B:ARG73 4.7 23.5 0.6 CG2 B:THR69 4.8 20.4 1.0 CB B:ASN74 4.8 14.2 0.4 C B:TRP62 4.8 11.0 1.0 CB B:ASN74 4.8 14.2 0.6 CA B:TRP62 4.8 11.7 1.0 N B:ASP66 4.9 12.9 1.0 CB B:ASN65 4.9 12.4 1.0 N B:SER72 4.9 30.4 0.4 O B:THR69 5.0 21.7 1.0 N B:TRP63 5.0 9.7 1.0 N B:SER72 5.0 30.4 0.6

Sodium binding site 3 out of 3 in the Structural Effects of Monovalent Anions on Polymorphic Lysozyme Crystals


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 3 of Structural Effects of Monovalent Anions on Polymorphic Lysozyme Crystals within 5.0Å range: probe atom residue distance (Å) B Occ B:Na150 b:23.1 occ:0.40 NA B:NA150 0.0 23.1 0.4 NA B:NA150 0.9 20.2 0.6 O B:ARG73 1.3 19.4 0.6 C B:ARG73 2.5 19.8 0.6 O B:SER60 2.7 12.7 1.0 O B:CYS64 2.7 10.2 1.0 O B:HOH2076 2.8 32.9 1.0 N B:ASN74 2.8 16.2 0.4 O B:HOH2069 2.8 21.7 1.0 N B:ARG73 3.2 24.1 0.4 N B:ARG73 3.2 24.4 0.6 O B:HOH2072 3.4 14.7 1.0 CA B:ARG73 3.4 21.8 0.6 N B:ASN74 3.5 16.8 0.6 C B:CYS64 3.5 9.8 1.0 C B:ARG73 3.6 19.4 0.4 CA B:ARG73 3.6 21.4 0.4 CA B:ASN74 3.6 14.1 0.4 CB B:ARG73 3.7 22.8 0.4 O B:ARG61 3.7 14.9 1.0 CA B:ASN74 3.7 14.2 0.6 C B:SER60 3.8 12.4 1.0 C B:ARG61 3.9 13.4 1.0 CB B:ARG73 4.0 23.5 0.6 N B:CYS64 4.1 7.8 1.0 N B:TRP62 4.1 10.7 1.0 C B:SER72 4.1 26.2 0.6 C B:SER72 4.2 26.2 0.4 C B:TRP62 4.2 11.0 1.0 CB B:ASN74 4.2 14.2 0.4 N B:ASN65 4.3 9.8 1.0 CB B:ASN74 4.3 14.2 0.6 O B:TRP62 4.3 9.9 1.0 CA B:ASN65 4.3 10.9 1.0 CA B:TRP62 4.3 11.7 1.0 CA B:CYS64 4.4 9.5 1.0 CA B:SER72 4.5 28.6 0.4 N B:TRP63 4.5 9.7 1.0 CA B:SER72 4.5 28.6 0.6 CA B:ARG61 4.6 14.0 1.0 N B:ARG61 4.6 13.2 1.0 CA B:SER60 4.7 11.5 1.0 O B:ARG73 4.8 18.6 0.4 C B:TRP63 4.8 7.9 1.0 N B:SER72 4.9 30.4 0.4

M.C.Vaney, I.Broutin, P.Retailleau, A.Douangamath, S.Lafont, C.Hamiaux, T.Prange, A.Ducruix, M.Ries-Kautt. Structural Effects of Monovalent Anions on Polymorphic Lysozyme Crystals Acta Crystallogr.,Sect.D V. 57 929 2001.
ISSN: ISSN 0907-4449
PubMed: 11418760
DOI: 10.1107/S0907444901004504