Sodium in PDB 7mrp: Microed Structure of Lysozyme From Milled Crystals at 1.75A

All present enzymatic activity of Microed Structure of Lysozyme From Milled Crystals at 1.75A:
3.2.1.17;

The structure of Microed Structure of Lysozyme From Milled Crystals at 1.75A also contains other interesting chemical elements:

Chlorine

(Cl)

1 atom

The binding sites of Sodium atom in the Microed Structure of Lysozyme From Milled Crystals at 1.75A (pdb code 7mrp). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 4 binding sites of Sodium where determined in the Microed Structure of Lysozyme From Milled Crystals at 1.75A, PDB code: 7mrp:
Jump to Sodium binding site number: 1; 2; 3; 4;

Sodium binding site 1 out of 4 in the Microed Structure of Lysozyme From Milled Crystals at 1.75A


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Microed Structure of Lysozyme From Milled Crystals at 1.75A within 5.0Å range: probe atom residue distance (Å) B Occ A:Na201 b:31.7 occ:1.00 O A:SER60 2.2 23.8 1.0 O A:CYS64 2.4 23.4 1.0 O A:HOH352 2.6 28.9 1.0 O A:HOH366 2.7 29.3 1.0 CB A:SER72 2.8 39.1 1.0 OG A:SER72 2.8 38.5 1.0 C A:SER60 3.4 22.2 1.0 C A:CYS64 3.4 21.9 1.0 N A:ASN74 3.9 33.6 1.0 N A:ARG73 3.9 39.3 1.0 CA A:ASN65 3.9 22.6 1.0 CA A:SER72 4.0 39.4 1.0 C A:SER72 4.0 39.5 1.0 CA A:SER60 4.1 20.6 1.0 N A:ASN65 4.1 21.3 1.0 N A:CYS64 4.3 23.2 1.0 C A:ARG61 4.3 26.8 1.0 O A:ARG61 4.3 26.8 1.0 CB A:SER60 4.3 19.6 1.0 CA A:ASN74 4.4 30.0 1.0 N A:ARG61 4.4 23.9 1.0 CA A:CYS64 4.5 22.0 1.0 CB A:THR69 4.6 26.7 1.0 CA A:ARG61 4.6 27.1 1.0 CB A:ASN74 4.6 28.5 1.0 O A:SER72 4.6 39.9 1.0 C A:ARG73 4.6 39.8 1.0 O A:HOH367 4.7 21.6 1.0 N A:TRP62 4.7 27.0 1.0 N A:ASP66 4.7 20.5 1.0 CB A:ASN65 4.8 23.9 1.0 CA A:ARG73 4.8 40.0 1.0 N A:TRP63 4.9 24.9 1.0 C A:ASN65 4.9 22.0 1.0 O A:THR69 4.9 28.7 1.0 C A:TRP62 4.9 26.4 1.0 OD1 A:ASN65 5.0 27.8 1.0 CG2 A:THR69 5.0 26.5 1.0 N A:SER72 5.0 40.3 1.0

Sodium binding site 2 out of 4 in the Microed Structure of Lysozyme From Milled Crystals at 1.75A


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Microed Structure of Lysozyme From Milled Crystals at 1.75A within 5.0Å range: probe atom residue distance (Å) B Occ A:Na202 b:32.6 occ:1.00 ND2 A:ASN27 3.2 18.8 1.0 O A:HOH336 3.3 32.3 1.0 O A:HOH354 3.4 22.6 1.0 CG2 A:VAL120 3.6 24.6 1.0 O A:HOH349 3.6 28.1 1.0 OG A:SER24 4.0 21.5 1.0 CG A:ASN27 4.1 18.8 1.0 OD1 A:ASN27 4.2 18.2 1.0 O A:HOH353 4.4 35.2 1.0 O A:HOH374 4.5 27.9 1.0 CB A:VAL120 4.9 25.1 1.0

Sodium binding site 3 out of 4 in the Microed Structure of Lysozyme From Milled Crystals at 1.75A


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 3 of Microed Structure of Lysozyme From Milled Crystals at 1.75A within 5.0Å range: probe atom residue distance (Å) B Occ A:Na203 b:30.1 occ:1.00 O A:HOH301 2.2 24.7 1.0 O A:HOH371 2.9 34.4 1.0 N A:ILE88 3.3 24.4 1.0 CA A:ASP87 3.8 28.2 1.0 CG1 A:ILE88 3.8 21.6 1.0 OD1 A:ASP87 4.0 36.2 1.0 O A:SER86 4.0 29.8 1.0 C A:ASP87 4.0 26.2 1.0 CB A:ALA11 4.0 25.5 1.0 NH2 A:ARG14 4.0 36.5 1.0 CZ A:PHE3 4.0 26.3 1.0 NE2 A:HIS15 4.1 26.3 1.0 CB A:ILE88 4.3 21.1 1.0 CA A:ILE88 4.4 22.8 1.0 CG2 A:ILE88 4.4 21.6 1.0 CG A:ASP87 4.4 34.9 1.0 CE2 A:PHE3 4.5 25.9 1.0 CB A:ASP87 4.6 31.4 1.0 CD2 A:HIS15 4.7 24.3 1.0 N A:ASP87 4.8 26.4 1.0 O A:HOH358 4.8 30.7 1.0 CD1 A:ILE88 4.8 21.1 1.0 C A:SER86 4.8 27.8 1.0

Sodium binding site 4 out of 4 in the Microed Structure of Lysozyme From Milled Crystals at 1.75A


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 4 of Microed Structure of Lysozyme From Milled Crystals at 1.75A within 5.0Å range: probe atom residue distance (Å) B Occ A:Na204 b:30.1 occ:1.00 ND2 A:ASN113 3.2 24.3 1.0 CB A:ASN113 3.5 19.1 1.0 CA A:ALA110 3.8 21.2 1.0 CG A:ASN113 3.9 21.9 1.0 O A:VAL109 4.1 23.3 1.0 CD A:ARG114 4.2 20.0 1.0 N A:ALA110 4.2 20.7 1.0 CB A:ALA110 4.3 22.1 1.0 C A:VAL109 4.3 22.0 1.0 CG1 A:VAL109 4.3 30.2 1.0 CG A:ARG114 4.3 20.8 1.0 CA A:ASN113 4.8 18.9 1.0 C A:ALA110 4.8 21.0 1.0 O A:ALA110 4.9 22.8 1.0

M.W.Martynowycz, T.Gonen. Preparing Crystalline Lamellae By Focused Ion-Beam Milling For Microcrystal Electron Diffraction (Microed) Experiments To Be Published.