Sodium in PDB 3qfh: 2.05 Angstrom Resolution Crystal Structure of Epidermin Leader Peptide Processing Serine Protease (Epip) From Staphylococcus Aureus.

The structure of 2.05 Angstrom Resolution Crystal Structure of Epidermin Leader Peptide Processing Serine Protease (Epip) From Staphylococcus Aureus., PDB code: 3qfh was solved by G.Minasov, A.Halavaty, L.Shuvalova, I.Dubrovska, J.Winsor, F.Bagnoli, F.Falugi, M.Bottomley, G.Grandi, W.F.Anderson, Center For Structuralgenomics Of Infectious Diseases (Csgid), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	29.69 / 2.05
Space group	P 1
Cell size a, b, c (Å), α, β, γ (°)	85.505, 94.696, 122.999, 89.98, 90.37, 116.79
R / Rfree (%)	17 / 21.6

The binding sites of Sodium atom in the 2.05 Angstrom Resolution Crystal Structure of Epidermin Leader Peptide Processing Serine Protease (Epip) From Staphylococcus Aureus. (pdb code 3qfh). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 3 binding sites of Sodium where determined in the 2.05 Angstrom Resolution Crystal Structure of Epidermin Leader Peptide Processing Serine Protease (Epip) From Staphylococcus Aureus., PDB code: 3qfh:
Jump to Sodium binding site number: 1; 2; 3;

Sodium binding site 1 out of 3 in the 2.05 Angstrom Resolution Crystal Structure of Epidermin Leader Peptide Processing Serine Protease (Epip) From Staphylococcus Aureus.


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of 2.05 Angstrom Resolution Crystal Structure of Epidermin Leader Peptide Processing Serine Protease (Epip) From Staphylococcus Aureus. within 5.0Å range: probe atom residue distance (Å) B Occ A:Na1 b:65.2 occ:1.00 O2 A:SO4460 2.8 63.4 0.8 NZ A:LYS409 3.5 33.9 1.0 CD A:LYS409 3.9 30.5 1.0 CE A:LYS409 3.9 35.6 1.0 CA A:PRO129 4.1 36.6 1.0 S A:SO4460 4.1 63.6 0.8 N A:LYS130 4.3 39.6 1.0 O3 A:SO4460 4.3 63.2 0.8 O A:HOH1537 4.3 50.3 1.0 O A:LEU128 4.5 35.1 1.0 C A:PRO129 4.7 37.7 1.0 N A:PRO129 4.9 34.4 1.0 CB A:PRO129 4.9 35.7 1.0 O4 A:SO4460 5.0 65.3 0.8

Sodium binding site 2 out of 3 in the 2.05 Angstrom Resolution Crystal Structure of Epidermin Leader Peptide Processing Serine Protease (Epip) From Staphylococcus Aureus.


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of 2.05 Angstrom Resolution Crystal Structure of Epidermin Leader Peptide Processing Serine Protease (Epip) From Staphylococcus Aureus. within 5.0Å range: probe atom residue distance (Å) B Occ D:Na2 b:61.0 occ:1.00 O3 D:SO4459 2.3 59.1 0.8 ND2 D:ASN39 2.8 52.5 1.0 N D:ALA41 3.4 37.7 1.0 OD1 D:ASN39 3.5 47.4 1.0 S D:SO4459 3.5 56.2 0.8 CG D:ASN39 3.5 45.7 1.0 O2 D:SO4459 3.6 54.9 0.8 CB D:ALA41 3.6 41.3 1.0 N D:THR40 3.9 37.0 1.0 O D:HOH1380 4.0 37.8 1.0 CB D:THR40 4.0 38.4 1.0 CA D:ALA41 4.1 38.2 1.0 O1 D:SO4459 4.2 56.6 0.8 CA D:THR40 4.3 36.9 1.0 C D:THR40 4.3 36.1 1.0 O4 D:SO4459 4.6 54.5 0.8 OG1 D:THR40 4.6 40.8 1.0 C D:ASN39 4.7 37.7 1.0 CB D:ASN39 4.8 40.6 1.0

Sodium binding site 3 out of 3 in the 2.05 Angstrom Resolution Crystal Structure of Epidermin Leader Peptide Processing Serine Protease (Epip) From Staphylococcus Aureus.


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 3 of 2.05 Angstrom Resolution Crystal Structure of Epidermin Leader Peptide Processing Serine Protease (Epip) From Staphylococcus Aureus. within 5.0Å range: probe atom residue distance (Å) B Occ H:Na3 b:59.2 occ:1.00 O4 H:SO4461 2.3 60.8 0.8 ND2 H:ASN39 3.0 51.2 1.0 N H:ALA41 3.2 39.3 1.0 O1 H:SO4461 3.2 60.8 0.8 S H:SO4461 3.2 59.1 0.8 OD1 H:ASN39 3.4 52.3 1.0 CG H:ASN39 3.5 47.3 1.0 N H:THR40 3.7 38.7 1.0 CB H:ALA41 3.7 40.9 1.0 CB H:THR40 3.8 40.0 1.0 O3 H:SO4461 3.9 56.9 0.8 CA H:THR40 4.0 38.1 1.0 CA H:ALA41 4.1 39.2 1.0 C H:THR40 4.1 37.7 1.0 O2 H:SO4461 4.5 59.9 0.8 C H:ASN39 4.5 38.8 1.0 OG1 H:THR40 4.6 41.1 1.0 CB H:ASN39 4.7 41.1 1.0 CG2 H:THR40 4.8 37.4 1.0 CA H:ASN39 4.9 39.5 1.0

G.Minasov, A.Halavaty, L.Shuvalova, I.Dubrovska, J.Winsor, F.Bagnoli, F.Falugi, M.Bottomley, G.Grandi, W.F.Anderson. 2.05 Angstrom Resolution Crystal Structure of Epidermin Leader Peptide Processing Serine Protease (Epip) From Staphylococcus Aureus. To Be Published.