Sodium in PDB 7fcn: Crystal Strcture of Pira Insecticidal Protein From Photorhabdus Akhurstii

The structure of Crystal Strcture of Pira Insecticidal Protein From Photorhabdus Akhurstii, PDB code: 7fcn was solved by A.Prashar, A.Kumar, O.Kinkar, R.S.Hire, R.D.Makde, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	37.56 / 1.60
Space group	P 41 2 2
Cell size a, b, c (Å), α, β, γ (°)	118.775, 118.775, 53.873, 90, 90, 90
R / Rfree (%)	16.6 / 19.4

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 23;

Binding sites:

The binding sites of Sodium atom in the Crystal Strcture of Pira Insecticidal Protein From Photorhabdus Akhurstii (pdb code 7fcn). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 23 binding sites of Sodium where determined in the Crystal Strcture of Pira Insecticidal Protein From Photorhabdus Akhurstii, PDB code: 7fcn:
Jump to Sodium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Sodium binding site 1 out of 23 in the Crystal Strcture of Pira Insecticidal Protein From Photorhabdus Akhurstii


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Crystal Strcture of Pira Insecticidal Protein From Photorhabdus Akhurstii within 5.0Å range: probe atom residue distance (Å) B Occ A:Na202 b:19.6 occ:0.84 O A:THR90 2.4 21.7 1.0 C5 A:PG6201 2.7 17.4 0.5 C7 A:PG6201 2.8 13.3 0.5 O A:HOH301 2.8 32.3 0.8 C3 A:PG6201 3.0 26.0 0.5 C9 A:PG6201 3.3 21.0 0.5 C11 A:PG6201 3.3 23.1 0.5 C A:THR90 3.5 20.8 1.0 O3 A:PG6201 3.6 30.1 0.5 C8 A:PG6201 3.6 18.8 0.5 C2 A:PG6201 3.6 24.7 0.5 O5 A:PG6201 3.6 27.8 0.5 O4 A:PG6201 3.7 27.5 0.5 C4 A:PG6201 3.7 31.1 0.5 C6 A:PG6201 3.7 19.6 0.5 O2 A:PG6201 3.8 26.1 0.5 CA A:SER91 3.9 19.6 1.0 N A:SER91 4.0 21.2 1.0 C10 A:PG6201 4.1 22.6 0.5 N A:THR90 4.5 21.1 1.0 O6 A:PG6201 4.5 35.1 0.5 CA A:THR90 4.6 21.9 1.0 O A:SER88 4.7 35.5 1.0 CB A:SER91 4.7 23.2 1.0 O1 A:PG6201 4.9 29.4 0.5 C A:SER91 4.9 22.7 1.0

Sodium binding site 2 out of 23 in the Crystal Strcture of Pira Insecticidal Protein From Photorhabdus Akhurstii


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Crystal Strcture of Pira Insecticidal Protein From Photorhabdus Akhurstii within 5.0Å range: probe atom residue distance (Å) B Occ A:Na203 b:34.6 occ:1.00 O A:SER96 2.4 21.4 1.0 OG B:SER113 2.5 18.7 1.0 O A:ASN110 2.8 18.0 1.0 CB B:SER113 3.2 14.1 1.0 CA A:VAL111 3.4 15.6 1.0 CD A:PRO112 3.5 16.7 1.0 C A:SER96 3.5 24.5 1.0 CA A:GLY97 3.5 22.9 1.0 C A:ASN110 3.7 18.6 1.0 C A:VAL111 3.9 15.3 1.0 CB A:PHE83 3.9 11.4 1.0 N A:PRO112 3.9 15.3 1.0 CG A:PRO112 3.9 13.9 1.0 N A:GLY97 3.9 20.0 1.0 N A:VAL111 4.0 14.9 1.0 CD2 A:PHE83 4.2 14.2 1.0 CG A:PHE83 4.2 15.2 1.0 C A:GLY97 4.4 19.3 1.0 CB A:VAL111 4.4 15.5 1.0 CG1 A:VAL111 4.6 16.6 1.0 CA B:SER113 4.6 13.7 1.0 O A:GLY97 4.7 18.3 1.0 CD1 A:LEU109 4.7 20.4 1.0 CA A:SER96 4.8 16.2 1.0 O A:VAL111 4.8 15.8 1.0 CB A:SER96 4.8 20.3 1.0 CA A:PRO112 4.9 14.3 1.0

Sodium binding site 3 out of 23 in the Crystal Strcture of Pira Insecticidal Protein From Photorhabdus Akhurstii


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 3 of Crystal Strcture of Pira Insecticidal Protein From Photorhabdus Akhurstii within 5.0Å range: probe atom residue distance (Å) B Occ A:Na204 b:27.7 occ:0.39 O A:HOH386 2.4 37.9 0.5 O A:HOH312 2.7 27.6 1.0 O A:HOH340 3.9 27.3 0.8 O A:HIS48 4.1 20.2 1.0 O A:HOH359 4.6 19.7 1.0

Sodium binding site 4 out of 23 in the Crystal Strcture of Pira Insecticidal Protein From Photorhabdus Akhurstii


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 4 of Crystal Strcture of Pira Insecticidal Protein From Photorhabdus Akhurstii within 5.0Å range: probe atom residue distance (Å) B Occ B:Na205 b:18.6 occ:1.00 O B:HOH337 2.8 28.5 0.8 CD1 B:ILE56 2.9 39.3 1.0 O D:HOH313 3.0 28.5 1.0 N B:LYS66 3.1 14.9 1.0 O B:HOH349 3.2 15.0 1.0 CG B:LYS66 3.5 22.7 1.0 CB B:LYS66 3.8 16.0 1.0 CA B:ARG65 3.8 13.6 1.0 CD B:ARG65 3.8 15.2 1.0 CD B:LYS66 3.9 33.8 1.0 C B:ARG65 4.0 15.8 1.0 CA B:LYS66 4.0 16.5 1.0 CD1 B:LEU137 4.2 19.6 1.0 CG1 B:ILE56 4.3 25.5 1.0 CB B:ARG65 4.3 14.0 1.0 O D:HOH382 4.5 34.7 1.0 CG2 B:ILE56 4.5 16.4 1.0 O B:SER64 4.6 18.3 1.0 CG B:ARG65 4.7 15.9 1.0 O B:LYS66 4.7 16.2 1.0 CB B:ILE56 4.8 14.2 1.0 NE B:ARG65 4.9 14.9 1.0 C B:LYS66 4.9 14.1 1.0 O B:HOH336 4.9 23.4 0.6

Sodium binding site 5 out of 23 in the Crystal Strcture of Pira Insecticidal Protein From Photorhabdus Akhurstii


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 5 of Crystal Strcture of Pira Insecticidal Protein From Photorhabdus Akhurstii within 5.0Å range: probe atom residue distance (Å) B Occ B:Na206 b:19.7 occ:1.00 O C:HOH344 2.4 23.8 0.9 OG B:SER50 2.4 17.4 1.0 O B:SER50 2.4 16.1 1.0 C B:SER50 3.1 15.1 1.0 CB B:SER50 3.5 13.9 1.0 CA B:SER50 3.6 13.4 1.0 N B:SER50 3.6 15.0 1.0 O C:HIS48 4.0 17.5 1.0 N B:VAL51 4.1 14.4 1.0 CA B:VAL51 4.6 16.4 1.0 CB C:HIS48 4.6 16.6 1.0 O C:HOH392 4.6 31.5 0.8 C B:ALA49 4.8 14.8 1.0 O B:HOH381 4.9 19.4 0.9 O B:HOH390 5.0 39.7 0.9

Sodium binding site 6 out of 23 in the Crystal Strcture of Pira Insecticidal Protein From Photorhabdus Akhurstii


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 6 of Crystal Strcture of Pira Insecticidal Protein From Photorhabdus Akhurstii within 5.0Å range: probe atom residue distance (Å) B Occ B:Na207 b:32.0 occ:1.00 O B:HOH389 2.4 45.8 1.0 O B:THR90 2.4 30.5 1.0 O B:HIS87 2.5 24.0 1.0 OG B:SER86 2.7 22.2 1.0 C B:HIS87 3.5 25.3 1.0 CB B:SER86 3.6 17.1 1.0 C B:THR90 3.6 24.0 1.0 N B:HIS87 3.8 20.6 1.0 CA B:HIS87 4.3 22.9 1.0 N B:SER88 4.3 27.5 1.0 CA B:SER88 4.3 33.2 1.0 CG2 B:THR90 4.4 26.2 1.0 CA B:SER91 4.4 35.1 1.0 N B:SER91 4.5 32.8 1.0 N B:THR90 4.5 26.3 1.0 C B:SER86 4.6 20.7 1.0 O B:GLU92 4.6 24.8 1.0 CA B:THR90 4.6 26.3 1.0 CA B:SER86 4.7 16.8 1.0 C B:SER91 4.7 35.5 1.0 C B:SER88 4.7 41.4 1.0 O B:SER91 4.9 38.4 1.0

Sodium binding site 7 out of 23 in the Crystal Strcture of Pira Insecticidal Protein From Photorhabdus Akhurstii


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 7 of Crystal Strcture of Pira Insecticidal Protein From Photorhabdus Akhurstii within 5.0Å range: probe atom residue distance (Å) B Occ B:Na208 b:27.2 occ:1.00 O B:HOH397 2.6 29.5 0.8 OG1 B:THR80 2.7 16.2 1.0 O B:HOH340 2.8 15.1 1.0 OG B:SER78 2.9 18.4 1.0 C B:VAL79 3.2 13.4 1.0 O B:VAL79 3.4 15.9 1.0 CB B:SER78 3.4 17.5 1.0 O C:HOH335 3.4 26.0 1.0 N B:THR80 3.5 13.0 1.0 CA B:VAL79 3.6 13.9 1.0 N B:VAL79 3.6 14.5 1.0 C B:SER78 3.6 16.8 1.0 CB B:THR80 3.9 13.2 1.0 O B:SER78 3.9 18.2 1.0 CA B:THR80 4.1 12.6 1.0 OD1 B:ASP100 4.1 18.1 1.0 CA B:SER78 4.2 16.5 1.0 CG B:ASP100 4.3 20.8 1.0 O B:HOH373 4.3 22.7 0.8 O B:HOH377 4.5 27.4 0.5 CB B:ASP100 4.5 15.8 1.0 O B:TYR124 4.8 15.3 1.0 OD2 B:ASP100 4.8 27.6 1.0 CA B:ASP100 4.9 13.2 1.0

Sodium binding site 8 out of 23 in the Crystal Strcture of Pira Insecticidal Protein From Photorhabdus Akhurstii


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 8 of Crystal Strcture of Pira Insecticidal Protein From Photorhabdus Akhurstii within 5.0Å range: probe atom residue distance (Å) B Occ B:Na209 b:26.4 occ:1.00 C1 B:EDO214 2.8 38.6 0.5 C2 B:EDO215 2.9 41.7 1.0 O B:HOH386 3.0 51.8 1.0 O1 B:EDO215 3.0 50.9 1.0 O B:HOH354 3.0 30.3 0.8 O1 B:EDO214 3.2 37.3 0.5 O1 B:EDO214 3.2 34.3 0.5 O2 B:EDO217 3.3 62.2 1.0 C2 B:EDO214 3.4 34.1 0.5 O1 B:EDO217 3.5 46.4 1.0 C1 B:EDO215 3.5 34.0 1.0 C2 B:EDO214 3.5 37.8 0.5 O2 B:EDO214 3.5 31.1 0.5 C1 B:EDO214 3.6 33.1 0.5 O2 B:EDO215 3.7 46.2 1.0 C1 B:EDO217 4.0 49.4 1.0 C2 B:EDO217 4.2 54.0 1.0 O2 B:EDO214 4.3 31.2 0.5

Sodium binding site 9 out of 23 in the Crystal Strcture of Pira Insecticidal Protein From Photorhabdus Akhurstii


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 9 of Crystal Strcture of Pira Insecticidal Protein From Photorhabdus Akhurstii within 5.0Å range: probe atom residue distance (Å) B Occ B:Na210 b:27.6 occ:0.51 NA B:NA210 0.0 27.6 0.5 NA B:NA210 1.8 26.7 0.5 O3 B:PG4203 2.4 46.0 1.0 O4 B:PG4203 2.5 41.6 1.0 O2 B:PG4203 2.8 38.7 1.0 O5 B:PG4203 3.1 56.2 1.0 O1 B:PG4203 3.1 61.8 1.0 C6 B:PG4203 3.3 33.9 1.0 C5 B:PG4203 3.4 39.7 1.0 C3 B:PEG201 3.5 33.3 1.0 C4 B:PG4203 3.5 43.9 1.0 C3 B:PG4203 3.6 28.1 1.0 C7 B:PG4203 3.6 46.9 1.0 C8 B:PG4203 3.7 58.0 1.0 O4 B:PEG201 3.7 50.1 1.0 C1 B:PEG201 3.9 34.9 1.0 C2 B:PG4203 3.9 35.8 1.0 C1 B:PG4203 4.0 48.6 1.0 O B:HOH370 4.0 55.2 1.0 C2 B:PEG201 4.1 38.5 1.0 C4 B:PEG201 4.1 45.7 1.0 O2 B:PEG201 4.3 40.6 1.0 O1 B:PEG201 4.7 55.1 1.0

Sodium binding site 10 out of 23 in the Crystal Strcture of Pira Insecticidal Protein From Photorhabdus Akhurstii


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 10 of Crystal Strcture of Pira Insecticidal Protein From Photorhabdus Akhurstii within 5.0Å range: probe atom residue distance (Å) B Occ B:Na210 b:26.7 occ:0.49 NA B:NA210 0.0 26.7 0.5 NA B:NA210 1.8 27.6 0.5 C1 B:PEG201 2.7 34.9 1.0 C3 B:PEG201 2.7 33.3 1.0 O4 B:PEG201 3.0 50.1 1.0 O5 B:PG4203 3.0 56.2 1.0 O4 B:PG4203 3.1 41.6 1.0 C4 B:PEG201 3.2 45.7 1.0 C2 B:PEG201 3.3 38.5 1.0 O2 B:PEG201 3.3 40.6 1.0 C8 B:PG4203 3.4 58.0 1.0 O3 B:PG4203 3.5 46.0 1.0 C6 B:PG4203 3.6 33.9 1.0 O1 B:PEG201 3.8 55.1 1.0 C7 B:PG4203 3.8 46.9 1.0 OE2 B:GLU42 4.1 67.6 1.0 C5 B:PG4203 4.1 39.7 1.0 O B:HOH370 4.2 55.2 1.0 O2 B:PG4203 4.2 38.7 1.0 O1 B:PG4203 4.3 61.8 1.0 CD B:GLU42 4.6 60.4 1.0 C4 B:PG4203 4.7 43.9 1.0 C3 B:PG4203 4.8 28.1 1.0 CG B:GLU42 4.9 42.0 1.0

A.Prashar, A.Kumar, O.Kinkar, R.S.Hire, R.D.Makde. Crystal Strcture of Pira Insecticidal Protein From Photorhabdus Akhurstii To Be Published.