Sodium in PDB 3crn: Crystal Structure of Response Regulator Receiver Domain Protein (Chey- Like) From Methanospirillum Hungatei Jf-1

The structure of Crystal Structure of Response Regulator Receiver Domain Protein (Chey- Like) From Methanospirillum Hungatei Jf-1, PDB code: 3crn was solved by R.L.Hiner, R.Toro, Y.Patskovsky, J.Freeman, S.Chang, D.Smith, C.Groshong, S.R.Wasserman, J.M.Sauder, S.K.Burley, S.C.Almo, New York Sgx Researchcenter For Structural Genomics (Nysgxrc), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	19.88 / 1.58
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	51.930, 53.992, 92.681, 90.00, 90.00, 90.00
R / Rfree (%)	18.3 / 22.4

The binding sites of Sodium atom in the Crystal Structure of Response Regulator Receiver Domain Protein (Chey- Like) From Methanospirillum Hungatei Jf-1 (pdb code 3crn). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 4 binding sites of Sodium where determined in the Crystal Structure of Response Regulator Receiver Domain Protein (Chey- Like) From Methanospirillum Hungatei Jf-1, PDB code: 3crn:
Jump to Sodium binding site number: 1; 2; 3; 4;

Sodium binding site 1 out of 4 in the Crystal Structure of Response Regulator Receiver Domain Protein (Chey- Like) From Methanospirillum Hungatei Jf-1


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Crystal Structure of Response Regulator Receiver Domain Protein (Chey- Like) From Methanospirillum Hungatei Jf-1 within 5.0Å range: probe atom residue distance (Å) B Occ A:Na131 b:23.5 occ:1.00 OP1 A:PHD52 2.3 25.1 1.0 OD1 A:ASP9 2.3 26.9 1.0 O A:LYS54 2.3 27.1 1.0 OD2 A:PHD52 2.4 25.9 1.0 O A:HOH215 2.5 33.2 1.0 O A:HOH206 2.8 32.1 1.0 C A:LYS54 3.3 25.0 1.0 CG A:ASP9 3.3 29.9 1.0 CG A:PHD52 3.3 26.6 1.0 OD2 A:ASP9 3.6 33.3 1.0 P A:PHD52 3.6 25.4 1.0 OD1 A:PHD52 3.7 23.2 1.0 CB A:LYS54 4.0 28.0 1.0 OD1 A:ASP8 4.0 24.3 1.0 O A:HOH190 4.0 41.5 1.0 CA A:LYS54 4.1 23.9 1.0 N A:LEU55 4.2 19.2 1.0 CA A:LEU55 4.3 21.2 1.0 N A:LYS54 4.4 23.9 1.0 OP2 A:PHD52 4.5 22.4 1.0 N A:ASP9 4.6 18.2 1.0 CB A:PHD52 4.6 17.7 1.0 CB A:ASP9 4.7 22.2 1.0 OP3 A:PHD52 4.7 22.5 1.0 CD2 A:LEU55 4.9 20.2 1.0

Sodium binding site 2 out of 4 in the Crystal Structure of Response Regulator Receiver Domain Protein (Chey- Like) From Methanospirillum Hungatei Jf-1


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Crystal Structure of Response Regulator Receiver Domain Protein (Chey- Like) From Methanospirillum Hungatei Jf-1 within 5.0Å range: probe atom residue distance (Å) B Occ B:Na131 b:28.6 occ:1.00 OP1 B:PHD52 2.2 32.1 1.0 OD1 B:ASP9 2.3 32.9 1.0 O B:HOH170 2.4 32.4 1.0 O B:LYS54 2.4 35.1 1.0 OD2 B:PHD52 2.5 28.3 1.0 O B:HOH161 2.6 31.2 1.0 CG B:ASP9 3.3 35.3 1.0 C B:LYS54 3.4 29.7 1.0 CG B:PHD52 3.4 26.7 1.0 P B:PHD52 3.5 27.9 1.0 OD2 B:ASP9 3.6 36.7 1.0 OD1 B:PHD52 3.7 25.7 1.0 CB B:LYS54 4.1 29.5 1.0 O B:HOH171 4.1 50.9 1.0 CA B:LYS54 4.1 32.9 1.0 N B:LEU55 4.3 26.7 1.0 OD1 B:ASP8 4.3 31.2 1.0 CA B:LEU55 4.4 29.1 1.0 OP2 B:PHD52 4.4 26.4 1.0 N B:LYS54 4.4 27.5 1.0 OP3 B:PHD52 4.6 24.2 1.0 CB B:ASP9 4.7 23.0 1.0 CB B:PHD52 4.7 22.0 1.0 N B:ASP9 4.7 23.0 1.0 O B:HOH215 4.8 45.6 1.0 CD2 B:LEU55 4.9 26.2 1.0

Sodium binding site 3 out of 4 in the Crystal Structure of Response Regulator Receiver Domain Protein (Chey- Like) From Methanospirillum Hungatei Jf-1


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 3 of Crystal Structure of Response Regulator Receiver Domain Protein (Chey- Like) From Methanospirillum Hungatei Jf-1 within 5.0Å range: probe atom residue distance (Å) B Occ B:Na132 b:30.5 occ:1.00 O B:HOH169 2.2 37.1 1.0 O A:HOH202 2.3 30.8 1.0 O B:HOH198 2.3 37.9 1.0 O A:HOH222 2.4 33.2 1.0 O B:HOH165 2.6 36.0 1.0 O B:ALA96 2.7 19.0 1.0 O B:HOH212 2.9 39.0 1.0 O A:ALA96 3.8 18.9 1.0 C B:ALA96 3.8 18.3 1.0 CA B:ASP97 4.1 15.7 1.0 O B:HOH155 4.1 41.7 1.0 O A:HOH189 4.2 39.5 1.0 OD1 B:ASP97 4.4 23.7 1.0 N B:ASP97 4.4 16.6 1.0 O B:GLY95 4.4 20.3 1.0 O B:HOH188 4.4 46.2 1.0 C B:GLY95 4.5 21.2 1.0 O A:LEU92 4.7 21.1 1.0 N B:ALA96 4.7 19.4 1.0 O B:LEU92 4.8 17.4 1.0 O A:HOH221 4.8 39.0 1.0 C B:ASP97 4.9 17.8 1.0 CA B:ALA96 4.9 20.6 1.0 C A:ALA96 4.9 19.7 1.0 CG B:ASP97 4.9 27.4 1.0 O B:ASP97 5.0 20.4 1.0

Sodium binding site 4 out of 4 in the Crystal Structure of Response Regulator Receiver Domain Protein (Chey- Like) From Methanospirillum Hungatei Jf-1


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 4 of Crystal Structure of Response Regulator Receiver Domain Protein (Chey- Like) From Methanospirillum Hungatei Jf-1 within 5.0Å range: probe atom residue distance (Å) B Occ B:Na133 b:38.7 occ:1.00 O B:HOH201 2.3 40.1 1.0 O B:HOH192 2.4 33.7 1.0 O B:PRO72 2.5 27.0 1.0 O B:HOH180 2.6 39.4 1.0 O B:HOH178 2.6 23.5 1.0 O B:HOH186 2.8 49.0 1.0 O B:MSE74 3.6 23.1 1.0 C B:PRO72 3.7 23.1 1.0 OD1 B:ASP97 4.1 23.7 1.0 C B:GLY73 4.1 21.6 1.0 CA B:GLY73 4.2 21.7 1.0 O B:GLY73 4.2 22.8 1.0 OD2 B:ASP97 4.2 20.7 1.0 NZ B:LYS76 4.2 21.6 1.0 CE1 B:HIS68 4.3 28.7 1.0 O B:HOH188 4.3 46.2 1.0 NZ B:LYS75 4.4 29.1 1.0 N B:GLY73 4.4 23.8 1.0 C B:MSE74 4.5 21.8 1.0 CG B:ASP97 4.6 27.4 1.0 O B:HOH165 4.6 36.0 1.0 N B:MSE74 4.7 20.4 1.0 O B:HOH177 4.7 49.4 1.0 ND1 B:HIS68 4.7 27.6 1.0 CD B:LYS75 4.8 22.2 1.0 CA B:PRO72 4.8 27.3 1.0 CE B:LYS75 5.0 29.0 1.0

R.L.Hiner, R.Toro, Y.Patskovsky, J.Freeman, S.Chang, D.Smith, C.Groshong, S.R.Wasserman, J.M.Sauder, S.K.Burley, S.C.Almo. Crystal Structure of Response Regulator Receiver Domain Protein (Chey-Like) From Methanospirillum Hungatei Jf-1. To Be Published.