Sodium in PDB 3osj: X-Ray Structure of Phycobilisome Lcm Core-Membrane Linker Polypeptide (Fragment 254-400) From Synechocystis Sp. Pcc 6803, Northeast Structural Genomics Consortium Target SGR209C

The structure of X-Ray Structure of Phycobilisome Lcm Core-Membrane Linker Polypeptide (Fragment 254-400) From Synechocystis Sp. Pcc 6803, Northeast Structural Genomics Consortium Target SGR209C, PDB code: 3osj was solved by A.Kuzin, M.Su, S.Lew, J.Seetharaman, S.Sahdev, R.Xiao, C.Ciccosanti, D.Lee, J.K.Everett, R.Nair, T.B.Acton, B.Rost, G.T.Montelione, L.Tong, J.F.Hunt, Northeast Structural Genomics Consortium (Nesg), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	41.29 / 2.30
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	53.568, 79.607, 73.705, 90.00, 95.50, 90.00
R / Rfree (%)	16.2 / 22.8

The binding sites of Sodium atom in the X-Ray Structure of Phycobilisome Lcm Core-Membrane Linker Polypeptide (Fragment 254-400) From Synechocystis Sp. Pcc 6803, Northeast Structural Genomics Consortium Target SGR209C (pdb code 3osj). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 7 binding sites of Sodium where determined in the X-Ray Structure of Phycobilisome Lcm Core-Membrane Linker Polypeptide (Fragment 254-400) From Synechocystis Sp. Pcc 6803, Northeast Structural Genomics Consortium Target SGR209C, PDB code: 3osj:
Jump to Sodium binding site number: 1; 2; 3; 4; 5; 6; 7;

Sodium binding site 1 out of 7 in the X-Ray Structure of Phycobilisome Lcm Core-Membrane Linker Polypeptide (Fragment 254-400) From Synechocystis Sp. Pcc 6803, Northeast Structural Genomics Consortium Target SGR209C


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of X-Ray Structure of Phycobilisome Lcm Core-Membrane Linker Polypeptide (Fragment 254-400) From Synechocystis Sp. Pcc 6803, Northeast Structural Genomics Consortium Target SGR209C within 5.0Å range: probe atom residue distance (Å) B Occ A:Na2 b:7.6 occ:1.00 O A:HOH123 3.2 18.8 1.0 O A:HOH128 3.5 19.9 1.0 NH1 A:ARG322 3.5 1.9 1.0 CD2 A:LEU305 3.8 7.3 1.0 CD A:ARG322 3.9 11.6 1.0 CE2 A:TYR304 4.2 4.0 1.0 CZ A:ARG322 4.2 9.8 1.0 NE A:ARG322 4.3 12.0 1.0 CD2 A:TYR304 4.5 5.1 1.0 CG A:LEU305 4.8 12.8 1.0 CG A:ARG322 4.9 14.1 1.0

Sodium binding site 2 out of 7 in the X-Ray Structure of Phycobilisome Lcm Core-Membrane Linker Polypeptide (Fragment 254-400) From Synechocystis Sp. Pcc 6803, Northeast Structural Genomics Consortium Target SGR209C


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of X-Ray Structure of Phycobilisome Lcm Core-Membrane Linker Polypeptide (Fragment 254-400) From Synechocystis Sp. Pcc 6803, Northeast Structural Genomics Consortium Target SGR209C within 5.0Å range: probe atom residue distance (Å) B Occ A:Na4 b:22.7 occ:1.00 CD A:PRO327 3.7 14.7 1.0 OG A:SER299 3.7 29.3 1.0 N A:LEU328 3.8 13.8 1.0 CB A:SER326 3.9 6.8 1.0 O A:HOH407 3.9 33.7 1.0 N A:PRO327 4.0 8.6 1.0 CD1 A:ILE302 4.0 30.2 1.0 CB A:LEU328 4.1 21.0 1.0 CG1 A:ILE302 4.2 21.7 1.0 OG A:SER326 4.2 11.7 1.0 CB A:PRO327 4.2 14.1 1.0 CG A:PRO327 4.2 18.3 1.0 CB A:SER299 4.3 26.6 1.0 CE2 A:TYR298 4.3 44.0 1.0 CD2 A:TYR298 4.5 38.4 1.0 CA A:LEU328 4.5 14.4 1.0 CA A:PRO327 4.6 11.6 1.0 C A:PRO327 4.7 14.9 1.0 C A:SER326 4.7 11.7 1.0 CA A:SER326 4.7 8.8 1.0 O A:HOH403 4.8 26.6 1.0 CB A:SER301 4.9 24.3 1.0

Sodium binding site 3 out of 7 in the X-Ray Structure of Phycobilisome Lcm Core-Membrane Linker Polypeptide (Fragment 254-400) From Synechocystis Sp. Pcc 6803, Northeast Structural Genomics Consortium Target SGR209C


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 3 of X-Ray Structure of Phycobilisome Lcm Core-Membrane Linker Polypeptide (Fragment 254-400) From Synechocystis Sp. Pcc 6803, Northeast Structural Genomics Consortium Target SGR209C within 5.0Å range: probe atom residue distance (Å) B Occ A:Na7 b:11.8 occ:1.00 NZ A:LYS325 3.1 9.6 1.0 CE A:LYS325 3.7 8.7 1.0 CB A:PRO374 3.8 4.4 1.0 O A:HOH416 4.0 32.0 1.0 CD A:LYS325 4.1 8.0 1.0 OD2 A:ASP378 4.3 12.4 1.0 O A:HOH31 4.6 10.3 1.0 CG A:PRO374 4.7 1.7 1.0 CA A:PRO374 4.8 10.0 1.0

Sodium binding site 4 out of 7 in the X-Ray Structure of Phycobilisome Lcm Core-Membrane Linker Polypeptide (Fragment 254-400) From Synechocystis Sp. Pcc 6803, Northeast Structural Genomics Consortium Target SGR209C


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 4 of X-Ray Structure of Phycobilisome Lcm Core-Membrane Linker Polypeptide (Fragment 254-400) From Synechocystis Sp. Pcc 6803, Northeast Structural Genomics Consortium Target SGR209C within 5.0Å range: probe atom residue distance (Å) B Occ B:Na6 b:26.4 occ:1.00 O B:HOH471 3.4 43.2 1.0 OG B:SER299 3.6 23.4 1.0 CD B:PRO327 3.7 11.7 1.0 N B:LEU328 3.9 12.8 1.0 CD1 B:ILE302 3.9 42.4 1.0 CB B:SER326 4.0 10.7 1.0 O B:HOH420 4.0 31.8 1.0 CB B:LEU328 4.0 2.4 1.0 CG1 B:ILE302 4.1 35.5 1.0 CG B:PRO327 4.1 13.5 1.0 CB B:SER299 4.2 25.9 1.0 CB B:PRO327 4.2 12.8 1.0 N B:PRO327 4.3 13.3 1.0 CE2 B:TYR298 4.4 74.3 1.0 OG B:SER326 4.4 7.3 1.0 CA B:LEU328 4.6 8.3 1.0 CB B:SER301 4.7 21.2 1.0 CA B:PRO327 4.8 12.6 1.0 CD2 B:TYR298 4.8 70.2 1.0 O B:HOH401 4.8 24.7 1.0 OG B:SER301 4.8 26.0 1.0 C B:PRO327 4.9 11.9 1.0 CA B:SER326 4.9 14.1 1.0 C B:SER326 4.9 15.2 1.0

Sodium binding site 5 out of 7 in the X-Ray Structure of Phycobilisome Lcm Core-Membrane Linker Polypeptide (Fragment 254-400) From Synechocystis Sp. Pcc 6803, Northeast Structural Genomics Consortium Target SGR209C


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 5 of X-Ray Structure of Phycobilisome Lcm Core-Membrane Linker Polypeptide (Fragment 254-400) From Synechocystis Sp. Pcc 6803, Northeast Structural Genomics Consortium Target SGR209C within 5.0Å range: probe atom residue distance (Å) B Occ C:Na3 b:19.2 occ:1.00 OH C:TYR329 2.8 10.9 1.0 O C:PHE333 2.8 10.2 1.0 O C:ALA342 2.8 15.5 1.0 N C:ALA346 3.4 9.6 1.0 CE2 C:TYR329 3.4 12.0 1.0 CZ C:TYR329 3.5 12.3 1.0 CB C:ALA346 3.6 7.7 1.0 C C:ALA342 3.7 10.1 1.0 C C:PHE333 3.7 10.4 1.0 CA C:ALA346 3.7 8.9 1.0 CB C:PHE333 3.8 9.1 1.0 CB C:LEU345 3.8 9.3 1.0 C C:LEU345 3.9 8.9 1.0 CA C:ALA342 3.9 11.7 1.0 CB C:ALA342 4.2 5.6 1.0 CA C:PHE333 4.4 13.1 1.0 CA C:LEU345 4.4 7.5 1.0 O C:LEU345 4.5 7.0 1.0 CD2 C:TYR329 4.6 7.2 1.0 N C:PHE334 4.7 12.8 1.0 CE1 C:TYR329 4.8 7.5 1.0 CD2 C:HIS349 4.8 6.3 1.0 N C:LEU345 4.8 8.6 1.0 CA C:PHE334 4.9 12.7 1.0 CG C:PHE333 4.9 4.3 1.0 N C:LEU343 4.9 9.2 1.0 CD1 C:LEU373 5.0 10.0 1.0

Sodium binding site 6 out of 7 in the X-Ray Structure of Phycobilisome Lcm Core-Membrane Linker Polypeptide (Fragment 254-400) From Synechocystis Sp. Pcc 6803, Northeast Structural Genomics Consortium Target SGR209C


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 6 of X-Ray Structure of Phycobilisome Lcm Core-Membrane Linker Polypeptide (Fragment 254-400) From Synechocystis Sp. Pcc 6803, Northeast Structural Genomics Consortium Target SGR209C within 5.0Å range: probe atom residue distance (Å) B Occ C:Na5 b:23.9 occ:1.00 N C:LEU328 3.6 13.1 1.0 CD C:PRO327 3.7 14.1 1.0 CB C:LEU328 3.7 8.7 1.0 CD1 C:ILE302 3.8 27.2 1.0 O C:HOH469 3.8 41.0 1.0 CB C:SER326 3.9 8.1 1.0 OG C:SER299 4.0 35.4 1.0 N C:PRO327 4.0 13.2 1.0 CG1 C:ILE302 4.1 26.5 1.0 CG C:PRO327 4.1 13.0 1.0 CB C:PRO327 4.1 9.0 1.0 OG C:SER326 4.2 8.4 1.0 O C:HOH231 4.3 25.2 1.0 CA C:LEU328 4.3 8.3 1.0 C C:PRO327 4.5 13.9 1.0 CA C:PRO327 4.5 6.2 1.0 O C:HOH415 4.6 28.9 1.0 C C:SER326 4.7 15.4 1.0 CB C:SER299 4.7 33.6 1.0 CA C:SER326 4.7 11.8 1.0 CB C:SER301 4.8 21.7 1.0 OG C:SER301 5.0 24.1 1.0

Sodium binding site 7 out of 7 in the X-Ray Structure of Phycobilisome Lcm Core-Membrane Linker Polypeptide (Fragment 254-400) From Synechocystis Sp. Pcc 6803, Northeast Structural Genomics Consortium Target SGR209C


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 7 of X-Ray Structure of Phycobilisome Lcm Core-Membrane Linker Polypeptide (Fragment 254-400) From Synechocystis Sp. Pcc 6803, Northeast Structural Genomics Consortium Target SGR209C within 5.0Å range: probe atom residue distance (Å) B Occ D:Na1 b:10.4 occ:1.00 NZ D:LYS325 3.4 4.1 1.0 CB D:PRO374 3.8 13.8 1.0 CE D:LYS325 4.0 9.7 1.0 CD D:LYS325 4.4 6.4 1.0 OD2 D:ASP378 4.4 10.9 1.0 CG D:PRO374 4.6 9.2 1.0 O D:HOH9 4.6 8.7 1.0 O D:HOH445 4.9 30.8 1.0 CA D:PRO374 4.9 11.9 1.0 O D:HOH180 5.0 20.2 1.0

A.Kuzin, M.Su, S.Lew, J.Seetharaman, S.Sahdev, R.Xiao, C.Ciccosanti, D.Lee, J.K.Everett, R.Nair, T.B.Acton, B.Rost, G.T.Montelione, L.Tong, J.F.Hunt. Northeast Structural Genomics Consortium Target SGR209C To Be Published.