Magnesium in PDB 8zn7: Crystal Structure of Designed Clock Protein Kaic

The structure of Crystal Structure of Designed Clock Protein Kaic, PDB code: 8zn7 was solved by Y.Furuike, S.Akiyama, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	49.19 / 2.54
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	91.977, 175.183, 94.774, 90, 96.93, 90
R / Rfree (%)	22.5 / 27.2

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>>> Page 1 <<< Page 2, Binding sites: 11 - 12;

Binding sites:

The binding sites of Magnesium atom in the Crystal Structure of Designed Clock Protein Kaic (pdb code 8zn7). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 12 binding sites of Magnesium where determined in the Crystal Structure of Designed Clock Protein Kaic, PDB code: 8zn7:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Magnesium binding site 1 out of 12 in the Crystal Structure of Designed Clock Protein Kaic


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structure of Designed Clock Protein Kaic within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg603 b:58.6 occ:1.00 O1G D:ANP601 2.0 64.4 1.0 O D:HOH706 2.0 52.9 1.0 O2B D:ANP601 2.1 54.7 1.0 O D:HOH702 2.1 48.1 1.0 OG1 D:THR49 2.2 52.9 1.0 O D:HOH701 2.2 43.6 1.0 PG D:ANP601 3.0 62.9 1.0 PB D:ANP601 3.1 51.9 1.0 N3B D:ANP601 3.2 57.1 1.0 CB D:THR49 3.4 56.6 1.0 O3G D:ANP601 3.8 61.4 1.0 O2A D:ANP601 3.9 49.0 1.0 OD2 D:ASP141 4.0 80.9 1.0 O3A D:ANP601 4.1 52.6 1.0 N D:THR49 4.1 54.9 1.0 OD1 D:ASP141 4.2 80.0 1.0 O2G D:ANP601 4.2 61.5 1.0 NH2 E:ARG222 4.3 68.5 1.0 CG2 D:THR49 4.3 58.5 1.0 CA D:THR49 4.3 55.1 1.0 PA D:ANP601 4.4 53.2 1.0 O1B D:ANP601 4.4 54.2 1.0 OE2 D:GLU74 4.5 86.0 1.0 NE E:ARG222 4.5 64.5 1.0 CG D:ASP141 4.5 78.2 1.0 O1A D:ANP601 4.6 50.7 1.0 CZ E:ARG222 4.7 67.5 1.0 CB D:LYS48 5.0 51.7 1.0

Magnesium binding site 2 out of 12 in the Crystal Structure of Designed Clock Protein Kaic


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Crystal Structure of Designed Clock Protein Kaic within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg604 b:70.9 occ:1.00 O1G D:ANP602 2.0 93.2 1.0 OG1 D:THR291 2.2 59.7 1.0 O2B D:ANP602 2.2 61.5 1.0 PG D:ANP602 3.1 89.6 1.0 OE1 D:GLU314 3.3 94.9 1.0 PB D:ANP602 3.3 63.0 1.0 N3B D:ANP602 3.4 74.3 1.0 OD1 D:ASP374 3.5 97.1 1.0 CB D:THR291 3.6 59.5 1.0 O3G D:ANP602 3.6 91.7 1.0 OD2 D:ASP374 3.9 86.0 1.0 CG D:ASP374 4.1 89.8 1.0 N D:THR291 4.2 58.8 1.0 O2G D:ANP602 4.3 93.7 1.0 CA D:THR291 4.3 58.5 1.0 O1B D:ANP602 4.4 62.2 1.0 O3A D:ANP602 4.4 62.4 1.0 CG2 D:THR291 4.5 60.5 1.0 CD D:GLU314 4.5 87.8 1.0 O2A D:ANP602 4.5 54.4 1.0 NH2 E:ARG455 4.6 72.1 1.0 CB D:LYS290 4.9 62.2 1.0 PA D:ANP602 4.9 58.3 1.0

Magnesium binding site 3 out of 12 in the Crystal Structure of Designed Clock Protein Kaic


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Crystal Structure of Designed Clock Protein Kaic within 5.0Å range: probe atom residue distance (Å) B Occ E:Mg603 b:45.0 occ:1.00 O E:HOH701 2.1 38.9 1.0 O E:HOH707 2.1 53.1 1.0 O2B E:ANP601 2.1 47.4 1.0 O E:HOH704 2.1 48.2 1.0 OG1 E:THR49 2.2 47.3 1.0 O1G E:ANP601 2.3 63.1 1.0 PG E:ANP601 3.2 61.1 1.0 PB E:ANP601 3.3 47.5 1.0 N3B E:ANP601 3.4 54.1 1.0 CB E:THR49 3.4 46.5 1.0 O3G E:ANP601 3.5 58.5 1.0 OE2 E:GLU74 3.6 71.9 1.0 OD1 E:ASP141 4.0 67.7 1.0 O2A E:ANP601 4.1 43.0 1.0 OD2 E:ASP141 4.1 71.2 1.0 O3A E:ANP601 4.2 47.3 1.0 NH2 F:ARG222 4.2 52.6 1.0 NE F:ARG222 4.3 52.3 1.0 N E:THR49 4.3 45.0 1.0 CG2 E:THR49 4.3 45.6 1.0 CA E:THR49 4.4 47.5 1.0 O1B E:ANP601 4.5 48.3 1.0 CG E:ASP141 4.5 68.7 1.0 O2G E:ANP601 4.5 59.2 1.0 PA E:ANP601 4.5 47.4 1.0 CZ F:ARG222 4.6 51.1 1.0 O1A E:ANP601 4.7 44.3 1.0 CD E:GLU74 4.8 73.8 1.0

Magnesium binding site 4 out of 12 in the Crystal Structure of Designed Clock Protein Kaic


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Crystal Structure of Designed Clock Protein Kaic within 5.0Å range: probe atom residue distance (Å) B Occ E:Mg604 b:73.8 occ:1.00 O2G E:ANP602 1.9 95.2 1.0 OG1 E:THR291 2.2 75.9 1.0 O2B E:ANP602 2.6 63.7 1.0 PG E:ANP602 3.1 89.8 1.0 OE1 E:GLU314 3.1 90.4 1.0 O1G E:ANP602 3.5 89.2 1.0 CB E:THR291 3.5 70.6 1.0 OD2 E:ASP374 3.6 82.1 1.0 N3B E:ANP602 3.6 71.7 1.0 OD1 E:ASP374 3.6 88.5 1.0 PB E:ANP602 3.7 60.4 1.0 OE2 E:GLU315 3.8 91.4 1.0 CG E:ASP374 4.0 84.3 1.0 O3G E:ANP602 4.3 91.7 1.0 CD E:GLU314 4.3 92.8 1.0 CG2 E:THR291 4.3 70.5 1.0 N E:THR291 4.4 62.8 1.0 CA E:THR291 4.4 66.5 1.0 O3A E:ANP602 4.5 62.3 1.0 O2A E:ANP602 4.7 58.5 1.0 CE E:LYS290 4.9 60.0 1.0 CD E:GLU315 4.9 90.8 1.0 OE2 E:GLU314 4.9 93.8 1.0 NH2 F:ARG455 4.9 77.7 1.0 O1B E:ANP602 5.0 58.0 1.0

Magnesium binding site 5 out of 12 in the Crystal Structure of Designed Clock Protein Kaic


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Crystal Structure of Designed Clock Protein Kaic within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg603 b:51.6 occ:1.00 O1G B:ANP601 2.2 51.3 1.0 O2B B:ANP601 2.3 41.8 1.0 OG1 B:THR49 2.4 45.1 1.0 OE2 B:GLU74 3.2 68.2 1.0 PG B:ANP601 3.3 52.7 1.0 PB B:ANP601 3.5 41.4 1.0 N3B B:ANP601 3.6 46.7 1.0 CB B:THR49 3.6 43.6 1.0 OD1 B:ASP141 3.7 67.9 1.0 O3G B:ANP601 3.8 50.0 1.0 NH2 C:ARG222 3.9 48.3 1.0 OD2 B:ASP141 4.0 63.1 1.0 O2A B:ANP601 4.2 44.7 1.0 NE C:ARG222 4.2 52.9 1.0 CG B:ASP141 4.3 61.2 1.0 CD B:GLU74 4.4 64.4 1.0 CG2 B:THR49 4.4 44.2 1.0 O3A B:ANP601 4.4 40.9 1.0 N B:THR49 4.4 41.1 1.0 CZ C:ARG222 4.5 52.6 1.0 CA B:THR49 4.6 43.3 1.0 O2G B:ANP601 4.6 50.2 1.0 O1B B:ANP601 4.7 43.0 1.0 PA B:ANP601 4.7 43.0 1.0 OE1 B:GLU74 5.0 65.9 1.0 O1A B:ANP601 5.0 43.0 1.0

Magnesium binding site 6 out of 12 in the Crystal Structure of Designed Clock Protein Kaic


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Crystal Structure of Designed Clock Protein Kaic within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg604 b:51.5 occ:1.00 O2G B:ANP602 1.7 77.3 1.0 O B:HOH710 2.2 52.3 1.0 O2B B:ANP602 2.2 53.2 1.0 O B:HOH701 2.2 50.4 1.0 OG1 B:THR291 2.2 50.4 1.0 O B:HOH707 2.4 48.3 1.0 PG B:ANP602 2.7 85.4 1.0 N3B B:ANP602 3.0 68.9 1.0 PB B:ANP602 3.1 55.5 1.0 O1G B:ANP602 3.5 86.0 1.0 CB B:THR291 3.5 51.8 1.0 O3G B:ANP602 3.9 85.8 1.0 OE1 B:GLU314 4.0 79.5 1.0 O2A B:ANP602 4.1 52.1 1.0 OD1 B:ASP374 4.1 76.1 1.0 O3A B:ANP602 4.1 53.1 1.0 OE2 B:GLU315 4.1 85.1 1.0 N B:THR291 4.2 49.5 1.0 O1B B:ANP602 4.3 56.5 1.0 OD2 B:ASP374 4.3 76.3 1.0 CA B:THR291 4.4 50.4 1.0 CG2 B:THR291 4.5 52.9 1.0 NH2 C:ARG455 4.5 67.5 1.0 PA B:ANP602 4.5 50.1 1.0 OE1 B:GLU315 4.6 86.4 1.0 CD B:GLU315 4.6 84.0 1.0 CG B:ASP374 4.6 74.5 1.0 O1A B:ANP602 4.7 48.5 1.0

Magnesium binding site 7 out of 12 in the Crystal Structure of Designed Clock Protein Kaic


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of Crystal Structure of Designed Clock Protein Kaic within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg603 b:55.4 occ:1.00 O C:HOH706 2.0 48.2 1.0 O2B C:ANP601 2.2 49.3 1.0 O1G C:ANP601 2.2 60.3 1.0 OG1 C:THR49 2.3 41.4 1.0 O C:HOH707 2.3 57.1 1.0 O C:HOH704 2.3 65.0 1.0 PG C:ANP601 3.1 61.2 1.0 PB C:ANP601 3.2 49.3 1.0 N3B C:ANP601 3.3 54.6 1.0 CB C:THR49 3.5 43.0 1.0 O3G C:ANP601 3.5 59.5 1.0 OD2 C:ASP141 3.8 76.4 1.0 OE2 C:GLU74 3.9 81.0 1.0 OD1 C:ASP141 4.0 76.5 1.0 N C:THR49 4.2 42.1 1.0 O3A C:ANP601 4.3 52.6 1.0 NH2 D:ARG222 4.3 52.9 1.0 CG C:ASP141 4.3 73.4 1.0 O2A C:ANP601 4.3 52.0 1.0 O1B C:ANP601 4.4 50.9 1.0 CA C:THR49 4.4 42.5 1.0 O2G C:ANP601 4.4 57.9 1.0 CG2 C:THR49 4.5 42.9 1.0 NE D:ARG222 4.6 52.7 1.0 PA C:ANP601 4.7 52.1 1.0 CD C:GLU74 4.8 80.3 1.0 O1A C:ANP601 4.8 48.6 1.0 CZ D:ARG222 4.9 53.6 1.0

Magnesium binding site 8 out of 12 in the Crystal Structure of Designed Clock Protein Kaic


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 8 of Crystal Structure of Designed Clock Protein Kaic within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg604 b:55.5 occ:1.00 O1G C:ANP602 2.0 76.2 1.0 O C:HOH708 2.1 47.0 1.0 OG1 C:THR291 2.1 49.5 1.0 O2B C:ANP602 2.3 59.6 1.0 O C:HOH701 2.3 39.5 1.0 PG C:ANP602 3.2 78.8 1.0 CB C:THR291 3.4 48.5 1.0 PB C:ANP602 3.4 57.4 1.0 N3B C:ANP602 3.4 67.5 1.0 OE1 C:GLU314 3.7 79.2 1.0 OD1 C:ASP374 3.8 64.5 1.0 OE2 C:GLU315 3.9 65.2 1.0 OD2 C:ASP374 4.0 63.7 1.0 O2G C:ANP602 4.1 79.6 1.0 N C:THR291 4.1 45.6 1.0 O3G C:ANP602 4.2 83.1 1.0 O2A C:ANP602 4.2 51.5 1.0 CA C:THR291 4.3 47.6 1.0 CG C:ASP374 4.3 60.9 1.0 CG2 C:THR291 4.3 48.1 1.0 O3A C:ANP602 4.4 56.1 1.0 NH2 D:ARG455 4.5 74.2 1.0 O1B C:ANP602 4.5 57.5 1.0 PA C:ANP602 4.7 51.4 1.0 CD C:GLU315 4.9 70.2 1.0 CD C:GLU314 4.9 74.3 1.0 O1A C:ANP602 4.9 53.2 1.0

Magnesium binding site 9 out of 12 in the Crystal Structure of Designed Clock Protein Kaic


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 9 of Crystal Structure of Designed Clock Protein Kaic within 5.0Å range: probe atom residue distance (Å) B Occ F:Mg603 b:52.7 occ:1.00 O1G F:ANP601 2.0 53.7 1.0 O F:HOH701 2.0 43.2 1.0 O2B F:ANP601 2.1 46.8 1.0 O F:HOH707 2.1 48.3 1.0 OG1 F:THR49 2.1 47.8 1.0 O F:HOH702 2.2 33.9 1.0 PG F:ANP601 3.1 57.6 1.0 PB F:ANP601 3.3 49.8 1.0 OE2 F:GLU74 3.3 76.5 1.0 CB F:THR49 3.3 47.9 1.0 N3B F:ANP601 3.4 52.5 1.0 O3G F:ANP601 3.6 55.9 1.0 O2A F:ANP601 3.8 46.4 1.0 NH2 A:ARG222 3.8 48.4 1.0 OD2 F:ASP141 4.1 74.6 1.0 OD1 F:ASP141 4.1 69.5 1.0 O3A F:ANP601 4.2 49.0 1.0 NE A:ARG222 4.2 46.4 1.0 N F:THR49 4.2 48.6 1.0 CG2 F:THR49 4.2 50.0 1.0 CA F:THR49 4.3 47.2 1.0 O2G F:ANP601 4.3 56.8 1.0 CZ A:ARG222 4.4 47.8 1.0 PA F:ANP601 4.4 49.0 1.0 O1B F:ANP601 4.5 48.2 1.0 CD F:GLU74 4.5 75.8 1.0 CG F:ASP141 4.5 70.9 1.0 O1A F:ANP601 4.8 47.1 1.0

Magnesium binding site 10 out of 12 in the Crystal Structure of Designed Clock Protein Kaic


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 10 of Crystal Structure of Designed Clock Protein Kaic within 5.0Å range: probe atom residue distance (Å) B Occ F:Mg604 b:47.1 occ:1.00 O3G F:ANP602 1.9 70.5 1.0 O F:HOH703 1.9 43.8 1.0 O2B F:ANP602 2.1 51.9 1.0 OG1 F:THR291 2.1 49.8 1.0 O F:HOH715 2.2 52.2 1.0 O F:HOH712 2.4 53.9 1.0 PG F:ANP602 2.9 72.9 1.0 PB F:ANP602 3.1 50.1 1.0 N3B F:ANP602 3.1 59.2 1.0 CB F:THR291 3.3 51.8 1.0 O1G F:ANP602 3.5 75.2 1.0 O2A F:ANP602 3.8 51.9 1.0 O3A F:ANP602 4.1 50.5 1.0 OE1 F:GLU314 4.1 83.8 1.0 OE2 F:GLU315 4.2 87.0 1.0 O2G F:ANP602 4.2 72.0 1.0 N F:THR291 4.2 46.3 1.0 CG2 F:THR291 4.2 52.9 1.0 O1B F:ANP602 4.3 50.7 1.0 OD2 F:ASP374 4.3 70.2 1.0 CA F:THR291 4.3 49.5 1.0 PA F:ANP602 4.3 52.2 1.0 OD1 F:ASP374 4.3 72.5 1.0 NH2 A:ARG455 4.5 72.8 1.0 O1A F:ANP602 4.6 53.7 1.0 CG F:ASP374 4.7 67.5 1.0 CD F:GLU315 4.9 87.7 1.0

Y.Furuike, S.Akiyama. Crystal Structure of Designed Clock Protein Kaic To Be Published.