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Magnesium in PDB 4tlc: Crystal Structure of N-Terminal C1 Domain of Kaic

Enzymatic activity of Crystal Structure of N-Terminal C1 Domain of Kaic

All present enzymatic activity of Crystal Structure of N-Terminal C1 Domain of Kaic:
2.7.11.1;

Protein crystallography data

The structure of Crystal Structure of N-Terminal C1 Domain of Kaic, PDB code: 4tlc was solved by J.Abe, T.B.Hiyama, A.Mukaiyama, S.Son, S.Akiyama, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 42.30 / 2.09
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 79.880, 133.378, 149.584, 90.00, 90.00, 90.00
R / Rfree (%) 17.4 / 21.9

Other elements in 4tlc:

The structure of Crystal Structure of N-Terminal C1 Domain of Kaic also contains other interesting chemical elements:

Chlorine (Cl) 6 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Crystal Structure of N-Terminal C1 Domain of Kaic (pdb code 4tlc). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 6 binding sites of Magnesium where determined in the Crystal Structure of N-Terminal C1 Domain of Kaic, PDB code: 4tlc:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6;

Magnesium binding site 1 out of 6 in 4tlc

Go back to Magnesium Binding Sites List in 4tlc
Magnesium binding site 1 out of 6 in the Crystal Structure of N-Terminal C1 Domain of 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 N-Terminal C1 Domain of Kaic within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg301

b:27.2
occ:1.00
 O2G A:AGS303 1.9 23.2 1.0
OG1 A:THR53 2.0 21.6 1.0
O A:HOH410 2.0 26.1 1.0
O2B A:AGS303 2.1 19.6 1.0
O A:HOH412 2.2 26.9 1.0
O A:HOH411 2.2 32.2 1.0
CB A:THR53 3.1 24.9 1.0
PG A:AGS303 3.2 33.1 1.0
PB A:AGS303 3.3 22.2 1.0
O3B A:AGS303 3.6 59.0 1.0
OD2 A:ASP145 3.9 39.2 1.0
O A:HOH484 4.0 37.9 1.0
N A:THR53 4.0 24.6 1.0
OE1 A:GLU78 4.0 41.1 1.0
O2A A:AGS303 4.0 28.8 1.0
CA A:THR53 4.1 24.6 1.0
O3G A:AGS303 4.1 34.1 1.0
CG2 A:THR53 4.1 22.5 1.0
O B:HOH470 4.2 42.8 1.0
O1B A:AGS303 4.2 26.1 1.0
NH2 B:ARG226 4.2 30.1 1.0
OD1 A:ASP145 4.4 37.0 1.0
O A:HOH486 4.4 45.1 1.0
O3A A:AGS303 4.4 26.2 1.0
O A:HOH487 4.5 53.3 1.0
CG A:ASP145 4.6 38.0 1.0
PA A:AGS303 4.6 26.8 1.0
NE B:ARG226 4.6 33.6 1.0
S1G A:AGS303 4.7 31.1 1.0
O1A A:AGS303 4.8 30.6 1.0
CZ B:ARG226 4.8 40.6 1.0

Magnesium binding site 2 out of 6 in 4tlc

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Magnesium binding site 2 out of 6 in the Crystal Structure of N-Terminal C1 Domain of 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 N-Terminal C1 Domain of Kaic within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg301

b:24.3
occ:1.00
 O2G B:AGS303 1.9 23.7 1.0
OG1 B:THR53 2.0 18.1 1.0
O B:HOH423 2.1 22.2 1.0
O1B B:AGS303 2.1 16.9 1.0
O B:HOH422 2.1 19.6 1.0
O B:HOH424 2.2 27.1 1.0
CB B:THR53 3.1 21.2 1.0
PG B:AGS303 3.2 27.9 1.0
PB B:AGS303 3.3 17.8 1.0
O3B B:AGS303 3.6 24.9 1.0
OD2 B:ASP145 3.8 27.9 1.0
N B:THR53 4.0 17.8 1.0
O3G B:AGS303 4.0 22.1 1.0
O B:HOH460 4.0 34.9 1.0
CA B:THR53 4.0 21.9 1.0
CG2 B:THR53 4.1 18.4 1.0
OE2 B:GLU78 4.1 31.4 1.0
O1A B:AGS303 4.2 21.1 1.0
O B:HOH531 4.2 43.5 1.0
OD1 B:ASP145 4.3 30.8 1.0
O2B B:AGS303 4.3 19.1 1.0
O3A B:AGS303 4.4 23.9 1.0
O B:HOH561 4.4 48.6 1.0
CG B:ASP145 4.5 29.1 1.0
NH2 C:ARG226 4.5 28.5 1.0
PA B:AGS303 4.6 19.9 1.0
S1G B:AGS303 4.7 27.0 1.0
O2A B:AGS303 4.7 19.2 1.0
NE C:ARG226 4.8 24.6 1.0
O B:HOH439 4.8 42.0 1.0
CZ C:ARG226 4.9 27.4 1.0

Magnesium binding site 3 out of 6 in 4tlc

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Magnesium binding site 3 out of 6 in the Crystal Structure of N-Terminal C1 Domain of 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 N-Terminal C1 Domain of Kaic within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg301

b:21.0
occ:1.00
 O2G C:AGS303 1.9 22.5 1.0
OG1 C:THR53 2.0 19.8 1.0
O2B C:AGS303 2.0 16.8 1.0
O C:HOH423 2.1 24.2 1.0
O C:HOH424 2.1 21.5 1.0
O C:HOH425 2.2 23.6 1.0
CB C:THR53 3.1 23.0 1.0
PG C:AGS303 3.2 30.9 1.0
PB C:AGS303 3.3 20.8 1.0
O3B C:AGS303 3.6 26.2 1.0
O2A C:AGS303 3.8 20.1 1.0
OD2 C:ASP145 3.9 37.3 1.0
O3G C:AGS303 4.0 24.1 1.0
N C:THR53 4.0 19.7 1.0
CA C:THR53 4.1 21.4 1.0
CG2 C:THR53 4.1 18.0 1.0
OE1 C:GLU78 4.1 41.8 1.0
O D:HOH443 4.2 34.0 1.0
NH2 D:ARG226 4.2 34.9 1.0
O C:HOH492 4.2 54.5 1.0
O1B C:AGS303 4.3 18.1 1.0
O3A C:AGS303 4.4 23.6 1.0
OD1 C:ASP145 4.4 36.4 1.0
PA C:AGS303 4.5 22.4 1.0
CG C:ASP145 4.6 37.1 1.0
NE D:ARG226 4.6 28.3 1.0
S1G C:AGS303 4.7 29.8 1.0
O1A C:AGS303 4.7 20.6 1.0
CZ D:ARG226 4.8 33.4 1.0

Magnesium binding site 4 out of 6 in 4tlc

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Magnesium binding site 4 out of 6 in the Crystal Structure of N-Terminal C1 Domain of 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 N-Terminal C1 Domain of Kaic within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg301

b:22.8
occ:1.00
 O2G D:AGS303 1.9 26.0 1.0
OG1 D:THR53 2.0 18.5 1.0
O D:HOH426 2.0 17.8 1.0
O1B D:AGS303 2.1 17.3 1.0
O D:HOH424 2.1 23.1 1.0
O D:HOH425 2.1 25.6 1.0
CB D:THR53 3.0 20.9 1.0
PG D:AGS303 3.3 32.3 1.0
PB D:AGS303 3.4 20.3 1.0
O3B D:AGS303 3.7 24.3 1.0
OE1 D:GLU78 3.8 51.7 1.0
OD2 D:ASP145 3.9 28.8 1.0
N D:THR53 4.0 19.2 1.0
CA D:THR53 4.0 22.2 1.0
O2A D:AGS303 4.1 24.9 1.0
O D:HOH528 4.1 53.4 1.0
O3G D:AGS303 4.1 25.1 1.0
CG2 D:THR53 4.1 19.6 1.0
O E:HOH497 4.2 44.6 1.0
OD1 D:ASP145 4.3 27.9 1.0
NH2 E:ARG226 4.4 35.5 1.0
O2B D:AGS303 4.4 21.1 1.0
O3A D:AGS303 4.4 22.0 1.0
CG D:ASP145 4.5 29.1 1.0
PA D:AGS303 4.6 20.9 1.0
S1G D:AGS303 4.7 30.8 1.0
NE E:ARG226 4.7 25.6 1.0
O1A D:AGS303 4.8 18.6 1.0
CZ E:ARG226 4.9 34.3 1.0
CD D:GLU78 5.0 52.0 1.0

Magnesium binding site 5 out of 6 in 4tlc

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Magnesium binding site 5 out of 6 in the Crystal Structure of N-Terminal C1 Domain of 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 N-Terminal C1 Domain of Kaic within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Mg301

b:23.1
occ:1.00
 O2G E:AGS303 1.9 23.3 1.0
OG1 E:THR53 2.0 24.9 1.0
O E:HOH417 2.0 23.5 1.0
O1B E:AGS303 2.0 15.8 1.0
O E:HOH418 2.2 21.5 1.0
O E:HOH416 2.2 20.7 1.0
CB E:THR53 3.1 20.7 1.0
PG E:AGS303 3.2 30.1 1.0
PB E:AGS303 3.3 18.6 1.0
OE2 E:GLU78 3.6 37.0 1.0
O3B E:AGS303 3.6 24.8 1.0
OD2 E:ASP145 3.8 33.2 1.0
O3G E:AGS303 3.9 28.2 1.0
N E:THR53 4.0 18.1 1.0
CA E:THR53 4.0 18.3 1.0
O E:HOH502 4.0 58.4 1.0
O1A E:AGS303 4.1 19.5 1.0
O E:HOH486 4.1 47.2 1.0
CG2 E:THR53 4.1 20.8 1.0
O F:HOH460 4.2 45.5 1.0
OD1 E:ASP145 4.3 27.8 1.0
O2B E:AGS303 4.3 20.8 1.0
O3A E:AGS303 4.4 21.9 1.0
CG E:ASP145 4.4 33.0 1.0
PA E:AGS303 4.6 18.9 1.0
O E:HOH509 4.7 49.0 1.0
NH2 F:ARG226 4.7 34.2 1.0
S1G E:AGS303 4.7 33.5 1.0
CD E:GLU78 4.7 47.4 1.0
O2A E:AGS303 4.7 21.4 1.0
NE F:ARG226 4.8 27.3 1.0

Magnesium binding site 6 out of 6 in 4tlc

Go back to Magnesium Binding Sites List in 4tlc
Magnesium binding site 6 out of 6 in the Crystal Structure of N-Terminal C1 Domain of 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 N-Terminal C1 Domain of Kaic within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Mg301

b:23.9
occ:1.00
 O2G F:AGS303 1.9 34.4 1.0
OG1 F:THR53 1.9 22.2 1.0
O F:HOH431 2.1 19.8 1.0
O2B F:AGS303 2.1 17.3 1.0
O F:HOH426 2.2 24.7 1.0
O F:HOH430 2.2 28.9 1.0
CB F:THR53 3.0 23.9 1.0
PG F:AGS303 3.2 27.9 1.0
PB F:AGS303 3.4 21.4 1.0
O3B F:AGS303 3.6 31.4 1.0
OD2 F:ASP145 3.8 32.6 1.0
N F:THR53 3.9 17.4 1.0
O F:HOH427 4.0 36.0 1.0
CA F:THR53 4.0 22.4 1.0
OE1 F:GLU78 4.0 40.0 1.0
O3G F:AGS303 4.1 23.8 1.0
CG2 F:THR53 4.1 18.9 1.0
O2A F:AGS303 4.1 21.1 1.0
OD1 F:ASP145 4.2 35.7 1.0
O1B F:AGS303 4.3 19.2 1.0
O3A F:AGS303 4.4 23.8 1.0
CG F:ASP145 4.4 30.4 1.0
NH2 A:ARG226 4.5 32.1 1.0
O A:HOH489 4.5 46.5 1.0
NE A:ARG226 4.5 31.4 1.0
PA F:AGS303 4.7 21.6 1.0
S1G F:AGS303 4.7 30.0 1.0
O1A F:AGS303 4.8 18.6 1.0
CZ A:ARG226 5.0 34.9 1.0

Reference:

J.Abe, T.B.Hiyama, A.Mukaiyama, S.Son, T.Mori, S.Saito, M.Osako, J.Wolanin, E.Yamashita, T.Kondo, S.Akiyama. Atomic-Scale Origins of Slowness in the Cyanobacterial Circadian Clock Science V. 349 312 2015.
ISSN: ESSN 1095-9203
PubMed: 26113637
DOI: 10.1126/SCIENCE.1261040
Page generated: Mon Aug 11 23:50:01 2025

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