Atomistry » Magnesium » PDB 4s1l-4tny » 4tl7
Atomistry »
  Magnesium »
    PDB 4s1l-4tny »
      4tl7 »

Magnesium in PDB 4tl7: 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: 4tl7 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) 45.85 / 1.94
Space group P 31 2 1
Cell size a, b, c (Å), α, β, γ (°) 108.165, 108.165, 224.880, 90.00, 90.00, 120.00
R / Rfree (%) 15 / 19.1

Other elements in 4tl7:

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 4tl7). 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: 4tl7:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6;

Magnesium binding site 1 out of 6 in 4tl7

Go back to Magnesium Binding Sites List in 4tl7
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:Mg302

b:19.9
occ:1.00
 O1G A:ATP301 2.0 19.6 1.0
O1B A:ATP301 2.1 17.3 1.0
O A:HOH498 2.1 19.6 1.0
OG1 A:THR53 2.1 20.7 1.0
O A:HOH499 2.1 20.5 1.0
O A:HOH497 2.1 21.1 1.0
PB A:ATP301 3.2 19.3 1.0
CB A:THR53 3.2 23.4 1.0
PG A:ATP301 3.3 23.5 1.0
O3B A:ATP301 3.3 30.1 1.0
O3G A:ATP301 3.9 29.4 1.0
OD2 A:ASP145 3.9 23.0 0.6
N A:THR53 4.0 18.0 1.0
O A:HOH432 4.0 23.9 1.0
O1A A:ATP301 4.1 23.0 1.0
OD2 A:ASP145 4.1 22.5 0.4
CA A:THR53 4.1 18.6 1.0
O B:HOH479 4.2 44.7 1.0
O A:HOH520 4.2 30.5 1.0
OD1 A:ASP145 4.2 23.3 0.6
OD1 A:ASP145 4.2 23.1 0.4
O3A A:ATP301 4.2 20.0 1.0
CG2 A:THR53 4.3 19.9 1.0
O2B A:ATP301 4.3 17.7 1.0
NH2 B:ARG226 4.4 20.0 1.0
NE B:ARG226 4.5 22.4 1.0
O2G A:ATP301 4.5 37.1 1.0
CG A:ASP145 4.5 24.6 0.6
PA A:ATP301 4.6 22.1 1.0
O A:HOH459 4.6 35.9 1.0
CG A:ASP145 4.6 24.8 0.4
O2A A:ATP301 4.8 26.6 1.0
CZ B:ARG226 4.8 24.0 1.0
CB A:LYS52 5.0 16.9 1.0

Magnesium binding site 2 out of 6 in 4tl7

Go back to Magnesium Binding Sites List in 4tl7
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:Mg302

b:21.4
occ:1.00
 O1B B:ATP301 2.0 19.1 1.0
O1G B:ATP301 2.0 21.6 1.0
O B:HOH493 2.1 21.8 1.0
OG1 B:THR53 2.1 21.4 1.0
O B:HOH494 2.1 24.6 1.0
O B:HOH495 2.1 20.2 1.0
CB B:THR53 3.1 26.4 1.0
PB B:ATP301 3.2 19.7 1.0
PG B:ATP301 3.3 24.7 1.0
O3B B:ATP301 3.4 27.7 1.0
N B:THR53 3.9 21.6 1.0
OD2 B:ASP145 4.0 24.9 0.7
O B:HOH441 4.0 28.9 1.0
O3G B:ATP301 4.0 27.7 1.0
OD2 B:ASP145 4.0 25.8 0.3
CA B:THR53 4.1 20.9 1.0
OD1 B:ASP145 4.1 26.9 0.7
O2A B:ATP301 4.1 26.3 1.0
OD1 B:ASP145 4.1 26.7 0.3
O B:HOH433 4.2 27.5 1.0
O3A B:ATP301 4.2 20.0 1.0
O2B B:ATP301 4.3 20.8 1.0
CG2 B:THR53 4.3 21.1 1.0
O B:HOH506 4.3 34.5 1.0
CG B:ASP145 4.5 25.7 0.7
CG B:ASP145 4.5 26.2 0.3
O2G B:ATP301 4.5 40.6 1.0
NE C:ARG226 4.6 23.8 1.0
NH2 C:ARG226 4.6 23.6 1.0
PA B:ATP301 4.6 22.6 1.0
O1A B:ATP301 4.8 28.1 1.0
C B:LYS52 5.0 20.1 1.0

Magnesium binding site 3 out of 6 in 4tl7

Go back to Magnesium Binding Sites List in 4tl7
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:Mg302

b:22.7
occ:1.00
 O2B C:ATP301 2.0 16.5 1.0
O C:HOH500 2.0 19.7 1.0
OG1 C:THR53 2.1 22.8 1.0
O2G C:ATP301 2.1 23.9 1.0
O C:HOH502 2.1 20.3 1.0
O C:HOH501 2.2 22.7 1.0
CB C:THR53 3.2 24.2 1.0
PB C:ATP301 3.2 20.4 1.0
PG C:ATP301 3.3 26.8 1.0
O3B C:ATP301 3.4 31.8 1.0
O1G C:ATP301 3.8 30.6 1.0
O C:HOH521 3.9 27.3 1.0
OD2 C:ASP145 3.9 27.8 0.6
N C:THR53 3.9 16.9 1.0
OD2 C:ASP145 4.0 24.7 0.5
CA C:THR53 4.1 20.8 1.0
OD1 C:ASP145 4.1 24.9 0.6
O2A C:ATP301 4.1 24.9 1.0
O C:HOH520 4.2 35.5 1.0
O3A C:ATP301 4.2 20.6 1.0
OD1 C:ASP145 4.2 25.7 0.5
CG2 C:THR53 4.3 22.3 1.0
O1B C:ATP301 4.3 22.2 1.0
O C:HOH441 4.4 33.6 1.0
CG C:ASP145 4.4 28.0 0.6
NH2 D:ARG226 4.5 24.8 1.0
NE D:ARG226 4.5 23.0 1.0
CG C:ASP145 4.5 27.0 0.5
O3G C:ATP301 4.6 35.1 1.0
PA C:ATP301 4.6 22.7 1.0
CZ D:ARG226 4.9 26.6 1.0
O1A C:ATP301 4.9 25.0 1.0
CB C:LYS52 4.9 24.1 1.0

Magnesium binding site 4 out of 6 in 4tl7

Go back to Magnesium Binding Sites List in 4tl7
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:Mg302

b:22.6
occ:1.00
 O3G D:ATP301 1.9 20.2 1.0
OG1 D:THR53 2.1 20.6 1.0
O2B D:ATP301 2.1 18.3 1.0
O D:HOH516 2.1 21.3 1.0
O D:HOH515 2.1 20.7 1.0
O D:HOH514 2.1 20.1 1.0
CB D:THR53 3.1 19.0 1.0
PG D:ATP301 3.2 25.7 1.0
PB D:ATP301 3.2 17.0 1.0
O3B D:ATP301 3.4 37.5 1.0
OD2 D:ASP145 3.9 22.8 0.6
N D:THR53 3.9 19.0 1.0
O1G D:ATP301 4.0 31.4 1.0
O D:HOH536 4.0 53.6 1.0
O D:HOH443 4.1 29.2 1.0
CA D:THR53 4.1 20.4 1.0
OD2 D:ASP145 4.1 23.6 0.4
O2A D:ATP301 4.1 21.1 1.0
O2G D:ATP301 4.2 45.2 1.0
OD1 D:ASP145 4.2 24.7 0.4
O D:HOH440 4.2 26.9 1.0
CG2 D:THR53 4.2 24.4 1.0
O3A D:ATP301 4.2 19.4 1.0
OD1 D:ASP145 4.2 26.1 0.6
O1B D:ATP301 4.3 17.4 1.0
NH2 E:ARG226 4.4 28.7 1.0
NE E:ARG226 4.5 25.2 1.0
CG D:ASP145 4.5 24.9 0.6
O D:HOH450 4.5 32.3 1.0
PA D:ATP301 4.6 23.1 1.0
CG D:ASP145 4.6 24.5 0.4
O1A D:ATP301 4.8 27.3 1.0
CZ E:ARG226 4.9 28.4 1.0
CB D:LYS52 5.0 19.1 1.0

Magnesium binding site 5 out of 6 in 4tl7

Go back to Magnesium Binding Sites List in 4tl7
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:Mg302

b:19.7
occ:1.00
 O3G E:ATP301 2.0 21.6 1.0
O E:HOH502 2.0 21.7 1.0
O2B E:ATP301 2.1 18.9 1.0
OG1 E:THR53 2.1 19.2 1.0
O E:HOH503 2.1 20.1 1.0
O E:HOH501 2.1 18.4 1.0
CB E:THR53 3.2 18.3 1.0
PG E:ATP301 3.2 24.1 1.0
PB E:ATP301 3.2 20.0 1.0
O3B E:ATP301 3.4 29.3 1.0
O2G E:ATP301 3.8 26.0 1.0
O E:HOH425 3.9 25.5 1.0
OD2 E:ASP145 3.9 23.7 0.6
N E:THR53 4.0 22.9 1.0
OD2 E:ASP145 4.0 23.3 0.4
O1A E:ATP301 4.0 22.6 1.0
CA E:THR53 4.1 24.7 1.0
OD1 E:ASP145 4.2 22.7 0.6
O E:HOH521 4.2 28.4 1.0
OD1 E:ASP145 4.2 23.6 0.4
O3A E:ATP301 4.2 20.9 1.0
CG2 E:THR53 4.3 18.9 1.0
O1B E:ATP301 4.3 20.4 1.0
NH2 F:ARG226 4.4 23.8 1.0
NE F:ARG226 4.4 22.7 1.0
O1G E:ATP301 4.4 36.0 1.0
O E:HOH519 4.5 31.9 1.0
CG E:ASP145 4.5 23.5 0.6
CG E:ASP145 4.5 24.6 0.4
PA E:ATP301 4.6 23.1 1.0
O2A E:ATP301 4.8 28.6 1.0
CZ F:ARG226 4.8 26.5 1.0
CB E:LYS52 5.0 21.1 1.0

Magnesium binding site 6 out of 6 in 4tl7

Go back to Magnesium Binding Sites List in 4tl7
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:Mg302

b:24.1
occ:1.00
 O F:HOH486 2.0 21.0 1.0
O2B F:ATP301 2.0 19.1 1.0
O2G F:ATP301 2.0 23.0 1.0
OG1 F:THR53 2.1 26.3 1.0
O F:HOH488 2.1 22.2 1.0
O F:HOH487 2.2 27.2 1.0
PB F:ATP301 3.1 21.1 1.0
CB F:THR53 3.2 24.8 1.0
PG F:ATP301 3.2 27.6 1.0
O3B F:ATP301 3.3 29.0 1.0
N F:THR53 3.8 20.4 1.0
O3G F:ATP301 3.9 32.7 1.0
OD2 F:ASP145 4.0 27.0 0.6
O1A F:ATP301 4.1 28.0 1.0
CA F:THR53 4.1 22.7 1.0
O F:HOH423 4.1 29.9 1.0
OD2 F:ASP145 4.1 23.0 0.5
O3A F:ATP301 4.1 21.3 1.0
O1B F:ATP301 4.2 20.8 1.0
O F:HOH506 4.2 29.8 1.0
OD1 F:ASP145 4.3 29.1 0.6
OD1 F:ASP145 4.3 26.1 0.5
CG2 F:THR53 4.3 24.4 1.0
O F:HOH435 4.3 37.0 1.0
NE A:ARG226 4.5 24.5 1.0
PA F:ATP301 4.5 26.8 1.0
NH2 A:ARG226 4.5 21.9 1.0
O1G F:ATP301 4.5 38.1 1.0
CG F:ASP145 4.6 27.8 0.6
CG F:ASP145 4.6 26.7 0.5
O2A F:ATP301 4.7 30.6 1.0
CZ A:ARG226 4.9 25.2 1.0
CB F:LYS52 4.9 20.1 1.0
C F:LYS52 5.0 24.6 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. Circadian Rhythms. 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: Tue Aug 20 03:45:27 2024

Last articles

Zn in 9JPJ
Zn in 9JP7
Zn in 9JPK
Zn in 9JPL
Zn in 9GN6
Zn in 9GN7
Zn in 9GKU
Zn in 9GKW
Zn in 9GKX
Zn in 9GL0
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy