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Magnesium in PDB 4o0m: Crystal Structure of T. Elongatus Bp-1 Clock Protein Kaic

Enzymatic activity of Crystal Structure of T. Elongatus Bp-1 Clock Protein Kaic

All present enzymatic activity of Crystal Structure of T. Elongatus Bp-1 Clock Protein Kaic:
2.7.11.1;

Protein crystallography data

The structure of Crystal Structure of T. Elongatus Bp-1 Clock Protein Kaic, PDB code: 4o0m was solved by R.Pattanayek, M.Egli, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 58.99 / 2.84
Space group C 2 2 21
Cell size a, b, c (Å), α, β, γ (°) 130.810, 195.290, 136.640, 90.00, 90.00, 90.00
R / Rfree (%) 22.5 / 27

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Crystal Structure of T. Elongatus Bp-1 Clock Protein Kaic (pdb code 4o0m). 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 T. Elongatus Bp-1 Clock Protein Kaic, PDB code: 4o0m:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6;

Magnesium binding site 1 out of 6 in 4o0m

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Magnesium binding site 1 out of 6 in the Crystal Structure of T. Elongatus Bp-1 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 T. Elongatus Bp-1 Clock Protein Kaic within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg801

b:32.9
occ:1.00
 O3B A:ATP802 1.9 45.3 1.0
OG1 A:THR295 2.1 46.0 1.0
O2G A:ATP802 2.5 65.1 1.0
PG A:ATP802 2.7 47.0 1.0
O3G A:ATP802 3.3 33.0 1.0
PB A:ATP802 3.3 30.9 1.0
CB A:THR295 3.4 40.9 1.0
O3A A:ATP802 3.5 32.4 1.0
OE2 A:GLU319 3.6 66.0 1.0
OE1 A:GLU318 3.8 63.5 1.0
OD1 A:ASP378 4.0 44.1 1.0
O1B A:ATP802 4.0 28.7 1.0
O1G A:ATP802 4.0 35.6 1.0
N A:THR295 4.2 29.7 1.0
O2A A:ATP802 4.3 42.3 1.0
CG2 A:THR295 4.3 36.8 1.0
O A:HOH922 4.3 47.0 1.0
O2B A:ATP802 4.3 42.4 1.0
CA A:THR295 4.3 32.6 1.0
PA A:ATP802 4.5 31.8 1.0
CG A:ASP378 4.7 51.5 1.0
NH2 B:ARG459 4.7 43.4 1.0
OD2 A:ASP378 4.8 49.6 1.0
NZ A:LYS294 4.8 31.1 1.0
CD A:GLU319 4.8 51.7 1.0

Magnesium binding site 2 out of 6 in 4o0m

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Magnesium binding site 2 out of 6 in the Crystal Structure of T. Elongatus Bp-1 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 T. Elongatus Bp-1 Clock Protein Kaic within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg804

b:64.6
occ:1.00
 OE2 A:GLU79 2.0 54.9 1.0
CG2 A:THR54 2.1 42.0 1.0
OG1 A:THR54 2.2 49.9 1.0
CB A:THR54 2.5 42.1 1.0
CD A:GLU79 3.2 52.4 1.0
O3G A:ATP803 3.3 63.2 1.0
OD2 A:ASP146 3.5 49.0 1.0
O3B A:ATP803 3.6 49.7 1.0
O2A A:ATP803 3.9 31.2 1.0
OE1 A:GLU79 3.9 37.1 1.0
CA A:THR54 4.0 33.6 1.0
CG A:GLU79 4.1 45.0 1.0
PG A:ATP803 4.1 74.5 1.0
O3A A:ATP803 4.4 36.4 1.0
CG A:ASP146 4.4 47.2 1.0
NE B:ARG227 4.4 38.0 1.0
CZ B:ARG227 4.4 39.7 1.0
OD1 A:ASP146 4.5 56.0 1.0
NH2 B:ARG227 4.5 45.4 1.0
PA A:ATP803 4.6 30.0 1.0
PB A:ATP803 4.6 34.0 1.0
N A:THR54 4.7 31.1 1.0
O2G A:ATP803 4.9 74.1 1.0
C A:THR54 5.0 38.1 1.0
NH1 B:ARG227 5.0 39.6 1.0
O1A A:ATP803 5.0 53.6 1.0
CD B:ARG227 5.0 35.7 1.0

Magnesium binding site 3 out of 6 in 4o0m

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Magnesium binding site 3 out of 6 in the Crystal Structure of T. Elongatus Bp-1 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 T. Elongatus Bp-1 Clock Protein Kaic within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg601

b:47.1
occ:1.00
 OG1 B:THR295 2.1 46.0 1.0
O3B B:ATP602 2.2 52.5 1.0
O2G B:ATP602 2.9 75.5 1.0
PG B:ATP602 3.0 54.2 1.0
OE1 B:GLU318 3.2 84.5 1.0
O3G B:ATP602 3.3 47.1 1.0
OE2 B:GLU319 3.3 75.9 1.0
CB B:THR295 3.5 39.1 1.0
PB B:ATP602 3.6 42.3 1.0
O3A B:ATP602 3.7 41.5 1.0
OD1 B:ASP378 3.8 47.2 1.0
OD2 B:ASP378 4.1 61.0 1.0
CG2 B:THR295 4.2 42.9 1.0
CG B:ASP378 4.3 63.4 1.0
O1G B:ATP602 4.4 40.8 1.0
O1B B:ATP602 4.4 32.7 1.0
NH2 C:ARG459 4.4 47.0 1.0
CA B:THR295 4.5 35.5 1.0
CD B:GLU318 4.5 70.9 1.0
N B:THR295 4.5 33.7 1.0
CD B:GLU319 4.5 67.0 1.0
O2B B:ATP602 4.5 63.7 1.0
O2A B:ATP602 4.7 57.9 1.0
PA B:ATP602 4.9 36.0 1.0
CZ C:ARG459 5.0 44.4 1.0
NE C:ARG459 5.0 43.9 1.0

Magnesium binding site 4 out of 6 in 4o0m

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Magnesium binding site 4 out of 6 in the Crystal Structure of T. Elongatus Bp-1 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 T. Elongatus Bp-1 Clock Protein Kaic within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg603

b:41.7
occ:1.00
 OG1 B:THR54 2.0 41.7 1.0
O3B B:ATP604 2.4 50.2 1.0
O3A B:ATP604 3.2 41.9 1.0
CB B:THR54 3.4 44.4 1.0
PG B:ATP604 3.5 61.6 1.0
PB B:ATP604 3.5 46.2 1.0
O3G B:ATP604 3.6 50.1 1.0
O2G B:ATP604 3.6 59.0 1.0
OE2 B:GLU79 3.7 66.7 1.0
OD2 B:ASP146 3.8 62.9 1.0
OD1 B:ASP146 4.2 53.5 1.0
O1B B:ATP604 4.2 35.5 1.0
CG2 B:THR54 4.2 41.6 1.0
N B:THR54 4.2 36.5 1.0
NH2 C:ARG227 4.3 50.8 1.0
CA B:THR54 4.3 38.7 1.0
CG B:ASP146 4.4 58.3 1.0
PA B:ATP604 4.6 30.8 1.0
O2B B:ATP604 4.7 67.1 1.0
NE C:ARG227 4.7 36.2 1.0
CZ C:ARG227 4.7 38.1 1.0
O1G B:ATP604 4.8 53.5 1.0
CD B:GLU79 4.8 52.3 1.0
OG B:SER147 4.9 82.7 1.0
O2A B:ATP604 5.0 61.0 1.0
CB B:LYS53 5.0 32.2 1.0

Magnesium binding site 5 out of 6 in 4o0m

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Magnesium binding site 5 out of 6 in the Crystal Structure of T. Elongatus Bp-1 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 T. Elongatus Bp-1 Clock Protein Kaic within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg601

b:44.8
occ:1.00
 OG1 C:THR295 2.0 53.3 1.0
O3B C:ATP602 2.3 54.8 1.0
CB C:THR295 3.1 46.3 1.0
O3A C:ATP602 3.2 41.0 1.0
O3G C:ATP602 3.2 36.8 1.0
PG C:ATP602 3.3 52.5 1.0
PB C:ATP602 3.4 47.9 1.0
O2A C:ATP602 3.7 39.2 1.0
CG2 C:THR295 3.8 47.5 1.0
O2G C:ATP602 3.8 68.2 1.0
PA C:ATP602 4.0 39.8 1.0
OE2 C:GLU319 4.1 63.8 1.0
O2B C:ATP602 4.1 77.2 1.0
OE2 C:GLU318 4.2 95.9 1.0
CA C:THR295 4.3 46.9 1.0
N C:THR295 4.4 44.9 1.0
OD1 C:ASP378 4.5 53.1 1.0
O1B C:ATP602 4.5 34.9 1.0
O1G C:ATP602 4.6 40.5 1.0
OD2 C:ASP378 4.7 54.9 1.0
O1A C:ATP602 4.8 58.1 1.0
CD C:GLU319 4.8 51.6 1.0
CG C:ASP378 4.9 60.6 1.0
CG C:GLU318 5.0 67.8 1.0

Magnesium binding site 6 out of 6 in 4o0m

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Magnesium binding site 6 out of 6 in the Crystal Structure of T. Elongatus Bp-1 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 T. Elongatus Bp-1 Clock Protein Kaic within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg604

b:45.4
occ:1.00
 OG1 C:THR54 2.1 42.0 1.0
O3B C:ATP603 2.1 54.0 1.0
O2G C:ATP603 2.6 68.2 1.0
PG C:ATP603 2.7 62.5 1.0
O3G C:ATP603 3.0 44.4 1.0
OD2 C:ASP146 3.5 51.5 1.0
PB C:ATP603 3.5 27.6 1.0
CB C:THR54 3.5 45.1 1.0
O3A C:ATP603 3.7 37.3 1.0
OD1 C:ASP146 3.9 43.3 1.0
O1G C:ATP603 4.1 39.1 1.0
CG C:ASP146 4.1 44.8 1.0
O1B C:ATP603 4.1 32.1 1.0
N C:THR54 4.2 36.9 1.0
CA C:THR54 4.3 39.2 1.0
CG2 C:THR54 4.4 40.0 1.0
OE2 C:GLU79 4.4 68.9 1.0
O2A C:ATP603 4.5 29.8 1.0
O2B C:ATP603 4.6 53.7 1.0
O C:HOH737 4.6 38.6 1.0
PA C:ATP603 4.8 31.8 1.0
CE C:LYS53 4.8 31.8 1.0
CB C:LYS53 4.9 33.8 1.0

Reference:

R.Pattanayek, Y.Xu, A.Lamichhane, C.H.Johnson, M.Egli. An Arginine Tetrad As Mediator of Input-Dependent and Input-Independent Atpases in the Clock Protein Kaic Acta Crystallogr.,Sect.D V. D70 1375 2014.
ISSN: ISSN 0907-4449
Page generated: Tue Aug 20 00:12:59 2024

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