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Magnesium in PDB 9j0g: Crystal Structure of Rhoa-TP1001 Complex

Enzymatic activity of Crystal Structure of Rhoa-TP1001 Complex

All present enzymatic activity of Crystal Structure of Rhoa-TP1001 Complex:
3.6.5.2;

Protein crystallography data

The structure of Crystal Structure of Rhoa-TP1001 Complex, PDB code: 9j0g was solved by L.Zhu, H.Li, L.Chang, X.Hu, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 44.08 / 3.10
Space group C 2 2 21
Cell size a, b, c (Å), α, β, γ (°) 81.24, 124.8, 173.5, 90, 90, 90
R / Rfree (%) 31.1 / 35.4

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Crystal Structure of Rhoa-TP1001 Complex (pdb code 9j0g). 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 Rhoa-TP1001 Complex, PDB code: 9j0g:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6;

Magnesium binding site 1 out of 6 in 9j0g

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Magnesium binding site 1 out of 6 in the Crystal Structure of Rhoa-TP1001 Complex


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 Rhoa-TP1001 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg202

b:15.6
occ:1.00
 O2A A:GDP201 2.3 18.8 1.0
OG1 A:THR19 2.4 24.6 1.0
O A:THR37 2.6 20.6 1.0
O A:PRO36 2.6 25.2 1.0
CB A:THR19 3.2 25.6 1.0
C A:THR37 3.4 22.1 1.0
O1B A:GDP201 3.4 19.7 1.0
PA A:GDP201 3.5 20.8 1.0
C A:PRO36 3.6 24.3 1.0
CA A:THR37 3.7 21.9 1.0
CG2 A:THR19 3.8 25.8 1.0
CG1 A:VAL35 3.9 20.2 1.0
O1A A:GDP201 4.0 20.7 1.0
O2B A:GDP201 4.0 18.9 1.0
PB A:GDP201 4.1 19.8 1.0
N A:THR37 4.1 22.9 1.0
O3A A:GDP201 4.1 20.1 1.0
CA A:THR19 4.5 26.5 1.0
N A:VAL38 4.6 23.1 1.0
N A:THR19 4.6 28.8 1.0
CB A:VAL35 4.8 21.1 1.0
O5' A:GDP201 4.8 20.5 1.0
CA A:PRO36 4.9 24.6 1.0
N A:PRO36 4.9 25.6 1.0

Magnesium binding site 2 out of 6 in 9j0g

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Magnesium binding site 2 out of 6 in the Crystal Structure of Rhoa-TP1001 Complex


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 Rhoa-TP1001 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg302

b:2.9
occ:1.00
 O2B B:GDP301 2.6 28.9 1.0
MG B:MG303 3.3 20.9 1.0
O B:THR37 3.5 47.0 1.0
PB B:GDP301 3.5 29.5 1.0
O1B B:GDP301 3.5 29.5 1.0
CA B:THR37 3.6 40.3 1.0
CB B:ALA61 3.7 27.4 1.0
C B:THR37 3.8 45.3 1.0
CB B:THR37 4.1 39.4 1.0
O3B B:GDP301 4.1 27.5 1.0
OG1 B:THR19 4.3 34.0 1.0
CG2 B:THR37 4.6 39.4 1.0
O2A B:GDP301 4.6 22.8 1.0
O B:PRO36 4.7 38.4 1.0
N B:THR37 4.8 39.5 1.0
O B:THR60 4.9 23.3 1.0
O3A B:GDP301 4.9 25.6 1.0
N B:VAL38 4.9 49.9 1.0
CA B:ALA61 4.9 27.6 1.0

Magnesium binding site 3 out of 6 in 9j0g

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Magnesium binding site 3 out of 6 in the Crystal Structure of Rhoa-TP1001 Complex


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 Rhoa-TP1001 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg303

b:20.9
occ:1.00
 OG1 B:THR19 1.8 34.0 1.0
OD2 B:ASP59 2.6 33.4 1.0
O1B B:GDP301 3.1 29.5 1.0
OD1 B:ASP59 3.2 32.5 1.0
CB B:THR19 3.2 33.6 1.0
CG B:ASP59 3.3 34.7 1.0
MG B:MG302 3.3 2.9 1.0
O B:THR37 3.4 47.0 1.0
O B:THR60 3.5 23.3 1.0
O B:VAL38 3.5 43.1 1.0
C B:THR37 3.6 45.3 1.0
N B:VAL38 3.9 49.9 1.0
CG2 B:THR19 4.0 35.2 1.0
CA B:THR19 4.0 32.6 1.0
N B:THR19 4.1 34.5 1.0
CA B:VAL38 4.2 47.3 1.0
C B:VAL38 4.3 48.0 1.0
PB B:GDP301 4.3 29.5 1.0
O B:PRO36 4.3 38.4 1.0
O2B B:GDP301 4.3 28.9 1.0
CA B:THR37 4.5 40.3 1.0
CB B:ALA61 4.5 27.4 1.0
C B:THR60 4.7 26.1 1.0
CB B:ASP59 4.8 34.3 1.0
CB B:LYS18 4.8 45.3 1.0
CE B:LYS18 4.8 43.6 1.0

Magnesium binding site 4 out of 6 in 9j0g

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Magnesium binding site 4 out of 6 in the Crystal Structure of Rhoa-TP1001 Complex


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 Rhoa-TP1001 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg202

b:3.3
occ:1.00
 O1B C:GDP201 1.8 20.6 1.0
OG1 C:THR19 2.3 27.1 1.0
O C:THR37 2.6 30.6 1.0
PB C:GDP201 2.7 24.0 1.0
O2B C:GDP201 2.8 24.2 1.0
O C:PRO36 3.1 26.9 1.0
CB C:THR19 3.2 28.9 1.0
C C:THR37 3.4 28.4 1.0
O3B C:GDP201 3.7 22.7 1.0
CA C:THR37 3.7 27.4 1.0
CG2 C:THR19 3.9 28.9 1.0
O3A C:GDP201 4.1 26.8 1.0
C C:PRO36 4.1 27.0 1.0
N C:VAL38 4.4 28.7 1.0
N C:THR37 4.4 27.2 1.0
CA C:THR19 4.4 30.8 1.0
N C:THR19 4.5 33.0 1.0
O2A C:GDP201 4.7 26.3 1.0
PA C:GDP201 4.8 28.2 1.0
CA C:VAL38 4.8 30.7 1.0
O C:THR60 4.8 21.8 1.0
O1A C:GDP201 4.9 29.1 1.0
CB C:ALA61 5.0 22.2 1.0
CB C:THR37 5.0 26.7 1.0

Magnesium binding site 5 out of 6 in 9j0g

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Magnesium binding site 5 out of 6 in the Crystal Structure of Rhoa-TP1001 Complex


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 Rhoa-TP1001 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg203

b:10.3
occ:1.00
 O2A D:GDP202 1.8 24.6 1.0
O D:PRO36 2.1 21.6 1.0
O04 D:U6L201 2.5 37.0 1.0
OG1 D:THR19 3.0 23.8 1.0
PA D:GDP202 3.1 25.4 1.0
CB D:THR19 3.2 24.4 1.0
C D:PRO36 3.2 21.8 1.0
CG2 D:THR19 3.4 24.2 1.0
CA D:THR37 3.6 23.7 1.0
CG1 D:VAL35 3.7 22.1 1.0
N D:THR37 3.8 23.0 1.0
C D:THR37 3.8 25.4 1.0
O1A D:GDP202 3.8 25.8 1.0
O5' D:GDP202 3.9 26.4 1.0
C03 D:U6L201 3.9 36.2 1.0
O D:THR37 3.9 24.7 1.0
O1B D:GDP202 4.0 28.2 1.0
C06 D:U6L201 4.0 36.2 1.0
O3A D:GDP202 4.2 25.1 1.0
C05 D:U6L201 4.3 36.0 1.0
CA D:PRO36 4.4 21.0 1.0
N D:PRO36 4.5 21.1 1.0
N D:VAL38 4.6 27.9 1.0
CA D:THR19 4.7 24.5 1.0
PB D:GDP202 4.7 27.9 1.0
MG D:MG204 4.7 18.6 1.0
O D:VAL35 4.7 20.4 1.0
C D:VAL35 4.7 21.1 1.0
C01 D:U6L201 4.8 36.0 1.0
CB D:THR37 4.9 22.5 1.0
CB D:VAL35 4.9 21.4 1.0
O2B D:GDP202 4.9 26.9 1.0
O02 D:U6L201 5.0 34.4 1.0

Magnesium binding site 6 out of 6 in 9j0g

Go back to Magnesium Binding Sites List in 9j0g
Magnesium binding site 6 out of 6 in the Crystal Structure of Rhoa-TP1001 Complex


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 Rhoa-TP1001 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg204

b:18.6
occ:1.00
 O D:THR60 2.2 24.0 1.0
O D:THR37 2.5 24.7 1.0
CE D:LYS18 2.8 23.0 1.0
NZ D:LYS18 3.1 22.3 1.0
O1B D:GDP202 3.2 28.2 1.0
OD1 D:ASP59 3.3 32.2 1.0
C D:THR60 3.4 23.7 1.0
OG1 D:THR19 3.5 23.8 1.0
C D:THR37 3.8 25.4 1.0
CA D:ALA61 4.0 24.8 1.0
CG D:ASP59 4.1 33.8 1.0
CB D:ALA61 4.1 24.9 1.0
N D:ALA61 4.1 24.0 1.0
CD D:LYS18 4.2 25.1 1.0
OD2 D:ASP59 4.2 36.0 1.0
O2B D:GDP202 4.3 26.9 1.0
PB D:GDP202 4.3 27.9 1.0
N D:THR60 4.5 23.7 1.0
CA D:THR60 4.5 23.7 1.0
CA D:THR37 4.6 23.7 1.0
O2A D:GDP202 4.6 24.6 1.0
MG D:MG203 4.7 10.3 1.0
N D:VAL38 4.7 27.9 1.0
CB D:LYS18 4.8 26.6 1.0
CA D:VAL38 4.9 31.7 1.0
CG2 D:VAL38 4.9 36.8 1.0
CG D:LYS18 4.9 26.0 1.0
CB D:THR19 4.9 24.4 1.0

Reference:

L.Zhu, H.Li, L.Chang, X.Hu. Crystal Structure of Rhoa-TP1001 Complex To Be Published.
Page generated: Sat Aug 23 06:04:57 2025

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