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Magnesium in PDB 3brb: Crystal Structure of Catalytic Domain of the Proto-Oncogene Tyrosine- Protein Kinase Mer in Complex with Adp

Enzymatic activity of Crystal Structure of Catalytic Domain of the Proto-Oncogene Tyrosine- Protein Kinase Mer in Complex with Adp

All present enzymatic activity of Crystal Structure of Catalytic Domain of the Proto-Oncogene Tyrosine- Protein Kinase Mer in Complex with Adp:
2.7.10.1;

Protein crystallography data

The structure of Crystal Structure of Catalytic Domain of the Proto-Oncogene Tyrosine- Protein Kinase Mer in Complex with Adp, PDB code: 3brb was solved by J.R.Walker, X.Huang, P.J.Finerty Jr, J.Weigelt, C.H.Arrowsmith, A.M.Edwards, A.Bochkarev, S.Dhe-Paganon, Structural Genomics Consortium(Sgc), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 25.05 / 1.90
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 53.385, 89.880, 69.537, 90.00, 103.09, 90.00
R / Rfree (%) 19.2 / 24

Other elements in 3brb:

The structure of Crystal Structure of Catalytic Domain of the Proto-Oncogene Tyrosine- Protein Kinase Mer in Complex with Adp also contains other interesting chemical elements:

Chlorine (Cl) 5 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Crystal Structure of Catalytic Domain of the Proto-Oncogene Tyrosine- Protein Kinase Mer in Complex with Adp (pdb code 3brb). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Crystal Structure of Catalytic Domain of the Proto-Oncogene Tyrosine- Protein Kinase Mer in Complex with Adp, PDB code: 3brb:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in 3brb

Go back to Magnesium Binding Sites List in 3brb
Magnesium binding site 1 out of 2 in the Crystal Structure of Catalytic Domain of the Proto-Oncogene Tyrosine- Protein Kinase Mer in Complex with Adp


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 Catalytic Domain of the Proto-Oncogene Tyrosine- Protein Kinase Mer in Complex with Adp within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg10

b:40.4
occ:1.00
 O A:HOH240 2.0 43.6 1.0
O2B A:ADP901 2.1 46.4 1.0
OD2 A:ASP741 2.2 52.8 1.0
O1A A:ADP901 2.2 43.2 1.0
OD1 A:ASN728 2.2 43.0 1.0
O A:HOH20 2.2 44.8 1.0
PA A:ADP901 3.3 47.6 1.0
CG A:ASN728 3.3 39.6 1.0
PB A:ADP901 3.3 50.3 1.0
CG A:ASP741 3.3 52.2 1.0
O3A A:ADP901 3.5 46.1 1.0
NZ A:LYS619 3.8 64.5 1.0
ND2 A:ASN728 3.9 37.6 1.0
CB A:ASP741 3.9 44.3 1.0
O1B A:ADP901 4.0 50.7 1.0
O5' A:ADP901 4.1 49.6 1.0
O A:ARG727 4.2 33.9 1.0
OD1 A:ASP741 4.3 56.9 1.0
O2A A:ADP901 4.4 48.8 1.0
CB A:ASN728 4.5 32.3 1.0
O3B A:ADP901 4.5 49.6 1.0
O A:HOH21 4.5 41.5 1.0
CA A:ASN728 4.6 33.7 1.0
C A:ARG727 4.9 32.8 1.0
CE A:LYS619 4.9 61.0 1.0
CG A:ARG727 5.0 39.8 1.0

Magnesium binding site 2 out of 2 in 3brb

Go back to Magnesium Binding Sites List in 3brb
Magnesium binding site 2 out of 2 in the Crystal Structure of Catalytic Domain of the Proto-Oncogene Tyrosine- Protein Kinase Mer in Complex with Adp


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 Catalytic Domain of the Proto-Oncogene Tyrosine- Protein Kinase Mer in Complex with Adp within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg9

b:41.2
occ:1.00
 ND2 B:ASN728 2.0 36.7 1.0
O B:HOH238 2.1 49.3 1.0
O2B B:ADP901 2.1 49.0 1.0
OD2 B:ASP741 2.1 51.9 1.0
O B:HOH239 2.1 46.9 1.0
O1A B:ADP901 2.2 42.2 1.0
CG B:ASN728 3.2 32.0 1.0
CG B:ASP741 3.3 50.1 1.0
PB B:ADP901 3.3 46.0 1.0
PA B:ADP901 3.3 42.1 1.0
O3A B:ADP901 3.5 44.6 1.0
OD1 B:ASN728 3.7 43.5 1.0
O B:ARG727 3.8 28.0 0.5
NZ B:LYS619 3.9 58.5 1.0
CB B:ASP741 4.0 41.2 1.0
NH2 B:ARG727 4.1 21.3 0.5
O1B B:ADP901 4.2 50.6 1.0
OD1 B:ASP741 4.3 59.4 1.0
O5' B:ADP901 4.3 45.6 1.0
CB B:ASN728 4.3 34.7 1.0
O3B B:ADP901 4.4 52.0 1.0
CA B:ASN728 4.5 29.8 1.0
O2A B:ADP901 4.5 45.6 1.0
O B:ARG727 4.6 30.8 0.5
C B:ARG727 4.7 31.4 0.5
O B:HOH189 4.7 37.2 1.0
CD B:ARG727 4.7 23.2 0.5
C B:ARG727 4.9 30.2 0.5
N B:ASN728 5.0 31.4 1.0
CE B:LYS619 5.0 56.2 1.0

Reference:

X.Huang, P.Finerty, J.R.Walker, C.Butler-Cole, M.Vedadi, M.Schapira, S.A.Parker, B.E.Turk, D.A.Thompson, S.Dhe-Paganon. Structural Insights Into the Inhibited States of the Mer Receptor Tyrosine Kinase. J.Struct.Biol. V. 165 88 2009.
ISSN: ISSN 1047-8477
PubMed: 19028587
DOI: 10.1016/J.JSB.2008.10.003
Page generated: Wed Aug 14 09:18:26 2024

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