Atomistry » Magnesium » PDB 6e8s-6el0 » 6eac
Atomistry »
  Magnesium »
    PDB 6e8s-6el0 »
      6eac »

Magnesium in PDB 6eac: Pseudomonas Syringae Selo

Protein crystallography data

The structure of Pseudomonas Syringae Selo, PDB code: 6eac was solved by D.R.Tomchick, V.S.Tagliabracci, A.Sreelatha, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 49.14 / 2.27
Space group I 2 2 2
Cell size a, b, c (Å), α, β, γ (°) 136.174, 158.056, 227.248, 90.00, 90.00, 90.00
R / Rfree (%) 18.2 / 21.2

Other elements in 6eac:

The structure of Pseudomonas Syringae Selo also contains other interesting chemical elements:

Calcium (Ca) 14 atoms
Chlorine (Cl) 4 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Pseudomonas Syringae Selo (pdb code 6eac). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the Pseudomonas Syringae Selo, PDB code: 6eac:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in 6eac

Go back to Magnesium Binding Sites List in 6eac
Magnesium binding site 1 out of 4 in the Pseudomonas Syringae Selo


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Pseudomonas Syringae Selo within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg501

b:10.8
occ:1.00
O1G A:ANP506 2.1 17.9 1.0
OD1 A:ASN253 2.1 27.4 1.0
O A:HOH656 2.2 30.5 1.0
OD2 A:ASP262 2.2 21.8 1.0
O1A A:ANP506 2.2 25.6 1.0
O3A A:ANP506 2.3 31.6 1.0
PA A:ANP506 2.8 33.7 1.0
CG A:ASN253 3.1 27.8 1.0
HD21 A:ASN253 3.1 37.1 1.0
CG A:ASP262 3.3 23.1 1.0
HH12 A:ARG183 3.3 37.8 1.0
PG A:ANP506 3.5 25.9 1.0
HB2 A:ASP262 3.5 28.5 1.0
ND2 A:ASN253 3.5 30.9 1.0
PB A:ANP506 3.5 29.1 1.0
O2A A:ANP506 3.8 31.5 1.0
CB A:ASP262 3.9 23.8 1.0
OD2 A:ASP252 3.9 23.0 1.0
N3B A:ANP506 4.0 29.4 1.0
H3' A:ANP506 4.0 30.2 1.0
O2G A:ANP506 4.0 29.7 1.0
O5' A:ANP506 4.0 33.6 1.0
O2B A:ANP506 4.1 26.9 1.0
HB3 A:ASP262 4.1 28.5 1.0
H5'2 A:ANP506 4.1 35.7 1.0
NH1 A:ARG183 4.1 31.5 1.0
HNB1 A:ANP506 4.2 35.3 1.0
HH11 A:ARG183 4.2 37.8 1.0
O A:HOH652 4.3 25.8 1.0
CA A:CA502 4.3 25.1 1.0
HA A:ASN253 4.3 26.5 1.0
OD1 A:ASP262 4.4 27.5 1.0
HD22 A:ASN253 4.4 37.1 1.0
CB A:ASN253 4.5 21.4 1.0
OH A:TYR77 4.6 27.7 1.0
C5' A:ANP506 4.6 29.8 1.0
O3G A:ANP506 4.7 29.7 1.0
O A:ASP252 4.7 21.4 1.0
O1B A:ANP506 4.8 30.9 1.0
HH A:TYR77 4.8 33.3 1.0
CA A:ASN253 4.8 22.1 1.0
HB3 A:ASN253 4.8 25.7 1.0
H2' A:ANP506 4.8 34.3 1.0
C3' A:ANP506 4.9 25.1 1.0
HH22 A:ARG183 4.9 25.7 1.0
CG A:ASP252 4.9 25.2 1.0

Magnesium binding site 2 out of 4 in 6eac

Go back to Magnesium Binding Sites List in 6eac
Magnesium binding site 2 out of 4 in the Pseudomonas Syringae Selo


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Pseudomonas Syringae Selo within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg501

b:13.1
occ:1.00
OD1 B:ASN253 2.1 29.8 1.0
O2A B:ANP507 2.1 24.5 1.0
O2G B:ANP507 2.1 16.5 1.0
O B:HOH618 2.2 18.9 1.0
OD2 B:ASP262 2.3 24.9 1.0
O3A B:ANP507 2.3 29.3 1.0
PA B:ANP507 2.8 33.4 1.0
CG B:ASN253 3.1 28.3 1.0
HD21 B:ASN253 3.2 33.4 1.0
CG B:ASP262 3.3 29.8 1.0
HH12 B:ARG183 3.4 35.4 1.0
HB2 B:ASP262 3.5 34.2 1.0
PG B:ANP507 3.6 26.8 1.0
ND2 B:ASN253 3.6 27.8 1.0
PB B:ANP507 3.6 29.1 1.0
O1A B:ANP507 3.8 30.8 1.0
CB B:ASP262 3.9 28.5 1.0
OD2 B:ASP252 3.9 28.9 1.0
H5'2 B:ANP507 4.0 39.3 1.0
H3' B:ANP507 4.0 33.7 1.0
O5' B:ANP507 4.0 35.0 1.0
HB3 B:ASP262 4.0 34.2 1.0
N3B B:ANP507 4.1 30.5 1.0
NH1 B:ARG183 4.1 29.4 1.0
O1B B:ANP507 4.1 22.3 1.0
O B:HOH683 4.1 31.0 1.0
O1G B:ANP507 4.2 28.1 1.0
HH11 B:ARG183 4.3 35.4 1.0
HA B:ASN253 4.3 30.6 1.0
HNB1 B:ANP507 4.3 36.6 1.0
CA B:CA502 4.3 28.8 1.0
OD1 B:ASP262 4.4 30.4 1.0
HD22 B:ASN253 4.4 33.4 1.0
CB B:ASN253 4.5 24.3 1.0
C5' B:ANP507 4.5 32.7 1.0
OH B:TYR77 4.6 27.7 1.0
O B:ASP252 4.7 20.4 1.0
O3G B:ANP507 4.7 29.4 1.0
CA B:ASN253 4.8 25.5 1.0
HB3 B:ASN253 4.8 29.1 1.0
H2' B:ANP507 4.8 33.8 1.0
HH B:TYR77 4.9 33.3 1.0
O2B B:ANP507 4.9 33.1 1.0
C3' B:ANP507 4.9 28.0 1.0
CG B:ASP252 4.9 29.0 1.0
HH22 B:ARG183 5.0 28.6 1.0

Magnesium binding site 3 out of 4 in 6eac

Go back to Magnesium Binding Sites List in 6eac
Magnesium binding site 3 out of 4 in the Pseudomonas Syringae Selo


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Pseudomonas Syringae Selo within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg501

b:20.2
occ:1.00
OD1 C:ASN253 2.0 34.2 1.0
O2G C:ANP506 2.1 22.9 1.0
OD2 C:ASP262 2.1 26.7 1.0
O C:HOH642 2.1 26.1 1.0
O1A C:ANP506 2.2 30.9 1.0
O3A C:ANP506 2.2 31.8 1.0
PA C:ANP506 2.7 36.5 1.0
CG C:ASN253 3.1 30.6 1.0
HD21 C:ASN253 3.1 41.3 1.0
CG C:ASP262 3.2 29.1 1.0
HB2 C:ASP262 3.4 33.7 1.0
HH12 C:ARG183 3.4 40.5 1.0
ND2 C:ASN253 3.5 34.4 1.0
PG C:ANP506 3.5 29.0 1.0
PB C:ANP506 3.5 29.4 1.0
O2A C:ANP506 3.7 26.2 1.0
CB C:ASP262 3.8 28.1 1.0
H5'2 C:ANP506 3.9 45.4 1.0
O5' C:ANP506 3.9 37.2 1.0
OD2 C:ASP252 4.0 32.0 1.0
N3B C:ANP506 4.0 33.7 1.0
HB3 C:ASP262 4.0 33.7 1.0
O1B C:ANP506 4.0 24.5 1.0
H3' C:ANP506 4.1 47.5 1.0
NH1 C:ARG183 4.1 33.7 1.0
O3G C:ANP506 4.1 26.1 1.0
O C:HOH616 4.2 31.3 1.0
HH11 C:ARG183 4.2 40.5 1.0
OD1 C:ASP262 4.3 26.3 1.0
HNB1 C:ANP506 4.3 40.5 1.0
CA C:CA502 4.3 30.9 1.0
HA C:ASN253 4.3 33.3 1.0
HD22 C:ASN253 4.3 41.3 1.0
CB C:ASN253 4.4 25.6 1.0
C5' C:ANP506 4.4 37.8 1.0
OH C:TYR77 4.6 37.1 1.0
O1G C:ANP506 4.6 33.4 1.0
O C:ASP252 4.7 31.8 1.0
O2B C:ANP506 4.7 29.1 1.0
H2' C:ANP506 4.7 46.8 1.0
HB3 C:ASN253 4.8 30.8 1.0
CA C:ASN253 4.8 27.7 1.0
HH C:TYR77 4.9 44.6 1.0
CG C:ASP252 4.9 31.5 1.0
C3' C:ANP506 5.0 39.6 1.0

Magnesium binding site 4 out of 4 in 6eac

Go back to Magnesium Binding Sites List in 6eac
Magnesium binding site 4 out of 4 in the Pseudomonas Syringae Selo


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Pseudomonas Syringae Selo within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg501

b:17.1
occ:1.00
O1G D:ANP506 2.0 19.6 1.0
O D:HOH617 2.0 25.1 1.0
OD2 D:ASP262 2.0 29.9 1.0
OD1 D:ASN253 2.1 33.4 1.0
O3A D:ANP506 2.2 32.1 1.0
O2A D:ANP506 2.2 34.2 1.0
PA D:ANP506 2.8 37.5 1.0
CG D:ASN253 3.0 31.6 1.0
HD21 D:ASN253 3.1 40.6 1.0
CG D:ASP262 3.2 29.7 1.0
HH12 D:ARG183 3.4 36.7 1.0
HB2 D:ASP262 3.4 31.1 1.0
PG D:ANP506 3.4 28.4 1.0
ND2 D:ASN253 3.4 33.8 1.0
PB D:ANP506 3.5 32.3 1.0
O1A D:ANP506 3.7 29.6 1.0
CB D:ASP262 3.8 26.0 1.0
O2B D:ANP506 3.9 25.2 1.0
H5'2 D:ANP506 3.9 39.9 1.0
N3B D:ANP506 3.9 31.6 1.0
OD2 D:ASP252 3.9 29.2 1.0
O5' D:ANP506 4.0 35.6 1.0
HB3 D:ASP262 4.0 31.1 1.0
O2G D:ANP506 4.0 27.3 1.0
H3' D:ANP506 4.1 42.6 1.0
NH1 D:ARG183 4.1 30.6 1.0
OD1 D:ASP262 4.2 26.2 1.0
HH11 D:ARG183 4.2 36.7 1.0
CA D:CA502 4.3 31.2 1.0
HD22 D:ASN253 4.3 40.6 1.0
HA D:ASN253 4.3 31.6 1.0
CB D:ASN253 4.4 26.2 1.0
O D:HOH641 4.5 24.8 1.0
C5' D:ANP506 4.5 33.2 1.0
OH D:TYR77 4.5 35.0 1.0
O3G D:ANP506 4.6 33.6 1.0
HB3 D:ASN253 4.7 31.5 1.0
O D:ASP252 4.7 31.8 1.0
HNB1 D:ANP506 4.7 37.9 1.0
O1B D:ANP506 4.8 33.9 1.0
HH D:TYR77 4.8 42.0 1.0
H2' D:ANP506 4.8 44.6 1.0
CA D:ASN253 4.8 26.3 1.0
CG D:ASP252 5.0 31.7 1.0
C3' D:ANP506 5.0 35.5 1.0

Reference:

A.Sreelatha, S.S.Yee, V.A.Lopez, B.C.Park, L.N.Kinch, S.Pilch, K.A.Servage, J.Zhang, J.Jiou, M.Karasiewicz-Urbanska, M.Lobocka, N.V.Grishin, K.Orth, R.Kucharczyk, K.Pawlowski, D.R.Tomchick, V.S.Tagliabracci. Protein Ampylation By An Evolutionarily Conserved Pseudokinase. Cell V. 175 809 2018.
ISSN: ISSN 1097-4172
PubMed: 30270044
DOI: 10.1016/J.CELL.2018.08.046
Page generated: Mon Sep 30 23:52:22 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