Atomistry » Magnesium » PDB 2vfx-2vsc » 2vpn
Atomistry »
  Magnesium »
    PDB 2vfx-2vsc »
      2vpn »

Magnesium in PDB 2vpn: High-Resolution Structure of the Periplasmic Ectoine- Binding Protein From Teaabc Trap-Transporter of Halomonas Elongata

Protein crystallography data

The structure of High-Resolution Structure of the Periplasmic Ectoine- Binding Protein From Teaabc Trap-Transporter of Halomonas Elongata, PDB code: 2vpn was solved by S.I.Kuhlmann, A.C.Terwisscha Van Scheltinga, R.Bienert, H.J.Kunte, C.Ziegler, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 20.00 / 1.55
Space group P 1
Cell size a, b, c (Å), α, β, γ (°) 48.300, 52.200, 63.500, 80.80, 85.80, 77.90
R / Rfree (%) 15.8 / 20.4

Magnesium Binding Sites:

The binding sites of Magnesium atom in the High-Resolution Structure of the Periplasmic Ectoine- Binding Protein From Teaabc Trap-Transporter of Halomonas Elongata (pdb code 2vpn). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 8 binding sites of Magnesium where determined in the High-Resolution Structure of the Periplasmic Ectoine- Binding Protein From Teaabc Trap-Transporter of Halomonas Elongata, PDB code: 2vpn:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Magnesium binding site 1 out of 8 in 2vpn

Go back to Magnesium Binding Sites List in 2vpn
Magnesium binding site 1 out of 8 in the High-Resolution Structure of the Periplasmic Ectoine- Binding Protein From Teaabc Trap-Transporter of Halomonas Elongata


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of High-Resolution Structure of the Periplasmic Ectoine- Binding Protein From Teaabc Trap-Transporter of Halomonas Elongata within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg1312

b:25.5
occ:1.00
 O A:HOH2152 2.0 27.4 1.0
O A:HOH2150 2.1 32.0 1.0
ND2 A:ASN140 2.1 16.3 0.8
CG A:ASN140 3.4 19.4 0.8
O A:HOH2154 3.7 32.9 1.0
OD1 A:ASN140 3.9 25.0 0.8
O A:HOH2165 4.1 20.6 1.0
CB A:ASN140 4.3 17.4 0.2
O A:HOH2061 4.3 22.2 1.0
O A:HOH2151 4.3 16.2 1.0
OD1 A:ASP139 4.4 23.8 1.0
O A:HOH2060 4.5 37.0 1.0
CB A:ASN140 4.6 19.2 0.8
CA A:ASN140 4.7 16.6 0.2
CA A:ASN140 4.7 17.1 0.8
N A:ASN140 4.8 17.5 1.0

Magnesium binding site 2 out of 8 in 2vpn

Go back to Magnesium Binding Sites List in 2vpn
Magnesium binding site 2 out of 8 in the High-Resolution Structure of the Periplasmic Ectoine- Binding Protein From Teaabc Trap-Transporter of Halomonas Elongata


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of High-Resolution Structure of the Periplasmic Ectoine- Binding Protein From Teaabc Trap-Transporter of Halomonas Elongata within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg1313

b:14.3
occ:1.00
 O A:HOH2265 2.1 14.0 1.0
O A:HOH2106 2.1 14.3 1.0
O A:HOH2108 2.1 14.2 1.0
O A:HOH2264 2.1 12.8 1.0
O A:HOH2262 2.1 13.9 1.0
O B:HOH2090 2.2 14.7 1.0
O A:ALA259 4.1 15.8 1.0
O A:ALA260 4.2 14.4 1.0
O B:ILE56 4.2 11.1 1.0
O A:HOH2270 4.2 23.4 1.0
O B:HOH2093 4.2 10.0 1.0
O A:HOH2268 4.2 17.3 1.0
O A:HOH2107 4.4 23.5 1.0
O B:HOH2092 4.5 37.9 1.0
O A:HOH2269 4.5 13.9 1.0
NH1 B:ARG4 4.6 14.5 1.0
O B:GLY55 4.7 15.2 1.0
C A:ALA260 4.7 14.2 1.0
CA B:ILE56 4.8 12.7 1.0
NE2 B:GLN58 4.9 11.3 1.0
C B:ILE56 5.0 11.3 1.0
CA A:ALA260 5.0 13.6 1.0

Magnesium binding site 3 out of 8 in 2vpn

Go back to Magnesium Binding Sites List in 2vpn
Magnesium binding site 3 out of 8 in the High-Resolution Structure of the Periplasmic Ectoine- Binding Protein From Teaabc Trap-Transporter of Halomonas Elongata


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of High-Resolution Structure of the Periplasmic Ectoine- Binding Protein From Teaabc Trap-Transporter of Halomonas Elongata within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg1314

b:34.6
occ:1.00
 O A:HOH2258 2.0 23.8 1.0
O B:HOH2062 2.1 24.6 1.0
O A:HOH2254 2.2 22.2 1.0
OE1 B:GLN35 4.0 21.1 1.0
O B:HOH2063 4.0 41.8 1.0
OE1 A:GLU255 4.1 23.6 1.0
O B:HOH2007 4.1 18.2 1.0
O A:HOH2256 4.2 41.7 1.0
OE2 A:GLU255 4.2 27.4 1.0
CD A:GLU255 4.6 22.3 1.0
O A:HOH2257 4.7 11.7 1.0

Magnesium binding site 4 out of 8 in 2vpn

Go back to Magnesium Binding Sites List in 2vpn
Magnesium binding site 4 out of 8 in the High-Resolution Structure of the Periplasmic Ectoine- Binding Protein From Teaabc Trap-Transporter of Halomonas Elongata


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of High-Resolution Structure of the Periplasmic Ectoine- Binding Protein From Teaabc Trap-Transporter of Halomonas Elongata within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg1315

b:26.2
occ:1.00
 O A:HOH2141 1.9 24.3 1.0
O A:HOH2143 2.1 33.7 1.0
O A:HOH2145 2.1 27.1 1.0
O A:HOH2147 2.2 27.9 1.0
O A:HOH2148 4.1 39.2 1.0
O A:GLU136 4.2 17.6 1.0
O A:ASP137 4.2 14.3 1.0
NZ A:LYS141 4.3 20.7 0.5
O A:ASP139 4.4 15.2 1.0
OE2 A:GLU130 4.4 28.4 1.0
CA A:ASP137 4.5 13.7 1.0
OE1 A:GLU130 4.5 31.2 1.0
C A:ASP137 4.7 13.3 1.0
OD1 A:ASP137 4.8 20.9 1.0
CD A:GLU130 4.8 24.5 1.0

Magnesium binding site 5 out of 8 in 2vpn

Go back to Magnesium Binding Sites List in 2vpn
Magnesium binding site 5 out of 8 in the High-Resolution Structure of the Periplasmic Ectoine- Binding Protein From Teaabc Trap-Transporter of Halomonas Elongata


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of High-Resolution Structure of the Periplasmic Ectoine- Binding Protein From Teaabc Trap-Transporter of Halomonas Elongata within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg1312

b:32.6
occ:1.00
 O B:HOH2059 2.0 19.8 1.0
O B:HOH2043 2.3 36.8 1.0
O B:GLU27 2.4 18.7 1.0
O B:SER30 2.4 18.9 1.0
O B:HOH2040 2.4 32.3 1.0
O B:HOH2054 2.7 45.0 1.0
C B:GLU27 3.4 18.1 1.0
C B:SER30 3.5 18.0 1.0
O B:HOH2019 3.9 37.5 1.0
CA B:GLU27 4.0 16.9 1.0
CA B:ASP31 4.0 19.1 1.0
N B:ASP31 4.2 18.5 1.0
O B:HOH2045 4.4 38.2 1.0
OD1 B:ASP31 4.5 26.9 0.5
O B:HOH2056 4.5 41.4 1.0
O B:HIS32 4.5 16.9 1.0
CB B:GLU27 4.5 16.2 1.0
C B:ASP31 4.6 18.7 1.0
N B:ASP28 4.6 17.4 1.0
N B:SER30 4.6 19.4 1.0
CA B:SER30 4.7 19.1 1.0
CA B:ASP28 4.9 19.3 1.0

Magnesium binding site 6 out of 8 in 2vpn

Go back to Magnesium Binding Sites List in 2vpn
Magnesium binding site 6 out of 8 in the High-Resolution Structure of the Periplasmic Ectoine- Binding Protein From Teaabc Trap-Transporter of Halomonas Elongata


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of High-Resolution Structure of the Periplasmic Ectoine- Binding Protein From Teaabc Trap-Transporter of Halomonas Elongata within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg1313

b:30.8
occ:1.00
 O B:HOH2123 1.9 32.4 1.0
O B:HOH2127 2.0 41.4 1.0
O B:HOH2274 2.0 17.5 1.0
O B:HOH2272 2.0 20.8 1.0
O B:HOH2291 2.1 33.0 1.0
O B:HOH2280 2.5 41.3 1.0
O B:LYS247 3.9 13.5 1.0
O B:HIS245 4.0 10.8 1.0
O B:HOH2294 4.2 21.3 1.0
O B:HOH2275 4.3 29.5 1.0
OE1 B:GLU252 4.6 25.6 1.0
O B:GLU244 4.8 12.8 1.0
O B:HOH2270 4.8 42.6 1.0
C B:HIS245 4.9 9.7 1.0

Magnesium binding site 7 out of 8 in 2vpn

Go back to Magnesium Binding Sites List in 2vpn
Magnesium binding site 7 out of 8 in the High-Resolution Structure of the Periplasmic Ectoine- Binding Protein From Teaabc Trap-Transporter of Halomonas Elongata


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of High-Resolution Structure of the Periplasmic Ectoine- Binding Protein From Teaabc Trap-Transporter of Halomonas Elongata within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg1314

b:35.8
occ:1.00
 O B:HOH2074 2.0 34.4 1.0
O B:HOH2185 2.2 29.1 1.0
O B:HOH2180 2.2 25.6 1.0
O B:HOH2087 3.7 36.2 1.0
OD2 B:ASP137 4.1 17.9 1.0
O B:PRO131 4.2 17.6 1.0
O B:HOH2137 4.2 35.9 1.0
OD1 B:ASP137 4.3 20.8 1.0
OE1 B:GLU130 4.4 31.1 1.0
CG B:ASP137 4.5 17.1 1.0
OG1 B:THR133 4.8 25.5 1.0

Magnesium binding site 8 out of 8 in 2vpn

Go back to Magnesium Binding Sites List in 2vpn
Magnesium binding site 8 out of 8 in the High-Resolution Structure of the Periplasmic Ectoine- Binding Protein From Teaabc Trap-Transporter of Halomonas Elongata


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 8 of High-Resolution Structure of the Periplasmic Ectoine- Binding Protein From Teaabc Trap-Transporter of Halomonas Elongata within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg1315

b:35.9
occ:1.00
 O B:HOH2085 2.0 35.4 1.0
O B:HOH2179 2.0 28.3 1.0
O B:HOH2183 2.3 26.3 1.0
O B:HOH2186 2.3 23.0 1.0
OE2 B:GLU130 4.0 29.5 1.0
OE1 B:GLU130 4.2 31.1 1.0
O B:ASP137 4.3 14.6 1.0
CD B:GLU130 4.5 24.6 1.0
O B:GLU136 4.5 17.4 1.0
CA B:ASP137 4.6 13.5 1.0
OD1 B:ASP137 4.7 20.8 1.0
C B:ASP137 4.8 13.2 1.0
O B:ASP139 4.9 15.9 1.0
CE B:LYS141 5.0 21.6 1.0

Reference:

S.I.Kuhlmann, A.C.Terwisscha Van Scheltinga, R.Bienert, H.J.Kunte, C.Ziegler. 1.55 A Structure of the Ectoine Binding Protein Teaa of the Osmoregulated Trap-Transporter Teaabc From Halomonas Elongata. Biochemistry V. 47 9475 2008.
ISSN: ISSN 0006-2960
PubMed: 18702523
DOI: 10.1021/BI8006719
Page generated: Wed Aug 14 05:17:52 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