Phosphorus in PDB 1a2k: Gdpran-NTF2 Complex

Protein crystallography data

The structure of Gdpran-NTF2 Complex, PDB code: 1a2k was solved by M.Stewart, H.M.Kent, A.J.Mccoy, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 7.00 / 2.50
Space group C 2 2 21
Cell size a, b, c (Å), α, β, γ (°) 155.150, 120.540, 108.920, 90.00, 90.00, 90.00
R / Rfree (%) 21.5 / 27.3

Phosphorus Binding Sites:

The binding sites of Phosphorus atom in the Gdpran-NTF2 Complex (pdb code 1a2k). This binding sites where shown within 5.0 Angstroms radius around Phosphorus atom.
In total 6 binding sites of Phosphorus where determined in the Gdpran-NTF2 Complex, PDB code: 1a2k:
Jump to Phosphorus binding site number: 1; 2; 3; 4; 5; 6;

Phosphorus binding site 1 out of 6 in 1a2k

Go back to Phosphorus Binding Sites List in 1a2k
Phosphorus binding site 1 out of 6 in the Gdpran-NTF2 Complex


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 1 of Gdpran-NTF2 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
C:P220

b:29.6
occ:1.00
PB C:GDP220 0.0 29.6 1.0
O3B C:GDP220 1.4 30.0 1.0
O2B C:GDP220 1.5 36.4 1.0
O1B C:GDP220 1.5 26.6 1.0
O3A C:GDP220 1.6 33.3 1.0
PA C:GDP220 3.0 33.4 1.0
MG C:MG221 3.1 22.6 1.0
O5' C:GDP220 3.3 32.0 1.0
O C:HOH246 3.3 29.8 1.0
N C:GLY20 3.5 20.6 1.0
O C:HOH247 3.6 19.0 1.0
O1A C:GDP220 3.7 35.2 1.0
N C:LYS23 3.8 18.9 1.0
CA C:GLY20 3.8 22.4 1.0
O2A C:GDP220 4.0 40.0 1.0
N C:GLY22 4.0 24.7 1.0
N C:THR21 4.0 25.1 1.0
C5' C:GDP220 4.1 31.8 1.0
NZ C:LYS23 4.1 29.7 1.0
N C:THR24 4.2 27.4 1.0
C C:GLY20 4.2 26.0 1.0
O C:HOH249 4.2 13.7 1.0
CA C:GLY22 4.4 20.7 1.0
CB C:LYS23 4.5 28.1 1.0
OE2 C:GLU70 4.5 25.0 1.0
C C:GLY22 4.5 22.8 1.0
CA C:LYS23 4.5 25.1 1.0
C C:GLY19 4.6 23.4 1.0
OG1 C:THR24 4.7 22.6 1.0
CG C:LYS23 4.8 26.9 1.0
CB C:THR24 4.8 24.2 1.0
CA C:GLY19 4.9 20.1 1.0
C C:LYS23 4.9 29.5 1.0
CE C:LYS23 4.9 26.1 1.0
O C:ASP18 5.0 31.8 1.0
C C:THR21 5.0 27.8 1.0

Phosphorus binding site 2 out of 6 in 1a2k

Go back to Phosphorus Binding Sites List in 1a2k
Phosphorus binding site 2 out of 6 in the Gdpran-NTF2 Complex


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 2 of Gdpran-NTF2 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
C:P220

b:33.4
occ:1.00
PA C:GDP220 0.0 33.4 1.0
O1A C:GDP220 1.5 35.2 1.0
O2A C:GDP220 1.5 40.0 1.0
O5' C:GDP220 1.6 32.0 1.0
O3A C:GDP220 1.6 33.3 1.0
C5' C:GDP220 2.6 31.8 1.0
PB C:GDP220 3.0 29.6 1.0
O3B C:GDP220 3.4 30.0 1.0
OG1 C:THR25 3.5 25.1 1.0
O1B C:GDP220 3.7 26.6 1.0
C4' C:GDP220 3.7 34.0 1.0
O C:HOH247 3.8 19.0 1.0
CA C:GLY22 4.0 20.7 1.0
O2B C:GDP220 4.1 36.4 1.0
C3' C:GDP220 4.1 37.9 1.0
N C:THR25 4.2 21.8 1.0
N C:THR24 4.2 27.4 1.0
C C:GLY22 4.3 22.8 1.0
CB C:THR24 4.3 24.2 1.0
N C:GLY22 4.3 24.7 1.0
O4' C:GDP220 4.4 33.5 1.0
N C:LYS23 4.4 18.9 1.0
C2' C:GDP220 4.4 37.3 1.0
CB C:THR25 4.6 21.6 1.0
MG C:MG221 4.6 22.6 1.0
CA C:THR24 4.7 28.9 1.0
C8 C:GDP220 4.8 35.7 1.0
C C:THR24 4.9 26.0 1.0
O C:GLY22 4.9 27.3 1.0
CA C:GLY20 5.0 22.4 1.0
C1' C:GDP220 5.0 35.2 1.0
CA C:THR25 5.0 26.0 1.0

Phosphorus binding site 3 out of 6 in 1a2k

Go back to Phosphorus Binding Sites List in 1a2k
Phosphorus binding site 3 out of 6 in the Gdpran-NTF2 Complex


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 3 of Gdpran-NTF2 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
D:P220

b:32.3
occ:1.00
PB D:GDP220 0.0 32.3 1.0
O3B D:GDP220 1.4 32.6 1.0
O2B D:GDP220 1.5 35.9 1.0
O1B D:GDP220 1.5 30.9 1.0
O3A D:GDP220 1.6 33.4 1.0
PA D:GDP220 3.0 35.1 1.0
MG D:MG221 3.2 26.5 1.0
O D:HOH346 3.3 29.0 1.0
O5' D:GDP220 3.3 37.6 1.0
O D:HOH347 3.5 22.4 1.0
O D:HOH355 3.6 27.0 1.0
N D:GLY20 3.6 21.4 1.0
NZ D:LYS23 3.7 21.7 1.0
O1A D:GDP220 3.8 37.5 1.0
N D:GLY22 3.8 25.8 1.0
N D:LYS23 3.9 15.8 1.0
O2A D:GDP220 4.0 42.3 1.0
CA D:GLY20 4.0 15.3 1.0
N D:THR21 4.1 14.7 1.0
C5' D:GDP220 4.2 36.9 1.0
N D:THR24 4.3 25.5 1.0
O D:HOH349 4.3 16.5 1.0
C D:GLY20 4.3 13.2 1.0
CA D:GLY22 4.3 22.5 1.0
CB D:LYS23 4.3 15.2 1.0
C D:GLY22 4.4 20.7 1.0
CA D:LYS23 4.5 21.4 1.0
C D:GLY19 4.6 23.6 1.0
OE2 D:GLU70 4.7 17.1 1.0
CE D:LYS23 4.7 18.7 1.0
OG1 D:THR24 4.8 27.5 1.0
CG D:LYS23 4.8 20.1 1.0
CA D:GLY19 4.8 21.9 1.0
C D:THR21 4.9 26.1 1.0
C D:LYS23 4.9 26.3 1.0
CB D:THR24 4.9 31.2 1.0
OG1 D:THR21 4.9 34.4 1.0
CA D:THR21 5.0 23.2 1.0

Phosphorus binding site 4 out of 6 in 1a2k

Go back to Phosphorus Binding Sites List in 1a2k
Phosphorus binding site 4 out of 6 in the Gdpran-NTF2 Complex


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 4 of Gdpran-NTF2 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
D:P220

b:35.1
occ:1.00
PA D:GDP220 0.0 35.1 1.0
O1A D:GDP220 1.5 37.5 1.0
O2A D:GDP220 1.5 42.3 1.0
O3A D:GDP220 1.6 33.4 1.0
O5' D:GDP220 1.6 37.6 1.0
C5' D:GDP220 2.5 36.9 1.0
PB D:GDP220 3.0 32.3 1.0
O3B D:GDP220 3.4 32.6 1.0
C4' D:GDP220 3.7 32.8 1.0
O1B D:GDP220 3.7 30.9 1.0
OG1 D:THR25 3.7 30.3 1.0
O D:HOH347 3.8 22.4 1.0
O D:HOH355 3.9 27.0 1.0
CA D:GLY22 4.0 22.5 1.0
O2B D:GDP220 4.1 35.9 1.0
C3' D:GDP220 4.1 36.2 1.0
O4' D:GDP220 4.2 30.8 1.0
N D:THR25 4.2 24.4 1.0
N D:GLY22 4.2 25.8 1.0
C2' D:GDP220 4.4 34.3 1.0
C D:GLY22 4.4 20.7 1.0
CB D:THR24 4.5 31.2 1.0
CB D:THR25 4.6 23.1 1.0
N D:THR24 4.6 25.5 1.0
MG D:MG221 4.6 26.5 1.0
N D:LYS23 4.7 15.8 1.0
C8 D:GDP220 4.8 29.9 1.0
C1' D:GDP220 4.9 32.0 1.0
CA D:THR24 5.0 27.2 1.0

Phosphorus binding site 5 out of 6 in 1a2k

Go back to Phosphorus Binding Sites List in 1a2k
Phosphorus binding site 5 out of 6 in the Gdpran-NTF2 Complex


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 5 of Gdpran-NTF2 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
E:P220

b:33.0
occ:1.00
PB E:GDP220 0.0 33.0 1.0
O3B E:GDP220 1.4 28.1 1.0
O2B E:GDP220 1.5 33.5 1.0
O1B E:GDP220 1.5 31.7 1.0
O3A E:GDP220 1.6 38.4 1.0
PA E:GDP220 3.0 32.5 1.0
MG E:MG221 3.1 25.3 1.0
O5' E:GDP220 3.3 37.8 1.0
O E:HOH446 3.4 22.3 1.0
O E:HOH447 3.4 27.1 1.0
N E:LYS23 3.6 29.9 1.0
NZ E:LYS23 3.6 15.9 1.0
N E:GLY20 3.8 27.8 1.0
O1A E:GDP220 3.8 36.8 1.0
N E:GLY22 3.9 29.6 1.0
O2A E:GDP220 3.9 38.3 1.0
N E:THR24 4.0 26.9 1.0
CB E:LYS23 4.0 25.4 1.0
N E:THR21 4.1 28.1 1.0
CA E:GLY20 4.2 22.6 1.0
O E:HOH449 4.2 35.1 1.0
CA E:GLY22 4.3 33.2 1.0
CA E:LYS23 4.3 30.0 1.0
C E:GLY22 4.3 30.2 1.0
OE2 E:GLU70 4.4 20.6 1.0
C5' E:GDP220 4.4 38.5 1.0
C E:GLY20 4.4 25.1 1.0
OG1 E:THR24 4.5 24.5 1.0
CE E:LYS23 4.5 10.1 1.0
CG E:LYS23 4.6 24.7 1.0
C E:LYS23 4.7 29.4 1.0
CB E:THR24 4.7 28.3 1.0
OG1 E:THR21 4.8 34.8 1.0
C E:GLY19 4.8 31.2 1.0
C E:THR21 4.9 30.7 1.0
CA E:THR24 4.9 28.9 1.0
CA E:THR21 5.0 30.9 1.0

Phosphorus binding site 6 out of 6 in 1a2k

Go back to Phosphorus Binding Sites List in 1a2k
Phosphorus binding site 6 out of 6 in the Gdpran-NTF2 Complex


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 6 of Gdpran-NTF2 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
E:P220

b:32.5
occ:1.00
PA E:GDP220 0.0 32.5 1.0
O1A E:GDP220 1.5 36.8 1.0
O2A E:GDP220 1.5 38.3 1.0
O3A E:GDP220 1.5 38.4 1.0
O5' E:GDP220 1.6 37.8 1.0
C5' E:GDP220 2.5 38.5 1.0
PB E:GDP220 3.0 33.0 1.0
O3B E:GDP220 3.5 28.1 1.0
O E:HOH447 3.5 27.1 1.0
C4' E:GDP220 3.7 35.9 1.0
O1B E:GDP220 3.7 31.7 1.0
OG1 E:THR25 3.8 26.3 1.0
CA E:GLY22 3.9 33.2 1.0
O2B E:GDP220 4.0 33.5 1.0
O4' E:GDP220 4.2 36.2 1.0
C3' E:GDP220 4.2 38.8 1.0
N E:GLY22 4.2 29.6 1.0
N E:THR25 4.3 29.0 1.0
C E:GLY22 4.4 30.2 1.0
CB E:THR24 4.4 28.3 1.0
N E:THR24 4.4 26.9 1.0
N E:LYS23 4.5 29.9 1.0
MG E:MG221 4.6 25.3 1.0
C2' E:GDP220 4.6 35.4 1.0
CB E:THR25 4.8 27.2 1.0
CA E:THR24 4.8 28.9 1.0
C8 E:GDP220 4.8 28.2 1.0
OG1 E:THR24 5.0 24.5 1.0

Reference:

M.Stewart, H.M.Kent, A.J.Mccoy. Structural Basis For Molecular Recognition Between Nuclear Transport Factor 2 (NTF2) and the Gdp-Bound Form of the Ras-Family Gtpase Ran. J.Mol.Biol. V. 277 635 1998.
ISSN: ISSN 0022-2836
PubMed: 9533885
DOI: 10.1006/JMBI.1997.1602
Page generated: Fri Sep 25 12:03:46 2020

Last articles

Zn in 7M6U
Zn in 7NNG
Zn in 7NEE
Zn in 7NEU
Zn in 7M3K
Zn in 7KWD
Zn in 7KYH
Zn in 7KNG
Zn in 7KY2
Zn in 7KYF
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy