Atomistry » Magnesium » PDB 3lpl-3m1i » 3m0e
Atomistry »
  Magnesium »
    PDB 3lpl-3m1i »
      3m0e »

Magnesium in PDB 3m0e: Crystal Structure of the Atp-Bound State of Walker B Mutant of NTRC1 Atpase Domain

Enzymatic activity of Crystal Structure of the Atp-Bound State of Walker B Mutant of NTRC1 Atpase Domain

All present enzymatic activity of Crystal Structure of the Atp-Bound State of Walker B Mutant of NTRC1 Atpase Domain:
3.6.1.3;

Protein crystallography data

The structure of Crystal Structure of the Atp-Bound State of Walker B Mutant of NTRC1 Atpase Domain, PDB code: 3m0e was solved by B.Chen, T.A.Sysoeva, S.Chowdhury, M.Rusu, S.Birmanns, L.Guo, J.Hanson, H.Yang, B.T.Nixon, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 47.64 / 2.63
Space group P 21 21 2
Cell size a, b, c (Å), α, β, γ (°) 251.209, 242.586, 40.703, 90.00, 90.00, 90.00
R / Rfree (%) 20.6 / 24.1

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Crystal Structure of the Atp-Bound State of Walker B Mutant of NTRC1 Atpase Domain (pdb code 3m0e). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 7 binding sites of Magnesium where determined in the Crystal Structure of the Atp-Bound State of Walker B Mutant of NTRC1 Atpase Domain, PDB code: 3m0e:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7;

Magnesium binding site 1 out of 7 in 3m0e

Go back to Magnesium Binding Sites List in 3m0e
Magnesium binding site 1 out of 7 in the Crystal Structure of the Atp-Bound State of Walker B Mutant of NTRC1 Atpase Domain


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 the Atp-Bound State of Walker B Mutant of NTRC1 Atpase Domain within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg401

b:47.0
occ:1.00
 O2G A:ATP400 2.4 28.2 1.0
O1B A:ATP400 2.6 35.4 1.0
O A:HOH416 2.6 57.1 1.0
O A:HOH16 3.0 34.0 1.0
OE1 A:GLU174 3.6 69.8 1.0
O A:HOH98 3.6 45.7 1.0
O B:HOH418 3.7 43.9 1.0
OD2 A:ASP238 3.7 58.9 1.0
NH2 B:ARG299 3.7 37.9 1.0
PG A:ATP400 3.8 39.0 1.0
PB A:ATP400 3.8 30.6 1.0
CB A:GLU174 3.8 42.2 1.0
O3B A:ATP400 4.0 44.3 1.0
OD1 A:ASP238 4.1 49.9 1.0
CG A:ASP238 4.3 48.6 1.0
O1A A:ATP400 4.3 50.6 1.0
N A:GLU174 4.5 33.9 1.0
O1G A:ATP400 4.5 44.3 1.0
CD A:GLU174 4.6 63.1 1.0
CA A:GLU174 4.7 33.3 1.0
NH1 B:ARG253 4.7 54.1 1.0
O3A A:ATP400 4.8 42.5 1.0
CG A:GLU174 4.8 48.6 1.0
O B:HOH46 4.8 46.2 1.0
PA A:ATP400 4.9 39.6 1.0
O2B A:ATP400 4.9 44.6 1.0
O3G A:ATP400 4.9 40.0 1.0

Magnesium binding site 2 out of 7 in 3m0e

Go back to Magnesium Binding Sites List in 3m0e
Magnesium binding site 2 out of 7 in the Crystal Structure of the Atp-Bound State of Walker B Mutant of NTRC1 Atpase Domain


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 the Atp-Bound State of Walker B Mutant of NTRC1 Atpase Domain within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg401

b:54.5
occ:1.00
 O3G B:ATP400 2.5 29.5 1.0
O1B B:ATP400 2.6 23.5 1.0
O B:HOH14 2.7 36.8 1.0
OE1 B:GLU174 3.3 68.2 1.0
O1A B:ATP400 3.5 64.0 1.0
O C:HOH99 3.5 39.5 1.0
CB B:GLU174 3.6 36.9 1.0
PG B:ATP400 3.7 40.9 1.0
PB B:ATP400 3.8 30.4 1.0
NH2 C:ARG299 3.8 44.7 1.0
OD2 B:ASP238 3.9 65.2 1.0
O B:HOH114 3.9 39.3 1.0
O3B B:ATP400 3.9 42.8 1.0
O2G B:ATP400 4.3 46.6 1.0
CD B:GLU174 4.3 58.8 1.0
N B:GLU174 4.3 36.7 1.0
OD1 B:ASP238 4.3 49.5 1.0
CG B:ASP238 4.4 51.5 1.0
CA B:GLU174 4.5 33.5 1.0
CG B:GLU174 4.5 46.7 1.0
PA B:ATP400 4.6 35.2 1.0
O B:HOH419 4.6 56.7 1.0
O3A B:ATP400 4.6 42.7 1.0
O C:HOH79 4.8 40.3 1.0
NH1 C:ARG253 4.8 52.8 1.0
O2B B:ATP400 4.9 44.2 1.0
O1G B:ATP400 5.0 34.6 1.0

Magnesium binding site 3 out of 7 in 3m0e

Go back to Magnesium Binding Sites List in 3m0e
Magnesium binding site 3 out of 7 in the Crystal Structure of the Atp-Bound State of Walker B Mutant of NTRC1 Atpase Domain


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 the Atp-Bound State of Walker B Mutant of NTRC1 Atpase Domain within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg401

b:54.6
occ:1.00
 O2G C:ATP400 2.5 38.7 1.0
O1B C:ATP400 2.6 39.4 1.0
O C:HOH19 3.0 29.6 1.0
OE1 C:GLU174 3.5 62.5 1.0
OD2 C:ASP238 3.6 58.3 1.0
CB C:GLU174 3.8 37.5 1.0
OD1 C:ASP238 3.9 54.4 1.0
PG C:ATP400 3.9 40.0 1.0
PB C:ATP400 3.9 32.5 1.0
O D:HOH393 3.9 43.9 1.0
NH2 D:ARG299 4.1 41.0 1.0
CG C:ASP238 4.1 50.7 1.0
O3B C:ATP400 4.2 40.0 1.0
N C:GLU174 4.4 37.3 1.0
O1G C:ATP400 4.5 44.8 1.0
CD C:GLU174 4.6 57.2 1.0
CA C:GLU174 4.6 33.8 1.0
O1A C:ATP400 4.7 51.1 1.0
O C:HOH403 4.7 54.8 1.0
NH1 D:ARG253 4.7 48.8 1.0
CG C:GLU174 4.8 50.3 1.0
O3A C:ATP400 4.8 35.3 1.0
CE C:LYS173 5.0 36.5 1.0

Magnesium binding site 4 out of 7 in 3m0e

Go back to Magnesium Binding Sites List in 3m0e
Magnesium binding site 4 out of 7 in the Crystal Structure of the Atp-Bound State of Walker B Mutant of NTRC1 Atpase Domain


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 the Atp-Bound State of Walker B Mutant of NTRC1 Atpase Domain within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg401

b:55.0
occ:1.00
 O1B D:ATP400 2.6 27.8 1.0
O2G D:ATP400 2.7 29.5 1.0
O E:HOH8 2.8 32.2 1.0
OE1 D:GLU174 3.5 72.2 1.0
OD2 D:ASP238 3.5 65.2 1.0
CB D:GLU174 3.8 38.4 1.0
OD1 D:ASP238 3.8 49.6 1.0
PG D:ATP400 3.9 44.1 1.0
PB D:ATP400 3.9 31.6 1.0
CG D:ASP238 4.0 48.8 1.0
O E:HOH389 4.1 38.0 1.0
O1G D:ATP400 4.2 34.4 1.0
NH2 E:ARG299 4.2 41.1 1.0
O3B D:ATP400 4.2 37.7 1.0
N D:GLU174 4.3 38.0 1.0
CA D:GLU174 4.5 35.2 1.0
CD D:GLU174 4.5 62.0 1.0
O1A D:ATP400 4.7 36.3 1.0
CG D:GLU174 4.8 46.7 1.0
O D:HOH389 4.8 45.9 1.0
O E:HOH390 4.8 50.0 1.0
CE D:LYS173 4.9 31.4 1.0
NH1 E:ARG253 4.9 51.8 1.0
O2B D:ATP400 4.9 37.7 1.0
O3A D:ATP400 4.9 43.8 1.0
CB D:LYS173 4.9 33.0 1.0

Magnesium binding site 5 out of 7 in 3m0e

Go back to Magnesium Binding Sites List in 3m0e
Magnesium binding site 5 out of 7 in the Crystal Structure of the Atp-Bound State of Walker B Mutant of NTRC1 Atpase Domain


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 the Atp-Bound State of Walker B Mutant of NTRC1 Atpase Domain within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Mg401

b:45.9
occ:1.00
 O1G E:ATP400 2.4 33.3 1.0
O E:HOH405 2.5 53.1 1.0
O1B E:ATP400 2.6 37.5 1.0
O E:HOH6 2.6 33.7 1.0
NH2 F:ARG299 3.5 42.7 1.0
OE1 E:GLU174 3.6 65.1 1.0
PG E:ATP400 3.7 42.6 1.0
PB E:ATP400 3.8 34.2 1.0
OD2 E:ASP238 3.8 55.6 1.0
CB E:GLU174 3.8 39.7 1.0
O3B E:ATP400 3.9 41.2 1.0
O F:HOH45 4.1 44.5 1.0
O1A E:ATP400 4.2 39.0 1.0
O3G E:ATP400 4.4 38.5 1.0
OD1 E:ASP238 4.4 49.0 1.0
CG E:ASP238 4.5 48.6 1.0
N E:GLU174 4.5 35.8 1.0
CD E:GLU174 4.5 61.1 1.0
O E:HOH414 4.7 62.3 1.0
O3A E:ATP400 4.7 35.3 1.0
CA E:GLU174 4.7 34.3 1.0
PA E:ATP400 4.7 39.1 1.0
CG E:GLU174 4.8 50.4 1.0
CZ F:ARG299 4.8 38.7 1.0
NH1 F:ARG253 4.8 52.0 1.0
O2A E:ATP400 4.8 32.7 1.0
O2G E:ATP400 4.9 30.2 1.0
O2B E:ATP400 4.9 38.3 1.0

Magnesium binding site 6 out of 7 in 3m0e

Go back to Magnesium Binding Sites List in 3m0e
Magnesium binding site 6 out of 7 in the Crystal Structure of the Atp-Bound State of Walker B Mutant of NTRC1 Atpase Domain


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 the Atp-Bound State of Walker B Mutant of NTRC1 Atpase Domain within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Mg401

b:51.3
occ:1.00
 O1B F:ATP400 2.6 20.9 1.0
O1G F:ATP400 2.6 35.7 1.0
O F:HOH419 3.0 51.0 1.0
O F:HOH18 3.1 40.6 1.0
OE1 F:GLU174 3.4 64.3 1.0
CB F:GLU174 3.6 35.1 1.0
OD2 F:ASP238 3.7 62.5 1.0
O1A F:ATP400 3.8 65.1 1.0
PG F:ATP400 3.9 41.7 1.0
PB F:ATP400 3.9 33.0 1.0
NH2 G:ARG299 3.9 40.9 1.0
OD1 F:ASP238 4.1 55.6 1.0
O3B F:ATP400 4.2 38.4 1.0
CG F:ASP238 4.2 51.3 1.0
O G:HOH57 4.3 42.0 1.0
N F:GLU174 4.3 39.4 1.0
CD F:GLU174 4.4 58.1 1.0
O3G F:ATP400 4.5 46.2 1.0
CA F:GLU174 4.5 35.9 1.0
CG F:GLU174 4.6 42.4 1.0
NH1 G:ARG253 4.8 53.0 1.0
O F:HOH426 4.8 55.1 1.0
PA F:ATP400 4.8 34.6 1.0
O3A F:ATP400 4.9 41.2 1.0
O2B F:ATP400 4.9 35.4 1.0

Magnesium binding site 7 out of 7 in 3m0e

Go back to Magnesium Binding Sites List in 3m0e
Magnesium binding site 7 out of 7 in the Crystal Structure of the Atp-Bound State of Walker B Mutant of NTRC1 Atpase Domain


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of Crystal Structure of the Atp-Bound State of Walker B Mutant of NTRC1 Atpase Domain within 5.0Å range:
probe atom residue distance (Å) B Occ
G:Mg401

b:50.6
occ:1.00
 O2G G:ATP400 2.6 26.4 1.0
O G:HOH422 2.7 54.6 1.0
O1B G:ATP400 2.7 30.3 1.0
O G:HOH7 2.7 26.4 1.0
OE1 G:GLU174 3.2 64.2 1.0
OD2 G:ASP238 3.5 57.4 1.0
O A:HOH395 3.6 39.4 1.0
CB G:GLU174 3.6 34.7 1.0
O G:HOH388 3.8 44.3 1.0
NH2 A:ARG299 3.9 41.9 1.0
OD1 G:ASP238 4.0 51.3 1.0
PB G:ATP400 4.0 30.4 1.0
PG G:ATP400 4.0 34.8 1.0
CG G:ASP238 4.1 49.6 1.0
CD G:GLU174 4.3 57.1 1.0
O3B G:ATP400 4.3 35.9 1.0
N G:GLU174 4.4 34.2 1.0
CA G:GLU174 4.5 30.7 1.0
CG G:GLU174 4.5 49.3 1.0
NH1 A:ARG253 4.6 50.5 1.0
O1A G:ATP400 4.6 48.4 1.0
O1G G:ATP400 4.7 29.6 1.0
O A:HOH36 4.8 44.1 1.0
O G:HOH48 4.8 40.4 1.0
O3A G:ATP400 4.9 36.9 1.0

Reference:

B.Chen, T.A.Sysoeva, S.Chowdhury, L.Guo, S.De Carlo, J.A.Hanson, H.Yang, B.T.Nixon. Engagement of Arginine Finger to Atp Triggers Large Conformational Changes in NTRC1 Aaa+ Atpase For Remodeling Bacterial Rna Polymerase. Structure V. 18 1420 2010.
ISSN: ISSN 0969-2126
PubMed: 21070941
DOI: 10.1016/J.STR.2010.08.018
Page generated: Wed Aug 14 18:43:20 2024

Last articles

Zn in 9JYW
Zn in 9IR4
Zn in 9IR3
Zn in 9GMX
Zn in 9GMW
Zn in 9JEJ
Zn in 9ERF
Zn in 9ERE
Zn in 9EGV
Zn in 9EGW
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy