Calcium in PDB 3s82: Structure of A S-Adenosylmethionine Synthetase From Mycobacterium Avium

Enzymatic activity of Structure of A S-Adenosylmethionine Synthetase From Mycobacterium Avium

All present enzymatic activity of Structure of A S-Adenosylmethionine Synthetase From Mycobacterium Avium:
2.5.1.6;

Protein crystallography data

The structure of Structure of A S-Adenosylmethionine Synthetase From Mycobacterium Avium, PDB code: 3s82 was solved by Seattle Structural Genomics Center For Infectious Disease, Seattlestructural Genomics Center For Infectious Disease (Ssgcid), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 20.00 / 1.73
Space group P 2 21 21
Cell size a, b, c (Å), α, β, γ (°) 60.030, 88.180, 184.190, 90.00, 90.00, 90.00
R / Rfree (%) 15.7 / 17.7

Other elements in 3s82:

The structure of Structure of A S-Adenosylmethionine Synthetase From Mycobacterium Avium also contains other interesting chemical elements:

Uranium (U) 2 atoms

Calcium Binding Sites:

The binding sites of Calcium atom in the Structure of A S-Adenosylmethionine Synthetase From Mycobacterium Avium (pdb code 3s82). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 4 binding sites of Calcium where determined in the Structure of A S-Adenosylmethionine Synthetase From Mycobacterium Avium, PDB code: 3s82:
Jump to Calcium binding site number: 1; 2; 3; 4;

Calcium binding site 1 out of 4 in 3s82

Go back to Calcium Binding Sites List in 3s82
Calcium binding site 1 out of 4 in the Structure of A S-Adenosylmethionine Synthetase From Mycobacterium Avium


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Structure of A S-Adenosylmethionine Synthetase From Mycobacterium Avium within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca404

b:21.6
occ:1.00
 O A:HOH1792 2.3 22.2 1.0
O A:HOH1647 2.3 25.6 1.0
OD1 A:ASP234 2.4 22.9 1.0
O A:HOH1651 2.4 14.1 1.0
OD2 A:ASP234 2.7 23.1 1.0
CG A:ASP234 2.9 20.6 1.0
O A:ALA232 4.2 17.5 1.0
CB A:ASP234 4.4 19.5 1.0
O A:HOH455 4.8 14.3 1.0
O A:HOH1038 4.8 35.3 1.0
CA A:ASP234 5.0 19.5 1.0
N A:ASP234 5.0 18.4 1.0

Calcium binding site 2 out of 4 in 3s82

Go back to Calcium Binding Sites List in 3s82
Calcium binding site 2 out of 4 in the Structure of A S-Adenosylmethionine Synthetase From Mycobacterium Avium


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Structure of A S-Adenosylmethionine Synthetase From Mycobacterium Avium within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca405

b:24.2
occ:1.00
 O A:HOH741 2.4 25.7 1.0
O A:ASN394 2.4 11.1 1.0
OD1 A:ASP398 2.4 21.5 1.0
OD1 A:ASP397 2.4 21.8 1.0
O A:HOH696 2.5 33.3 1.0
O A:HOH1140 2.6 33.9 1.0
O A:HOH848 2.6 31.3 1.0
OD2 A:ASP397 2.9 24.1 1.0
CG A:ASP397 3.0 17.9 1.0
CG A:ASP398 3.5 18.7 1.0
C A:ASN394 3.5 11.8 1.0
OD2 A:ASP398 3.9 25.0 1.0
O A:HOH453 4.3 13.5 1.0
N A:LYS395 4.4 10.9 1.0
CA A:LYS395 4.4 10.5 1.0
CA A:ASN394 4.5 11.8 1.0
N A:ASP398 4.5 11.9 1.0
CB A:ASP397 4.6 14.2 1.0
O A:HOH1274 4.6 37.9 1.0
O A:HOH953 4.7 43.4 1.0
CB A:ASN394 4.8 12.8 1.0
CB A:ASP398 4.8 13.7 1.0
NH2 A:ARG401 4.9 19.4 1.0
CD A:LYS395 4.9 20.3 1.0

Calcium binding site 3 out of 4 in 3s82

Go back to Calcium Binding Sites List in 3s82
Calcium binding site 3 out of 4 in the Structure of A S-Adenosylmethionine Synthetase From Mycobacterium Avium


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Structure of A S-Adenosylmethionine Synthetase From Mycobacterium Avium within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca405

b:24.5
occ:1.00
 O B:HOH1773 2.3 30.8 1.0
OD1 B:ASP398 2.4 23.7 1.0
O B:HOH1774 2.4 29.7 1.0
OD1 B:ASP397 2.4 22.4 1.0
O B:ASN394 2.5 14.4 1.0
O B:HOH1744 2.7 40.0 1.0
OD2 B:ASP397 2.8 24.8 1.0
CG B:ASP397 3.0 20.8 1.0
CG B:ASP398 3.4 20.5 1.0
C B:ASN394 3.6 15.1 1.0
OD2 B:ASP398 3.8 25.6 1.0
O B:HOH534 4.3 17.7 1.0
CA B:LYS395 4.4 14.4 1.0
N B:LYS395 4.5 14.4 1.0
CB B:ASP397 4.5 17.3 1.0
N B:ASP398 4.5 15.6 1.0
CA B:ASN394 4.6 14.9 1.0
CB B:ASP398 4.8 16.1 1.0
NH2 B:ARG401 4.8 21.6 1.0
CB B:ASN394 4.9 15.6 1.0
CD B:LYS395 5.0 21.6 1.0

Calcium binding site 4 out of 4 in 3s82

Go back to Calcium Binding Sites List in 3s82
Calcium binding site 4 out of 4 in the Structure of A S-Adenosylmethionine Synthetase From Mycobacterium Avium


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Structure of A S-Adenosylmethionine Synthetase From Mycobacterium Avium within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca406

b:33.8
occ:1.00
 O B:HOH1803 2.2 35.7 1.0
O B:HOH1804 2.2 37.5 1.0
O B:ARG401 2.3 20.7 1.0
O B:HOH690 3.2 35.4 1.0
C B:ARG401 3.5 20.9 1.0
CA B:ARG401 4.2 20.2 1.0
OXT B:ILE403 4.2 31.4 1.0
N B:ALA402 4.5 20.9 1.0
CB B:ARG401 4.7 20.4 1.0
CA B:ALA402 4.7 22.3 1.0
C B:ALA402 4.9 23.9 1.0

Reference:

L.Baugh, I.Phan, D.W.Begley, M.C.Clifton, B.Armour, D.M.Dranow, B.M.Taylor, M.M.Muruthi, J.Abendroth, J.W.Fairman, D.Fox, S.H.Dieterich, B.L.Staker, A.S.Gardberg, R.Choi, S.N.Hewitt, A.J.Napuli, J.Myers, L.K.Barrett, Y.Zhang, M.Ferrell, E.Mundt, K.Thompkins, N.Tran, S.Lyons-Abbott, A.Abramov, A.Sekar, D.Serbzhinskiy, D.Lorimer, G.W.Buchko, R.Stacy, L.J.Stewart, T.E.Edwards, W.C.Van Voorhis, P.J.Myler. Increasing the Structural Coverage of Tuberculosis Drug Targets. Tuberculosis (Edinb) V. 95 142 2015.
ISSN: ISSN 1472-9792
PubMed: 25613812
DOI: 10.1016/J.TUBE.2014.12.003
Page generated: Sat Dec 12 04:29:35 2020

Last articles

Zn in 8WB0
Zn in 8WAX
Zn in 8WAU
Zn in 8WAZ
Zn in 8WAY
Zn in 8WAV
Zn in 8WAW
Zn in 8WAT
Zn in 8W7M
Zn in 8WD3
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy