Atomistry » Magnesium » PDB 1w56-1wdt » 1wc5
Atomistry »
  Magnesium »
    PDB 1w56-1wdt »
      1wc5 »

Magnesium in PDB 1wc5: Soluble Adenylyl Cyclase Cyac From S. Platensis in Complex with Alpha,Beta-Methylene-Atp in Presence of Bicarbonate

Enzymatic activity of Soluble Adenylyl Cyclase Cyac From S. Platensis in Complex with Alpha,Beta-Methylene-Atp in Presence of Bicarbonate

All present enzymatic activity of Soluble Adenylyl Cyclase Cyac From S. Platensis in Complex with Alpha,Beta-Methylene-Atp in Presence of Bicarbonate:
4.6.1.1;

Protein crystallography data

The structure of Soluble Adenylyl Cyclase Cyac From S. Platensis in Complex with Alpha,Beta-Methylene-Atp in Presence of Bicarbonate, PDB code: 1wc5 was solved by C.Steegborn, T.N.Litvin, L.R.Levin, J.Buck, H.Wu, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 14.99 / 2.3
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 53.303, 71.193, 106.733, 90.00, 95.81, 90.00
R / Rfree (%) 20.2 / 26.2

Other elements in 1wc5:

The structure of Soluble Adenylyl Cyclase Cyac From S. Platensis in Complex with Alpha,Beta-Methylene-Atp in Presence of Bicarbonate also contains other interesting chemical elements:

Calcium (Ca) 4 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Soluble Adenylyl Cyclase Cyac From S. Platensis in Complex with Alpha,Beta-Methylene-Atp in Presence of Bicarbonate (pdb code 1wc5). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the Soluble Adenylyl Cyclase Cyac From S. Platensis in Complex with Alpha,Beta-Methylene-Atp in Presence of Bicarbonate, PDB code: 1wc5:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in 1wc5

Go back to Magnesium Binding Sites List in 1wc5
Magnesium binding site 1 out of 4 in the Soluble Adenylyl Cyclase Cyac From S. Platensis in Complex with Alpha,Beta-Methylene-Atp in Presence of Bicarbonate


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Soluble Adenylyl Cyclase Cyac From S. Platensis in Complex with Alpha,Beta-Methylene-Atp in Presence of Bicarbonate within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg2000

b:42.3
occ:1.00
O A:HOH2010 2.6 49.1 1.0
OD2 A:ASP1017 2.6 43.6 1.0
O3G A:APC1500 2.8 39.7 1.0
O2A A:APC1500 2.8 43.7 1.0
O2G A:APC1500 3.0 43.8 1.0
PG A:APC1500 3.3 42.1 1.0
CG A:ASP1017 3.7 41.4 1.0
O3B A:APC1500 3.9 40.4 1.0
O1A A:APC1500 3.9 45.0 1.0
CA A:CA2100 4.0 32.6 1.0
PA A:APC1500 4.0 46.0 1.0
OD1 A:ASP1017 4.4 46.9 1.0
NH1 A:ARG1117 4.5 42.3 1.0
OE1 A:GLN1152 4.7 31.0 1.0
CB A:ASP1017 4.7 39.0 1.0
O1G A:APC1500 4.7 42.4 1.0
NE2 A:GLN1152 4.8 33.8 1.0
PB A:APC1500 5.0 39.3 1.0

Magnesium binding site 2 out of 4 in 1wc5

Go back to Magnesium Binding Sites List in 1wc5
Magnesium binding site 2 out of 4 in the Soluble Adenylyl Cyclase Cyac From S. Platensis in Complex with Alpha,Beta-Methylene-Atp in Presence of Bicarbonate


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Soluble Adenylyl Cyclase Cyac From S. Platensis in Complex with Alpha,Beta-Methylene-Atp in Presence of Bicarbonate within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg2000

b:27.8
occ:1.00
O2G B:APC1500 2.7 23.4 1.0
O2A B:APC1500 2.7 34.2 1.0
O1G B:APC1500 3.0 25.1 1.0
OD2 B:ASP1017 3.3 37.2 1.0
PG B:APC1500 3.4 23.8 1.0
O3B B:APC1500 4.1 25.2 1.0
PA B:APC1500 4.2 35.9 1.0
CA B:CA2100 4.3 29.9 1.0
NH1 B:ARG1117 4.3 34.7 1.0
CG B:ASP1017 4.4 34.1 1.0
O1A B:APC1500 4.6 35.1 1.0
NE2 B:GLN1152 4.6 29.8 1.0
O3G B:APC1500 4.7 25.8 1.0
NZ C:LYS1184 4.7 56.5 1.0
CB B:GLU1153 4.9 25.0 1.0
OE1 B:GLN1152 4.9 29.3 1.0
CZ B:ARG1117 5.0 36.6 1.0

Magnesium binding site 3 out of 4 in 1wc5

Go back to Magnesium Binding Sites List in 1wc5
Magnesium binding site 3 out of 4 in the Soluble Adenylyl Cyclase Cyac From S. Platensis in Complex with Alpha,Beta-Methylene-Atp in Presence of Bicarbonate


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Soluble Adenylyl Cyclase Cyac From S. Platensis in Complex with Alpha,Beta-Methylene-Atp in Presence of Bicarbonate within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg2000

b:18.1
occ:1.00
O2A C:APC1500 2.2 25.9 1.0
O C:HOH2022 2.2 19.7 1.0
O3G C:APC1500 2.5 26.5 1.0
O1G C:APC1500 2.9 25.7 1.0
PG C:APC1500 3.2 24.2 1.0
OD1 C:ASP1017 3.4 40.5 1.0
PA C:APC1500 3.5 30.6 1.0
O C:HOH2028 3.7 40.8 1.0
O1A C:APC1500 3.7 31.2 1.0
O3B C:APC1500 4.0 23.6 1.0
NZ B:LYS1184 4.2 46.7 1.0
CA C:CA2100 4.3 24.1 1.0
O C:HOH2018 4.5 19.1 1.0
O2G C:APC1500 4.5 27.5 1.0
CG C:ASP1017 4.5 38.5 1.0
O5' C:APC1500 4.6 28.8 1.0
C3A C:APC1500 4.7 27.9 1.0
PB C:APC1500 4.8 28.0 1.0
OE2 C:GLU1153 4.9 42.1 1.0
NH1 B:ARG1150 4.9 32.9 1.0
NE2 C:GLN1152 4.9 32.6 1.0
OD2 C:ASP1017 4.9 44.1 1.0
O2B C:APC1500 5.0 28.6 1.0

Magnesium binding site 4 out of 4 in 1wc5

Go back to Magnesium Binding Sites List in 1wc5
Magnesium binding site 4 out of 4 in the Soluble Adenylyl Cyclase Cyac From S. Platensis in Complex with Alpha,Beta-Methylene-Atp in Presence of Bicarbonate


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Soluble Adenylyl Cyclase Cyac From S. Platensis in Complex with Alpha,Beta-Methylene-Atp in Presence of Bicarbonate within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg2000

b:40.9
occ:1.00
O2A D:APC1500 2.2 42.2 1.0
O3G D:APC1500 2.5 38.2 1.0
OD2 D:ASP1017 2.8 31.7 1.0
O2G D:APC1500 2.9 37.8 1.0
PG D:APC1500 3.2 35.9 1.0
PA D:APC1500 3.7 44.4 1.0
CA D:CA2100 3.9 32.6 1.0
CG D:ASP1017 4.0 33.1 1.0
O1A D:APC1500 4.3 47.3 1.0
O1G D:APC1500 4.3 40.0 1.0
O3B D:APC1500 4.4 39.5 1.0
OE2 D:GLU1153 4.5 47.7 1.0
C3A D:APC1500 4.6 43.5 1.0
OD1 D:ASP1017 4.6 35.7 1.0
O5' D:APC1500 4.7 41.9 1.0
O2B D:APC1500 4.8 38.9 1.0
O D:HOH2013 4.8 40.4 1.0
PB D:APC1500 4.8 39.5 1.0

Reference:

C.Steegborn, T.N.Litvin, L.R.Levin, J.Buck, H.Wu. Bicarbonate Activation of Adenylyl Cyclase Via Promotion of Catalytic Active Site Closure and Metal Recruitment Nat.Struct.Mol.Biol. V. 12 32 2005.
ISSN: ISSN 1545-9993
PubMed: 15619637
DOI: 10.1038/NSMB880
Page generated: Tue Aug 13 17:13:46 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