Atomistry » Magnesium » PDB 1w56-1wdt » 1wc6
Atomistry »
  Magnesium »
    PDB 1w56-1wdt »
      1wc6 »

Magnesium in PDB 1wc6: Soluble Adenylyl Cyclase Cyac From S. Platensis in Complex with Rp-Atpalphas in Presence of Bicarbonate

Enzymatic activity of Soluble Adenylyl Cyclase Cyac From S. Platensis in Complex with Rp-Atpalphas in Presence of Bicarbonate

All present enzymatic activity of Soluble Adenylyl Cyclase Cyac From S. Platensis in Complex with Rp-Atpalphas in Presence of Bicarbonate:
4.6.1.1;

Protein crystallography data

The structure of Soluble Adenylyl Cyclase Cyac From S. Platensis in Complex with Rp-Atpalphas in Presence of Bicarbonate, PDB code: 1wc6 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 / 2.51
Space group C 2 2 21
Cell size a, b, c (Å), α, β, γ (°) 51.148, 73.965, 266.861, 90.00, 90.00, 90.00
R / Rfree (%) 24.1 / 29.1

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Soluble Adenylyl Cyclase Cyac From S. Platensis in Complex with Rp-Atpalphas in Presence of Bicarbonate (pdb code 1wc6). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 6 binding sites of Magnesium where determined in the Soluble Adenylyl Cyclase Cyac From S. Platensis in Complex with Rp-Atpalphas in Presence of Bicarbonate, PDB code: 1wc6:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6;

Magnesium binding site 1 out of 6 in 1wc6

Go back to Magnesium Binding Sites List in 1wc6
Magnesium binding site 1 out of 6 in the Soluble Adenylyl Cyclase Cyac From S. Platensis in Complex with Rp-Atpalphas 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 Rp-Atpalphas in Presence of Bicarbonate within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg2201

b:17.4
occ:1.00
 OD1 A:ASP1017 2.1 28.4 1.0
O2A A:TAT2200 2.4 38.9 1.0
O3' A:TAT2200 2.8 34.0 1.0
CG A:ASP1017 2.8 27.0 1.0
OD2 A:ASP1017 3.0 29.4 1.0
C3' A:TAT2200 3.1 30.4 1.0
MG A:MG2202 3.3 7.8 1.0
OD1 A:ASP1061 3.4 24.9 1.0
PA A:TAT2200 3.7 41.4 1.0
O A:VAL1059 3.7 15.0 1.0
CB A:ALA1062 3.7 19.6 1.0
C2' A:TAT2200 4.2 29.5 1.0
CB A:ASP1017 4.2 25.4 1.0
C5' A:TAT2200 4.2 35.3 1.0
O5' A:TAT2200 4.2 38.1 1.0
C4' A:TAT2200 4.2 32.2 1.0
S1G A:TAT2200 4.4 41.2 1.0
NH2 A:ARG1117 4.4 39.0 1.0
CG A:ASP1061 4.4 24.0 1.0
N A:ALA1062 4.6 18.6 1.0
OD2 A:ASP1061 4.7 26.0 1.0
O3G A:TAT2200 4.7 41.7 1.0
CA A:ALA1062 4.8 17.6 1.0
CG1 A:VAL1059 4.8 14.4 1.0
C A:VAL1059 4.9 15.6 1.0

Magnesium binding site 2 out of 6 in 1wc6

Go back to Magnesium Binding Sites List in 1wc6
Magnesium binding site 2 out of 6 in the Soluble Adenylyl Cyclase Cyac From S. Platensis in Complex with Rp-Atpalphas 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 Rp-Atpalphas in Presence of Bicarbonate within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg2202

b:7.8
occ:1.00
 OD2 A:ASP1017 2.0 29.4 1.0
OD2 A:ASP1061 2.1 26.0 1.0
O3G A:TAT2200 2.1 41.7 1.0
O2B A:TAT2200 2.3 41.4 1.0
O2A A:TAT2200 2.5 38.9 1.0
OD1 A:ASP1061 2.6 24.9 1.0
CG A:ASP1017 2.6 27.0 1.0
CG A:ASP1061 2.6 24.0 1.0
O A:ILE1018 2.8 15.9 1.0
OD1 A:ASP1017 2.9 28.4 1.0
MG A:MG2201 3.3 17.4 1.0
PB A:TAT2200 3.3 41.7 1.0
PG A:TAT2200 3.3 41.7 1.0
PA A:TAT2200 3.4 41.4 1.0
NH2 A:ARG1117 3.5 39.0 1.0
O3B A:TAT2200 3.6 40.0 1.0
O3A A:TAT2200 3.8 41.7 1.0
N A:ILE1018 3.8 21.0 1.0
CB A:ASP1017 3.9 25.4 1.0
S1G A:TAT2200 3.9 41.2 1.0
C A:ILE1018 3.9 16.9 1.0
O2G A:TAT2200 4.1 42.6 1.0
CB A:ASP1061 4.1 22.3 1.0
C A:ASP1017 4.3 21.8 1.0
CA A:ILE1018 4.4 17.9 1.0
CB A:PHE1021 4.4 28.3 1.0
CA A:ASP1017 4.4 23.5 1.0
O1A A:TAT2200 4.4 42.0 1.0
O1B A:TAT2200 4.6 39.9 1.0
CZ A:ARG1117 4.7 37.6 1.0
CB A:ILE1018 4.8 16.1 1.0
N A:PHE1021 4.8 27.1 1.0
O5' A:TAT2200 4.9 38.1 1.0
N A:VAL1019 5.0 17.1 1.0
C A:ASP1061 5.0 18.0 1.0

Magnesium binding site 3 out of 6 in 1wc6

Go back to Magnesium Binding Sites List in 1wc6
Magnesium binding site 3 out of 6 in the Soluble Adenylyl Cyclase Cyac From S. Platensis in Complex with Rp-Atpalphas 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 Rp-Atpalphas in Presence of Bicarbonate within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg2200

b:43.6
occ:1.00
 O2A B:TAT2199 1.9 44.2 1.0
OD1 B:ASP1061 2.6 22.8 1.0
OD1 B:ASP1017 2.7 30.9 1.0
OD2 B:ASP1017 2.7 29.2 1.0
MG B:MG2201 2.8 8.3 1.0
CG B:ASP1017 3.0 27.8 1.0
PA B:TAT2199 3.1 44.7 1.0
C3' B:TAT2199 3.5 31.6 1.0
O B:VAL1059 3.5 16.2 1.0
O3' B:TAT2199 3.6 33.8 1.0
O5' B:TAT2199 3.6 40.7 1.0
CG B:ASP1061 3.6 23.6 1.0
S1G B:TAT2199 3.8 45.2 1.0
O B:HOH2035 3.8 44.6 1.0
C5' B:TAT2199 3.9 36.3 1.0
OD2 B:ASP1061 4.0 26.3 1.0
CB B:ALA1062 4.0 15.7 1.0
C4' B:TAT2199 4.3 33.9 1.0
O3G B:TAT2199 4.3 46.7 1.0
N B:ALA1062 4.4 19.5 1.0
O3A B:TAT2199 4.5 42.2 1.0
CB B:ASP1017 4.5 24.9 1.0
N B:ASP1061 4.5 20.0 1.0
O2B B:TAT2199 4.6 42.0 1.0
C2' B:TAT2199 4.7 30.1 1.0
NH2 B:ARG1117 4.7 30.8 1.0
O B:HOH2021 4.7 19.6 1.0
O3B B:TAT2199 4.7 44.6 1.0
C B:VAL1059 4.8 15.9 1.0
CA B:ALA1062 4.8 18.2 1.0
PB B:TAT2199 4.9 41.4 1.0
CB B:ASP1061 4.9 21.9 1.0
C B:ASP1061 5.0 20.7 1.0

Magnesium binding site 4 out of 6 in 1wc6

Go back to Magnesium Binding Sites List in 1wc6
Magnesium binding site 4 out of 6 in the Soluble Adenylyl Cyclase Cyac From S. Platensis in Complex with Rp-Atpalphas 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 Rp-Atpalphas in Presence of Bicarbonate within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg2201

b:8.3
occ:1.00
 OD2 B:ASP1017 1.9 29.2 1.0
OD2 B:ASP1061 2.0 26.3 1.0
O3G B:TAT2199 2.1 46.7 1.0
O2A B:TAT2199 2.4 44.2 1.0
CG B:ASP1017 2.5 27.8 1.0
OD1 B:ASP1061 2.7 22.8 1.0
CG B:ASP1061 2.7 23.6 1.0
O B:ILE1018 2.7 16.2 1.0
O2B B:TAT2199 2.7 42.0 1.0
MG B:MG2200 2.8 43.6 1.0
OD1 B:ASP1017 2.8 30.9 1.0
PG B:TAT2199 3.3 46.4 1.0
NH2 B:ARG1117 3.4 30.8 1.0
O3B B:TAT2199 3.5 44.6 1.0
PB B:TAT2199 3.6 41.4 1.0
PA B:TAT2199 3.6 44.7 1.0
N B:ILE1018 3.7 22.2 1.0
CB B:ASP1017 3.7 24.9 1.0
C B:ILE1018 3.7 19.8 1.0
O3A B:TAT2199 4.1 42.2 1.0
C B:ASP1017 4.1 23.9 1.0
CB B:ASP1061 4.2 21.9 1.0
O1A B:TAT2199 4.2 45.8 1.0
S1G B:TAT2199 4.2 45.2 1.0
CA B:ILE1018 4.3 20.4 1.0
CA B:ASP1017 4.3 23.6 1.0
O2G B:TAT2199 4.4 46.9 1.0
CB B:PHE1021 4.5 31.9 1.0
CZ B:ARG1117 4.6 31.9 1.0
O B:HOH2035 4.7 44.6 1.0
CB B:ILE1018 4.7 21.6 1.0
N B:VAL1019 4.9 20.5 1.0
N B:PHE1021 4.9 30.1 1.0
O1B B:TAT2199 4.9 41.9 1.0
O5' B:TAT2199 4.9 40.7 1.0
C B:ASP1061 5.0 20.7 1.0
O B:ASP1017 5.0 24.1 1.0

Magnesium binding site 5 out of 6 in 1wc6

Go back to Magnesium Binding Sites List in 1wc6
Magnesium binding site 5 out of 6 in the Soluble Adenylyl Cyclase Cyac From S. Platensis in Complex with Rp-Atpalphas in Presence of Bicarbonate


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Soluble Adenylyl Cyclase Cyac From S. Platensis in Complex with Rp-Atpalphas in Presence of Bicarbonate within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg2201

b:36.9
occ:1.00
 OD1 C:ASP1017 2.7 35.9 1.0
OD2 C:ASP1017 2.8 37.4 1.0
OD1 C:ASP1061 2.8 29.7 1.0
O C:VAL1059 2.9 16.4 1.0
O2A C:TAT2200 2.9 45.3 1.0
CG C:ASP1017 3.0 35.8 1.0
MG C:MG2202 3.2 21.7 1.0
CB C:ALA1062 3.2 22.5 1.0
C3' C:TAT2200 3.4 28.8 1.0
O3' C:TAT2200 3.5 29.6 1.0
N C:ALA1062 3.8 22.5 1.0
O C:HOH2025 3.8 35.0 1.0
CG C:ASP1061 3.9 26.8 1.0
CA C:ALA1062 4.1 22.2 1.0
C C:VAL1059 4.1 14.4 1.0
PA C:TAT2200 4.1 47.1 1.0
C2' C:TAT2200 4.2 28.0 1.0
N C:ASP1061 4.3 19.7 1.0
CB C:ASP1017 4.3 33.0 1.0
CG1 C:VAL1059 4.4 13.1 1.0
OD2 C:ASP1061 4.4 26.4 1.0
S1G C:TAT2200 4.5 43.8 1.0
O5' C:TAT2200 4.6 41.8 1.0
C4' C:TAT2200 4.6 32.0 1.0
CB C:VAL1059 4.6 13.3 1.0
C C:ASP1061 4.7 23.1 1.0
C5' C:TAT2200 4.7 36.5 1.0
CA C:GLY1060 4.9 16.4 1.0
CA C:ASP1061 5.0 22.1 1.0

Magnesium binding site 6 out of 6 in 1wc6

Go back to Magnesium Binding Sites List in 1wc6
Magnesium binding site 6 out of 6 in the Soluble Adenylyl Cyclase Cyac From S. Platensis in Complex with Rp-Atpalphas in Presence of Bicarbonate


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Soluble Adenylyl Cyclase Cyac From S. Platensis in Complex with Rp-Atpalphas in Presence of Bicarbonate within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg2202

b:21.7
occ:1.00
 OD2 C:ASP1017 1.8 37.4 1.0
OD2 C:ASP1061 2.0 26.4 1.0
OD1 C:ASP1061 2.3 29.7 1.0
O2A C:TAT2200 2.3 45.3 1.0
CG C:ASP1061 2.4 26.8 1.0
O3G C:TAT2200 2.4 57.0 1.0
O2B C:TAT2200 2.5 49.9 1.0
CG C:ASP1017 2.6 35.8 1.0
OD1 C:ASP1017 2.9 35.9 1.0
O C:ILE1018 3.0 31.7 1.0
MG C:MG2201 3.2 36.9 1.0
PA C:TAT2200 3.5 47.1 1.0
PB C:TAT2200 3.5 50.7 1.0
PG C:TAT2200 3.6 58.0 1.0
O3B C:TAT2200 3.7 53.9 1.0
O C:HOH2025 3.8 35.0 1.0
N C:ILE1018 3.8 32.5 1.0
NH2 C:ARG1117 3.8 35.4 1.0
CB C:ASP1017 3.9 33.0 1.0
CB C:ASP1061 3.9 24.1 1.0
S1G C:TAT2200 3.9 43.8 1.0
O3A C:TAT2200 4.0 47.5 1.0
C C:ILE1018 4.0 33.0 1.0
C C:ASP1017 4.3 31.6 1.0
CB C:PHE1021 4.4 46.4 1.0
CA C:ASP1017 4.4 31.4 1.0
CA C:ILE1018 4.4 32.5 1.0
O2G C:TAT2200 4.4 58.4 1.0
O1A C:TAT2200 4.7 57.1 1.0
C C:ASP1061 4.7 23.1 1.0
N C:ALA1062 4.7 22.5 1.0
CA C:ASP1061 4.7 22.1 1.0
CB C:ILE1018 4.8 32.4 1.0
O5' C:TAT2200 4.8 41.8 1.0
N C:ASP1061 4.8 19.7 1.0
O1B C:TAT2200 4.8 49.8 1.0
CZ C:ARG1117 4.9 35.1 1.0
N C:PHE1021 5.0 46.4 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 17:13:48 2024

Last articles

Zn in 9J0N
Zn in 9J0O
Zn in 9J0P
Zn in 9FJX
Zn in 9EKB
Zn in 9C0F
Zn in 9CAH
Zn in 9CH0
Zn in 9CH3
Zn in 9CH1
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy