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Magnesium in PDB 3ke5: Crystal Structure of A Pduo-Type Atp:Cob(I)Alamin Adenosyltransferase From Bacillus Cereus in A Complex with Atp

Enzymatic activity of Crystal Structure of A Pduo-Type Atp:Cob(I)Alamin Adenosyltransferase From Bacillus Cereus in A Complex with Atp

All present enzymatic activity of Crystal Structure of A Pduo-Type Atp:Cob(I)Alamin Adenosyltransferase From Bacillus Cereus in A Complex with Atp:
2.5.1.17;

Protein crystallography data

The structure of Crystal Structure of A Pduo-Type Atp:Cob(I)Alamin Adenosyltransferase From Bacillus Cereus in A Complex with Atp, PDB code: 3ke5 was solved by A.K.Park, J.H.Moon, Y.M.Chi, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 47.13 / 2.00
Space group C 2 2 21
Cell size a, b, c (Å), α, β, γ (°) 64.925, 137.042, 158.263, 90.00, 90.00, 90.00
R / Rfree (%) 19.8 / 22.5

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Crystal Structure of A Pduo-Type Atp:Cob(I)Alamin Adenosyltransferase From Bacillus Cereus in A Complex with Atp (pdb code 3ke5). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 3 binding sites of Magnesium where determined in the Crystal Structure of A Pduo-Type Atp:Cob(I)Alamin Adenosyltransferase From Bacillus Cereus in A Complex with Atp, PDB code: 3ke5:
Jump to Magnesium binding site number: 1; 2; 3;

Magnesium binding site 1 out of 3 in 3ke5

Go back to Magnesium Binding Sites List in 3ke5
Magnesium binding site 1 out of 3 in the Crystal Structure of A Pduo-Type Atp:Cob(I)Alamin Adenosyltransferase From Bacillus Cereus in A Complex with Atp


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 A Pduo-Type Atp:Cob(I)Alamin Adenosyltransferase From Bacillus Cereus in A Complex with Atp within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg204

b:24.6
occ:1.00
 OD1 A:ASN153 2.2 26.1 1.0
O A:HOH511 2.3 16.2 1.0
O1A B:ATP201 2.3 20.5 1.0
O A:HOH510 2.4 9.2 1.0
O1B B:ATP201 2.4 18.7 1.0
O3G B:ATP201 2.4 20.9 1.0
CG A:ASN153 3.0 23.9 1.0
ND2 A:ASN153 3.5 21.7 1.0
PG B:ATP201 3.5 19.8 1.0
PB B:ATP201 3.6 18.3 1.0
PA B:ATP201 3.6 18.4 1.0
O A:ASN153 3.7 15.9 1.0
O1G B:ATP201 3.7 22.4 1.0
O A:HOH512 3.8 13.2 1.0
NZ B:LYS22 3.9 14.2 1.0
O3B B:ATP201 3.9 19.1 1.0
O3A B:ATP201 4.0 20.2 1.0
O B:HOH513 4.1 18.5 1.0
NH1 A:ARG129 4.1 17.3 1.0
C A:ASN153 4.2 17.8 1.0
CB A:ASN153 4.2 19.4 1.0
CA A:ASN153 4.3 17.5 1.0
OD1 A:ASP157 4.3 15.8 1.0
OG A:SER156 4.3 13.8 1.0
OE1 A:GLU132 4.4 15.5 1.0
O2A B:ATP201 4.5 18.0 1.0
OE2 A:GLU132 4.5 15.9 1.0
OD2 A:ASP157 4.5 17.4 1.0
O A:HOH305 4.7 17.8 1.0
N7 B:ATP201 4.7 20.3 1.0
CG A:ASP157 4.8 17.8 1.0
O5' B:ATP201 4.8 20.0 1.0
O2G B:ATP201 4.8 19.5 1.0
CD A:GLU132 4.9 16.9 1.0
O2B B:ATP201 4.9 18.1 1.0
CE B:LYS22 4.9 14.1 1.0
C8 B:ATP201 5.0 18.6 1.0

Magnesium binding site 2 out of 3 in 3ke5

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Magnesium binding site 2 out of 3 in the Crystal Structure of A Pduo-Type Atp:Cob(I)Alamin Adenosyltransferase From Bacillus Cereus in A Complex with Atp


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 A Pduo-Type Atp:Cob(I)Alamin Adenosyltransferase From Bacillus Cereus in A Complex with Atp within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg205

b:27.4
occ:1.00
 OD1 B:ASN153 2.2 16.2 1.0
O B:HOH515 2.2 16.5 1.0
O1A C:ATP202 2.3 23.1 1.0
O1B C:ATP202 2.5 18.5 1.0
O3G C:ATP202 2.5 23.4 1.0
O B:HOH516 2.5 21.0 1.0
CG B:ASN153 3.3 17.7 1.0
PG C:ATP202 3.6 23.8 1.0
PA C:ATP202 3.6 20.2 1.0
PB C:ATP202 3.6 20.0 1.0
O B:ASN153 3.6 15.6 1.0
O1G C:ATP202 3.8 21.5 1.0
ND2 B:ASN153 3.8 16.2 1.0
O B:HOH518 3.9 17.8 1.0
O3B C:ATP202 4.0 20.6 1.0
NZ C:LYS22 4.0 16.1 1.0
O3A C:ATP202 4.0 19.9 1.0
NH1 B:ARG129 4.2 16.7 1.0
OG B:SER156 4.2 16.9 1.0
O C:HOH517 4.2 17.1 1.0
C B:ASN153 4.3 15.9 1.0
OD1 B:ASP157 4.4 14.7 1.0
CB B:ASN153 4.4 15.9 1.0
CA B:ASN153 4.4 16.7 1.0
OE1 B:GLU132 4.4 16.1 1.0
O2A C:ATP202 4.5 24.5 1.0
N7 C:ATP202 4.6 19.8 1.0
OE2 B:GLU132 4.6 16.7 1.0
OD2 B:ASP157 4.7 13.9 1.0
O5' C:ATP202 4.7 23.3 1.0
CG B:ASP157 4.8 14.6 1.0
O B:HOH332 4.9 11.4 1.0
O2G C:ATP202 4.9 23.1 1.0
C8 C:ATP202 4.9 20.0 1.0
CE C:LYS22 4.9 17.4 1.0
O2B C:ATP202 5.0 21.5 1.0

Magnesium binding site 3 out of 3 in 3ke5

Go back to Magnesium Binding Sites List in 3ke5
Magnesium binding site 3 out of 3 in the Crystal Structure of A Pduo-Type Atp:Cob(I)Alamin Adenosyltransferase From Bacillus Cereus in A Complex with Atp


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 A Pduo-Type Atp:Cob(I)Alamin Adenosyltransferase From Bacillus Cereus in A Complex with Atp within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg206

b:25.8
occ:1.00
 OD1 C:ASN153 2.1 24.1 1.0
O C:HOH519 2.3 18.2 1.0
O1A A:ATP203 2.3 22.4 1.0
O C:HOH520 2.4 22.8 1.0
O1B A:ATP203 2.4 23.2 1.0
O3G A:ATP203 2.4 26.0 1.0
CG C:ASN153 3.2 20.6 1.0
PG A:ATP203 3.5 22.9 1.0
PB A:ATP203 3.6 21.1 1.0
O C:ASN153 3.6 15.2 1.0
PA A:ATP203 3.6 21.3 1.0
O1G A:ATP203 3.7 21.6 1.0
ND2 C:ASN153 3.7 20.6 1.0
O3B A:ATP203 3.9 22.9 1.0
NZ A:LYS22 3.9 14.1 1.0
O3A A:ATP203 4.0 23.1 1.0
O C:HOH521 4.0 20.6 1.0
O A:HOH522 4.2 17.1 1.0
C C:ASN153 4.2 13.7 1.0
CB C:ASN153 4.4 15.5 1.0
OG C:SER156 4.4 13.6 1.0
CA C:ASN153 4.4 15.2 1.0
O2A A:ATP203 4.4 20.3 1.0
OE1 C:GLU132 4.4 15.9 1.0
OD2 C:ASP157 4.4 22.6 1.0
OE2 C:GLU132 4.5 19.3 1.0
OD1 C:ASP157 4.5 19.3 1.0
N7 A:ATP203 4.6 21.6 1.0
O5' A:ATP203 4.7 22.3 1.0
CG C:ASP157 4.8 19.9 1.0
CE A:LYS22 4.8 14.2 1.0
O2G A:ATP203 4.8 25.2 1.0
C8 A:ATP203 4.9 19.7 1.0
O C:HOH325 4.9 17.1 1.0
CD C:GLU132 4.9 18.5 1.0
O2B A:ATP203 4.9 24.6 1.0

Reference:

A.K.Park, J.H.Moon, Y.M.Chi. Crystal Structure of A Pduo-Type Atp:Cob(I)Alamin Adenosyltransferase From Bacillus Cereus in A Complex with Atp To Be Published.
Page generated: Wed Aug 14 18:03:37 2024

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