Atomistry » Magnesium » PDB 1ofh-1oyj » 1oy0
Atomistry »
  Magnesium »
    PDB 1ofh-1oyj »
      1oy0 »

Magnesium in PDB 1oy0: The Crystal Structure of the First Enzyme of Pantothenate Biosynthetic Pathway, Ketopantoate Hydroxymethyltransferase From Mycobacterium Tuberculosis Shows A Decameric Assembly and Terminal Helix-Swapping

Enzymatic activity of The Crystal Structure of the First Enzyme of Pantothenate Biosynthetic Pathway, Ketopantoate Hydroxymethyltransferase From Mycobacterium Tuberculosis Shows A Decameric Assembly and Terminal Helix-Swapping

All present enzymatic activity of The Crystal Structure of the First Enzyme of Pantothenate Biosynthetic Pathway, Ketopantoate Hydroxymethyltransferase From Mycobacterium Tuberculosis Shows A Decameric Assembly and Terminal Helix-Swapping:
2.1.2.11;

Protein crystallography data

The structure of The Crystal Structure of the First Enzyme of Pantothenate Biosynthetic Pathway, Ketopantoate Hydroxymethyltransferase From Mycobacterium Tuberculosis Shows A Decameric Assembly and Terminal Helix-Swapping, PDB code: 1oy0 was solved by B.N.Chaudhuri, M.R.Sawaya, C.Y.Kim, G.S.Waldo, M.S.Park, T.C.Terwilliger, T.O.Yeates, Tb Structural Genomics Consortium (Tbsgc), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 92.53 / 2.80
Space group P 32 2 1
Cell size a, b, c (Å), α, β, γ (°) 106.800, 106.800, 224.400, 90.00, 90.00, 120.00
R / Rfree (%) 23.9 / 27.5

Magnesium Binding Sites:

The binding sites of Magnesium atom in the The Crystal Structure of the First Enzyme of Pantothenate Biosynthetic Pathway, Ketopantoate Hydroxymethyltransferase From Mycobacterium Tuberculosis Shows A Decameric Assembly and Terminal Helix-Swapping (pdb code 1oy0). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 5 binding sites of Magnesium where determined in the The Crystal Structure of the First Enzyme of Pantothenate Biosynthetic Pathway, Ketopantoate Hydroxymethyltransferase From Mycobacterium Tuberculosis Shows A Decameric Assembly and Terminal Helix-Swapping, PDB code: 1oy0:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5;

Magnesium binding site 1 out of 5 in 1oy0

Go back to Magnesium Binding Sites List in 1oy0
Magnesium binding site 1 out of 5 in the The Crystal Structure of the First Enzyme of Pantothenate Biosynthetic Pathway, Ketopantoate Hydroxymethyltransferase From Mycobacterium Tuberculosis Shows A Decameric Assembly and Terminal Helix-Swapping


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of The Crystal Structure of the First Enzyme of Pantothenate Biosynthetic Pathway, Ketopantoate Hydroxymethyltransferase From Mycobacterium Tuberculosis Shows A Decameric Assembly and Terminal Helix-Swapping within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg901

b:48.9
occ:1.00
 OD2 A:ASP62 1.9 50.4 1.0
O A:HOH928 2.8 27.6 1.0
CG A:ASP62 2.9 50.4 1.0
O A:HOH914 3.0 40.8 1.0
OE1 A:GLU133 3.0 79.0 1.0
OD1 A:ASP62 3.5 50.4 1.0
CB A:ASP62 4.0 50.4 1.0
CD A:GLU133 4.2 79.0 1.0
OG1 A:THR74 4.2 26.0 1.0
OD2 A:ASP101 4.4 40.2 1.0
CB A:THR74 4.5 26.0 1.0
OE2 A:GLU133 4.8 79.0 1.0
OD1 A:ASP101 4.9 40.2 1.0
CB A:GLU133 5.0 79.0 1.0
CG2 A:THR74 5.0 26.0 1.0

Magnesium binding site 2 out of 5 in 1oy0

Go back to Magnesium Binding Sites List in 1oy0
Magnesium binding site 2 out of 5 in the The Crystal Structure of the First Enzyme of Pantothenate Biosynthetic Pathway, Ketopantoate Hydroxymethyltransferase From Mycobacterium Tuberculosis Shows A Decameric Assembly and Terminal Helix-Swapping


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of The Crystal Structure of the First Enzyme of Pantothenate Biosynthetic Pathway, Ketopantoate Hydroxymethyltransferase From Mycobacterium Tuberculosis Shows A Decameric Assembly and Terminal Helix-Swapping within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg902

b:55.9
occ:1.00
 OE1 B:GLU133 2.5 0.6 1.0
O B:HOH920 2.7 35.9 1.0
OD2 B:ASP62 2.8 50.5 1.0
O B:HOH911 2.9 44.9 1.0
CD B:GLU133 3.5 0.6 1.0
CG B:ASP62 3.6 50.5 1.0
OD1 B:ASP62 3.6 50.5 1.0
OE2 B:GLU133 4.1 0.6 1.0
CB B:GLU133 4.3 0.6 1.0
OG1 B:THR74 4.5 20.9 1.0
CG B:GLU133 4.5 0.6 1.0
OH B:TYR107 4.8 41.1 1.0
CB B:ASP62 4.9 50.5 1.0
CB B:THR74 5.0 20.9 1.0

Magnesium binding site 3 out of 5 in 1oy0

Go back to Magnesium Binding Sites List in 1oy0
Magnesium binding site 3 out of 5 in the The Crystal Structure of the First Enzyme of Pantothenate Biosynthetic Pathway, Ketopantoate Hydroxymethyltransferase From Mycobacterium Tuberculosis Shows A Decameric Assembly and Terminal Helix-Swapping


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of The Crystal Structure of the First Enzyme of Pantothenate Biosynthetic Pathway, Ketopantoate Hydroxymethyltransferase From Mycobacterium Tuberculosis Shows A Decameric Assembly and Terminal Helix-Swapping within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg903

b:52.2
occ:1.00
 OD2 C:ASP62 2.2 34.8 1.0
OE1 C:GLU133 2.7 62.7 1.0
O C:HOH922 2.9 29.9 1.0
CG C:ASP62 3.0 34.8 1.0
O C:HOH914 3.0 48.4 1.0
OD1 C:ASP62 3.3 34.8 1.0
CD C:GLU133 3.9 62.7 1.0
CB C:ASP62 4.3 34.8 1.0
OG1 C:THR74 4.4 33.3 1.0
OD2 C:ASP101 4.6 46.4 1.0
OE2 C:GLU133 4.6 62.7 1.0
CB C:THR74 4.7 33.3 1.0
CB C:GLU133 4.7 62.7 1.0
CG C:GLU133 4.9 62.7 1.0

Magnesium binding site 4 out of 5 in 1oy0

Go back to Magnesium Binding Sites List in 1oy0
Magnesium binding site 4 out of 5 in the The Crystal Structure of the First Enzyme of Pantothenate Biosynthetic Pathway, Ketopantoate Hydroxymethyltransferase From Mycobacterium Tuberculosis Shows A Decameric Assembly and Terminal Helix-Swapping


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of The Crystal Structure of the First Enzyme of Pantothenate Biosynthetic Pathway, Ketopantoate Hydroxymethyltransferase From Mycobacterium Tuberculosis Shows A Decameric Assembly and Terminal Helix-Swapping within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg904

b:49.4
occ:1.00
 O D:HOH917 2.3 61.1 1.0
OD2 D:ASP62 2.4 32.8 1.0
OE1 D:GLU133 2.5 74.9 1.0
O D:HOH923 2.9 31.4 1.0
CG D:ASP62 3.1 32.8 1.0
OD1 D:ASP62 3.5 32.8 1.0
CD D:GLU133 3.6 74.9 1.0
O D:HOH924 4.1 25.5 1.0
OD2 D:ASP101 4.1 41.0 1.0
CB D:ASP62 4.3 32.8 1.0
CB D:GLU133 4.3 74.9 1.0
OE2 D:GLU133 4.4 74.9 1.0
CG D:GLU133 4.6 74.9 1.0
OG1 D:THR74 4.7 20.5 1.0
O D:LEU102 4.8 26.8 1.0
CG D:ASP101 4.9 41.0 1.0
OD1 D:ASP101 4.9 41.0 1.0

Magnesium binding site 5 out of 5 in 1oy0

Go back to Magnesium Binding Sites List in 1oy0
Magnesium binding site 5 out of 5 in the The Crystal Structure of the First Enzyme of Pantothenate Biosynthetic Pathway, Ketopantoate Hydroxymethyltransferase From Mycobacterium Tuberculosis Shows A Decameric Assembly and Terminal Helix-Swapping


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of The Crystal Structure of the First Enzyme of Pantothenate Biosynthetic Pathway, Ketopantoate Hydroxymethyltransferase From Mycobacterium Tuberculosis Shows A Decameric Assembly and Terminal Helix-Swapping within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Mg905

b:42.8
occ:1.00
 OD2 E:ASP62 2.3 58.7 1.0
OE1 E:GLU133 2.7 65.6 1.0
O E:HOH924 2.8 37.7 1.0
O E:HOH917 3.1 52.9 1.0
CG E:ASP62 3.2 58.7 1.0
OD1 E:ASP62 3.5 58.7 1.0
CD E:GLU133 3.8 65.6 1.0
OG1 E:THR74 4.2 15.8 1.0
OE2 E:GLU133 4.3 65.6 1.0
CB E:ASP62 4.4 58.7 1.0
OD2 E:ASP101 4.6 50.0 1.0
CB E:THR74 4.7 15.8 1.0
CB E:GLU133 4.7 65.6 1.0
CG E:GLU133 4.8 65.6 1.0

Reference:

B.N.Chaudhuri, M.R.Sawaya, C.Y.Kim, G.S.Waldo, M.S.Park, T.C.Terwilliger, T.O.Yeates. The Crystal Structure of the First Enzyme in the Pantothenate Biosynthetic Pathway, Ketopantoate Hydroxymethyltransferase, From M. Tuberculosis Structure V. 11 753 2003.
ISSN: ISSN 0969-2126
PubMed: 12842039
DOI: 10.1016/S0969-2126(03)00106-0
Page generated: Tue Aug 13 10:45:06 2024

Last articles

Zn in 9JPJ
Zn in 9JP7
Zn in 9JPK
Zn in 9JPL
Zn in 9GN6
Zn in 9GN7
Zn in 9GKU
Zn in 9GKW
Zn in 9GKX
Zn in 9GL0
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy