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Manganese in PDB 1kgz: Crystal Structure Analysis of the Anthranilate Phosphoribosyltransferase From Erwinia Carotovora (Current Name, Pectobacterium Carotovorum)

Enzymatic activity of Crystal Structure Analysis of the Anthranilate Phosphoribosyltransferase From Erwinia Carotovora (Current Name, Pectobacterium Carotovorum)

All present enzymatic activity of Crystal Structure Analysis of the Anthranilate Phosphoribosyltransferase From Erwinia Carotovora (Current Name, Pectobacterium Carotovorum):
2.4.2.18;

Protein crystallography data

The structure of Crystal Structure Analysis of the Anthranilate Phosphoribosyltransferase From Erwinia Carotovora (Current Name, Pectobacterium Carotovorum), PDB code: 1kgz was solved by C.Kim, N.-H.Xuong, S.Edwards, Madhusudan, M.-C.Yee, G.Spraggon, S.E.Mills, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 25.00 / 2.40
Space group P 21 21 2
Cell size a, b, c (Å), α, β, γ (°) 77.378, 81.686, 101.680, 90.00, 90.00, 90.00
R / Rfree (%) 21.4 / 26.5

Other elements in 1kgz:

The structure of Crystal Structure Analysis of the Anthranilate Phosphoribosyltransferase From Erwinia Carotovora (Current Name, Pectobacterium Carotovorum) also contains other interesting chemical elements:

Mercury (Hg) 2 atoms

Manganese Binding Sites:

The binding sites of Manganese atom in the Crystal Structure Analysis of the Anthranilate Phosphoribosyltransferase From Erwinia Carotovora (Current Name, Pectobacterium Carotovorum) (pdb code 1kgz). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 4 binding sites of Manganese where determined in the Crystal Structure Analysis of the Anthranilate Phosphoribosyltransferase From Erwinia Carotovora (Current Name, Pectobacterium Carotovorum), PDB code: 1kgz:
Jump to Manganese binding site number: 1; 2; 3; 4;

Manganese binding site 1 out of 4 in 1kgz

Go back to Manganese Binding Sites List in 1kgz
Manganese binding site 1 out of 4 in the Crystal Structure Analysis of the Anthranilate Phosphoribosyltransferase From Erwinia Carotovora (Current Name, Pectobacterium Carotovorum)


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Crystal Structure Analysis of the Anthranilate Phosphoribosyltransferase From Erwinia Carotovora (Current Name, Pectobacterium Carotovorum) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mn500

b:58.4
occ:1.00
 OE1 A:GLU237 2.3 61.2 1.0
O3A A:PRP600 2.4 70.0 0.6
O A:HOH868 2.4 53.8 1.0
OG A:SER103 2.4 51.3 1.0
O A:HOH905 2.5 38.4 1.0
O1A A:PRP600 2.9 69.1 1.0
O A:HOH907 3.2 40.2 1.0
CB A:SER103 3.2 46.6 1.0
PA A:PRP600 3.2 67.1 1.0
MN A:MN501 3.3 59.8 1.0
CD A:GLU237 3.4 59.4 1.0
PB A:PRP600 3.6 69.5 1.0
O3B A:PRP600 3.8 73.7 1.0
O1B A:PRP600 3.9 72.7 1.0
N A:SER103 3.9 49.7 1.0
CG A:GLU237 3.9 57.2 1.0
O1 A:PRP600 4.1 74.2 0.6
CA A:SER103 4.2 47.7 1.0
N A:GLY91 4.3 49.7 1.0
OD1 A:ASP236 4.4 40.6 1.0
O2A A:PRP600 4.4 66.4 1.0
OE2 A:GLU237 4.5 62.2 1.0
O A:ASP236 4.6 52.0 1.0
CA A:GLY91 4.6 52.0 1.0
OD2 A:ASP236 4.6 43.8 1.0
C1 A:PRP600 4.6 80.8 0.7
O A:HOH861 4.7 42.0 1.0
CG A:ASP236 4.8 44.2 1.0
O2B A:PRP600 4.8 71.9 0.6
O A:HOH869 4.9 57.4 1.0

Manganese binding site 2 out of 4 in 1kgz

Go back to Manganese Binding Sites List in 1kgz
Manganese binding site 2 out of 4 in the Crystal Structure Analysis of the Anthranilate Phosphoribosyltransferase From Erwinia Carotovora (Current Name, Pectobacterium Carotovorum)


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 2 of Crystal Structure Analysis of the Anthranilate Phosphoribosyltransferase From Erwinia Carotovora (Current Name, Pectobacterium Carotovorum) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mn501

b:59.8
occ:1.00
 OD2 A:ASP236 2.2 43.8 1.0
O A:HOH907 2.3 40.2 1.0
O A:HOH905 2.7 38.4 1.0
O A:HOH781 2.9 44.8 1.0
CG A:ASP236 3.0 44.2 1.0
OE1 A:GLU237 3.0 61.2 1.0
OD1 A:ASP236 3.2 40.6 1.0
MN A:MN500 3.3 58.4 1.0
CD A:GLU237 3.4 59.4 1.0
OD1 A:ASP95 3.6 80.6 1.0
OE2 A:GLU237 3.8 62.2 1.0
CG A:GLU237 4.2 57.2 1.0
O A:HOH868 4.2 53.8 1.0
O A:ASP236 4.3 52.0 1.0
CG A:ASP95 4.4 79.4 1.0
CB A:ASP236 4.4 45.6 1.0
N A:ASP236 4.6 52.0 1.0
O1B A:PRP600 4.6 72.7 1.0
C A:ASP236 4.6 51.3 1.0
O3A A:PRP600 4.7 70.0 0.6
CA A:ASP236 4.8 51.2 1.0
CA A:GLY93 4.8 63.8 1.0
OD2 A:ASP95 4.9 79.2 1.0
CE A:MET235 4.9 59.8 1.0

Manganese binding site 3 out of 4 in 1kgz

Go back to Manganese Binding Sites List in 1kgz
Manganese binding site 3 out of 4 in the Crystal Structure Analysis of the Anthranilate Phosphoribosyltransferase From Erwinia Carotovora (Current Name, Pectobacterium Carotovorum)


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 3 of Crystal Structure Analysis of the Anthranilate Phosphoribosyltransferase From Erwinia Carotovora (Current Name, Pectobacterium Carotovorum) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mn500

b:34.1
occ:1.00
 O B:HOH901 2.2 24.3 1.0
O B:HOH902 2.2 26.6 1.0
OE1 B:GLU237 2.3 37.5 1.0
O3A B:PRP700 2.3 45.8 0.5
OG B:SER103 2.5 31.9 1.0
O3B B:PRP700 2.8 40.0 0.3
CD B:GLU237 3.1 33.8 1.0
CB B:SER103 3.2 27.2 1.0
PB B:PRP700 3.2 36.5 1.0
OE2 B:GLU237 3.2 31.9 1.0
O1A B:PRP700 3.2 51.4 0.8
PA B:PRP700 3.2 45.9 1.0
O1 B:PRP700 3.6 53.3 1.0
MN B:MN501 3.6 37.4 1.0
O B:HOH723 3.8 36.9 1.0
N B:SER103 3.9 31.0 1.0
N B:GLY91 4.0 30.4 1.0
O1B B:PRP700 4.0 38.1 0.9
CA B:SER103 4.2 32.6 1.0
OD1 B:ASP236 4.3 35.4 1.0
O2B B:PRP700 4.3 41.4 1.0
O B:HOH731 4.4 38.7 1.0
CA B:GLY91 4.5 28.6 1.0
CG B:GLU237 4.5 34.3 1.0
O B:ASP236 4.5 29.3 1.0
O2A B:PRP700 4.6 49.5 0.4
C B:VAL90 4.6 32.1 1.0
OD2 B:ASP236 4.6 31.7 1.0
O B:HOH736 4.7 31.3 1.0
CG B:ASP236 4.7 32.4 1.0
CA B:VAL90 4.8 31.7 1.0

Manganese binding site 4 out of 4 in 1kgz

Go back to Manganese Binding Sites List in 1kgz
Manganese binding site 4 out of 4 in the Crystal Structure Analysis of the Anthranilate Phosphoribosyltransferase From Erwinia Carotovora (Current Name, Pectobacterium Carotovorum)


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 4 of Crystal Structure Analysis of the Anthranilate Phosphoribosyltransferase From Erwinia Carotovora (Current Name, Pectobacterium Carotovorum) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mn501

b:37.4
occ:1.00
 O B:HOH723 2.2 36.9 1.0
OE1 B:GLU237 2.2 37.5 1.0
OD2 B:ASP236 2.4 31.7 1.0
O B:HOH902 2.4 26.6 1.0
O B:HOH864 2.4 32.0 1.0
O B:HOH732 2.5 61.4 1.0
CD B:GLU237 3.2 33.8 1.0
CG B:ASP236 3.3 32.4 1.0
OD1 B:ASP236 3.5 35.4 1.0
CG B:GLU237 3.6 34.3 1.0
MN B:MN500 3.6 34.1 1.0
OD2 B:ASP95 3.6 30.0 1.0
O3B B:PRP700 4.0 40.0 0.3
OE2 B:GLU237 4.4 31.9 1.0
OG B:SER99 4.4 38.0 1.0
O B:HOH901 4.5 24.3 1.0
CG B:ASP95 4.5 36.1 1.0
O B:ASP236 4.6 29.3 1.0
O B:HOH739 4.6 46.3 1.0
CB B:ASP236 4.7 31.3 1.0
N B:ASP236 4.7 26.6 1.0
O1B B:PRP700 4.7 38.1 0.9
C B:ASP236 4.8 28.7 1.0
PB B:PRP700 4.8 36.5 1.0
O3A B:PRP700 4.9 45.8 0.5
O1 B:PRP700 5.0 53.3 1.0
CA B:ASP236 5.0 29.0 1.0
OD1 B:ASP95 5.0 42.4 1.0
CE B:MET235 5.0 39.6 1.0
O3 B:PRP700 5.0 66.6 1.0

Reference:

C.Kim, N.-H.Xuong, S.Edwards, Madhusudan, M.-C.Yee, G.Spraggon, S.E.Mills. The Crystal Structure of Anthranilate Phosphoribosyltransferase From the Enterobacterium Pectobacterium Carotovorum Febs Lett. V. 523 239 2002.
ISSN: ISSN 0014-5793
PubMed: 12123839
DOI: 10.1016/S0014-5793(02)02905-8
Page generated: Sat Oct 5 11:20:23 2024

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