Manganese in PDB 8xia: X-Ray Analysis of D-Xylose Isomerase at 1.9 Angstroms: Native Enzyme in Complex with Substrate and with A Mechanism-Designed Inactivator

Enzymatic activity of X-Ray Analysis of D-Xylose Isomerase at 1.9 Angstroms: Native Enzyme in Complex with Substrate and with A Mechanism-Designed Inactivator

All present enzymatic activity of X-Ray Analysis of D-Xylose Isomerase at 1.9 Angstroms: Native Enzyme in Complex with Substrate and with A Mechanism-Designed Inactivator:
5.3.1.5;

Protein crystallography data

The structure of X-Ray Analysis of D-Xylose Isomerase at 1.9 Angstroms: Native Enzyme in Complex with Substrate and with A Mechanism-Designed Inactivator, PDB code: 8xia was solved by H.L.Carrell, J.P.Glusker, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 8.00 / 1.90
Space group I 2 2 2
Cell size a, b, c (Å), α, β, γ (°) 94.200, 100.200, 103.200, 90.00, 90.00, 90.00
R / Rfree (%) n/a / n/a

Manganese Binding Sites:

The binding sites of Manganese atom in the X-Ray Analysis of D-Xylose Isomerase at 1.9 Angstroms: Native Enzyme in Complex with Substrate and with A Mechanism-Designed Inactivator (pdb code 8xia). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 2 binding sites of Manganese where determined in the X-Ray Analysis of D-Xylose Isomerase at 1.9 Angstroms: Native Enzyme in Complex with Substrate and with A Mechanism-Designed Inactivator, PDB code: 8xia:
Jump to Manganese binding site number: 1; 2;

Manganese binding site 1 out of 2 in 8xia

Go back to Manganese Binding Sites List in 8xia
Manganese binding site 1 out of 2 in the X-Ray Analysis of D-Xylose Isomerase at 1.9 Angstroms: Native Enzyme in Complex with Substrate and with A Mechanism-Designed Inactivator


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of X-Ray Analysis of D-Xylose Isomerase at 1.9 Angstroms: Native Enzyme in Complex with Substrate and with A Mechanism-Designed Inactivator within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mn390

b:22.1
occ:1.00
 O A:HOH409 2.1 16.3 1.0
OE1 A:GLU217 2.3 16.3 1.0
OD2 A:ASP257 2.4 14.1 1.0
OD1 A:ASP255 2.4 18.5 1.0
OD2 A:ASP255 2.5 17.0 1.0
NE2 A:HIS220 2.5 12.7 1.0
CG A:ASP255 2.9 18.9 1.0
CD A:GLU217 3.1 15.2 1.0
CD2 A:HIS220 3.1 10.4 1.0
OE2 A:GLU217 3.2 13.3 1.0
CG A:ASP257 3.3 15.3 1.0
OD1 A:ASP257 3.4 17.0 1.0
O A:HOH563 3.6 24.1 1.0
CE1 A:HIS220 3.7 12.2 1.0
O5 A:XLS389 3.8 19.8 1.0
ND2 A:ASN247 4.0 8.7 1.0
O A:HOH412 4.1 20.5 1.0
CB A:ASP255 4.3 13.1 1.0
CG A:HIS220 4.3 11.2 1.0
CG A:GLU217 4.5 11.7 1.0
O A:HOH602 4.6 50.2 1.0
ND1 A:HIS220 4.6 13.0 1.0
CB A:ASP257 4.7 11.6 1.0
NZ A:LYS183 4.7 13.9 1.0
C5 A:XLS389 4.8 24.0 1.0
OD2 A:ASP287 4.8 14.8 1.0
CE A:LYS183 4.8 12.6 1.0
MN A:MN391 4.8 18.1 1.0

Manganese binding site 2 out of 2 in 8xia

Go back to Manganese Binding Sites List in 8xia
Manganese binding site 2 out of 2 in the X-Ray Analysis of D-Xylose Isomerase at 1.9 Angstroms: Native Enzyme in Complex with Substrate and with A Mechanism-Designed Inactivator


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 2 of X-Ray Analysis of D-Xylose Isomerase at 1.9 Angstroms: Native Enzyme in Complex with Substrate and with A Mechanism-Designed Inactivator within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mn391

b:18.1
occ:1.00
 O3 A:XLS389 2.1 22.0 1.0
O5 A:XLS389 2.1 19.8 1.0
OE1 A:GLU181 2.3 14.8 1.0
OD1 A:ASP245 2.3 13.5 1.0
OD2 A:ASP287 2.3 14.8 1.0
OE2 A:GLU217 2.3 13.3 1.0
C3 A:XLS389 2.9 26.0 1.0
C5 A:XLS389 3.1 24.0 1.0
CD A:GLU181 3.1 13.5 1.0
CG A:ASP287 3.3 14.4 1.0
OE2 A:GLU181 3.4 13.0 1.0
CG A:ASP245 3.4 14.3 1.0
C4 A:XLS389 3.4 25.9 1.0
CD A:GLU217 3.4 15.2 1.0
O4 A:XLS389 3.7 26.7 1.0
CB A:ASP287 3.7 13.0 1.0
O A:HOH409 3.9 16.3 1.0
CB A:ASP245 3.9 10.6 1.0
CE1 A:HIS220 4.0 12.2 1.0
O A:HOH408 4.1 25.7 1.0
CG A:GLU217 4.1 11.7 1.0
CB A:GLU217 4.2 11.6 1.0
OE1 A:GLU217 4.3 16.3 1.0
C2 A:XLS389 4.3 29.5 1.0
OD2 A:ASP245 4.3 14.2 1.0
OD1 A:ASP287 4.4 14.1 1.0
CG A:GLU181 4.5 12.2 1.0
NE2 A:HIS220 4.5 12.7 1.0
MN A:MN390 4.8 22.1 1.0
ND1 A:HIS220 4.8 13.0 1.0
O2 A:XLS389 4.9 31.5 1.0

Reference:

H.L.Carrell, J.P.Glusker, V.Burger, F.Manfre, D.Tritsch, J.F.Biellmann. X-Ray Analysis of D-Xylose Isomerase at 1.9 A: Native Enzyme in Complex with Substrate and with A Mechanism-Designed Inactivator. Proc.Natl.Acad.Sci.Usa V. 86 4440 1989.
ISSN: ISSN 0027-8424
PubMed: 2734296
DOI: 10.1073/PNAS.86.12.4440
Page generated: Sun Oct 6 14:11:09 2024

Last articles

Zn in 8Z3P
Zn in 8Z3R
Zn in 8ZQD
Zn in 8Z1F
Zn in 8Z1G
Zn in 8YAK
Zn in 8YX6
Zn in 8YTZ
Zn in 8Z0P
Zn in 8XO6
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy