Atomistry » Calcium » PDB 5odc-5oyj » 5olw
Atomistry »
  Calcium »
    PDB 5odc-5oyj »
      5olw »

Calcium in PDB 5olw: 5-Fluorotryptophan Labeled Beta-Phosphoglucomutase in An Open Conformation

Enzymatic activity of 5-Fluorotryptophan Labeled Beta-Phosphoglucomutase in An Open Conformation

All present enzymatic activity of 5-Fluorotryptophan Labeled Beta-Phosphoglucomutase in An Open Conformation:
5.4.2.6;

Protein crystallography data

The structure of 5-Fluorotryptophan Labeled Beta-Phosphoglucomutase in An Open Conformation, PDB code: 5olw was solved by M.W.Bowler, J.Von Velsen, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 19.87 / 2.28
Space group P 21 2 21
Cell size a, b, c (Å), α, β, γ (°) 61.005, 73.971, 120.440, 90.00, 90.00, 90.00
R / Rfree (%) 20.4 / 26.2

Other elements in 5olw:

The structure of 5-Fluorotryptophan Labeled Beta-Phosphoglucomutase in An Open Conformation also contains other interesting chemical elements:

Fluorine (F) 6 atoms

Calcium Binding Sites:

The binding sites of Calcium atom in the 5-Fluorotryptophan Labeled Beta-Phosphoglucomutase in An Open Conformation (pdb code 5olw). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 5 binding sites of Calcium where determined in the 5-Fluorotryptophan Labeled Beta-Phosphoglucomutase in An Open Conformation, PDB code: 5olw:
Jump to Calcium binding site number: 1; 2; 3; 4; 5;

Calcium binding site 1 out of 5 in 5olw

Go back to Calcium Binding Sites List in 5olw
Calcium binding site 1 out of 5 in the 5-Fluorotryptophan Labeled Beta-Phosphoglucomutase in An Open Conformation


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of 5-Fluorotryptophan Labeled Beta-Phosphoglucomutase in An Open Conformation within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca301

b:34.1
occ:1.00
 OD1 A:ASN127 2.2 36.7 1.0
OE2 B:GLU124 2.2 37.7 1.0
OE2 A:GLU124 2.2 48.9 1.0
O B:GLU124 2.3 37.2 1.0
OD1 B:ASN127 2.4 30.0 1.0
O A:GLU124 2.4 38.2 1.0
CD A:GLU124 3.2 54.2 1.0
CD B:GLU124 3.3 37.9 1.0
C A:GLU124 3.4 30.4 1.0
CG A:ASN127 3.4 37.1 1.0
C B:GLU124 3.4 37.2 1.0
CG B:ASN127 3.6 39.3 1.0
CG B:GLU124 3.9 38.1 1.0
CG A:GLU124 3.9 26.2 1.0
OE1 A:GLU124 4.1 50.9 1.0
N A:ASN127 4.2 33.4 1.0
ND2 A:ASN127 4.2 26.5 1.0
N B:ASN127 4.2 33.9 1.0
N A:ARG125 4.2 36.6 1.0
CA A:ASN127 4.2 32.9 1.0
OE1 B:GLU124 4.3 33.6 1.0
CA A:ARG125 4.3 29.9 1.0
CA A:GLU124 4.3 35.1 1.0
N B:ARG125 4.3 40.5 1.0
CA B:ASN127 4.3 29.9 1.0
CA B:GLU124 4.3 29.2 1.0
CA B:ARG125 4.3 39.0 1.0
O A:HOH453 4.3 32.3 1.0
C A:ARG125 4.3 29.0 1.0
C B:ARG125 4.4 34.9 1.0
O B:ARG125 4.4 35.8 1.0
CB A:ASN127 4.4 31.4 1.0
O B:HOH456 4.4 37.4 1.0
O A:ARG125 4.5 32.5 1.0
ND2 B:ASN127 4.5 30.2 1.0
CB B:ASN127 4.6 32.2 1.0
CB A:GLU124 4.7 26.1 1.0
CB B:GLU124 4.7 28.4 1.0
N A:MET126 5.0 36.0 1.0

Calcium binding site 2 out of 5 in 5olw

Go back to Calcium Binding Sites List in 5olw
Calcium binding site 2 out of 5 in the 5-Fluorotryptophan Labeled Beta-Phosphoglucomutase in An Open Conformation


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of 5-Fluorotryptophan Labeled Beta-Phosphoglucomutase in An Open Conformation within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca302

b:36.4
occ:1.00
 OD2 A:ASP8 2.1 39.1 1.0
O A:HOH465 2.2 37.5 1.0
O A:HOH436 2.3 31.8 1.0
OD1 A:ASP170 2.3 37.9 1.0
O A:ASP10 2.5 29.7 1.0
OE1 A:GLU169 2.8 38.1 1.0
OG A:SER171 3.0 50.4 1.0
CG A:ASP8 3.4 39.7 1.0
CG A:ASP170 3.4 32.5 1.0
CD A:GLU169 3.7 42.0 1.0
C A:ASP10 3.7 32.6 1.0
OE2 A:GLU169 3.8 46.3 1.0
OD2 A:ASP170 3.8 31.7 1.0
O A:HOH407 4.0 34.8 1.0
OD1 A:ASP8 4.2 39.9 1.0
CB A:SER171 4.2 39.4 1.0
CB A:ASP8 4.3 26.2 1.0
N A:ASP170 4.3 28.8 1.0
N A:SER171 4.4 30.2 1.0
CA A:ASP10 4.5 34.1 1.0
CB A:ASP10 4.5 24.0 1.0
CB A:ASP170 4.6 31.8 1.0
N A:GLY11 4.6 35.3 1.0
OD2 A:ASP10 4.7 48.8 1.0
O A:HOH404 4.7 31.3 1.0
CA A:GLY11 4.7 28.6 1.0
N A:ASP10 4.7 31.6 1.0
C A:ASP170 4.8 37.1 1.0
CA A:ASP170 4.8 32.5 1.0
CA A:SER171 4.9 34.7 1.0

Calcium binding site 3 out of 5 in 5olw

Go back to Calcium Binding Sites List in 5olw
Calcium binding site 3 out of 5 in the 5-Fluorotryptophan Labeled Beta-Phosphoglucomutase in An Open Conformation


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of 5-Fluorotryptophan Labeled Beta-Phosphoglucomutase in An Open Conformation within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca303

b:64.5
occ:1.00
 O A:HOH457 2.7 29.0 1.0
O A:PRO89 2.7 33.9 1.0
O A:HOH514 2.8 30.5 1.0
O A:HOH518 3.1 39.8 1.0
CG2 A:VAL92 3.4 26.4 1.0
C A:PRO89 3.5 33.1 1.0
CB A:VAL92 3.5 27.0 1.0
CB A:PRO89 3.7 32.6 1.0
CD2 A:LEU97 3.8 25.6 1.0
CA A:PRO89 3.8 27.0 1.0
O A:HOH448 3.9 38.9 1.0
CG1 A:VAL92 4.3 27.4 1.0
CB A:LEU97 4.5 21.2 1.0
O A:HOH522 4.5 51.5 1.0
N A:ALA90 4.6 29.9 1.0
CG A:LEU97 4.6 35.0 1.0
O A:MET126 4.7 33.2 1.0
CA A:VAL92 4.7 26.5 1.0
N A:VAL92 4.8 37.8 1.0
CA A:ALA90 5.0 36.6 1.0
CD1 A:LEU97 5.0 35.6 1.0

Calcium binding site 4 out of 5 in 5olw

Go back to Calcium Binding Sites List in 5olw
Calcium binding site 4 out of 5 in the 5-Fluorotryptophan Labeled Beta-Phosphoglucomutase in An Open Conformation


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of 5-Fluorotryptophan Labeled Beta-Phosphoglucomutase in An Open Conformation within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca304

b:94.8
occ:1.00
 O A:HOH503 2.4 64.9 1.0
O A:HOH447 2.6 30.3 1.0
O A:HOH516 2.6 59.5 1.0
O A:HOH510 2.8 61.4 1.0
O A:HOH417 2.9 47.0 1.0
O A:HOH523 3.3 56.9 1.0
O A:HOH520 4.1 40.7 1.0
O A:HOH521 4.2 49.8 1.0
O A:HOH495 4.4 40.6 1.0
O A:HOH469 4.4 44.0 1.0
O A:HOH429 4.4 25.7 1.0
OH A:TYR93 4.5 25.9 1.0
O A:HOH428 4.6 37.0 1.0
OD2 A:ASP170 4.9 31.7 1.0

Calcium binding site 5 out of 5 in 5olw

Go back to Calcium Binding Sites List in 5olw
Calcium binding site 5 out of 5 in the 5-Fluorotryptophan Labeled Beta-Phosphoglucomutase in An Open Conformation


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of 5-Fluorotryptophan Labeled Beta-Phosphoglucomutase in An Open Conformation within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca301

b:51.2
occ:1.00
 OD2 B:ASP8 2.2 60.2 1.0
OD1 B:ASP170 2.3 48.0 1.0
O B:HOH405 2.3 41.4 1.0
O B:HOH415 2.4 41.1 1.0
O B:ASP10 2.6 44.3 1.0
OE1 B:GLU169 3.0 46.6 1.0
OG B:SER171 3.2 54.6 1.0
CG B:ASP8 3.4 48.6 1.0
CG B:ASP170 3.4 40.5 1.0
C B:ASP10 3.7 43.6 1.0
OD2 B:ASP170 3.9 39.8 1.0
CD B:GLU169 4.0 45.9 1.0
OD1 B:ASP8 4.1 51.0 1.0
OE2 B:GLU169 4.2 47.6 1.0
CB B:SER171 4.3 50.6 1.0
OD2 B:ASP10 4.4 68.9 1.0
CB B:ASP10 4.4 41.2 1.0
CB B:ASP8 4.4 33.6 1.0
N B:ASP170 4.5 38.6 1.0
N B:SER171 4.5 43.7 1.0
CA B:ASP10 4.5 39.4 1.0
CB B:ASP170 4.7 31.0 1.0
N B:ASP10 4.7 38.8 1.0
N B:GLY11 4.7 33.1 1.0
CG B:ASP10 4.8 51.8 1.0
CA B:GLY11 4.9 32.7 1.0
C B:ASP170 4.9 38.4 1.0
CA B:ASP170 4.9 37.5 1.0

Reference:

A.Ampaw, M.Carroll, J.Von Velsen, D.Bhattasali, A.Cohen, M.W.Bowler, D.L.Jakeman. Observing Enzyme Ternary Transition State Analogue Complexes BY19F uc(Nmr) Spectroscopy. Chem Sci V. 8 8427 2017.
ISSN: ISSN 2041-6520
PubMed: 29619190
DOI: 10.1039/C7SC04204C
Page generated: Mon Jul 15 09:51:07 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