Atomistry » Calcium » PDB 5ekk-5eyh » 5eyg
Atomistry »
  Calcium »
    PDB 5ekk-5eyh »
      5eyg »

Calcium in PDB 5eyg: Crystal Structure of Impase/Nadp Phosphatase Complexed with Nadp and CA2+

Enzymatic activity of Crystal Structure of Impase/Nadp Phosphatase Complexed with Nadp and CA2+

All present enzymatic activity of Crystal Structure of Impase/Nadp Phosphatase Complexed with Nadp and CA2+:
3.1.3.25;

Protein crystallography data

The structure of Crystal Structure of Impase/Nadp Phosphatase Complexed with Nadp and CA2+, PDB code: 5eyg was solved by S.Bhattacharyya, D.Dutta, A.K.Ghosh, A.K.Das, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 19.59 / 2.20
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 72.089, 78.880, 112.409, 90.00, 90.00, 90.00
R / Rfree (%) 16.1 / 20.7

Other elements in 5eyg:

The structure of Crystal Structure of Impase/Nadp Phosphatase Complexed with Nadp and CA2+ also contains other interesting chemical elements:

Chlorine (Cl) 1 atom

Calcium Binding Sites:

The binding sites of Calcium atom in the Crystal Structure of Impase/Nadp Phosphatase Complexed with Nadp and CA2+ (pdb code 5eyg). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 4 binding sites of Calcium where determined in the Crystal Structure of Impase/Nadp Phosphatase Complexed with Nadp and CA2+, PDB code: 5eyg:
Jump to Calcium binding site number: 1; 2; 3; 4;

Calcium binding site 1 out of 4 in 5eyg

Go back to Calcium Binding Sites List in 5eyg
Calcium binding site 1 out of 4 in the Crystal Structure of Impase/Nadp Phosphatase Complexed with Nadp and CA2+


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Crystal Structure of Impase/Nadp Phosphatase Complexed with Nadp and CA2+ within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca301

b:16.8
occ:1.00
 OD1 A:ASP209 2.1 18.7 1.0
OD2 A:ASP88 2.2 15.0 1.0
OD1 A:ASP91 2.3 12.5 1.0
O2B A:NAP308 2.4 16.2 1.0
O2X A:NAP308 2.4 15.6 1.0
O A:HOH458 2.6 14.6 1.0
P2B A:NAP308 3.0 18.0 1.0
CG A:ASP209 3.3 17.0 1.0
CG A:ASP91 3.4 12.8 1.0
CG A:ASP88 3.4 13.1 1.0
C2B A:NAP308 3.7 17.5 1.0
O3B A:NAP308 3.7 14.2 1.0
CA A:CA302 3.8 13.2 1.0
CB A:ASP91 3.9 12.5 1.0
CA A:ASP91 4.0 12.6 1.0
O3X A:NAP308 4.0 18.3 1.0
O1X A:NAP308 4.0 15.9 1.0
OD1 A:ASP88 4.1 13.9 1.0
OD2 A:ASP209 4.1 16.1 1.0
OE2 A:GLU70 4.2 20.3 1.0
CD1 A:TRP208 4.2 13.7 1.0
C1B A:NAP308 4.2 19.1 1.0
C3B A:NAP308 4.3 17.4 1.0
CB A:ASP209 4.3 15.1 1.0
CA A:ASP209 4.3 14.4 1.0
OD2 A:ASP91 4.4 11.9 1.0
CB A:ASP88 4.5 11.8 1.0
O A:HOH479 4.6 25.6 1.0
NE1 A:TRP208 4.6 14.9 1.0
N A:GLY92 4.7 13.5 1.0
N A:ASP209 4.7 13.6 1.0
C A:ASP91 4.8 12.9 1.0
O A:ILE90 4.8 13.4 1.0
N9A A:NAP308 5.0 20.4 1.0

Calcium binding site 2 out of 4 in 5eyg

Go back to Calcium Binding Sites List in 5eyg
Calcium binding site 2 out of 4 in the Crystal Structure of Impase/Nadp Phosphatase Complexed with Nadp and CA2+


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Crystal Structure of Impase/Nadp Phosphatase Complexed with Nadp and CA2+ within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca302

b:13.2
occ:1.00
 O2X A:NAP308 2.2 15.6 1.0
OD1 A:ASP88 2.3 13.9 1.0
O A:HOH468 2.3 12.9 1.0
OE2 A:GLU70 2.3 20.3 1.0
O A:ILE90 2.3 13.4 1.0
O A:HOH411 2.4 12.8 1.0
CG A:ASP88 3.1 13.1 1.0
OD2 A:ASP88 3.2 15.0 1.0
CD A:GLU70 3.4 20.5 1.0
C A:ILE90 3.4 12.7 1.0
P2B A:NAP308 3.5 18.0 1.0
OG1 A:THR93 3.7 16.2 1.0
CA A:CA301 3.8 16.8 1.0
OE1 A:GLU70 4.0 24.6 1.0
CA A:ASP91 4.1 12.6 1.0
O3X A:NAP308 4.1 18.3 1.0
N A:ASP91 4.1 12.5 1.0
O A:HOH458 4.2 14.6 1.0
OD2 A:ASP47 4.2 20.1 1.0
O1X A:NAP308 4.3 15.9 1.0
O A:HOH443 4.4 21.1 1.0
N A:ILE90 4.4 12.4 1.0
CG A:GLU70 4.4 18.2 1.0
CA A:ILE90 4.4 12.3 1.0
OE2 A:GLU71 4.5 16.7 1.0
CB A:ASP88 4.6 11.8 1.0
CB A:GLU70 4.6 16.3 1.0
O2B A:NAP308 4.7 16.2 1.0
O A:HOH409 4.7 19.3 1.0
CB A:ILE90 4.9 12.0 1.0
CD A:PRO89 4.9 12.1 1.0
CB A:THR93 5.0 14.9 1.0

Calcium binding site 3 out of 4 in 5eyg

Go back to Calcium Binding Sites List in 5eyg
Calcium binding site 3 out of 4 in the Crystal Structure of Impase/Nadp Phosphatase Complexed with Nadp and CA2+


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Crystal Structure of Impase/Nadp Phosphatase Complexed with Nadp and CA2+ within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca301

b:27.4
occ:1.00
 OD1 B:ASP209 2.0 23.0 1.0
OD2 B:ASP88 2.2 20.9 1.0
O1X B:NAP304 2.2 30.9 1.0
OD1 B:ASP91 2.2 16.6 1.0
O2B B:NAP304 2.5 31.2 1.0
O B:HOH420 2.6 26.7 1.0
P2B B:NAP304 3.1 32.4 1.0
CG B:ASP209 3.2 21.0 1.0
CG B:ASP91 3.2 14.9 1.0
CG B:ASP88 3.4 15.9 1.0
CB B:ASP91 3.7 14.3 1.0
C2B B:NAP304 3.8 35.2 1.0
O3B B:NAP304 3.8 21.0 1.0
CA B:ASP91 3.9 13.4 1.0
CA B:CA302 4.0 29.1 1.0
OD1 B:ASP88 4.0 15.6 1.0
O3X B:NAP304 4.1 23.8 1.0
CA B:ASP209 4.1 16.2 1.0
CB B:ASP209 4.1 19.1 1.0
OD2 B:ASP209 4.1 21.3 1.0
O2X B:NAP304 4.2 29.5 1.0
CD1 B:TRP208 4.3 17.7 1.0
OD2 B:ASP91 4.3 15.1 1.0
C3B B:NAP304 4.4 32.1 1.0
C1B B:NAP304 4.4 36.9 1.0
CB B:ASP88 4.4 14.8 1.0
N B:ASP209 4.5 15.2 1.0
N B:GLY92 4.7 15.1 1.0
O B:ILE90 4.8 11.8 1.0
C B:ASP91 4.8 13.9 1.0
NE1 B:TRP208 4.8 17.8 1.0
N B:ASP91 4.9 13.3 1.0
O B:HOH416 5.0 9.2 1.0

Calcium binding site 4 out of 4 in 5eyg

Go back to Calcium Binding Sites List in 5eyg
Calcium binding site 4 out of 4 in the Crystal Structure of Impase/Nadp Phosphatase Complexed with Nadp and CA2+


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Crystal Structure of Impase/Nadp Phosphatase Complexed with Nadp and CA2+ within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca302

b:29.1
occ:1.00
 O B:HOH403 1.7 8.2 1.0
OD1 B:ASP88 2.5 15.6 1.0
O1X B:NAP304 2.5 30.9 1.0
O B:ILE90 2.5 11.8 1.0
O B:HOH416 2.6 9.2 1.0
O B:HOH425 2.7 24.9 1.0
CG B:ASP88 3.3 15.9 1.0
OD2 B:ASP88 3.4 20.9 1.0
O B:HOH433 3.6 48.4 1.0
C B:ILE90 3.6 13.5 1.0
P2B B:NAP304 3.7 32.4 1.0
OD2 B:ASP47 3.9 15.5 0.5
CA B:CA301 4.0 27.4 1.0
OE1 B:GLU70 4.0 25.3 1.0
O B:HOH420 4.1 26.7 1.0
OG1 B:THR93 4.1 16.1 1.0
O3X B:NAP304 4.2 23.8 1.0
CA B:ASP91 4.3 13.4 1.0
N B:ASP91 4.4 13.3 1.0
O2X B:NAP304 4.4 29.5 1.0
N B:ILE90 4.5 13.1 1.0
CA B:ILE90 4.5 14.1 1.0
CG B:ASP47 4.6 16.7 0.5
OD2 B:ASP47 4.7 26.1 0.5
CB B:ASP88 4.7 14.8 1.0
O2B B:NAP304 4.9 31.2 1.0
CB B:ILE90 4.9 16.7 1.0
OD1 B:ASP47 4.9 15.3 0.5
O B:HOH514 4.9 6.9 1.0
CD1 B:TRP208 4.9 17.7 1.0
CG B:ASP47 5.0 22.3 0.5

Reference:

S.Bhattacharyya, A.Dutta, D.Dutta, A.K.Ghosh, A.K.Das. Structural Elucidation of the Nadp(H) Phosphatase Activity of Staphylococcal Dual-Specific Impase/Nadp(H) Phosphatase Acta Crystallogr D Struct V. 72 281 2016BIOL.
ISSN: ISSN 2059-7983
PubMed: 26894675
DOI: 10.1107/S2059798316000620
Page generated: Wed Jul 9 05:46:41 2025

Last articles

Zn in 9UUO
Zn in 9UUS
Zn in 9W4R
Zn in 9VKW
Zn in 9W4S
Zn in 9VH1
Zn in 9RMX
Zn in 9RMU
Zn in 9QWN
Zn in 9U9Y
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy