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Potassium in PDB 2w4d: Acylphosphatase Variant G91A From Pyrococcus Horikoshii

Enzymatic activity of Acylphosphatase Variant G91A From Pyrococcus Horikoshii

All present enzymatic activity of Acylphosphatase Variant G91A From Pyrococcus Horikoshii:
3.6.1.7;

Protein crystallography data

The structure of Acylphosphatase Variant G91A From Pyrococcus Horikoshii, PDB code: 2w4d was solved by S.Y.Lam, K.B.Wong, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 23.44 / 2.40
Space group P 21 21 2
Cell size a, b, c (Å), α, β, γ (°) 87.375, 153.526, 46.041, 90.00, 90.00, 90.00
R / Rfree (%) 22.7 / 25.2

Potassium Binding Sites:

The binding sites of Potassium atom in the Acylphosphatase Variant G91A From Pyrococcus Horikoshii (pdb code 2w4d). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 6 binding sites of Potassium where determined in the Acylphosphatase Variant G91A From Pyrococcus Horikoshii, PDB code: 2w4d:
Jump to Potassium binding site number: 1; 2; 3; 4; 5; 6;

Potassium binding site 1 out of 6 in 2w4d

Go back to Potassium Binding Sites List in 2w4d
Potassium binding site 1 out of 6 in the Acylphosphatase Variant G91A From Pyrococcus Horikoshii


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Acylphosphatase Variant G91A From Pyrococcus Horikoshii within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K1092

b:34.9
occ:1.00
 O A:ALA69 2.9 25.0 1.0
O A:GLN64 3.0 25.8 1.0
O A:PRO66 3.1 29.2 1.0
O A:PRO67 3.3 33.1 1.0
OE1 A:GLN64 3.3 31.7 1.0
C A:PRO67 3.8 31.9 1.0
O A:GLY65 3.8 26.8 1.0
C A:ALA69 3.9 24.6 1.0
C A:PRO66 3.9 29.3 1.0
CA A:PRO67 4.0 29.8 1.0
C A:GLN64 4.0 25.6 1.0
N A:ALA69 4.1 25.5 1.0
O A:HOH2012 4.1 23.1 1.0
CD A:GLN64 4.1 29.8 1.0
N A:PRO67 4.3 30.2 1.0
CA A:ALA69 4.3 23.7 1.0
C A:GLY65 4.4 26.8 1.0
CG A:GLN64 4.4 29.7 1.0
CB A:ALA69 4.5 16.6 1.0
N A:LEU68 4.7 29.5 1.0
CA A:GLN64 4.7 24.6 1.0
C A:LEU68 4.8 29.3 1.0
N A:GLY65 4.9 21.7 1.0
N A:PRO66 5.0 28.0 1.0

Potassium binding site 2 out of 6 in 2w4d

Go back to Potassium Binding Sites List in 2w4d
Potassium binding site 2 out of 6 in the Acylphosphatase Variant G91A From Pyrococcus Horikoshii


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Acylphosphatase Variant G91A From Pyrococcus Horikoshii within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K1093

b:54.8
occ:1.00
 O E:GLY12 3.0 22.1 1.0
N A:GLN15 3.1 24.3 1.0
O A:GLY42 3.2 24.6 1.0
N A:VAL14 3.2 21.8 1.0
O A:GLY12 3.3 23.6 1.0
O E:HOH2007 3.3 27.7 1.0
O A:HOH2003 3.5 26.6 1.0
O E:HOH2005 3.5 17.2 1.0
CB A:GLN15 3.6 18.5 1.0
CG A:GLN15 3.7 27.0 1.0
CG2 A:VAL14 3.8 19.8 1.0
C A:VAL14 3.9 23.1 1.0
CA A:GLN15 3.9 25.8 1.0
C E:GLY12 3.9 23.2 1.0
CA A:VAL14 3.9 22.5 1.0
CA A:ARG13 4.0 25.5 1.0
C A:ARG13 4.0 22.0 1.0
O A:HOH2009 4.2 20.9 1.0
C A:GLY42 4.2 26.5 1.0
C A:GLY12 4.3 25.3 1.0
CA E:ARG13 4.3 25.6 1.0
O A:GLN15 4.4 25.7 1.0
N E:ARG13 4.5 23.5 1.0
CD A:GLN15 4.5 29.6 1.0
O E:HOH2008 4.5 33.5 1.0
CB A:VAL14 4.6 23.1 1.0
CA A:GLY42 4.6 25.3 1.0
C A:GLN15 4.6 25.5 1.0
N A:ARG13 4.6 24.7 1.0
OE1 A:GLN15 4.9 25.9 1.0
CA E:GLY12 4.9 22.2 1.0

Potassium binding site 3 out of 6 in 2w4d

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Potassium binding site 3 out of 6 in the Acylphosphatase Variant G91A From Pyrococcus Horikoshii


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 3 of Acylphosphatase Variant G91A From Pyrococcus Horikoshii within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K1092

b:39.0
occ:1.00
 O B:PRO66 3.1 25.4 1.0
O B:ALA69 3.1 24.7 1.0
O B:GLN64 3.1 22.8 1.0
O B:PRO67 3.2 29.4 1.0
OE1 B:GLN64 3.3 32.2 1.0
C B:PRO67 3.7 27.0 1.0
O B:GLY65 3.7 28.1 1.0
O B:HOH2015 3.8 21.4 1.0
CA B:PRO67 3.8 28.1 1.0
C B:PRO66 3.8 27.0 1.0
C B:GLN64 4.0 23.2 1.0
C B:ALA69 4.1 27.0 1.0
CD B:GLN64 4.2 33.0 1.0
N B:PRO67 4.2 28.7 1.0
N B:ALA69 4.2 25.9 1.0
C B:GLY65 4.4 26.7 1.0
CG B:GLN64 4.4 33.4 1.0
NH2 B:ARG70 4.5 57.4 1.0
CA B:ALA69 4.5 27.2 1.0
CB B:ALA69 4.6 24.6 1.0
N B:LEU68 4.7 28.1 1.0
CA B:GLN64 4.7 22.9 1.0
N B:GLY65 4.9 18.1 1.0
C B:LEU68 4.9 27.9 1.0
N B:PRO66 5.0 25.4 1.0

Potassium binding site 4 out of 6 in 2w4d

Go back to Potassium Binding Sites List in 2w4d
Potassium binding site 4 out of 6 in the Acylphosphatase Variant G91A From Pyrococcus Horikoshii


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 4 of Acylphosphatase Variant G91A From Pyrococcus Horikoshii within 5.0Å range:
probe atom residue distance (Å) B Occ
C:K1092

b:34.5
occ:1.00
 O C:GLN64 3.0 20.6 1.0
O C:ALA69 3.0 29.4 1.0
O C:PRO66 3.0 30.8 1.0
OE1 C:GLN64 3.1 31.3 1.0
O C:PRO67 3.3 30.2 1.0
O C:GLY65 3.6 28.1 1.0
C C:PRO67 3.8 28.6 1.0
C C:PRO66 3.8 28.8 1.0
O C:HOH2014 3.8 14.6 1.0
C C:GLN64 3.9 22.4 1.0
CA C:PRO67 3.9 29.1 1.0
C C:ALA69 4.0 28.9 1.0
CD C:GLN64 4.0 28.2 1.0
N C:ALA69 4.1 28.3 1.0
N C:PRO67 4.1 31.0 1.0
O C:HOH2015 4.2 25.9 1.0
C C:GLY65 4.2 27.4 1.0
CA C:ALA69 4.4 28.6 1.0
CB C:ALA69 4.4 29.8 1.0
CG C:GLN64 4.4 26.2 1.0
CA C:GLN64 4.6 21.6 1.0
N C:LEU68 4.7 28.6 1.0
N C:GLY65 4.8 24.2 1.0
N C:PRO66 4.8 29.1 1.0
CA C:GLY65 4.9 26.4 1.0
C C:LEU68 4.9 29.6 1.0
CA C:PRO66 4.9 26.8 1.0

Potassium binding site 5 out of 6 in 2w4d

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Potassium binding site 5 out of 6 in the Acylphosphatase Variant G91A From Pyrococcus Horikoshii


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 5 of Acylphosphatase Variant G91A From Pyrococcus Horikoshii within 5.0Å range:
probe atom residue distance (Å) B Occ
D:K1092

b:34.3
occ:1.00
 O D:PRO66 3.0 28.5 1.0
O D:GLN64 3.0 21.0 1.0
O D:ALA69 3.0 25.4 1.0
OE1 D:GLN64 3.1 33.6 1.0
O D:PRO67 3.3 37.4 1.0
O D:HOH2017 3.5 32.2 1.0
O D:GLY65 3.6 22.2 1.0
C D:PRO67 3.7 32.2 1.0
C D:PRO66 3.8 29.0 1.0
CA D:PRO67 3.9 29.5 1.0
C D:GLN64 3.9 19.0 1.0
CD D:GLN64 4.0 27.8 1.0
C D:ALA69 4.0 25.9 1.0
N D:ALA69 4.1 29.2 1.0
N D:PRO67 4.1 30.5 1.0
O D:HOH2016 4.1 23.9 1.0
CG D:GLN64 4.2 21.1 1.0
C D:GLY65 4.2 24.4 1.0
CA D:ALA69 4.4 25.4 1.0
CB D:ALA69 4.5 23.1 1.0
N D:LEU68 4.7 31.6 1.0
CA D:GLN64 4.7 21.8 1.0
N D:GLY65 4.8 18.1 1.0
N D:PRO66 4.8 25.6 1.0
C D:LEU68 4.9 29.3 1.0
CA D:PRO66 4.9 24.9 1.0
CA D:GLY65 4.9 20.4 1.0

Potassium binding site 6 out of 6 in 2w4d

Go back to Potassium Binding Sites List in 2w4d
Potassium binding site 6 out of 6 in the Acylphosphatase Variant G91A From Pyrococcus Horikoshii


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 6 of Acylphosphatase Variant G91A From Pyrococcus Horikoshii within 5.0Å range:
probe atom residue distance (Å) B Occ
F:K1092

b:34.5
occ:1.00
 O F:ALA69 3.0 27.5 1.0
O F:GLN64 3.0 28.2 1.0
O F:PRO66 3.0 27.1 1.0
OE1 F:GLN64 3.2 36.4 1.0
O F:PRO67 3.3 30.8 1.0
O F:HOH2014 3.5 36.3 1.0
O F:GLY65 3.7 29.0 1.0
C F:PRO67 3.8 30.4 1.0
C F:PRO66 3.8 28.2 1.0
C F:GLN64 3.9 25.4 1.0
CA F:PRO67 3.9 28.9 1.0
C F:ALA69 3.9 27.8 1.0
O F:HOH2013 4.0 25.9 1.0
CD F:GLN64 4.1 30.6 1.0
N F:ALA69 4.1 26.3 1.0
N F:PRO67 4.2 29.6 1.0
C F:GLY65 4.3 27.7 1.0
CA F:ALA69 4.4 26.4 1.0
CG F:GLN64 4.4 26.1 1.0
CB F:ALA69 4.4 21.5 1.0
CA F:GLN64 4.6 23.7 1.0
N F:LEU68 4.7 30.1 1.0
NH2 F:ARG70 4.8 49.0 1.0
N F:GLY65 4.8 26.6 1.0
C F:LEU68 4.9 27.9 1.0
N F:PRO66 4.9 27.0 1.0
CA F:GLY65 4.9 25.5 1.0
CA F:PRO66 5.0 27.5 1.0

Reference:

S.Y.Lam, R.C.Y.Yeung, T.Yu, K.Sze, K.B.Wong. A Rigidifying Salt-Bridge Favors the Activity of Thermophilic Enzyme at High Temperatures at the Expense of Low-Temperature Activity. Plos Biol. V. 9 1027 2011.
ISSN: ISSN 1544-9173
PubMed: 21423654
DOI: 10.1371/JOURNAL.PBIO.1001027
Page generated: Mon Aug 12 07:28:43 2024

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