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Potassium in PDB 1aqf: Pyruvate Kinase From Rabbit Muscle with Mg, K, and L- Phospholactate

Enzymatic activity of Pyruvate Kinase From Rabbit Muscle with Mg, K, and L- Phospholactate

All present enzymatic activity of Pyruvate Kinase From Rabbit Muscle with Mg, K, and L- Phospholactate:
2.7.1.40;

Protein crystallography data

The structure of Pyruvate Kinase From Rabbit Muscle with Mg, K, and L- Phospholactate, PDB code: 1aqf was solved by T.M.Larsen, M.M.Benning, G.E.Wesenberg, I.Rayment, G.H.Reed, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 30.00 / 2.70
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 144.400, 112.600, 171.200, 90.00, 93.70, 90.00
R / Rfree (%) n/a / n/a

Other elements in 1aqf:

The structure of Pyruvate Kinase From Rabbit Muscle with Mg, K, and L- Phospholactate also contains other interesting chemical elements:

Magnesium (Mg) 8 atoms

Potassium Binding Sites:

The binding sites of Potassium atom in the Pyruvate Kinase From Rabbit Muscle with Mg, K, and L- Phospholactate (pdb code 1aqf). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 8 binding sites of Potassium where determined in the Pyruvate Kinase From Rabbit Muscle with Mg, K, and L- Phospholactate, PDB code: 1aqf:
Jump to Potassium binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Potassium binding site 1 out of 8 in 1aqf

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Potassium binding site 1 out of 8 in the Pyruvate Kinase From Rabbit Muscle with Mg, K, and L- Phospholactate


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Pyruvate Kinase From Rabbit Muscle with Mg, K, and L- Phospholactate within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K533

b:30.5
occ:1.00
 OG A:SER76 2.3 73.4 1.0
O A:THR113 2.6 75.8 1.0
OD1 A:ASN74 2.7 11.4 1.0
O2P A:PEQ532 2.8 76.5 1.0
OD1 A:ASP112 3.2 23.5 1.0
OG A:SER242 3.7 0.0 1.0
C A:THR113 3.7 19.7 1.0
CB A:SER76 3.8 19.6 1.0
CG A:ASN74 3.8 27.3 1.0
O A:HOH6014 4.0 52.0 1.0
OE2 A:GLU117 4.0 83.5 1.0
CG A:ASP112 4.1 42.1 1.0
ND2 A:ASN74 4.2 13.5 1.0
CA A:LYS114 4.2 28.9 1.0
NZ A:LYS269 4.3 3.1 1.0
P A:PEQ532 4.3 87.8 1.0
N A:SER76 4.3 32.3 1.0
N A:LYS114 4.4 29.2 1.0
NH2 A:ARG72 4.4 35.2 1.0
O A:ASP112 4.5 52.7 1.0
CA A:SER76 4.5 18.1 1.0
C A:ASP112 4.6 15.3 1.0
O2 A:PEQ532 4.6 75.9 1.0
OD2 A:ASP112 4.7 25.4 1.0
CB A:SER242 4.7 1.0 1.0
N A:THR113 4.8 3.9 1.0
CB A:ASP112 4.8 14.6 1.0
CA A:THR113 4.8 26.9 1.0
O1P A:PEQ532 4.9 79.1 1.0
N A:PHE75 5.0 23.2 1.0

Potassium binding site 2 out of 8 in 1aqf

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Potassium binding site 2 out of 8 in the Pyruvate Kinase From Rabbit Muscle with Mg, K, and L- Phospholactate


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Pyruvate Kinase From Rabbit Muscle with Mg, K, and L- Phospholactate within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K533

b:73.4
occ:1.00
 OG B:SER76 2.5 0.0 1.0
O2P B:PEQ532 2.7 49.0 0.5
OD1 B:ASN74 2.8 58.8 1.0
O B:THR113 3.1 40.1 1.0
OD1 B:ASP112 3.1 60.0 1.0
OG B:SER242 3.7 13.6 1.0
NZ B:LYS269 3.7 6.7 1.0
C B:THR113 3.9 37.2 1.0
CB B:SER76 3.9 18.1 1.0
CG B:ASN74 3.9 24.5 1.0
CA B:LYS114 4.0 28.9 1.0
CG B:ASP112 4.1 12.4 1.0
O B:ASP112 4.2 42.1 1.0
P B:PEQ532 4.2 98.1 0.5
N B:LYS114 4.3 55.0 1.0
ND2 B:ASN74 4.3 57.2 1.0
O B:LYS114 4.4 30.4 1.0
NH2 B:ARG72 4.5 19.6 1.0
C B:ASP112 4.5 17.8 1.0
O2 B:PEQ532 4.6 34.9 0.5
C B:LYS114 4.6 19.9 1.0
N B:SER76 4.6 92.8 1.0
OD2 B:ASP112 4.7 45.3 1.0
CA B:SER76 4.7 37.2 1.0
CB B:ASP112 4.8 29.6 1.0
CB B:SER242 4.8 21.8 1.0
O3P B:PEQ532 4.8 77.5 0.5
N B:THR113 4.9 24.3 1.0

Potassium binding site 3 out of 8 in 1aqf

Go back to Potassium Binding Sites List in 1aqf
Potassium binding site 3 out of 8 in the Pyruvate Kinase From Rabbit Muscle with Mg, K, and L- Phospholactate


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 3 of Pyruvate Kinase From Rabbit Muscle with Mg, K, and L- Phospholactate within 5.0Å range:
probe atom residue distance (Å) B Occ
C:K533

b:75.9
occ:1.00
 OG C:SER76 2.8 0.0 1.0
O2P C:PEQ532 2.8 57.3 0.5
O C:THR113 2.9 41.0 1.0
OD1 C:ASN74 3.1 33.1 1.0
OD1 C:ASP112 3.2 29.8 1.0
C C:THR113 3.5 23.1 1.0
O C:ASP112 3.7 50.6 1.0
CA C:LYS114 3.7 27.2 1.0
N C:LYS114 3.9 53.7 1.0
NZ C:LYS269 3.9 16.2 1.0
OG C:SER242 4.0 14.2 1.0
CG C:ASN74 4.0 16.8 1.0
CB C:SER76 4.1 9.3 1.0
CG C:ASP112 4.2 20.8 1.0
C C:ASP112 4.2 27.4 1.0
P C:PEQ532 4.3 89.1 0.5
ND2 C:ASN74 4.4 66.9 1.0
N C:SER76 4.5 13.6 1.0
N C:THR113 4.6 8.2 1.0
C C:LYS114 4.6 30.6 1.0
CA C:THR113 4.6 14.0 1.0
CA C:SER76 4.6 25.1 1.0
CB C:LYS114 4.7 66.3 1.0
O C:LYS114 4.7 32.8 1.0
CB C:ASP112 4.8 26.1 1.0
O2 C:PEQ532 4.8 28.4 0.5
NH2 C:ARG72 4.8 23.2 1.0
O1P C:PEQ532 4.9 35.1 0.5
OD2 C:ASP112 4.9 40.1 1.0

Potassium binding site 4 out of 8 in 1aqf

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Potassium binding site 4 out of 8 in the Pyruvate Kinase From Rabbit Muscle with Mg, K, and L- Phospholactate


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 4 of Pyruvate Kinase From Rabbit Muscle with Mg, K, and L- Phospholactate within 5.0Å range:
probe atom residue distance (Å) B Occ
D:K533

b:70.4
occ:1.00
 O D:THR113 2.5 28.1 1.0
O2P D:PEQ532 2.6 19.1 0.5
OD1 D:ASP112 3.1 13.8 1.0
OD1 D:ASN74 3.2 40.7 1.0
C D:THR113 3.4 31.2 1.0
OG D:SER76 3.5 64.9 1.0
NZ D:LYS269 3.7 3.5 1.0
OG D:SER242 3.8 37.7 1.0
CA D:LYS114 3.9 30.4 1.0
CG D:ASP112 4.0 71.5 1.0
N D:LYS114 4.0 37.9 1.0
O D:ASP112 4.0 53.9 1.0
P D:PEQ532 4.1 68.0 0.5
CG D:ASN74 4.1 1.4 1.0
C D:ASP112 4.2 29.3 1.0
CB D:SER76 4.2 16.2 1.0
O D:LYS114 4.3 41.9 1.0
N D:THR113 4.3 27.3 1.0
C D:LYS114 4.3 34.4 1.0
CA D:THR113 4.4 17.9 1.0
N D:SER76 4.4 16.9 1.0
OD2 D:ASP112 4.6 18.0 1.0
ND2 D:ASN74 4.6 40.4 1.0
CA D:SER76 4.6 30.1 1.0
O1P D:PEQ532 4.6 69.8 0.5
CB D:ASP112 4.7 9.8 1.0
O2 D:PEQ532 4.8 62.4 0.5
CA D:ASP112 5.0 12.3 1.0
CB D:SER242 5.0 12.9 1.0

Potassium binding site 5 out of 8 in 1aqf

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Potassium binding site 5 out of 8 in the Pyruvate Kinase From Rabbit Muscle with Mg, K, and L- Phospholactate


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 5 of Pyruvate Kinase From Rabbit Muscle with Mg, K, and L- Phospholactate within 5.0Å range:
probe atom residue distance (Å) B Occ
E:K533

b:81.8
occ:1.00
 OG E:SER76 2.7 0.0 1.0
OD1 E:ASP112 2.8 72.8 1.0
O2P E:PEQ532 2.8 0.0 0.5
O E:THR113 3.0 44.3 1.0
OD1 E:ASN74 3.1 63.5 1.0
CB E:SER76 3.6 89.4 1.0
CA E:LYS114 3.8 74.4 1.0
C E:THR113 3.9 73.3 1.0
CG E:ASN74 3.9 32.4 1.0
ND2 E:ASN74 4.0 69.3 1.0
P E:PEQ532 4.0 82.4 0.5
CG E:ASP112 4.0 76.6 1.0
OG E:SER242 4.0 0.0 1.0
O1P E:PEQ532 4.0 22.8 0.5
NZ E:LYS269 4.1 30.5 1.0
MG E:MG534 4.1 82.0 1.0
N E:LYS114 4.2 46.4 1.0
N E:SER76 4.3 49.0 1.0
CA E:SER76 4.4 18.8 1.0
O E:LYS114 4.4 72.7 1.0
OD2 E:ASP112 4.5 32.4 1.0
C E:LYS114 4.5 49.2 1.0
O2 E:PEQ532 4.6 86.3 0.5
CB E:LYS114 4.7 45.6 1.0
NH2 E:ARG72 4.8 21.2 1.0
C E:ASP112 4.9 29.6 1.0
N E:THR113 4.9 72.3 1.0
CB E:ASP112 5.0 19.1 1.0
O E:ASP112 5.0 57.6 1.0
CA E:THR113 5.0 31.4 1.0

Potassium binding site 6 out of 8 in 1aqf

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Potassium binding site 6 out of 8 in the Pyruvate Kinase From Rabbit Muscle with Mg, K, and L- Phospholactate


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 6 of Pyruvate Kinase From Rabbit Muscle with Mg, K, and L- Phospholactate within 5.0Å range:
probe atom residue distance (Å) B Occ
F:K533

b:93.7
occ:1.00
 O F:THR113 2.5 35.6 1.0
OG F:SER76 3.0 0.0 1.0
O2P F:PEQ532 3.1 30.0 0.5
OD1 F:ASP112 3.2 15.0 1.0
OG F:SER242 3.2 98.7 1.0
C F:THR113 3.3 33.0 1.0
OD1 F:ASN74 3.3 38.5 1.0
O F:ASP112 3.5 37.3 1.0
CA F:LYS114 3.5 40.3 1.0
O F:LYS114 3.8 38.4 1.0
N F:LYS114 3.8 30.2 1.0
C F:LYS114 4.0 45.0 1.0
CG F:ASP112 4.0 73.7 1.0
C F:ASP112 4.1 36.2 1.0
NZ F:LYS269 4.1 30.9 1.0
CB F:SER242 4.2 1.0 1.0
CB F:SER76 4.3 1.4 1.0
CG F:ASN74 4.4 10.4 1.0
N F:SER76 4.4 27.1 1.0
CA F:THR113 4.5 36.0 1.0
N F:THR113 4.5 40.3 1.0
CB F:LYS114 4.5 0.0 1.0
P F:PEQ532 4.6 85.4 0.5
CA F:SER76 4.6 22.8 1.0
OD2 F:ASP112 4.6 5.0 1.0
CB F:ASP112 4.7 8.3 1.0
ND2 F:ASN74 4.8 47.0 1.0
CA F:ASP112 5.0 24.8 1.0

Potassium binding site 7 out of 8 in 1aqf

Go back to Potassium Binding Sites List in 1aqf
Potassium binding site 7 out of 8 in the Pyruvate Kinase From Rabbit Muscle with Mg, K, and L- Phospholactate


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 7 of Pyruvate Kinase From Rabbit Muscle with Mg, K, and L- Phospholactate within 5.0Å range:
probe atom residue distance (Å) B Occ
G:K533

b:56.3
occ:1.00
 O2P G:PEQ532 2.8 37.7 0.5
OD1 G:ASN74 2.9 32.2 1.0
O G:THR113 2.9 46.4 1.0
O G:ASP112 3.0 44.4 1.0
OG G:SER76 3.1 0.0 1.0
OD1 G:ASP112 3.5 22.4 1.0
C G:THR113 3.6 35.6 1.0
CG G:ASP112 3.6 49.0 1.0
NZ G:LYS269 3.8 17.9 1.0
C G:ASP112 3.8 27.6 1.0
CG G:ASN74 3.8 17.4 1.0
OG G:SER242 3.9 31.1 1.0
OD2 G:ASP112 3.9 58.2 1.0
CA G:LYS114 4.0 82.2 1.0
N G:LYS114 4.1 46.9 1.0
CB G:ASP112 4.1 62.2 1.0
CB G:SER76 4.2 33.3 1.0
P G:PEQ532 4.2 75.1 0.5
ND2 G:ASN74 4.3 0.0 1.0
N G:SER76 4.4 43.1 1.0
N G:THR113 4.4 24.9 1.0
O2 G:PEQ532 4.5 43.9 0.5
NH2 G:ARG72 4.5 93.6 1.0
CA G:ASP112 4.6 42.4 1.0
CA G:THR113 4.6 7.5 1.0
O G:LYS114 4.7 74.3 1.0
CA G:SER76 4.7 58.9 1.0
CE G:LYS269 4.8 29.7 1.0
C G:LYS114 4.8 22.4 1.0
N G:PHE75 4.8 34.1 1.0
CB G:LYS114 4.9 45.5 1.0
O1P G:PEQ532 4.9 28.9 0.5

Potassium binding site 8 out of 8 in 1aqf

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Potassium binding site 8 out of 8 in the Pyruvate Kinase From Rabbit Muscle with Mg, K, and L- Phospholactate


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 8 of Pyruvate Kinase From Rabbit Muscle with Mg, K, and L- Phospholactate within 5.0Å range:
probe atom residue distance (Å) B Occ
H:K533

b:83.5
occ:1.00
 O H:THR113 2.6 49.6 1.0
OD1 H:ASN74 3.0 51.0 1.0
O2P H:PEQ532 3.0 90.0 0.5
OG H:SER76 3.0 0.0 1.0
OD1 H:ASP112 3.3 49.8 1.0
O1P H:PEQ532 3.5 90.0 0.5
C H:THR113 3.6 25.5 1.0
CA H:LYS114 3.7 98.2 1.0
O H:LYS114 3.8 58.9 1.0
OG H:SER242 3.9 29.5 1.0
P H:PEQ532 3.9 88.7 0.5
NZ H:LYS269 4.0 10.6 1.0
CB H:SER76 4.0 36.3 1.0
CG H:ASN74 4.0 19.8 1.0
N H:LYS114 4.1 48.4 1.0
C H:LYS114 4.2 25.8 1.0
O H:ASP112 4.2 33.5 1.0
ND2 H:ASN74 4.4 0.0 1.0
CG H:ASP112 4.4 83.6 1.0
N H:SER76 4.5 78.5 1.0
CB H:LYS114 4.6 39.6 1.0
CA H:SER76 4.6 28.8 1.0
C H:ASP112 4.7 33.5 1.0
O2 H:PEQ532 4.9 47.1 0.5
CA H:THR113 4.9 41.5 1.0
O3P H:PEQ532 5.0 38.4 0.5

Reference:

T.M.Larsen, M.M.Benning, G.E.Wesenberg, I.Rayment, G.H.Reed. Ligand-Induced Domain Movement in Pyruvate Kinase: Structure of the Enzyme From Rabbit Muscle with MG2+, K+, and L-Phospholactate at 2.7 A Resolution. Arch.Biochem.Biophys. V. 345 199 1997.
ISSN: ISSN 0003-9861
PubMed: 9308890
DOI: 10.1006/ABBI.1997.0257
Page generated: Mon Aug 12 04:02:05 2024

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