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Potassium in PDB 1f3w: Recombinant Rabbit Muscle Pyruvate Kinase

Enzymatic activity of Recombinant Rabbit Muscle Pyruvate Kinase

All present enzymatic activity of Recombinant Rabbit Muscle Pyruvate Kinase:
2.7.1.40;

Protein crystallography data

The structure of Recombinant Rabbit Muscle Pyruvate Kinase, PDB code: 1f3w was solved by J.O.Wooll, R.H.E.Friesen, M.A.White, S.J.Watowich, R.O.Fox, J.C.Lee, E.W.Czerwinski, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 52.00 / 3.00
Space group P 1
Cell size a, b, c (Å), α, β, γ (°) 79.000, 105.400, 143.500, 95.90, 92.80, 111.90
R / Rfree (%) 23.8 / 25.7

Other elements in 1f3w:

The structure of Recombinant Rabbit Muscle Pyruvate Kinase also contains other interesting chemical elements:

Manganese (Mn) 8 atoms

Potassium Binding Sites:

The binding sites of Potassium atom in the Recombinant Rabbit Muscle Pyruvate Kinase (pdb code 1f3w). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 8 binding sites of Potassium where determined in the Recombinant Rabbit Muscle Pyruvate Kinase, PDB code: 1f3w:
Jump to Potassium binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Potassium binding site 1 out of 8 in 1f3w

Go back to Potassium Binding Sites List in 1f3w
Potassium binding site 1 out of 8 in the Recombinant Rabbit Muscle Pyruvate Kinase


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Recombinant Rabbit Muscle Pyruvate Kinase within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K531

b:44.7
occ:1.00
 O A:THR113 2.8 43.9 1.0
OD1 A:ASN74 2.9 36.7 1.0
OD1 A:ASP112 2.9 35.5 1.0
OG A:SER76 3.4 38.3 1.0
CB A:SER76 3.5 38.5 1.0
OG A:SER242 3.7 40.5 1.0
C A:THR113 3.7 43.1 1.0
CG A:ASP112 3.9 37.0 1.0
CG A:ASN74 3.9 34.3 1.0
CA A:LYS114 3.9 49.4 1.0
NZ A:LYS269 4.0 25.9 1.0
O A:ASP112 4.2 38.1 1.0
N A:LYS114 4.2 46.3 1.0
N A:SER76 4.3 37.8 1.0
CA A:SER76 4.3 39.1 1.0
ND2 A:ASN74 4.4 36.1 1.0
NH2 A:ARG72 4.5 31.5 1.0
OE2 A:GLU117 4.5 55.5 1.0
C A:ASP112 4.6 37.6 1.0
OD2 A:ASP112 4.7 37.5 1.0
CB A:ASP112 4.7 36.9 1.0
CB A:LYS114 4.7 50.2 1.0
CB A:SER242 4.8 38.3 1.0
O3 A:PYR541 4.9 43.1 1.0
N A:THR113 4.9 38.8 1.0
CA A:THR113 4.9 40.5 1.0
MN A:MN532 4.9 45.9 1.0

Potassium binding site 2 out of 8 in 1f3w

Go back to Potassium Binding Sites List in 1f3w
Potassium binding site 2 out of 8 in the Recombinant Rabbit Muscle Pyruvate Kinase


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Recombinant Rabbit Muscle Pyruvate Kinase within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K532

b:44.7
occ:1.00
 O B:THR113 2.8 43.9 1.0
OD1 B:ASN74 2.9 36.7 1.0
OD1 B:ASP112 2.9 35.5 1.0
OG B:SER76 3.4 38.3 1.0
CB B:SER76 3.5 38.5 1.0
OG B:SER242 3.7 40.5 1.0
C B:THR113 3.7 43.1 1.0
CG B:ASP112 3.9 37.0 1.0
CG B:ASN74 3.9 34.3 1.0
CA B:LYS114 3.9 49.4 1.0
NZ B:LYS269 4.0 25.9 1.0
O B:ASP112 4.2 38.1 1.0
N B:LYS114 4.2 46.3 1.0
N B:SER76 4.3 37.8 1.0
CA B:SER76 4.3 39.1 1.0
ND2 B:ASN74 4.4 36.1 1.0
NH2 B:ARG72 4.5 31.5 1.0
OE2 B:GLU117 4.5 55.5 1.0
C B:ASP112 4.6 37.6 1.0
OD2 B:ASP112 4.7 37.5 1.0
CB B:ASP112 4.7 36.9 1.0
CB B:LYS114 4.7 50.2 1.0
CB B:SER242 4.8 38.3 1.0
O3 B:PYR542 4.9 43.1 1.0
N B:THR113 4.9 38.8 1.0
CA B:THR113 4.9 40.5 1.0
MN B:MN533 4.9 45.9 1.0

Potassium binding site 3 out of 8 in 1f3w

Go back to Potassium Binding Sites List in 1f3w
Potassium binding site 3 out of 8 in the Recombinant Rabbit Muscle Pyruvate Kinase


Mono view


Stereo pair view

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

b:44.7
occ:1.00
 O C:THR113 2.8 43.9 1.0
OD1 C:ASN74 2.9 36.7 1.0
OD1 C:ASP112 2.9 35.5 1.0
OG C:SER76 3.4 38.3 1.0
CB C:SER76 3.5 38.5 1.0
OG C:SER242 3.7 40.5 1.0
C C:THR113 3.7 43.1 1.0
CG C:ASP112 3.9 37.0 1.0
CG C:ASN74 3.9 34.3 1.0
CA C:LYS114 3.9 49.4 1.0
NZ C:LYS269 4.0 25.9 1.0
O C:ASP112 4.2 38.1 1.0
N C:LYS114 4.2 46.3 1.0
N C:SER76 4.3 37.8 1.0
CA C:SER76 4.3 39.1 1.0
ND2 C:ASN74 4.4 36.1 1.0
NH2 C:ARG72 4.5 31.5 1.0
OE2 C:GLU117 4.5 55.5 1.0
C C:ASP112 4.6 37.6 1.0
OD2 C:ASP112 4.7 37.5 1.0
CB C:ASP112 4.7 36.9 1.0
CB C:LYS114 4.7 50.2 1.0
CB C:SER242 4.8 38.3 1.0
O3 C:PYR543 4.9 43.1 1.0
N C:THR113 4.9 38.8 1.0
CA C:THR113 4.9 40.5 1.0
MN C:MN532 4.9 45.9 1.0

Potassium binding site 4 out of 8 in 1f3w

Go back to Potassium Binding Sites List in 1f3w
Potassium binding site 4 out of 8 in the Recombinant Rabbit Muscle Pyruvate Kinase


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 4 of Recombinant Rabbit Muscle Pyruvate Kinase within 5.0Å range:
probe atom residue distance (Å) B Occ
D:K534

b:44.7
occ:1.00
 O D:THR113 2.8 43.9 1.0
OD1 D:ASN74 2.9 36.7 1.0
OD1 D:ASP112 2.9 35.5 1.0
OG D:SER76 3.4 38.3 1.0
CB D:SER76 3.5 38.5 1.0
OG D:SER242 3.7 40.5 1.0
C D:THR113 3.7 43.1 1.0
CG D:ASP112 3.9 37.0 1.0
CG D:ASN74 3.9 34.3 1.0
CA D:LYS114 3.9 49.4 1.0
NZ D:LYS269 4.0 25.9 1.0
O D:ASP112 4.2 38.1 1.0
N D:LYS114 4.2 46.3 1.0
N D:SER76 4.3 37.8 1.0
CA D:SER76 4.3 39.1 1.0
ND2 D:ASN74 4.4 36.1 1.0
NH2 D:ARG72 4.5 31.5 1.0
OE2 D:GLU117 4.5 55.5 1.0
C D:ASP112 4.6 37.6 1.0
OD2 D:ASP112 4.7 37.5 1.0
CB D:ASP112 4.7 36.9 1.0
CB D:LYS114 4.7 50.2 1.0
CB D:SER242 4.8 38.3 1.0
O3 D:PYR544 4.9 43.1 1.0
N D:THR113 4.9 38.8 1.0
CA D:THR113 4.9 40.5 1.0
MN D:MN532 4.9 45.9 1.0

Potassium binding site 5 out of 8 in 1f3w

Go back to Potassium Binding Sites List in 1f3w
Potassium binding site 5 out of 8 in the Recombinant Rabbit Muscle Pyruvate Kinase


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 5 of Recombinant Rabbit Muscle Pyruvate Kinase within 5.0Å range:
probe atom residue distance (Å) B Occ
E:K535

b:44.7
occ:1.00
 O E:THR113 2.8 43.9 1.0
OD1 E:ASN74 2.9 36.7 1.0
OD1 E:ASP112 2.9 35.5 1.0
OG E:SER76 3.4 38.3 1.0
CB E:SER76 3.5 38.5 1.0
OG E:SER242 3.7 40.5 1.0
C E:THR113 3.7 43.1 1.0
CG E:ASP112 3.9 37.0 1.0
CG E:ASN74 3.9 34.3 1.0
CA E:LYS114 3.9 49.4 1.0
NZ E:LYS269 4.0 25.9 1.0
O E:ASP112 4.2 38.1 1.0
N E:LYS114 4.2 46.3 1.0
N E:SER76 4.3 37.8 1.0
CA E:SER76 4.3 39.1 1.0
ND2 E:ASN74 4.4 36.1 1.0
NH2 E:ARG72 4.5 31.5 1.0
OE2 E:GLU117 4.5 55.5 1.0
C E:ASP112 4.6 37.6 1.0
OD2 E:ASP112 4.7 37.5 1.0
CB E:ASP112 4.7 36.9 1.0
CB E:LYS114 4.7 50.2 1.0
CB E:SER242 4.8 38.3 1.0
O3 E:PYR545 4.9 43.1 1.0
N E:THR113 4.9 38.8 1.0
CA E:THR113 4.9 40.5 1.0
MN E:MN532 4.9 45.9 1.0

Potassium binding site 6 out of 8 in 1f3w

Go back to Potassium Binding Sites List in 1f3w
Potassium binding site 6 out of 8 in the Recombinant Rabbit Muscle Pyruvate Kinase


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 6 of Recombinant Rabbit Muscle Pyruvate Kinase within 5.0Å range:
probe atom residue distance (Å) B Occ
F:K536

b:44.7
occ:1.00
 O F:THR113 2.8 43.9 1.0
OD1 F:ASN74 2.9 36.7 1.0
OD1 F:ASP112 2.9 35.5 1.0
OG F:SER76 3.4 38.3 1.0
CB F:SER76 3.5 38.5 1.0
OG F:SER242 3.7 40.5 1.0
C F:THR113 3.7 43.1 1.0
CG F:ASP112 3.9 37.0 1.0
CG F:ASN74 3.9 34.3 1.0
CA F:LYS114 3.9 49.4 1.0
NZ F:LYS269 4.0 25.9 1.0
O F:ASP112 4.2 38.1 1.0
N F:LYS114 4.2 46.3 1.0
N F:SER76 4.3 37.8 1.0
CA F:SER76 4.3 39.1 1.0
ND2 F:ASN74 4.4 36.1 1.0
NH2 F:ARG72 4.5 31.5 1.0
OE2 F:GLU117 4.5 55.5 1.0
C F:ASP112 4.6 37.6 1.0
OD2 F:ASP112 4.7 37.5 1.0
CB F:ASP112 4.7 36.9 1.0
CB F:LYS114 4.7 50.2 1.0
CB F:SER242 4.8 38.3 1.0
O3 F:PYR546 4.9 43.1 1.0
N F:THR113 4.9 38.8 1.0
CA F:THR113 4.9 40.5 1.0
MN F:MN532 4.9 45.9 1.0

Potassium binding site 7 out of 8 in 1f3w

Go back to Potassium Binding Sites List in 1f3w
Potassium binding site 7 out of 8 in the Recombinant Rabbit Muscle Pyruvate Kinase


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 7 of Recombinant Rabbit Muscle Pyruvate Kinase within 5.0Å range:
probe atom residue distance (Å) B Occ
G:K537

b:44.7
occ:1.00
 O G:THR113 2.8 43.9 1.0
OD1 G:ASN74 2.9 36.7 1.0
OD1 G:ASP112 2.9 35.5 1.0
OG G:SER76 3.4 38.3 1.0
CB G:SER76 3.5 38.5 1.0
OG G:SER242 3.7 40.5 1.0
C G:THR113 3.7 43.1 1.0
CG G:ASP112 3.9 37.0 1.0
CG G:ASN74 3.9 34.3 1.0
CA G:LYS114 3.9 49.4 1.0
NZ G:LYS269 4.0 25.9 1.0
O G:ASP112 4.2 38.1 1.0
N G:LYS114 4.2 46.3 1.0
N G:SER76 4.3 37.8 1.0
CA G:SER76 4.3 39.1 1.0
ND2 G:ASN74 4.4 36.1 1.0
NH2 G:ARG72 4.5 31.5 1.0
OE2 G:GLU117 4.5 55.5 1.0
C G:ASP112 4.6 37.6 1.0
OD2 G:ASP112 4.7 37.5 1.0
CB G:ASP112 4.7 36.9 1.0
CB G:LYS114 4.7 50.2 1.0
CB G:SER242 4.8 38.3 1.0
O3 G:PYR547 4.9 43.1 1.0
N G:THR113 4.9 38.8 1.0
CA G:THR113 4.9 40.5 1.0
MN G:MN532 4.9 45.9 1.0

Potassium binding site 8 out of 8 in 1f3w

Go back to Potassium Binding Sites List in 1f3w
Potassium binding site 8 out of 8 in the Recombinant Rabbit Muscle Pyruvate Kinase


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 8 of Recombinant Rabbit Muscle Pyruvate Kinase within 5.0Å range:
probe atom residue distance (Å) B Occ
H:K538

b:44.7
occ:1.00
 O H:THR113 2.8 43.9 1.0
OD1 H:ASN74 2.9 36.7 1.0
OD1 H:ASP112 2.9 35.5 1.0
OG H:SER76 3.4 38.3 1.0
CB H:SER76 3.5 38.5 1.0
OG H:SER242 3.7 40.5 1.0
C H:THR113 3.7 43.1 1.0
CG H:ASP112 3.9 37.0 1.0
CG H:ASN74 3.9 34.3 1.0
CA H:LYS114 3.9 49.4 1.0
NZ H:LYS269 4.0 25.9 1.0
O H:ASP112 4.2 38.1 1.0
N H:LYS114 4.2 46.3 1.0
N H:SER76 4.3 37.8 1.0
CA H:SER76 4.3 39.1 1.0
ND2 H:ASN74 4.4 36.1 1.0
NH2 H:ARG72 4.5 31.5 1.0
OE2 H:GLU117 4.5 55.5 1.0
C H:ASP112 4.6 37.6 1.0
OD2 H:ASP112 4.7 37.5 1.0
CB H:ASP112 4.7 36.9 1.0
CB H:LYS114 4.7 50.2 1.0
CB H:SER242 4.8 38.3 1.0
O3 H:PYR548 4.9 43.1 1.0
N H:THR113 4.9 38.8 1.0
CA H:THR113 4.9 40.5 1.0
MN H:MN532 4.9 45.9 1.0

Reference:

J.O.Wooll, R.H.Friesen, M.A.White, S.J.Watowich, R.O.Fox, J.C.Lee, E.W.Czerwinski. Structural and Functional Linkages Between Subunit Interfaces in Mammalian Pyruvate Kinase. J.Mol.Biol. V. 312 525 2001.
ISSN: ISSN 0022-2836
PubMed: 11563914
DOI: 10.1006/JMBI.2001.4978
Page generated: Mon Aug 12 04:28:12 2024

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