Atomistry » Potassium » PDB 1s72-1u1f » 1t5a
Atomistry »
  Potassium »
    PDB 1s72-1u1f »
      1t5a »

Potassium in PDB 1t5a: Human Pyruvate Kinase M2

Enzymatic activity of Human Pyruvate Kinase M2

All present enzymatic activity of Human Pyruvate Kinase M2:
2.7.1.40;

Protein crystallography data

The structure of Human Pyruvate Kinase M2, PDB code: 1t5a was solved by J.D.Dombrauckas, B.D.Santarsiero, A.D.Mesecar, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 20.00 / 2.80
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 108.209, 145.006, 159.260, 90.00, 90.00, 90.00
R / Rfree (%) 23.1 / 27.8

Other elements in 1t5a:

The structure of Human Pyruvate Kinase M2 also contains other interesting chemical elements:

Magnesium (Mg) 4 atoms

Potassium Binding Sites:

The binding sites of Potassium atom in the Human Pyruvate Kinase M2 (pdb code 1t5a). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 4 binding sites of Potassium where determined in the Human Pyruvate Kinase M2, PDB code: 1t5a:
Jump to Potassium binding site number: 1; 2; 3; 4;

Potassium binding site 1 out of 4 in 1t5a

Go back to Potassium Binding Sites List in 1t5a
Potassium binding site 1 out of 4 in the Human Pyruvate Kinase M2


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Human Pyruvate Kinase M2 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K701

b:66.4
occ:1.00
 OD2 A:ASP113 3.1 69.2 1.0
O A:THR114 3.2 65.6 1.0
OD1 A:ASN75 3.5 59.3 1.0
OG A:SER243 3.6 57.1 1.0
O A:HOH729 3.6 66.4 1.0
CB A:SER77 3.7 46.3 1.0
OG A:SER77 3.8 46.3 1.0
NZ A:LYS270 4.0 62.0 1.0
OE1 A:GLU118 4.0 89.2 1.0
C A:THR114 4.1 65.6 1.0
CG A:ASP113 4.1 69.2 1.0
CA A:LYS115 4.2 76.7 1.0
CG A:ASN75 4.4 59.3 1.0
O A:ASP113 4.4 77.4 1.0
O A:LYS115 4.4 76.7 1.0
MG A:MG601 4.4 66.4 1.0
N A:LYS115 4.6 76.7 1.0
O1 A:OXL533 4.7 66.4 1.0
CB A:SER243 4.7 57.1 1.0
C A:LYS115 4.7 76.7 1.0
ND2 A:ASN75 4.7 59.3 1.0
N A:SER77 4.7 99.0 1.0
NH1 A:ARG73 4.8 55.6 1.0
CA A:SER77 4.8 99.0 1.0
OD1 A:ASP113 4.9 69.2 1.0
C A:ASP113 4.9 77.4 1.0

Potassium binding site 2 out of 4 in 1t5a

Go back to Potassium Binding Sites List in 1t5a
Potassium binding site 2 out of 4 in the Human Pyruvate Kinase M2


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Human Pyruvate Kinase M2 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K702

b:66.4
occ:1.00
 O B:HOH723 3.0 66.4 1.0
OD2 B:ASP113 3.0 70.1 1.0
OD1 B:ASN75 3.0 66.3 1.0
O B:THR114 3.2 62.8 1.0
OG B:SER77 3.4 99.0 1.0
CB B:SER77 3.5 99.0 1.0
CG B:ASN75 3.9 66.3 1.0
OG B:SER243 4.0 40.6 1.0
CG B:ASP113 4.1 70.1 1.0
O B:ASP113 4.1 65.8 1.0
C B:THR114 4.1 62.8 1.0
OE1 B:GLU118 4.2 76.3 1.0
NZ B:LYS270 4.3 77.3 1.0
CA B:LYS115 4.3 98.1 1.0
ND2 B:ASN75 4.3 66.3 1.0
N B:SER77 4.3 87.1 1.0
CA B:SER77 4.5 87.1 1.0
N B:LYS115 4.6 98.1 1.0
MG B:MG602 4.6 66.4 1.0
NH1 B:ARG73 4.6 46.5 1.0
O B:LYS115 4.7 98.1 1.0
C B:ASP113 4.7 65.8 1.0
CB B:ASP113 4.8 70.1 1.0
C B:LYS115 4.9 98.1 1.0
OD1 B:ASP113 4.9 70.1 1.0
O1 B:OXL533 5.0 66.4 1.0
N B:PHE76 5.0 80.8 1.0

Potassium binding site 3 out of 4 in 1t5a

Go back to Potassium Binding Sites List in 1t5a
Potassium binding site 3 out of 4 in the Human Pyruvate Kinase M2


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 3 of Human Pyruvate Kinase M2 within 5.0Å range:
probe atom residue distance (Å) B Occ
C:K703

b:66.4
occ:1.00
 OD2 C:ASP113 2.9 70.9 1.0
OD1 C:ASN75 3.0 74.7 1.0
O C:THR114 3.0 51.5 1.0
O C:HOH725 3.4 66.4 1.0
OG C:SER77 3.5 87.9 1.0
CB C:SER77 3.5 87.9 1.0
O C:ASP113 3.7 64.6 1.0
C C:THR114 3.9 51.5 1.0
CG C:ASN75 3.9 74.7 1.0
CG C:ASP113 3.9 70.9 1.0
OG C:SER243 4.0 35.3 1.0
CA C:LYS115 4.2 47.1 1.0
N C:SER77 4.2 98.9 1.0
NZ C:LYS270 4.3 48.4 1.0
ND2 C:ASN75 4.4 74.7 1.0
N C:LYS115 4.4 47.1 1.0
OE1 C:GLU118 4.4 62.7 1.0
C C:ASP113 4.4 64.6 1.0
CA C:SER77 4.4 98.9 1.0
NH1 C:ARG73 4.5 52.2 1.0
CB C:ASP113 4.6 70.9 1.0
MG C:MG603 4.7 66.4 1.0
OD1 C:ASP113 4.7 70.9 1.0
N C:PHE76 4.8 75.0 1.0
O C:LYS115 4.8 47.1 1.0
C C:LYS115 4.9 47.1 1.0
CA C:ASN75 4.9 61.2 1.0
N C:THR114 5.0 51.5 1.0
C C:PHE76 5.0 75.0 1.0
CA C:THR114 5.0 51.5 1.0
CB C:ASN75 5.0 74.7 1.0

Potassium binding site 4 out of 4 in 1t5a

Go back to Potassium Binding Sites List in 1t5a
Potassium binding site 4 out of 4 in the Human Pyruvate Kinase M2


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 4 of Human Pyruvate Kinase M2 within 5.0Å range:
probe atom residue distance (Å) B Occ
D:K704

b:66.4
occ:1.00
 OD2 D:ASP113 3.2 63.7 1.0
O D:THR114 3.3 51.2 1.0
OD1 D:ASN75 3.4 41.6 1.0
OG D:SER77 3.5 59.8 1.0
CB D:SER77 3.6 59.8 1.0
OG D:SER243 3.8 69.7 1.0
OE1 D:GLU118 3.9 91.6 1.0
MG D:MG604 4.1 66.4 1.0
NZ D:LYS270 4.1 46.1 1.0
CG D:ASN75 4.2 41.6 1.0
CG D:ASP113 4.3 63.7 1.0
C D:THR114 4.3 51.2 1.0
CA D:LYS115 4.3 66.6 1.0
ND2 D:ASN75 4.5 41.6 1.0
O D:LYS115 4.5 66.6 1.0
O D:ASP113 4.5 62.4 1.0
O4 D:OXL533 4.6 66.4 1.0
N D:SER77 4.7 52.4 1.0
CA D:SER77 4.7 52.4 1.0
N D:LYS115 4.7 66.6 1.0
C D:LYS115 4.8 66.6 1.0
NH1 D:ARG73 4.8 42.3 1.0
CB D:SER243 4.8 69.7 1.0
OD1 D:ASP113 5.0 63.7 1.0

Reference:

J.D.Dombrauckas, B.D.Santarsiero, A.D.Mesecar. Structural Basis For Tumor Pyruvate Kinase M2 Allosteric Regulation and Catalysis. Biochemistry V. 44 9417 2005.
ISSN: ISSN 0006-2960
PubMed: 15996096
DOI: 10.1021/BI0474923
Page generated: Mon Aug 12 05:23:31 2024

Last articles

Fe in 2YXO
Fe in 2YRS
Fe in 2YXC
Fe in 2YNM
Fe in 2YVJ
Fe in 2YP1
Fe in 2YU2
Fe in 2YU1
Fe in 2YQB
Fe in 2YOO
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy