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Potassium in PDB 1k6y: Crystal Structure of A Two-Domain Fragment of Hiv-1 Integrase

Enzymatic activity of Crystal Structure of A Two-Domain Fragment of Hiv-1 Integrase

All present enzymatic activity of Crystal Structure of A Two-Domain Fragment of Hiv-1 Integrase:
2.7.7.49;

Protein crystallography data

The structure of Crystal Structure of A Two-Domain Fragment of Hiv-1 Integrase, PDB code: 1k6y was solved by J.Wang, H.Ling, W.Yang, R.Craigie, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 30.00 / 2.40
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 102.710, 102.710, 280.560, 90.00, 90.00, 90.00
R / Rfree (%) 23.3 / 26

Other elements in 1k6y:

The structure of Crystal Structure of A Two-Domain Fragment of Hiv-1 Integrase also contains other interesting chemical elements:

Zinc (Zn) 4 atoms

Potassium Binding Sites:

The binding sites of Potassium atom in the Crystal Structure of A Two-Domain Fragment of Hiv-1 Integrase (pdb code 1k6y). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 4 binding sites of Potassium where determined in the Crystal Structure of A Two-Domain Fragment of Hiv-1 Integrase, PDB code: 1k6y:
Jump to Potassium binding site number: 1; 2; 3; 4;

Potassium binding site 1 out of 4 in 1k6y

Go back to Potassium Binding Sites List in 1k6y
Potassium binding site 1 out of 4 in the Crystal Structure of A Two-Domain Fragment of Hiv-1 Integrase


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Crystal Structure of A Two-Domain Fragment of Hiv-1 Integrase within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K451

b:81.8
occ:1.00
 O A:ALA38 3.1 38.9 1.0
O A:CYS40 3.2 51.5 1.0
O A:CYS43 3.2 65.0 1.0
O A:VAL37 3.4 32.3 1.0
C A:CYS43 3.7 64.1 1.0
CA A:ALA38 3.8 36.0 1.0
C A:ALA38 3.8 38.3 1.0
CA A:GLN44 4.1 69.4 1.0
N A:GLN44 4.1 66.4 1.0
C A:VAL37 4.3 30.9 1.0
C A:CYS40 4.4 52.1 1.0
N A:ALA38 4.5 33.6 1.0
CA A:CYS43 4.7 61.9 1.0
N A:CYS40 4.8 48.5 1.0
N A:CYS43 4.9 61.1 1.0
CB A:CYS43 4.9 60.3 1.0
C A:GLN44 4.9 70.7 1.0
CG A:GLN44 4.9 74.1 1.0
CB A:ALA38 5.0 35.9 1.0

Potassium binding site 2 out of 4 in 1k6y

Go back to Potassium Binding Sites List in 1k6y
Potassium binding site 2 out of 4 in the Crystal Structure of A Two-Domain Fragment of Hiv-1 Integrase


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Crystal Structure of A Two-Domain Fragment of Hiv-1 Integrase within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K452

b:64.2
occ:1.00
 O B:CYS43 3.0 50.9 1.0
O B:CYS40 3.0 37.7 1.0
O B:ALA38 3.1 29.0 1.0
O B:VAL37 3.4 25.7 1.0
C B:ALA38 3.6 28.2 1.0
C B:CYS43 3.7 49.4 1.0
CA B:ALA38 3.7 26.3 1.0
CA B:GLN44 3.9 58.7 1.0
N B:GLN44 4.1 53.9 1.0
C B:CYS40 4.2 37.1 1.0
C B:VAL37 4.4 23.2 1.0
N B:ALA38 4.5 23.8 1.0
CB B:GLN44 4.6 61.2 1.0
N B:SER39 4.7 30.0 1.0
CA B:CYS43 4.8 45.0 1.0
N B:CYS40 4.8 36.1 1.0
CB B:ALA38 4.8 22.9 1.0
N B:CYS43 4.9 43.6 1.0

Potassium binding site 3 out of 4 in 1k6y

Go back to Potassium Binding Sites List in 1k6y
Potassium binding site 3 out of 4 in the Crystal Structure of A Two-Domain Fragment of Hiv-1 Integrase


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 3 of Crystal Structure of A Two-Domain Fragment of Hiv-1 Integrase within 5.0Å range:
probe atom residue distance (Å) B Occ
C:K453

b:48.9
occ:1.00
 O C:CYS43 2.9 53.1 1.0
O C:CYS40 3.0 32.7 1.0
O C:ALA38 3.1 28.8 1.0
O C:HOH517 3.4 30.0 1.0
O C:VAL37 3.5 28.5 1.0
C C:ALA38 3.5 28.9 1.0
CA C:ALA38 3.7 28.6 1.0
C C:CYS43 3.9 52.0 1.0
C C:CYS40 4.1 33.3 1.0
C C:VAL37 4.3 28.1 1.0
CA C:GLN44 4.4 59.2 1.0
N C:CYS40 4.4 32.4 1.0
N C:ALA38 4.5 28.4 1.0
N C:GLN44 4.5 55.7 1.0
N C:SER39 4.6 28.7 1.0
CB C:ALA38 4.8 27.8 1.0
CA C:CYS40 4.8 32.3 1.0
CA C:CYS43 4.9 49.1 1.0
N C:CYS43 4.9 46.2 1.0
C C:SER39 5.0 32.8 1.0
N C:LEU45 5.0 60.5 1.0

Potassium binding site 4 out of 4 in 1k6y

Go back to Potassium Binding Sites List in 1k6y
Potassium binding site 4 out of 4 in the Crystal Structure of A Two-Domain Fragment of Hiv-1 Integrase


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 4 of Crystal Structure of A Two-Domain Fragment of Hiv-1 Integrase within 5.0Å range:
probe atom residue distance (Å) B Occ
D:K454

b:47.9
occ:1.00
 O D:CYS40 3.0 30.3 1.0
O D:ALA38 3.1 28.5 1.0
O D:CYS43 3.1 47.7 1.0
O D:VAL37 3.3 24.3 1.0
O D:HOH544 3.4 31.8 1.0
C D:ALA38 3.6 27.8 1.0
CA D:ALA38 3.7 26.8 1.0
C D:CYS43 3.7 46.8 1.0
C D:CYS40 4.1 30.1 1.0
C D:VAL37 4.2 23.4 1.0
N D:GLN44 4.3 51.4 1.0
CA D:GLN44 4.3 56.3 1.0
N D:ALA38 4.4 24.9 1.0
N D:CYS40 4.4 27.8 1.0
CA D:CYS43 4.6 43.1 1.0
N D:SER39 4.7 29.0 1.0
NE2 D:GLN44 4.7 68.5 1.0
N D:CYS43 4.8 40.8 1.0
CA D:CYS40 4.8 28.5 1.0
CB D:ALA38 4.8 28.2 1.0
C D:SER39 5.0 29.6 1.0
CB D:CYS43 5.0 39.6 1.0

Reference:

J.Y.Wang, H.Ling, W.Yang, R.Craigie. Structure of A Two-Domain Fragment of Hiv-1 Integrase: Implications For Domain Organization in the Intact Protein. Embo J. V. 20 7333 2001.
ISSN: ISSN 0261-4189
PubMed: 11743009
DOI: 10.1093/EMBOJ/20.24.7333
Page generated: Sun Dec 13 22:47:29 2020

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