Potassium in PDB 5w19: Tryptophan Indole-Lyase Complex with Oxindolyl-L-Alanine

Enzymatic activity of Tryptophan Indole-Lyase Complex with Oxindolyl-L-Alanine

All present enzymatic activity of Tryptophan Indole-Lyase Complex with Oxindolyl-L-Alanine:
4.1.99.1;

Protein crystallography data

The structure of Tryptophan Indole-Lyase Complex with Oxindolyl-L-Alanine, PDB code: 5w19 was solved by R.S.Phillips, Z.A.Wood, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 48.11 / 2.10
Space group P 2 21 21
Cell size a, b, c (Å), α, β, γ (°) 62.117, 152.081, 211.363, 90.00, 90.00, 90.00
R / Rfree (%) 21.7 / 24.4

Potassium Binding Sites:

The binding sites of Potassium atom in the Tryptophan Indole-Lyase Complex with Oxindolyl-L-Alanine (pdb code 5w19). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 4 binding sites of Potassium where determined in the Tryptophan Indole-Lyase Complex with Oxindolyl-L-Alanine, PDB code: 5w19:
Jump to Potassium binding site number: 1; 2; 3; 4;

Potassium binding site 1 out of 4 in 5w19

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Potassium binding site 1 out of 4 in the Tryptophan Indole-Lyase Complex with Oxindolyl-L-Alanine


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Tryptophan Indole-Lyase Complex with Oxindolyl-L-Alanine within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K501

b:54.5
occ:1.00
 OE2 B:GLU70 2.8 57.5 1.0
O B:HOH649 2.8 45.5 1.0
O A:GLY53 2.8 48.7 1.0
O A:ASN271 2.9 47.3 1.0
O A:HOH687 3.0 61.9 1.0
O A:HOH614 3.3 50.1 1.0
O B:GLU70 3.5 54.0 1.0
C A:GLY53 3.6 50.0 1.0
CA A:GLY53 3.8 52.6 1.0
C A:ASN271 3.9 49.0 1.0
CD B:GLU70 4.0 58.3 1.0
CB A:ASN271 4.0 48.6 1.0
CB B:GLU70 4.0 50.6 1.0
CA A:ASN271 4.1 47.4 1.0
C B:GLU70 4.2 52.4 1.0
CA B:GLU70 4.2 50.9 1.0
CA B:ALA305 4.4 49.5 1.0
N B:GLY306 4.4 48.7 1.0
O B:HOH621 4.4 42.5 1.0
CG B:GLU70 4.5 55.7 1.0
N A:THR54 4.7 50.2 1.0
CE A:LYS265 4.8 49.9 1.0
ND2 A:ASN271 4.8 51.7 1.0
CB B:ALA305 4.8 49.4 1.0
NZ A:LYS265 4.9 46.4 1.0
CG A:ASN271 4.9 50.8 1.0
O A:SER52 4.9 55.8 1.0
C B:ALA305 4.9 47.5 1.0
O B:LEU304 5.0 55.1 1.0
OE1 B:GLU70 5.0 58.5 1.0

Potassium binding site 2 out of 4 in 5w19

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Potassium binding site 2 out of 4 in the Tryptophan Indole-Lyase Complex with Oxindolyl-L-Alanine


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Tryptophan Indole-Lyase Complex with Oxindolyl-L-Alanine within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K503

b:61.5
occ:1.00
 O A:HOH642 2.8 50.4 1.0
O B:ASN271 2.8 54.1 1.0
OE2 A:GLU70 2.8 50.4 1.0
O B:HOH700 3.0 53.7 1.0
O B:GLY53 3.1 54.6 1.0
O B:HOH689 3.2 36.0 1.0
O A:GLU70 3.6 57.1 1.0
C B:GLY53 3.7 52.0 1.0
CA B:GLY53 3.8 48.4 1.0
C B:ASN271 3.8 51.2 1.0
CD A:GLU70 4.0 53.0 1.0
CB A:GLU70 4.0 49.1 1.0
CB B:ASN271 4.1 50.3 1.0
CA B:ASN271 4.1 50.2 1.0
CA A:GLU70 4.2 50.5 1.0
C A:GLU70 4.2 53.4 1.0
CA A:ALA305 4.3 50.9 1.0
N A:GLY306 4.3 53.8 1.0
O A:HOH609 4.4 58.5 1.0
CG A:GLU70 4.5 52.2 1.0
N B:THR54 4.7 49.8 1.0
O A:LEU304 4.8 52.0 1.0
CB A:ALA305 4.8 47.1 1.0
ND2 B:ASN271 4.8 50.5 1.0
C A:ALA305 4.8 50.5 1.0
CE B:LYS265 4.8 52.3 1.0
CG B:ASN271 4.9 50.2 1.0
O B:SER52 5.0 50.1 1.0

Potassium binding site 3 out of 4 in 5w19

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Potassium binding site 3 out of 4 in the Tryptophan Indole-Lyase Complex with Oxindolyl-L-Alanine


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 3 of Tryptophan Indole-Lyase Complex with Oxindolyl-L-Alanine within 5.0Å range:
probe atom residue distance (Å) B Occ
C:K501

b:56.0
occ:1.00
 O C:HOH697 2.8 53.3 1.0
O D:GLY53 2.8 55.5 1.0
OE2 C:GLU70 2.8 54.4 1.0
O D:HOH659 2.9 57.2 1.0
O D:ASN271 3.0 47.1 1.0
O D:HOH620 3.1 47.3 1.0
O C:GLU70 3.4 57.4 1.0
C D:GLY53 3.5 55.1 1.0
CA D:GLY53 3.7 55.3 1.0
CB C:GLU70 3.8 50.1 1.0
C D:ASN271 4.0 48.2 1.0
CD C:GLU70 4.0 56.9 1.0
C C:GLU70 4.0 51.9 1.0
CB D:ASN271 4.0 52.0 1.0
CA C:GLU70 4.0 50.0 1.0
CA D:ASN271 4.2 48.1 1.0
N C:GLY306 4.4 50.1 1.0
CG C:GLU70 4.4 52.8 1.0
O C:HOH639 4.4 41.7 1.0
CA C:ALA305 4.5 51.4 1.0
N D:THR54 4.6 55.5 1.0
ND2 D:ASN271 4.8 51.4 1.0
CE D:LYS265 4.9 52.4 1.0
O D:SER52 4.9 52.5 1.0
CG D:ASN271 4.9 52.9 1.0
CB C:ALA305 4.9 52.9 1.0
C C:ALA305 5.0 49.9 1.0
O C:LEU304 5.0 51.7 1.0

Potassium binding site 4 out of 4 in 5w19

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Potassium binding site 4 out of 4 in the Tryptophan Indole-Lyase Complex with Oxindolyl-L-Alanine


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 4 of Tryptophan Indole-Lyase Complex with Oxindolyl-L-Alanine within 5.0Å range:
probe atom residue distance (Å) B Occ
C:K502

b:52.2
occ:1.00
 OE2 D:GLU70 2.8 57.1 1.0
O D:HOH646 2.8 38.2 1.0
O C:HOH664 2.9 69.4 1.0
O C:GLY53 2.9 52.1 1.0
O C:ASN271 3.0 47.2 1.0
O C:HOH646 3.1 48.7 1.0
O D:GLU70 3.2 48.9 1.0
C C:GLY53 3.7 52.7 1.0
O D:HOH662 3.9 48.0 1.0
CB D:GLU70 3.9 48.2 1.0
CD D:GLU70 3.9 56.4 1.0
C C:ASN271 3.9 49.2 1.0
CA C:GLY53 4.0 52.6 1.0
C D:GLU70 4.0 48.3 1.0
CB C:ASN271 4.0 54.6 1.0
CA D:GLU70 4.0 48.5 1.0
CA C:ASN271 4.2 52.1 1.0
CA D:ALA305 4.4 50.0 1.0
N D:GLY306 4.4 51.8 1.0
CG D:GLU70 4.4 49.5 1.0
CE C:LYS265 4.8 48.7 1.0
N C:THR54 4.8 52.7 1.0
ND2 C:ASN271 4.8 57.2 1.0
CB D:ALA305 4.8 49.9 1.0
O D:LEU304 4.9 52.3 1.0
CG C:ASN271 4.9 56.8 1.0
NZ C:LYS265 4.9 50.4 1.0
O C:SER52 4.9 57.5 1.0
C D:ALA305 4.9 49.5 1.0
OE1 D:GLU70 5.0 58.5 1.0

Reference:

R.S.Phillips, A.A.Buisman, S.Choi, A.Hussaini, Z.A.Wood. The Crystal Structure of Proteus Vulgaris Tryptophan Indole-Lyase Complexed with Oxindolyl-L-Alanine: Implications For the Reaction Mechanism. Acta Crystallogr D Struct V. 74 748 2018BIOL.
ISSN: ISSN 2059-7983
PubMed: 30082510
DOI: 10.1107/S2059798318003352
Page generated: Mon Dec 14 00:10:38 2020

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