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Potassium in PDB 4tod: 2.05A Resolution Structure of Bfrb (D34F) From Pseudomonas Aeruginosa

Enzymatic activity of 2.05A Resolution Structure of Bfrb (D34F) From Pseudomonas Aeruginosa

All present enzymatic activity of 2.05A Resolution Structure of Bfrb (D34F) From Pseudomonas Aeruginosa:
1.16.3.1;

Protein crystallography data

The structure of 2.05A Resolution Structure of Bfrb (D34F) From Pseudomonas Aeruginosa, PDB code: 4tod was solved by S.Lovell, K.P.Battaile, H.Yao, R.Kumar, K.Eshelman, M.Rivera, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 41.06 / 2.05
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 125.678, 203.538, 206.973, 90.00, 90.00, 90.00
R / Rfree (%) 15.3 / 19.2

Other elements in 4tod:

The structure of 2.05A Resolution Structure of Bfrb (D34F) From Pseudomonas Aeruginosa also contains other interesting chemical elements:

Iron (Fe) 12 atoms

Potassium Binding Sites:

The binding sites of Potassium atom in the 2.05A Resolution Structure of Bfrb (D34F) From Pseudomonas Aeruginosa (pdb code 4tod). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 6 binding sites of Potassium where determined in the 2.05A Resolution Structure of Bfrb (D34F) From Pseudomonas Aeruginosa, PDB code: 4tod:
Jump to Potassium binding site number: 1; 2; 3; 4; 5; 6;

Potassium binding site 1 out of 6 in 4tod

Go back to Potassium Binding Sites List in 4tod
Potassium binding site 1 out of 6 in the 2.05A Resolution Structure of Bfrb (D34F) From Pseudomonas Aeruginosa


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of 2.05A Resolution Structure of Bfrb (D34F) From Pseudomonas Aeruginosa within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K202

b:22.8
occ:1.00
 OE1 A:GLN151 2.8 20.2 1.0
OE1 M:GLN151 2.8 23.1 1.0
OE1 L:GLN151 2.9 26.4 1.0
OE1 X:GLN151 2.9 23.6 1.0
OD1 M:ASN148 2.9 20.6 1.0
OD1 L:ASN148 3.0 24.1 1.0
OD1 X:ASN148 3.0 25.8 1.0
OD1 A:ASN148 3.1 24.9 1.0
O A:HOH317 3.5 34.6 1.0
CG M:ASN148 3.7 23.8 1.0
CD M:GLN151 3.7 22.9 1.0
CD A:GLN151 3.8 22.3 1.0
CG L:ASN148 3.8 23.8 1.0
CG X:ASN148 3.8 27.1 1.0
CG A:ASN148 3.8 28.8 1.0
CD X:GLN151 3.8 25.3 1.0
CD L:GLN151 3.9 24.6 1.0
NE2 M:GLN151 4.0 25.4 1.0
NE2 X:GLN151 4.0 23.8 1.0
NE2 A:GLN151 4.0 24.3 1.0
ND2 L:ASN148 4.0 24.9 1.0
ND2 M:ASN148 4.0 28.7 1.0
ND2 X:ASN148 4.0 28.5 1.0
NE2 L:GLN151 4.1 21.7 1.0
ND2 A:ASN148 4.1 28.8 1.0
CB A:ASN148 4.9 24.6 1.0
CB M:ASN148 4.9 24.5 1.0
CB L:ASN148 4.9 26.4 1.0
CB X:ASN148 5.0 22.6 1.0

Potassium binding site 2 out of 6 in 4tod

Go back to Potassium Binding Sites List in 4tod
Potassium binding site 2 out of 6 in the 2.05A Resolution Structure of Bfrb (D34F) From Pseudomonas Aeruginosa


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of 2.05A Resolution Structure of Bfrb (D34F) From Pseudomonas Aeruginosa within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K201

b:19.0
occ:1.00
 OE1 D:GLN151 2.9 21.7 1.0
OE1 F:GLN151 2.9 20.0 1.0
OD1 B:ASN148 2.9 22.6 1.0
OD1 D:ASN148 2.9 22.2 1.0
OE1 H:GLN151 2.9 22.5 1.0
OE1 B:GLN151 2.9 19.1 1.0
OD1 H:ASN148 2.9 19.1 1.0
OD1 F:ASN148 3.0 22.5 1.0
O H:HOH331 3.7 38.8 1.0
CG B:ASN148 3.7 22.0 1.0
CG D:ASN148 3.7 24.2 1.0
CG H:ASN148 3.8 20.9 1.0
CG F:ASN148 3.8 20.7 1.0
CD F:GLN151 3.8 22.6 1.0
CD D:GLN151 3.8 18.3 1.0
CD H:GLN151 3.9 21.7 1.0
CD B:GLN151 3.9 23.4 1.0
NE2 F:GLN151 4.0 19.6 1.0
NE2 D:GLN151 4.1 23.4 1.0
NE2 H:GLN151 4.1 20.9 1.0
ND2 B:ASN148 4.1 23.0 1.0
NE2 B:GLN151 4.1 20.6 1.0
ND2 H:ASN148 4.1 22.7 1.0
ND2 D:ASN148 4.1 19.1 1.0
ND2 F:ASN148 4.2 21.5 1.0
CB B:ASN148 4.9 21.1 1.0
CB D:ASN148 4.9 22.9 1.0
CB F:ASN148 4.9 20.2 1.0
CB H:ASN148 5.0 17.7 1.0

Potassium binding site 3 out of 6 in 4tod

Go back to Potassium Binding Sites List in 4tod
Potassium binding site 3 out of 6 in the 2.05A Resolution Structure of Bfrb (D34F) From Pseudomonas Aeruginosa


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 3 of 2.05A Resolution Structure of Bfrb (D34F) From Pseudomonas Aeruginosa within 5.0Å range:
probe atom residue distance (Å) B Occ
C:K202

b:22.4
occ:1.00
 OE1 U:GLN151 2.8 24.8 1.0
OE1 K:GLN151 2.8 25.1 1.0
OE1 C:GLN151 2.8 23.0 1.0
OE1 S:GLN151 2.9 21.5 1.0
OD1 U:ASN148 2.9 25.1 1.0
OD1 C:ASN148 3.0 27.0 1.0
OD1 K:ASN148 3.0 24.4 1.0
OD1 S:ASN148 3.0 25.6 1.0
O C:HOH301 3.4 39.6 1.0
CG U:ASN148 3.7 27.1 1.0
CG C:ASN148 3.8 25.8 1.0
CG K:ASN148 3.8 24.2 1.0
CD C:GLN151 3.8 22.6 1.0
CD U:GLN151 3.8 23.9 1.0
CD S:GLN151 3.8 23.6 1.0
CD K:GLN151 3.8 26.5 1.0
CG S:ASN148 3.8 26.9 1.0
NE2 S:GLN151 3.9 25.6 1.0
NE2 U:GLN151 4.0 26.4 1.0
NE2 C:GLN151 4.0 23.1 1.0
NE2 K:GLN151 4.0 27.2 1.0
ND2 U:ASN148 4.0 30.6 1.0
ND2 K:ASN148 4.1 26.1 1.0
ND2 S:ASN148 4.1 31.1 1.0
ND2 C:ASN148 4.2 28.5 1.0
CB U:ASN148 4.9 29.8 1.0
CB C:ASN148 4.9 24.3 1.0
CB K:ASN148 4.9 24.3 1.0
CB S:ASN148 5.0 25.3 1.0

Potassium binding site 4 out of 6 in 4tod

Go back to Potassium Binding Sites List in 4tod
Potassium binding site 4 out of 6 in the 2.05A Resolution Structure of Bfrb (D34F) From Pseudomonas Aeruginosa


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 4 of 2.05A Resolution Structure of Bfrb (D34F) From Pseudomonas Aeruginosa within 5.0Å range:
probe atom residue distance (Å) B Occ
E:K201

b:22.8
occ:1.00
 OE1 J:GLN151 2.8 23.2 1.0
OD1 E:ASN148 2.9 25.8 1.0
OE1 V:GLN151 2.9 24.8 1.0
OE1 E:GLN151 2.9 23.2 1.0
OE1 Q:GLN151 2.9 25.4 1.0
OD1 V:ASN148 2.9 23.8 1.0
OD1 J:ASN148 3.0 25.5 1.0
OD1 Q:ASN148 3.0 26.1 1.0
O V:HOH305 3.5 43.7 1.0
CG E:ASN148 3.7 29.2 1.0
CG V:ASN148 3.8 23.6 1.0
CD J:GLN151 3.8 21.5 1.0
CG Q:ASN148 3.8 21.9 1.0
CG J:ASN148 3.8 24.7 1.0
CD V:GLN151 3.8 26.3 1.0
CD E:GLN151 3.8 24.8 1.0
CD Q:GLN151 3.9 23.6 1.0
NE2 J:GLN151 4.0 23.6 1.0
NE2 E:GLN151 4.0 21.1 1.0
NE2 V:GLN151 4.0 24.4 1.0
ND2 Q:ASN148 4.1 23.9 1.0
ND2 J:ASN148 4.1 27.4 1.0
NE2 Q:GLN151 4.1 27.2 1.0
ND2 V:ASN148 4.2 28.6 1.0
ND2 E:ASN148 4.2 31.1 1.0
CB E:ASN148 4.9 23.2 1.0
CB Q:ASN148 4.9 24.5 1.0
CB J:ASN148 4.9 27.9 1.0
CB V:ASN148 4.9 21.9 1.0

Potassium binding site 5 out of 6 in 4tod

Go back to Potassium Binding Sites List in 4tod
Potassium binding site 5 out of 6 in the 2.05A Resolution Structure of Bfrb (D34F) From Pseudomonas Aeruginosa


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 5 of 2.05A Resolution Structure of Bfrb (D34F) From Pseudomonas Aeruginosa within 5.0Å range:
probe atom residue distance (Å) B Occ
G:K201

b:19.8
occ:1.00
 OE1 I:GLN151 2.8 22.1 1.0
OE1 W:GLN151 2.8 24.7 1.0
OE1 G:GLN151 2.8 18.3 1.0
OE1 O:GLN151 2.8 20.1 1.0
OD1 O:ASN148 3.0 21.5 1.0
OD1 W:ASN148 3.0 23.9 1.0
OD1 G:ASN148 3.0 21.5 1.0
OD1 I:ASN148 3.1 23.9 1.0
O I:HOH218 3.5 41.5 1.0
CG W:ASN148 3.7 23.4 1.0
CD O:GLN151 3.7 21.9 1.0
CD G:GLN151 3.7 23.5 1.0
CD I:GLN151 3.7 22.6 1.0
CD W:GLN151 3.8 21.8 1.0
CG O:ASN148 3.8 27.0 1.0
CG I:ASN148 3.8 22.6 1.0
CG G:ASN148 3.8 23.6 1.0
NE2 O:GLN151 3.9 21.3 1.0
NE2 G:GLN151 4.0 23.6 1.0
NE2 I:GLN151 4.0 21.6 1.0
NE2 W:GLN151 4.0 20.5 1.0
ND2 W:ASN148 4.0 26.8 1.0
ND2 I:ASN148 4.1 27.2 1.0
ND2 G:ASN148 4.1 23.7 1.0
ND2 O:ASN148 4.2 23.8 1.0
CB W:ASN148 4.9 23.9 1.0
CB O:ASN148 4.9 23.0 1.0
CB I:ASN148 4.9 22.1 1.0
CB G:ASN148 4.9 20.0 1.0

Potassium binding site 6 out of 6 in 4tod

Go back to Potassium Binding Sites List in 4tod
Potassium binding site 6 out of 6 in the 2.05A Resolution Structure of Bfrb (D34F) From Pseudomonas Aeruginosa


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 6 of 2.05A Resolution Structure of Bfrb (D34F) From Pseudomonas Aeruginosa within 5.0Å range:
probe atom residue distance (Å) B Occ
N:K202

b:22.6
occ:1.00
 OE1 P:GLN151 2.8 21.5 1.0
OE1 R:GLN151 2.8 27.2 1.0
OE1 T:GLN151 2.9 21.3 1.0
OD1 P:ASN148 2.9 22.9 1.0
OE1 N:GLN151 2.9 23.3 1.0
OD1 N:ASN148 2.9 24.9 1.0
OD1 R:ASN148 2.9 27.2 1.0
OD1 T:ASN148 3.0 26.7 1.0
O T:HOH328 3.5 37.0 1.0
CG N:ASN148 3.7 30.2 1.0
CG T:ASN148 3.7 23.9 1.0
CG P:ASN148 3.8 24.8 1.0
CG R:ASN148 3.8 24.1 1.0
CD P:GLN151 3.8 24.3 1.0
CD R:GLN151 3.8 23.6 1.0
CD N:GLN151 3.8 24.2 1.0
CD T:GLN151 3.8 23.4 1.0
NE2 N:GLN151 3.9 24.4 1.0
ND2 N:ASN148 4.0 30.6 1.0
NE2 P:GLN151 4.0 23.9 1.0
NE2 R:GLN151 4.0 24.6 1.0
NE2 T:GLN151 4.1 25.9 1.0
ND2 T:ASN148 4.1 24.4 1.0
ND2 R:ASN148 4.2 28.3 1.0
ND2 P:ASN148 4.3 23.6 1.0
CB N:ASN148 4.9 27.8 1.0
CB R:ASN148 4.9 24.7 1.0
CB T:ASN148 4.9 22.8 1.0
CB P:ASN148 4.9 23.1 1.0

Reference:

H.Yao, H.Rui, R.Kumar, K.Eshelman, S.Lovell, K.P.Battaile, W.Im, M.Rivera. Concerted Motions Networking Pores and Distant Ferroxidase Centers Enable Bacterioferritin Function and Iron Traffic. Biochemistry 2015.
ISSN: ISSN 0006-2960
PubMed: 25640193
DOI: 10.1021/BI501255R
Page generated: Mon Aug 12 12:08:44 2024

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