Atomistry » Magnesium » PDB 7boi-7c79 » 7btk
Atomistry »
  Magnesium »
    PDB 7boi-7c79 »
      7btk »

Magnesium in PDB 7btk: E.Coli Beta-Galactosidase (E537Q) in Complex with Fluorescent Probe KSA01

Enzymatic activity of E.Coli Beta-Galactosidase (E537Q) in Complex with Fluorescent Probe KSA01

All present enzymatic activity of E.Coli Beta-Galactosidase (E537Q) in Complex with Fluorescent Probe KSA01:
3.2.1.23;

Protein crystallography data

The structure of E.Coli Beta-Galactosidase (E537Q) in Complex with Fluorescent Probe KSA01, PDB code: 7btk was solved by X.Chen, Y.L.Hu, Q.M.Liu, Y.Gao, R.Yuan, Y.Guo, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 19.87 / 2.70
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 249.832, 85.454, 243.307, 90, 94.15, 90
R / Rfree (%) 21.8 / 23.3

Other elements in 7btk:

The structure of E.Coli Beta-Galactosidase (E537Q) in Complex with Fluorescent Probe KSA01 also contains other interesting chemical elements:

Sodium (Na) 7 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the E.Coli Beta-Galactosidase (E537Q) in Complex with Fluorescent Probe KSA01 (pdb code 7btk). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 7 binding sites of Magnesium where determined in the E.Coli Beta-Galactosidase (E537Q) in Complex with Fluorescent Probe KSA01, PDB code: 7btk:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7;

Magnesium binding site 1 out of 7 in 7btk

Go back to Magnesium Binding Sites List in 7btk
Magnesium binding site 1 out of 7 in the E.Coli Beta-Galactosidase (E537Q) in Complex with Fluorescent Probe KSA01


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of E.Coli Beta-Galactosidase (E537Q) in Complex with Fluorescent Probe KSA01 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg1102

b:30.0
occ:1.00
O A:HOH1260 1.9 7.9 1.0
OE1 A:GLU416 2.0 30.5 1.0
OE2 A:GLU461 2.1 21.0 1.0
O A:HOH1384 2.2 11.9 1.0
ND1 A:HIS418 3.0 14.1 1.0
CD A:GLU416 3.0 24.8 1.0
O06 A:F6L1101 3.0 47.5 1.0
OE2 A:GLU416 3.3 25.7 1.0
CD A:GLU461 3.4 23.2 1.0
C12 A:F6L1101 3.4 49.2 1.0
O02 A:F6L1101 3.5 64.3 1.0
N A:ASP201 3.6 24.7 1.0
CB A:ASP201 3.8 22.3 1.0
CE1 A:HIS418 3.8 11.8 1.0
C11 A:F6L1101 3.9 53.7 1.0
CG A:HIS418 4.0 14.7 1.0
O A:ASP199 4.0 17.9 1.0
ND2 A:ASN460 4.1 9.0 1.0
OD1 A:ASN102 4.1 24.1 1.0
CB A:HIS418 4.2 16.1 1.0
OE1 A:GLU461 4.2 28.1 1.0
CA A:ASP201 4.3 21.1 1.0
CG A:GLU416 4.3 22.6 1.0
CG A:GLU461 4.3 18.9 1.0
CB A:GLU461 4.5 15.6 1.0
C A:GLN200 4.5 24.3 1.0
CA A:GLN200 4.5 22.8 1.0
C10 A:F6L1101 4.7 68.3 1.0
O A:ASN102 4.9 21.3 1.0
O01 A:F6L1101 5.0 71.1 1.0
O03 A:F6L1101 5.0 74.3 1.0

Magnesium binding site 2 out of 7 in 7btk

Go back to Magnesium Binding Sites List in 7btk
Magnesium binding site 2 out of 7 in the E.Coli Beta-Galactosidase (E537Q) in Complex with Fluorescent Probe KSA01


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of E.Coli Beta-Galactosidase (E537Q) in Complex with Fluorescent Probe KSA01 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg1103

b:19.7
occ:1.00
O A:ASP15 1.9 23.4 1.0
O A:VAL21 2.2 24.8 1.0
NE2 A:GLN163 2.4 18.7 1.0
OD2 A:ASP193 2.5 23.2 1.0
O A:ASN18 2.6 16.1 1.0
C A:ASP15 3.1 22.1 1.0
CG A:ASP193 3.3 24.0 1.0
CD A:GLN163 3.4 19.1 1.0
C A:VAL21 3.4 24.9 1.0
OH A:TYR161 3.4 17.0 1.0
OD1 A:ASP193 3.5 29.0 1.0
C A:ASN18 3.5 18.5 1.0
OE1 A:GLN163 3.8 20.8 1.0
CA A:TRP16 3.9 16.6 1.0
N A:ASN18 3.9 19.2 1.0
N A:TRP16 3.9 16.6 1.0
CE2 A:TYR161 4.0 14.6 1.0
CA A:ASN18 4.1 16.4 1.0
CZ A:TYR161 4.2 15.6 1.0
CA A:ASP15 4.2 23.0 1.0
CB A:VAL21 4.2 22.9 1.0
CA A:VAL21 4.2 23.0 1.0
C A:TRP16 4.2 19.4 1.0
CB A:ASN18 4.4 9.5 1.0
N A:VAL21 4.4 22.8 1.0
N A:THR22 4.4 24.6 1.0
N A:GLU17 4.5 20.0 1.0
N A:PRO19 4.5 21.1 1.0
CG1 A:VAL21 4.5 21.6 1.0
CB A:ASP15 4.6 20.4 1.0
CA A:THR22 4.6 27.6 1.0
CG A:GLN163 4.6 16.1 1.0
CA A:PRO19 4.7 20.7 1.0
CB A:ASP193 4.8 16.9 1.0
O A:TRP16 4.8 15.9 1.0

Magnesium binding site 3 out of 7 in 7btk

Go back to Magnesium Binding Sites List in 7btk
Magnesium binding site 3 out of 7 in the E.Coli Beta-Galactosidase (E537Q) in Complex with Fluorescent Probe KSA01


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of E.Coli Beta-Galactosidase (E537Q) in Complex with Fluorescent Probe KSA01 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg1102

b:26.1
occ:1.00
O B:HOH1271 2.0 8.1 1.0
OE1 B:GLU416 2.0 31.6 1.0
OE2 B:GLU461 2.1 22.1 1.0
O B:HOH1331 2.1 6.9 1.0
O06 B:F6L1101 2.6 49.6 1.0
ND1 B:HIS418 2.9 12.8 1.0
CD B:GLU416 3.0 27.0 1.0
OE2 B:GLU416 3.3 25.1 1.0
C12 B:F6L1101 3.4 51.3 1.0
CD B:GLU461 3.4 25.8 1.0
O02 B:F6L1101 3.5 61.1 1.0
N B:ASP201 3.7 30.1 1.0
CE1 B:HIS418 3.8 12.3 1.0
CB B:ASP201 3.8 25.5 1.0
C11 B:F6L1101 3.9 54.4 1.0
CG B:HIS418 3.9 13.8 1.0
O B:ASP199 4.0 18.8 1.0
OD1 B:ASN102 4.1 23.5 1.0
ND2 B:ASN460 4.1 11.1 1.0
CB B:HIS418 4.1 14.8 1.0
OE1 B:GLU461 4.2 26.9 1.0
CA B:ASP201 4.3 27.2 1.0
CG B:GLU461 4.3 21.4 1.0
CG B:GLU416 4.4 25.5 1.0
CB B:GLU461 4.4 15.1 1.0
C B:GLN200 4.5 28.3 1.0
CA B:GLN200 4.5 26.4 1.0
C10 B:F6L1101 4.7 69.7 1.0
O B:ASN102 4.9 25.4 1.0
NE2 B:HIS418 5.0 7.5 1.0

Magnesium binding site 4 out of 7 in 7btk

Go back to Magnesium Binding Sites List in 7btk
Magnesium binding site 4 out of 7 in the E.Coli Beta-Galactosidase (E537Q) in Complex with Fluorescent Probe KSA01


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of E.Coli Beta-Galactosidase (E537Q) in Complex with Fluorescent Probe KSA01 within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg1102

b:38.0
occ:1.00
O C:ASP15 2.0 21.2 1.0
OD2 C:ASP193 2.3 15.3 1.0
O C:VAL21 2.3 26.2 1.0
O C:ASN18 2.4 21.5 1.0
OE1 C:GLN163 2.5 27.1 1.0
CG C:ASP193 3.2 16.5 1.0
C C:ASP15 3.2 23.7 1.0
C C:ASN18 3.3 19.8 1.0
OD1 C:ASP193 3.4 20.2 1.0
C C:VAL21 3.5 21.6 1.0
CD C:GLN163 3.5 24.0 1.0
OH C:TYR161 3.6 23.6 1.0
N C:ASN18 3.7 22.1 1.0
CA C:TRP16 3.9 24.1 1.0
CA C:ASN18 3.9 21.6 1.0
NE2 C:GLN163 3.9 23.7 1.0
N C:TRP16 4.0 23.2 1.0
C C:TRP16 4.2 26.1 1.0
CB C:VAL21 4.2 18.9 1.0
CE2 C:TYR161 4.2 24.6 1.0
CB C:ASN18 4.2 19.9 1.0
CA C:VAL21 4.2 19.6 1.0
N C:PRO19 4.3 21.3 1.0
CA C:ASP15 4.3 23.6 1.0
N C:GLU17 4.3 27.8 1.0
CZ C:TYR161 4.4 23.0 1.0
N C:VAL21 4.4 21.5 1.0
N C:THR22 4.5 26.1 1.0
CA C:PRO19 4.6 21.2 1.0
CB C:ASP193 4.6 14.6 1.0
CG1 C:VAL21 4.6 18.0 1.0
O C:TRP16 4.7 24.3 1.0
CA C:THR22 4.7 24.7 1.0
CG C:GLN163 4.8 27.1 1.0
CB C:ASP15 4.8 24.3 1.0
C C:GLU17 4.8 24.1 1.0

Magnesium binding site 5 out of 7 in 7btk

Go back to Magnesium Binding Sites List in 7btk
Magnesium binding site 5 out of 7 in the E.Coli Beta-Galactosidase (E537Q) in Complex with Fluorescent Probe KSA01


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of E.Coli Beta-Galactosidase (E537Q) in Complex with Fluorescent Probe KSA01 within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg1103

b:27.0
occ:1.00
O C:HOH1206 1.9 8.9 1.0
O C:HOH1369 2.1 32.1 1.0
OE1 C:GLU416 2.1 30.6 1.0
OE2 C:GLU461 2.2 23.7 1.0
O06 C:F6L1101 2.4 56.2 1.0
CD C:GLU416 3.0 26.5 1.0
ND1 C:HIS418 3.0 25.4 1.0
C12 C:F6L1101 3.1 62.1 1.0
OE2 C:GLU416 3.2 20.4 1.0
O02 C:F6L1101 3.4 84.2 1.0
CD C:GLU461 3.5 22.4 1.0
N C:ASP201 3.6 25.0 1.0
CB C:ASP201 3.7 26.6 1.0
C11 C:F6L1101 3.7 74.3 1.0
CE1 C:HIS418 3.9 23.2 1.0
O C:ASP199 4.0 19.9 1.0
CG C:HIS418 4.0 26.1 1.0
ND2 C:ASN460 4.1 25.4 1.0
OD1 C:ASN102 4.1 30.8 1.0
CB C:HIS418 4.2 24.6 1.0
CA C:ASP201 4.2 26.5 1.0
OE1 C:GLU461 4.3 23.6 1.0
CG C:GLU416 4.3 26.1 1.0
C C:GLN200 4.4 25.4 1.0
CA C:GLN200 4.4 23.7 1.0
CG C:GLU461 4.5 18.1 1.0
C10 C:F6L1101 4.5 87.3 1.0
CB C:GLU461 4.6 15.7 1.0
O C:ASN102 4.8 28.9 1.0
O01 C:F6L1101 4.8 94.7 1.0
C C:ASP199 4.9 21.3 1.0
O03 C:F6L1101 5.0 79.0 1.0
C07 C:F6L1101 5.0 73.0 1.0

Magnesium binding site 6 out of 7 in 7btk

Go back to Magnesium Binding Sites List in 7btk
Magnesium binding site 6 out of 7 in the E.Coli Beta-Galactosidase (E537Q) in Complex with Fluorescent Probe KSA01


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of E.Coli Beta-Galactosidase (E537Q) in Complex with Fluorescent Probe KSA01 within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg1102

b:35.6
occ:1.00
O06 D:F6L1101 1.9 69.3 1.0
O D:HOH1288 2.1 22.4 1.0
O D:HOH1236 2.2 24.9 1.0
OE1 D:GLU416 2.4 24.5 1.0
OE2 D:GLU461 2.6 27.2 1.0
CD D:GLU416 3.0 25.8 1.0
OE2 D:GLU416 3.0 16.8 1.0
N D:ASP201 3.1 24.1 1.0
C12 D:F6L1101 3.2 68.9 1.0
CB D:ASP201 3.3 20.0 1.0
O02 D:F6L1101 3.6 92.1 1.0
ND1 D:HIS418 3.6 25.6 1.0
CA D:ASP201 3.8 21.6 1.0
CD D:GLU461 3.9 26.3 1.0
C11 D:F6L1101 3.9 80.0 1.0
O D:ASP199 3.9 21.7 1.0
ND2 D:ASN460 4.0 27.6 1.0
C D:GLN200 4.0 27.7 1.0
CA D:GLN200 4.1 25.9 1.0
OD1 D:ASN102 4.2 34.4 1.0
CG D:GLU416 4.4 25.4 1.0
CE1 D:HIS418 4.5 25.6 1.0
O03 D:F6L1101 4.5 99.3 1.0
O D:HOH1231 4.6 30.9 1.0
CG D:HIS418 4.6 26.1 1.0
OE1 D:GLU461 4.6 23.6 1.0
CG D:ASP201 4.6 22.5 1.0
CB D:HIS418 4.7 24.9 1.0
CG D:GLU461 4.8 21.7 1.0
C D:ASP199 4.9 20.9 1.0
O D:ASN102 4.9 29.7 1.0
NE2 D:HIS391 4.9 20.2 1.0
C07 D:F6L1101 4.9 85.6 1.0
C10 D:F6L1101 4.9 97.7 1.0
N D:GLN200 5.0 25.2 1.0
CB D:GLU461 5.0 18.7 1.0
OD2 D:ASP201 5.0 20.6 1.0

Magnesium binding site 7 out of 7 in 7btk

Go back to Magnesium Binding Sites List in 7btk
Magnesium binding site 7 out of 7 in the E.Coli Beta-Galactosidase (E537Q) in Complex with Fluorescent Probe KSA01


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of E.Coli Beta-Galactosidase (E537Q) in Complex with Fluorescent Probe KSA01 within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg1103

b:32.4
occ:1.00
O D:ASP15 2.1 24.9 1.0
OD2 D:ASP193 2.1 23.7 1.0
OE1 D:GLN163 2.4 30.3 1.0
O D:ASN18 2.4 21.1 1.0
O D:VAL21 2.5 17.0 1.0
CG D:ASP193 3.0 24.9 1.0
OD1 D:ASP193 3.2 28.6 1.0
C D:ASN18 3.2 21.3 1.0
C D:ASP15 3.3 24.0 1.0
CD D:GLN163 3.4 29.9 1.0
N D:ASN18 3.6 22.9 1.0
OH D:TYR161 3.6 26.8 1.0
C D:VAL21 3.6 17.8 1.0
NE2 D:GLN163 3.8 31.6 1.0
CA D:ASN18 3.9 21.4 1.0
CA D:TRP16 3.9 20.9 1.0
N D:TRP16 4.1 19.3 1.0
C D:TRP16 4.1 23.0 1.0
N D:PRO19 4.2 20.8 1.0
CB D:ASN18 4.3 19.4 1.0
N D:GLU17 4.3 23.4 1.0
CE2 D:TYR161 4.3 24.3 1.0
CB D:ASP193 4.4 19.2 1.0
CZ D:TYR161 4.4 24.9 1.0
CA D:VAL21 4.5 15.5 1.0
CA D:PRO19 4.5 19.6 1.0
CA D:ASP15 4.5 26.0 1.0
N D:VAL21 4.5 15.7 1.0
CB D:VAL21 4.6 14.7 1.0
O D:TRP16 4.6 20.3 1.0
N D:THR22 4.6 24.8 1.0
CG D:GLN163 4.7 28.2 1.0
C D:GLU17 4.8 21.0 1.0
CA D:THR22 4.8 27.0 1.0
CB D:ASP15 4.9 29.9 1.0
CG1 D:VAL21 4.9 15.5 1.0

Reference:

Y.Guo, Y.Gao, Y.L.Hu, Q.M.Liu, X.K.Li, X.M.Li, C.Y.Kim, T.D.James, J.Li, X.Chen. Two-Dimensional Design Strategy to Construct Smart Fluorescent Probes For the Precise Tracking of Senescence Angew.Chem.Int.Ed.Engl. 2021.
ISSN: ESSN 1521-3773
DOI: 10.1002/ANIE.202101278
Page generated: Wed Oct 2 13:34:29 2024

Last articles

Zn in 9JYW
Zn in 9IR4
Zn in 9IR3
Zn in 9GMX
Zn in 9GMW
Zn in 9JEJ
Zn in 9ERF
Zn in 9ERE
Zn in 9EGV
Zn in 9EGW
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy