Atomistry » Fluorine » PDB 1jdj-1mkd » 1jz2
Atomistry »
  Fluorine »
    PDB 1jdj-1mkd »
      1jz2 »

Fluorine in PDB 1jz2: E. Coli (Lacz) Beta-Galactosidase-Trapped 2-F-Galactosyl- Enzyme Intermediate (Orthorhombic)

Enzymatic activity of E. Coli (Lacz) Beta-Galactosidase-Trapped 2-F-Galactosyl- Enzyme Intermediate (Orthorhombic)

All present enzymatic activity of E. Coli (Lacz) Beta-Galactosidase-Trapped 2-F-Galactosyl- Enzyme Intermediate (Orthorhombic):
3.2.1.23;

Protein crystallography data

The structure of E. Coli (Lacz) Beta-Galactosidase-Trapped 2-F-Galactosyl- Enzyme Intermediate (Orthorhombic), PDB code: 1jz2 was solved by D.H.Juers, J.D.Mccarter, L.Mackenzie, S.G.Withers, B.W.Matthews, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 27.60 / 2.10
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 151.500, 167.700, 201.600, 90.00, 90.00, 90.00
R / Rfree (%) 16.7 / 27

Other elements in 1jz2:

The structure of E. Coli (Lacz) Beta-Galactosidase-Trapped 2-F-Galactosyl- Enzyme Intermediate (Orthorhombic) also contains other interesting chemical elements:

Magnesium (Mg) 8 atoms
Sodium (Na) 12 atoms

Fluorine Binding Sites:

The binding sites of Fluorine atom in the E. Coli (Lacz) Beta-Galactosidase-Trapped 2-F-Galactosyl- Enzyme Intermediate (Orthorhombic) (pdb code 1jz2). This binding sites where shown within 5.0 Angstroms radius around Fluorine atom.
In total 4 binding sites of Fluorine where determined in the E. Coli (Lacz) Beta-Galactosidase-Trapped 2-F-Galactosyl- Enzyme Intermediate (Orthorhombic), PDB code: 1jz2:
Jump to Fluorine binding site number: 1; 2; 3; 4;

Fluorine binding site 1 out of 4 in 1jz2

Go back to Fluorine Binding Sites List in 1jz2
Fluorine binding site 1 out of 4 in the E. Coli (Lacz) Beta-Galactosidase-Trapped 2-F-Galactosyl- Enzyme Intermediate (Orthorhombic)


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 1 of E. Coli (Lacz) Beta-Galactosidase-Trapped 2-F-Galactosyl- Enzyme Intermediate (Orthorhombic) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F2001

b:28.6
occ:1.00
 F2 A:2FG2001 0.0 28.6 1.0
C2 A:2FG2001 1.4 26.8 1.0
C1 A:2FG2001 2.4 25.7 1.0
C3 A:2FG2001 2.4 23.0 1.0
OE1 A:GLU537 2.7 33.4 1.0
O3 A:2FG2001 2.8 29.4 1.0
OE2 A:GLU537 2.9 19.1 1.0
ND2 A:ASN460 3.0 21.2 1.0
CD A:GLU537 3.0 34.2 1.0
OD1 A:ASN460 3.2 21.9 1.0
OE1 A:GLU461 3.3 22.0 1.0
NE2 A:HIS391 3.3 21.1 1.0
CE1 A:HIS391 3.3 20.2 1.0
CG A:ASN460 3.4 28.9 1.0
CD A:GLU461 3.5 33.0 1.0
O5 A:2FG2001 3.5 20.8 1.0
C4 A:2FG2001 3.8 19.1 1.0
CE A:MET502 3.9 15.7 1.0
OE2 A:GLU461 3.9 15.7 1.0
CG A:GLU461 4.1 17.9 1.0
C5 A:2FG2001 4.1 22.1 1.0
O A:HOH8517 4.1 14.0 1.0
O4 A:2FG2001 4.2 14.7 1.0
CD2 A:HIS391 4.3 17.5 1.0
CG A:GLU537 4.3 17.2 1.0
ND1 A:HIS391 4.3 16.6 1.0
CZ3 A:TRP568 4.4 27.1 1.0
CH2 A:TRP568 4.7 29.4 1.0
O A:HOH8975 4.7 23.0 1.0
SD A:MET502 4.7 24.0 1.0
NH1 A:ARG388 4.8 14.5 1.0
CE3 A:TRP568 4.9 18.7 1.0
CG A:HIS391 4.9 20.6 1.0
MG A:MG3001 4.9 26.8 1.0
CB A:ASN460 4.9 13.6 1.0

Fluorine binding site 2 out of 4 in 1jz2

Go back to Fluorine Binding Sites List in 1jz2
Fluorine binding site 2 out of 4 in the E. Coli (Lacz) Beta-Galactosidase-Trapped 2-F-Galactosyl- Enzyme Intermediate (Orthorhombic)


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 2 of E. Coli (Lacz) Beta-Galactosidase-Trapped 2-F-Galactosyl- Enzyme Intermediate (Orthorhombic) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:F2001

b:29.8
occ:1.00
 F2 B:2FG2001 0.0 29.8 1.0
C2 B:2FG2001 1.4 21.2 1.0
C3 B:2FG2001 2.4 24.6 1.0
C1 B:2FG2001 2.4 23.5 1.0
O3 B:2FG2001 2.8 17.6 1.0
ND2 B:ASN460 2.9 17.8 1.0
OE1 B:GLU537 2.9 50.0 1.0
OE2 B:GLU537 3.1 23.8 1.0
CD B:GLU537 3.2 26.5 1.0
NE2 B:HIS391 3.2 22.6 1.0
OE1 B:GLU461 3.2 31.0 1.0
OD1 B:ASN460 3.3 22.2 1.0
CE1 B:HIS391 3.4 21.9 1.0
CG B:ASN460 3.5 26.8 1.0
CD B:GLU461 3.5 14.7 1.0
O5 B:2FG2001 3.6 25.9 1.0
C4 B:2FG2001 3.7 29.1 1.0
OE2 B:GLU461 3.8 16.4 1.0
CE B:MET502 3.9 15.4 1.0
O B:HOH8535 4.0 16.0 1.0
O4 B:2FG2001 4.1 28.0 1.0
CG B:GLU461 4.1 17.4 1.0
C5 B:2FG2001 4.2 27.7 1.0
CD2 B:HIS391 4.3 20.2 1.0
CG B:GLU537 4.4 16.5 1.0
ND1 B:HIS391 4.5 18.7 1.0
CZ3 B:TRP568 4.6 14.6 1.0
O6 B:BTB2002 4.7 21.5 1.0
SD B:MET502 4.7 23.1 1.0
MG B:MG3001 4.7 21.4 1.0
O B:HOH8599 4.8 13.8 1.0
CH2 B:TRP568 4.9 11.5 1.0
NH1 B:ARG388 4.9 16.0 1.0
CB B:ASN460 5.0 10.7 1.0
CG B:HIS391 5.0 18.2 1.0
CE3 B:TRP568 5.0 16.4 1.0

Fluorine binding site 3 out of 4 in 1jz2

Go back to Fluorine Binding Sites List in 1jz2
Fluorine binding site 3 out of 4 in the E. Coli (Lacz) Beta-Galactosidase-Trapped 2-F-Galactosyl- Enzyme Intermediate (Orthorhombic)


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 3 of E. Coli (Lacz) Beta-Galactosidase-Trapped 2-F-Galactosyl- Enzyme Intermediate (Orthorhombic) within 5.0Å range:
probe atom residue distance (Å) B Occ
C:F2001

b:24.7
occ:1.00
 F2 C:2FG2001 0.0 24.7 1.0
C2 C:2FG2001 1.4 24.1 1.0
C1 C:2FG2001 2.4 20.9 1.0
C3 C:2FG2001 2.4 22.2 1.0
ND2 C:ASN460 2.8 16.3 1.0
O3 C:2FG2001 2.8 20.9 1.0
OE2 C:GLU537 2.9 28.1 1.0
OE1 C:GLU537 3.0 49.1 1.0
CD C:GLU537 3.2 41.0 1.0
OE1 C:GLU461 3.2 15.9 1.0
CE1 C:HIS391 3.2 24.3 1.0
OD1 C:ASN460 3.2 24.0 1.0
NE2 C:HIS391 3.3 21.0 1.0
CG C:ASN460 3.4 32.6 1.0
CD C:GLU461 3.6 26.1 1.0
O5 C:2FG2001 3.6 26.7 1.0
C4 C:2FG2001 3.8 23.1 1.0
O C:HOH8528 3.9 14.3 1.0
OE2 C:GLU461 4.0 20.2 1.0
O4 C:2FG2001 4.1 19.7 1.0
CG C:GLU461 4.1 18.7 1.0
C5 C:2FG2001 4.2 25.7 1.0
CE C:MET502 4.2 16.3 1.0
ND1 C:HIS391 4.3 21.9 1.0
CZ3 C:TRP568 4.4 15.8 1.0
CD2 C:HIS391 4.4 18.1 1.0
CG C:GLU537 4.4 19.9 1.0
CH2 C:TRP568 4.7 17.4 1.0
SD C:MET502 4.7 24.6 1.0
MG C:MG3001 4.8 23.0 1.0
O C:HOH8592 4.8 19.2 1.0
CE3 C:TRP568 4.8 20.3 1.0
O C:HOH8983 4.8 19.6 1.0
NH1 C:ARG388 4.9 20.2 1.0
CB C:ASN460 4.9 15.4 1.0
CG C:HIS391 5.0 20.8 1.0

Fluorine binding site 4 out of 4 in 1jz2

Go back to Fluorine Binding Sites List in 1jz2
Fluorine binding site 4 out of 4 in the E. Coli (Lacz) Beta-Galactosidase-Trapped 2-F-Galactosyl- Enzyme Intermediate (Orthorhombic)


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 4 of E. Coli (Lacz) Beta-Galactosidase-Trapped 2-F-Galactosyl- Enzyme Intermediate (Orthorhombic) within 5.0Å range:
probe atom residue distance (Å) B Occ
D:F2001

b:22.4
occ:1.00
 F2 D:2FG2001 0.0 22.4 1.0
C2 D:2FG2001 1.4 23.8 1.0
C1 D:2FG2001 2.3 26.4 1.0
C3 D:2FG2001 2.5 24.3 1.0
OE1 D:GLU537 2.5 36.0 1.0
OE2 D:GLU537 2.9 22.6 1.0
CD D:GLU537 2.9 30.6 1.0
ND2 D:ASN460 2.9 13.5 1.0
O3 D:2FG2001 3.0 23.8 1.0
OD1 D:ASN460 3.2 17.4 1.0
NE2 D:HIS391 3.3 23.1 1.0
CE1 D:HIS391 3.3 22.8 1.0
OE1 D:GLU461 3.4 17.7 1.0
CG D:ASN460 3.4 27.2 1.0
O5 D:2FG2001 3.5 24.0 1.0
CD D:GLU461 3.6 22.8 1.0
C4 D:2FG2001 3.8 23.2 1.0
CE D:MET502 3.9 20.3 1.0
OE2 D:GLU461 3.9 15.5 1.0
C5 D:2FG2001 4.1 24.2 1.0
O D:HOH8546 4.2 15.9 1.0
CG D:GLU461 4.2 15.6 1.0
CG D:GLU537 4.2 18.2 1.0
CZ3 D:TRP568 4.4 20.6 1.0
O4 D:2FG2001 4.4 18.5 1.0
CD2 D:HIS391 4.4 17.4 1.0
ND1 D:HIS391 4.4 24.2 1.0
NH1 D:ARG388 4.6 17.4 1.0
O D:HOH9001 4.7 16.5 1.0
SD D:MET502 4.7 25.2 1.0
CE3 D:TRP568 4.7 18.1 1.0
CH2 D:TRP568 4.7 21.8 1.0
MG D:MG3001 4.9 19.9 1.0
CB D:ASN460 4.9 18.4 1.0
CG D:HIS391 5.0 25.2 1.0

Reference:

D.H.Juers, T.D.Heightman, A.Vasella, J.D.Mccarter, L.Mackenzie, S.G.Withers, B.W.Matthews. A Structural View of the Action of Escherichia Coli (Lacz) Beta-Galactosidase Biochemistry V. 40 14781 2001.
ISSN: ISSN 0006-2960
PubMed: 11732897
DOI: 10.1021/BI011727I
Page generated: Wed Jul 31 11:41:00 2024

Last articles

Zn in 9JPJ
Zn in 9JP7
Zn in 9JPK
Zn in 9JPL
Zn in 9GN6
Zn in 9GN7
Zn in 9GKU
Zn in 9GKW
Zn in 9GKX
Zn in 9GL0
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy