Atomistry » Iron » PDB 7dya-7ek4 » 7eeh
Atomistry »
  Iron »
    PDB 7dya-7ek4 »
      7eeh »

Iron in PDB 7eeh: Selenomethionine Labeled Fe(II)/(Alpha)Ketoglutarate-Dependent Dioxygenase Tqal

Protein crystallography data

The structure of Selenomethionine Labeled Fe(II)/(Alpha)Ketoglutarate-Dependent Dioxygenase Tqal, PDB code: 7eeh was solved by R.Bunno, T.Mori, T.Awakawa, I.Abe, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 48.48 / 2.00
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 79.746, 99.488, 193.925, 90, 90, 90
R / Rfree (%) 23.2 / 26.1

Iron Binding Sites:

The binding sites of Iron atom in the Selenomethionine Labeled Fe(II)/(Alpha)Ketoglutarate-Dependent Dioxygenase Tqal (pdb code 7eeh). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 4 binding sites of Iron where determined in the Selenomethionine Labeled Fe(II)/(Alpha)Ketoglutarate-Dependent Dioxygenase Tqal, PDB code: 7eeh:
Jump to Iron binding site number: 1; 2; 3; 4;

Iron binding site 1 out of 4 in 7eeh

Go back to Iron Binding Sites List in 7eeh
Iron binding site 1 out of 4 in the Selenomethionine Labeled Fe(II)/(Alpha)Ketoglutarate-Dependent Dioxygenase Tqal


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Selenomethionine Labeled Fe(II)/(Alpha)Ketoglutarate-Dependent Dioxygenase Tqal within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe402

b:24.4
occ:1.00
O2 A:TRS401 2.0 32.1 1.0
OD1 A:ASP186 2.1 25.0 1.0
O A:HOH555 2.1 26.9 1.0
NE2 A:HIS253 2.1 25.8 1.0
NE2 A:HIS184 2.2 29.3 1.0
N A:TRS401 2.3 27.7 1.0
C2 A:TRS401 2.7 32.5 1.0
C A:TRS401 3.0 32.3 1.0
CD2 A:HIS253 3.0 27.3 1.0
CE1 A:HIS184 3.0 30.8 1.0
CG A:ASP186 3.1 26.8 1.0
CE1 A:HIS253 3.2 26.1 1.0
CD2 A:HIS184 3.2 26.0 1.0
OD2 A:ASP186 3.4 25.6 1.0
C1 A:TRS401 3.7 34.7 1.0
O1 A:TRS401 4.1 42.3 1.0
CG A:HIS253 4.2 27.6 1.0
ND1 A:HIS184 4.2 30.9 1.0
ND1 A:HIS253 4.2 27.9 1.0
CG A:HIS184 4.3 28.8 1.0
C3 A:TRS401 4.3 33.5 1.0
CB A:ASP186 4.5 23.8 1.0
OE1 A:GLU181 4.7 49.8 1.0
N A:ASP186 4.9 24.2 1.0
CA A:ASP186 4.9 23.1 1.0

Iron binding site 2 out of 4 in 7eeh

Go back to Iron Binding Sites List in 7eeh
Iron binding site 2 out of 4 in the Selenomethionine Labeled Fe(II)/(Alpha)Ketoglutarate-Dependent Dioxygenase Tqal


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Selenomethionine Labeled Fe(II)/(Alpha)Ketoglutarate-Dependent Dioxygenase Tqal within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe402

b:24.3
occ:1.00
O3 B:TRS401 1.7 34.8 1.0
OD1 B:ASP186 2.1 22.9 1.0
NE2 B:HIS253 2.1 26.1 1.0
NE2 B:HIS184 2.2 25.9 1.0
N B:TRS401 2.2 26.4 1.0
O B:HOH538 2.3 27.3 1.0
C3 B:TRS401 2.7 32.0 1.0
C B:TRS401 2.8 35.1 1.0
CG B:ASP186 3.0 23.6 1.0
CD2 B:HIS253 3.1 25.7 1.0
CD2 B:HIS184 3.1 27.3 1.0
CE1 B:HIS253 3.1 26.3 1.0
CE1 B:HIS184 3.2 29.5 1.0
OD2 B:ASP186 3.3 26.0 1.0
C1 B:TRS401 3.4 45.7 1.0
O1 B:TRS401 3.7 49.4 1.0
CG B:HIS253 4.2 25.4 1.0
ND1 B:HIS253 4.2 25.6 1.0
C2 B:TRS401 4.2 39.9 1.0
CG B:HIS184 4.3 28.9 1.0
ND1 B:HIS184 4.3 31.8 1.0
CB B:ASP186 4.4 21.3 1.0
CE1 B:PHE275 4.8 21.9 1.0
OE1 B:GLU181 4.8 46.4 1.0
CA B:ASP186 4.8 21.9 1.0
N B:ASP186 4.9 23.3 1.0

Iron binding site 3 out of 4 in 7eeh

Go back to Iron Binding Sites List in 7eeh
Iron binding site 3 out of 4 in the Selenomethionine Labeled Fe(II)/(Alpha)Ketoglutarate-Dependent Dioxygenase Tqal


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Selenomethionine Labeled Fe(II)/(Alpha)Ketoglutarate-Dependent Dioxygenase Tqal within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe402

b:26.8
occ:1.00
NE2 C:HIS184 2.1 28.5 1.0
OD1 C:ASP186 2.1 24.6 1.0
NE2 C:HIS253 2.2 25.1 1.0
O C:HOH520 2.2 28.9 1.0
O1 C:TRS401 2.2 27.0 1.0
N C:TRS401 2.4 32.4 1.0
C1 C:TRS401 2.9 45.2 1.0
CE1 C:HIS184 3.0 29.6 1.0
CD2 C:HIS253 3.0 28.2 1.0
CG C:ASP186 3.1 26.4 1.0
CD2 C:HIS184 3.1 27.5 1.0
C C:TRS401 3.1 47.1 1.0
CE1 C:HIS253 3.2 26.6 1.0
OD2 C:ASP186 3.3 27.3 1.0
O2 C:TRS401 3.7 45.4 1.0
C2 C:TRS401 3.8 44.5 1.0
ND1 C:HIS184 4.1 28.3 1.0
CG C:HIS253 4.2 25.8 1.0
CG C:HIS184 4.2 29.8 1.0
ND1 C:HIS253 4.3 25.7 1.0
CB C:ASP186 4.5 21.6 1.0
C3 C:TRS401 4.5 50.1 1.0
OE1 C:GLU181 4.5 45.7 1.0
CE1 C:PHE275 4.9 25.3 1.0
CA C:ASP186 4.9 25.7 1.0
N C:ASP186 5.0 24.9 1.0

Iron binding site 4 out of 4 in 7eeh

Go back to Iron Binding Sites List in 7eeh
Iron binding site 4 out of 4 in the Selenomethionine Labeled Fe(II)/(Alpha)Ketoglutarate-Dependent Dioxygenase Tqal


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Selenomethionine Labeled Fe(II)/(Alpha)Ketoglutarate-Dependent Dioxygenase Tqal within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Fe402

b:23.0
occ:1.00
O2 D:TRS401 2.0 31.1 1.0
NE2 D:HIS184 2.1 26.1 1.0
NE2 D:HIS253 2.1 23.9 1.0
OD1 D:ASP186 2.1 23.6 1.0
O D:HOH549 2.2 27.3 1.0
N D:TRS401 2.2 24.6 1.0
C2 D:TRS401 2.7 31.1 1.0
C D:TRS401 2.9 30.9 1.0
CD2 D:HIS253 3.0 26.3 1.0
CD2 D:HIS184 3.0 26.6 1.0
CE1 D:HIS184 3.1 26.7 1.0
CE1 D:HIS253 3.1 22.6 1.0
CG D:ASP186 3.1 24.5 1.0
OD2 D:ASP186 3.4 25.1 1.0
C1 D:TRS401 3.7 38.0 1.0
ND1 D:HIS184 4.2 28.6 1.0
ND1 D:HIS253 4.2 24.9 1.0
CG D:HIS253 4.2 26.4 1.0
CG D:HIS184 4.2 29.1 1.0
C3 D:TRS401 4.2 33.6 1.0
O1 D:TRS401 4.4 43.6 1.0
OE1 D:GLU181 4.5 41.7 1.0
CB D:ASP186 4.5 20.9 1.0
CA D:ASP186 4.9 22.1 1.0
N D:ASP186 5.0 19.6 1.0
OE2 D:GLU181 5.0 45.0 1.0

Reference:

I.Abe, R.Bunno, T.Awakawa, T.Mori. Aziridine Formation By A Fe(II)/ Alpha-Ketoglutarate Dependent Oxygenase and 2-Aminoisobutyrate Biosynthesis in Fungi. Angew.Chem.Int.Ed.Engl. 2021.
ISSN: ESSN 1521-3773
PubMed: 33973699
DOI: 10.1002/ANIE.202104644
Page generated: Thu Aug 8 05:04:14 2024

Last articles

Ca in 5HYA
Ca in 5HXH
Ca in 5HXM
Ca in 5HUK
Ca in 5HXC
Ca in 5HUM
Ca in 5HUR
Ca in 5HUG
Ca in 5HUN
Ca in 5HSQ
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy