Atomistry » Iron » PDB 1d06-1dj5 » 1d4e
Atomistry »
  Iron »
    PDB 1d06-1dj5 »
      1d4e »

Iron in PDB 1d4e: Crystal Structure of the Flavocytochrome C Fumarate Reductase of Shewanella Putrefaciens Strain Mr-1 Complexed with Fumarate

Enzymatic activity of Crystal Structure of the Flavocytochrome C Fumarate Reductase of Shewanella Putrefaciens Strain Mr-1 Complexed with Fumarate

All present enzymatic activity of Crystal Structure of the Flavocytochrome C Fumarate Reductase of Shewanella Putrefaciens Strain Mr-1 Complexed with Fumarate:
1.3.99.1;

Protein crystallography data

The structure of Crystal Structure of the Flavocytochrome C Fumarate Reductase of Shewanella Putrefaciens Strain Mr-1 Complexed with Fumarate, PDB code: 1d4e was solved by D.Leys, A.S.Tsapin, T.E.Meyer, M.A.Cusanovich, J.J.Van Beeumen, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 10.00 / 2.80
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 73.080, 73.080, 216.200, 90.00, 90.00, 90.00
R / Rfree (%) 24.3 / 31.1

Iron Binding Sites:

The binding sites of Iron atom in the Crystal Structure of the Flavocytochrome C Fumarate Reductase of Shewanella Putrefaciens Strain Mr-1 Complexed with Fumarate (pdb code 1d4e). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 4 binding sites of Iron where determined in the Crystal Structure of the Flavocytochrome C Fumarate Reductase of Shewanella Putrefaciens Strain Mr-1 Complexed with Fumarate, PDB code: 1d4e:
Jump to Iron binding site number: 1; 2; 3; 4;

Iron binding site 1 out of 4 in 1d4e

Go back to Iron Binding Sites List in 1d4e
Iron binding site 1 out of 4 in the Crystal Structure of the Flavocytochrome C Fumarate Reductase of Shewanella Putrefaciens Strain Mr-1 Complexed with Fumarate


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Crystal Structure of the Flavocytochrome C Fumarate Reductase of Shewanella Putrefaciens Strain Mr-1 Complexed with Fumarate within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe601

b:33.3
occ:1.00
 FE A:HEM601 0.0 33.3 1.0
NE2 A:HIS63 1.9 17.9 1.0
ND A:HEM601 2.0 35.0 1.0
NA A:HEM601 2.0 38.6 1.0
NB A:HEM601 2.0 36.0 1.0
NC A:HEM601 2.0 32.4 1.0
NE2 A:HIS88 2.0 23.5 1.0
CE1 A:HIS63 2.6 20.1 1.0
CE1 A:HIS88 2.8 23.5 1.0
C4D A:HEM601 3.0 36.1 1.0
C1D A:HEM601 3.0 35.2 1.0
C1B A:HEM601 3.0 37.0 1.0
C1A A:HEM601 3.0 39.9 1.0
C1C A:HEM601 3.0 31.8 1.0
C4A A:HEM601 3.0 39.4 1.0
C4C A:HEM601 3.1 29.6 1.0
C4B A:HEM601 3.1 35.5 1.0
CD2 A:HIS63 3.1 20.1 1.0
CD2 A:HIS88 3.2 24.8 1.0
CHA A:HEM601 3.3 38.1 1.0
CHC A:HEM601 3.4 33.1 1.0
CHB A:HEM601 3.4 37.9 1.0
CHD A:HEM601 3.4 32.0 1.0
ND1 A:HIS63 3.8 21.4 1.0
ND1 A:HIS88 4.0 25.0 1.0
CG A:HIS63 4.1 21.1 1.0
C3D A:HEM601 4.2 35.8 1.0
C2D A:HEM601 4.2 34.8 1.0
CG A:HIS88 4.2 25.5 1.0
C3C A:HEM601 4.2 29.2 1.0
C2A A:HEM601 4.2 41.1 1.0
C3A A:HEM601 4.3 40.4 1.0
C3B A:HEM601 4.3 35.6 1.0
C2C A:HEM601 4.3 30.6 1.0
C2B A:HEM601 4.3 37.2 1.0

Iron binding site 2 out of 4 in 1d4e

Go back to Iron Binding Sites List in 1d4e
Iron binding site 2 out of 4 in the Crystal Structure of the Flavocytochrome C Fumarate Reductase of Shewanella Putrefaciens Strain Mr-1 Complexed with Fumarate


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Crystal Structure of the Flavocytochrome C Fumarate Reductase of Shewanella Putrefaciens Strain Mr-1 Complexed with Fumarate within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe602

b:20.7
occ:1.00
 FE A:HEM602 0.0 20.7 1.0
NE2 A:HIS60 1.9 20.7 1.0
NC A:HEM602 2.0 23.3 1.0
ND A:HEM602 2.0 24.5 1.0
NB A:HEM602 2.0 19.8 1.0
NA A:HEM602 2.0 23.3 1.0
NE2 A:HIS74 2.1 23.1 1.0
CD2 A:HIS60 2.8 23.3 1.0
CD2 A:HIS74 2.9 23.7 1.0
C4B A:HEM602 3.0 18.9 1.0
C4D A:HEM602 3.0 27.9 1.0
C1C A:HEM602 3.0 22.4 1.0
C1D A:HEM602 3.0 25.4 1.0
CE1 A:HIS60 3.0 22.4 1.0
C4C A:HEM602 3.0 23.7 1.0
C1B A:HEM602 3.0 19.8 1.0
C1A A:HEM602 3.1 22.7 1.0
C4A A:HEM602 3.1 22.9 1.0
CE1 A:HIS74 3.2 25.3 1.0
CHD A:HEM602 3.4 25.4 1.0
CHC A:HEM602 3.4 19.9 1.0
CHA A:HEM602 3.4 25.5 1.0
CHB A:HEM602 3.4 21.8 1.0
CG A:HIS60 4.0 24.9 1.0
ND1 A:HIS60 4.1 24.2 1.0
CG A:HIS74 4.1 23.8 1.0
ND1 A:HIS74 4.2 25.5 1.0
C2D A:HEM602 4.2 27.7 1.0
C3B A:HEM602 4.2 18.2 1.0
C2C A:HEM602 4.2 22.7 1.0
C3D A:HEM602 4.2 29.9 1.0
C3C A:HEM602 4.2 22.5 1.0
C2B A:HEM602 4.3 19.0 1.0
C2A A:HEM602 4.3 22.8 1.0
C3A A:HEM602 4.3 23.4 1.0

Iron binding site 3 out of 4 in 1d4e

Go back to Iron Binding Sites List in 1d4e
Iron binding site 3 out of 4 in the Crystal Structure of the Flavocytochrome C Fumarate Reductase of Shewanella Putrefaciens Strain Mr-1 Complexed with Fumarate


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Crystal Structure of the Flavocytochrome C Fumarate Reductase of Shewanella Putrefaciens Strain Mr-1 Complexed with Fumarate within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe603

b:43.4
occ:1.00
 FE A:HEM603 0.0 43.4 1.0
NE2 A:HIS19 1.9 28.1 1.0
NE2 A:HIS77 2.0 31.4 1.0
ND A:HEM603 2.0 44.6 1.0
NA A:HEM603 2.0 47.6 1.0
NC A:HEM603 2.0 44.3 1.0
NB A:HEM603 2.0 48.0 1.0
CE1 A:HIS19 2.8 30.7 1.0
CD2 A:HIS19 2.9 30.2 1.0
CE1 A:HIS77 2.9 33.9 1.0
CD2 A:HIS77 3.0 33.3 1.0
C4A A:HEM603 3.0 49.7 1.0
C4D A:HEM603 3.0 44.5 1.0
C1D A:HEM603 3.0 43.2 1.0
C4C A:HEM603 3.0 42.6 1.0
C1A A:HEM603 3.0 48.0 1.0
C1B A:HEM603 3.0 49.4 1.0
C1C A:HEM603 3.1 44.2 1.0
C4B A:HEM603 3.1 48.7 1.0
CHD A:HEM603 3.4 43.2 1.0
CHA A:HEM603 3.4 46.4 1.0
CHB A:HEM603 3.4 50.1 1.0
CHC A:HEM603 3.5 46.3 1.0
ND1 A:HIS19 3.9 32.1 1.0
CG A:HIS19 4.0 31.2 1.0
ND1 A:HIS77 4.1 33.6 1.0
CG A:HIS77 4.1 34.2 1.0
C3A A:HEM603 4.2 50.0 1.0
C2A A:HEM603 4.2 50.8 1.0
C3D A:HEM603 4.2 43.3 1.0
C2D A:HEM603 4.2 42.4 1.0
C3C A:HEM603 4.2 41.8 1.0
C2C A:HEM603 4.3 43.2 1.0
C3B A:HEM603 4.3 50.7 1.0
C2B A:HEM603 4.3 51.0 1.0

Iron binding site 4 out of 4 in 1d4e

Go back to Iron Binding Sites List in 1d4e
Iron binding site 4 out of 4 in the Crystal Structure of the Flavocytochrome C Fumarate Reductase of Shewanella Putrefaciens Strain Mr-1 Complexed with Fumarate


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Crystal Structure of the Flavocytochrome C Fumarate Reductase of Shewanella Putrefaciens Strain Mr-1 Complexed with Fumarate within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe604

b:28.0
occ:1.00
 FE A:HEM604 0.0 28.0 1.0
NA A:HEM604 2.0 29.2 1.0
NC A:HEM604 2.0 27.3 1.0
NB A:HEM604 2.0 28.1 1.0
NE2 A:HIS9 2.0 34.5 1.0
ND A:HEM604 2.0 30.1 1.0
NE2 A:HIS42 2.1 15.8 1.0
CE1 A:HIS9 2.7 35.5 1.0
C1A A:HEM604 3.0 30.4 1.0
C4C A:HEM604 3.0 28.3 1.0
C1C A:HEM604 3.0 27.2 1.0
C4A A:HEM604 3.0 30.1 1.0
C1B A:HEM604 3.0 27.1 1.0
CE1 A:HIS42 3.0 16.4 1.0
C4B A:HEM604 3.1 27.2 1.0
C4D A:HEM604 3.1 30.9 1.0
C1D A:HEM604 3.1 30.1 1.0
CD2 A:HIS42 3.2 17.0 1.0
CD2 A:HIS9 3.2 37.3 1.0
CHB A:HEM604 3.3 28.8 1.0
CHD A:HEM604 3.4 30.3 1.0
CHA A:HEM604 3.4 30.6 1.0
CHC A:HEM604 3.4 27.3 1.0
ND1 A:HIS9 3.9 37.8 1.0
CG A:HIS9 4.2 40.2 1.0
ND1 A:HIS42 4.2 16.6 1.0
C3C A:HEM604 4.2 27.7 1.0
C2C A:HEM604 4.2 27.6 1.0
C2A A:HEM604 4.2 32.3 1.0
C2B A:HEM604 4.2 26.0 1.0
C3A A:HEM604 4.2 31.4 1.0
C3B A:HEM604 4.2 25.7 1.0
CG A:HIS42 4.3 17.4 1.0
C2D A:HEM604 4.3 30.2 1.0
C3D A:HEM604 4.3 30.1 1.0

Reference:

D.Leys, A.S.Tsapin, K.H.Nealson, T.E.Meyer, M.A.Cusanovich, J.J.Van Beeumen. Structure and Mechanism of the Flavocytochrome C Fumarate Reductase of Shewanella Putrefaciens Mr-1. Nat.Struct.Biol. V. 6 1113 1999.
ISSN: ISSN 1072-8368
PubMed: 10581551
DOI: 10.1038/70051
Page generated: Wed Jul 16 13:10:31 2025

Last articles

Mg in 1ILX
Mg in 1IR1
Mg in 1IR3
Mg in 1IQC
Mg in 1IBL
Mg in 1IPW
Mg in 1IQ8
Mg in 1IPP
Mg in 1IOW
Mg in 1IBM
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy