Atomistry » Iron » PDB 1h5g-1hdb » 1hcm
Atomistry »
  Iron »
    PDB 1h5g-1hdb »
      1hcm »

Iron in PDB 1hcm: Cytochrome CD1 Nitrite Reductase, Oxidised From From Tetragonal Crystals

Protein crystallography data

The structure of Cytochrome CD1 Nitrite Reductase, Oxidised From From Tetragonal Crystals, PDB code: 1hcm was solved by T.Sjogren, J.Hajdu, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 30.00 / 2.50
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 128.305, 128.305, 264.825, 90.00, 90.00, 90.00
R / Rfree (%) 22.6 / 25.8

Iron Binding Sites:

The binding sites of Iron atom in the Cytochrome CD1 Nitrite Reductase, Oxidised From From Tetragonal Crystals (pdb code 1hcm). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 4 binding sites of Iron where determined in the Cytochrome CD1 Nitrite Reductase, Oxidised From From Tetragonal Crystals, PDB code: 1hcm:
Jump to Iron binding site number: 1; 2; 3; 4;

Iron binding site 1 out of 4 in 1hcm

Go back to Iron Binding Sites List in 1hcm
Iron binding site 1 out of 4 in the Cytochrome CD1 Nitrite Reductase, Oxidised From From Tetragonal Crystals


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Cytochrome CD1 Nitrite Reductase, Oxidised From From Tetragonal Crystals within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe601

b:23.2
occ:1.00
FE A:HEC601 0.0 23.2 1.0
ND A:HEC601 2.0 19.9 1.0
NB A:HEC601 2.0 19.5 1.0
NA A:HEC601 2.0 22.8 1.0
NC A:HEC601 2.0 23.2 1.0
NE2 A:HIS69 2.1 22.9 1.0
SD A:MET106 2.2 30.0 1.0
C4D A:HEC601 3.0 23.6 1.0
C1D A:HEC601 3.0 21.0 1.0
C1B A:HEC601 3.0 22.5 1.0
C4B A:HEC601 3.0 24.1 1.0
C4A A:HEC601 3.0 22.4 1.0
C4C A:HEC601 3.1 22.2 1.0
C1A A:HEC601 3.1 23.2 1.0
C1C A:HEC601 3.1 21.5 1.0
CE1 A:HIS69 3.1 20.5 1.0
CD2 A:HIS69 3.1 21.8 1.0
CG A:MET106 3.4 24.6 1.0
CHD A:HEC601 3.4 22.3 1.0
CHB A:HEC601 3.4 24.6 1.0
CE A:MET106 3.4 24.8 1.0
CHA A:HEC601 3.4 21.6 1.0
CHC A:HEC601 3.4 22.9 1.0
CB A:MET106 3.9 28.2 1.0
ND1 A:HIS69 4.2 24.8 1.0
C3D A:HEC601 4.2 22.8 1.0
C2D A:HEC601 4.2 21.2 1.0
C2B A:HEC601 4.3 23.5 1.0
C3B A:HEC601 4.3 22.9 1.0
C3C A:HEC601 4.3 23.1 1.0
C3A A:HEC601 4.3 22.9 1.0
CG A:HIS69 4.3 24.1 1.0
C2A A:HEC601 4.3 23.1 1.0
C2C A:HEC601 4.3 22.5 1.0
CA A:MET106 4.6 27.9 1.0

Iron binding site 2 out of 4 in 1hcm

Go back to Iron Binding Sites List in 1hcm
Iron binding site 2 out of 4 in the Cytochrome CD1 Nitrite Reductase, Oxidised From From Tetragonal Crystals


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Cytochrome CD1 Nitrite Reductase, Oxidised From From Tetragonal Crystals within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe602

b:29.1
occ:1.00
FE A:DHE602 0.0 29.1 1.0
O2 A:SO4603 2.0 63.7 1.0
NC A:DHE602 2.0 32.2 1.0
ND A:DHE602 2.0 31.8 1.0
NA A:DHE602 2.0 28.7 1.0
NB A:DHE602 2.1 31.8 1.0
NE2 A:HIS200 2.1 21.8 1.0
CE1 A:HIS200 2.9 24.5 1.0
C4C A:DHE602 3.1 32.9 1.0
C1D A:DHE602 3.1 32.3 1.0
C4A A:DHE602 3.1 27.8 1.0
C1C A:DHE602 3.1 33.6 1.0
C1A A:DHE602 3.1 29.4 1.0
C4B A:DHE602 3.1 32.2 1.0
C4D A:DHE602 3.1 30.5 1.0
C1B A:DHE602 3.1 31.2 1.0
CD2 A:HIS200 3.3 26.4 1.0
S A:SO4603 3.4 66.9 1.0
CHD A:DHE602 3.4 32.3 1.0
CHC A:DHE602 3.4 32.3 1.0
CHB A:DHE602 3.4 30.2 1.0
CHA A:DHE602 3.5 30.4 1.0
O3 A:SO4603 4.0 64.5 1.0
ND1 A:HIS200 4.1 23.1 1.0
O1 A:SO4603 4.2 66.7 1.0
C2A A:DHE602 4.3 29.7 1.0
C3A A:DHE602 4.3 29.5 1.0
C3C A:DHE602 4.3 34.2 1.0
C2C A:DHE602 4.3 33.4 1.0
C2D A:DHE602 4.3 32.8 1.0
C3D A:DHE602 4.3 30.8 1.0
C2B A:DHE602 4.3 31.9 1.0
C3B A:DHE602 4.3 33.6 1.0
CG A:HIS200 4.4 25.2 1.0
O4 A:SO4603 4.4 65.3 1.0
NH2 A:ARG216 4.6 26.8 1.0
O2B A:DHE602 4.9 33.8 1.0
CGB A:DHE602 4.9 32.4 1.0

Iron binding site 3 out of 4 in 1hcm

Go back to Iron Binding Sites List in 1hcm
Iron binding site 3 out of 4 in the Cytochrome CD1 Nitrite Reductase, Oxidised From From Tetragonal Crystals


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Cytochrome CD1 Nitrite Reductase, Oxidised From From Tetragonal Crystals within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe601

b:28.0
occ:1.00
FE B:HEC601 0.0 28.0 1.0
ND B:HEC601 2.0 31.0 1.0
NA B:HEC601 2.0 32.7 1.0
NE2 B:HIS69 2.0 24.2 1.0
NB B:HEC601 2.0 31.3 1.0
NC B:HEC601 2.0 31.5 1.0
SD B:MET106 2.1 32.1 1.0
CE1 B:HIS69 2.9 24.2 1.0
C1D B:HEC601 3.0 30.8 1.0
C4D B:HEC601 3.0 32.1 1.0
C4A B:HEC601 3.0 32.0 1.0
C1A B:HEC601 3.0 32.4 1.0
C1B B:HEC601 3.1 31.8 1.0
C4C B:HEC601 3.1 30.1 1.0
C4B B:HEC601 3.1 31.6 1.0
C1C B:HEC601 3.1 30.2 1.0
CD2 B:HIS69 3.1 27.2 1.0
CE B:MET106 3.3 35.1 1.0
CHA B:HEC601 3.4 31.2 1.0
CG B:MET106 3.4 35.9 1.0
CHB B:HEC601 3.4 31.5 1.0
CHD B:HEC601 3.4 30.4 1.0
CHC B:HEC601 3.5 31.4 1.0
CB B:MET106 4.0 36.3 1.0
ND1 B:HIS69 4.1 24.1 1.0
CG B:HIS69 4.2 27.5 1.0
C3D B:HEC601 4.2 30.9 1.0
C2D B:HEC601 4.2 31.9 1.0
C2A B:HEC601 4.3 33.4 1.0
C3A B:HEC601 4.3 33.4 1.0
C3C B:HEC601 4.3 30.0 1.0
C3B B:HEC601 4.3 31.4 1.0
C2B B:HEC601 4.3 31.8 1.0
C2C B:HEC601 4.3 29.9 1.0
CA B:MET106 4.7 36.8 1.0

Iron binding site 4 out of 4 in 1hcm

Go back to Iron Binding Sites List in 1hcm
Iron binding site 4 out of 4 in the Cytochrome CD1 Nitrite Reductase, Oxidised From From Tetragonal Crystals


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Cytochrome CD1 Nitrite Reductase, Oxidised From From Tetragonal Crystals within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe602

b:29.1
occ:1.00
FE B:DHE602 0.0 29.1 1.0
O1 B:SO4603 2.0 70.5 1.0
NC B:DHE602 2.0 31.7 1.0
NB B:DHE602 2.0 33.7 1.0
ND B:DHE602 2.1 31.1 1.0
NA B:DHE602 2.1 30.4 1.0
NE2 B:HIS200 2.1 25.4 1.0
CE1 B:HIS200 3.0 26.9 1.0
C1B B:DHE602 3.1 33.2 1.0
C1D B:DHE602 3.1 29.9 1.0
C1C B:DHE602 3.1 32.9 1.0
C4C B:DHE602 3.1 32.5 1.0
C4B B:DHE602 3.1 35.7 1.0
C4A B:DHE602 3.1 29.6 1.0
C1A B:DHE602 3.1 29.4 1.0
C4D B:DHE602 3.1 28.5 1.0
CD2 B:HIS200 3.3 25.5 1.0
CHC B:DHE602 3.4 33.7 1.0
CHB B:DHE602 3.4 31.8 1.0
S B:SO4603 3.5 72.1 1.0
CHD B:DHE602 3.5 31.1 1.0
CHA B:DHE602 3.5 29.0 1.0
O3 B:SO4603 4.0 71.9 1.0
ND1 B:HIS200 4.2 24.4 1.0
O4 B:SO4603 4.3 71.2 1.0
O2 B:SO4603 4.3 70.9 1.0
C2B B:DHE602 4.3 34.9 1.0
C3A B:DHE602 4.3 29.1 1.0
C2A B:DHE602 4.3 28.7 1.0
C3B B:DHE602 4.3 37.9 1.0
C2C B:DHE602 4.3 33.4 1.0
C2D B:DHE602 4.3 28.8 1.0
C3D B:DHE602 4.3 28.6 1.0
C3C B:DHE602 4.3 32.6 1.0
CG B:HIS200 4.4 27.9 1.0
NH2 B:ARG216 4.7 38.2 1.0
CGB B:DHE602 4.9 39.6 1.0
O2B B:DHE602 4.9 43.3 1.0
O2C B:DHE602 5.0 39.7 1.0

Reference:

T.Sjogren, J.Hajdu. The Structure of An Alternative Form of Paracoccus Pantotrophus Cytochrome CD1 Nitrite Reductase J.Biol.Chem. V. 276 29450 2001.
ISSN: ISSN 0021-9258
PubMed: 11373294
DOI: 10.1074/JBC.M103657200
Page generated: Sat Aug 3 07:24:49 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