Iron in PDB 7jz6: The Cryo-Em Structure of the Catalase-Peroxidase From Escherichia Coli

Enzymatic activity of The Cryo-Em Structure of the Catalase-Peroxidase From Escherichia Coli

All present enzymatic activity of The Cryo-Em Structure of the Catalase-Peroxidase From Escherichia Coli:
1.11.1.21;

Iron Binding Sites:

The binding sites of Iron atom in the The Cryo-Em Structure of the Catalase-Peroxidase From Escherichia Coli (pdb code 7jz6). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 4 binding sites of Iron where determined in the The Cryo-Em Structure of the Catalase-Peroxidase From Escherichia Coli, PDB code: 7jz6:
Jump to Iron binding site number: 1; 2; 3; 4;

Iron binding site 1 out of 4 in 7jz6

Go back to Iron Binding Sites List in 7jz6
Iron binding site 1 out of 4 in the The Cryo-Em Structure of the Catalase-Peroxidase From Escherichia Coli


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of The Cryo-Em Structure of the Catalase-Peroxidase From Escherichia Coli within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe1001

b:0.0
occ:1.00
FE A:HEM1001 0.0 0.0 1.0
NC A:HEM1001 1.9 0.0 1.0
NA A:HEM1001 2.1 0.0 1.0
ND A:HEM1001 2.1 0.0 1.0
NB A:HEM1001 2.1 0.0 1.0
NE2 A:HIS267 2.5 0.0 1.0
C4C A:HEM1001 3.0 0.0 1.0
C1C A:HEM1001 3.0 0.0 1.0
C1D A:HEM1001 3.0 0.0 1.0
C4D A:HEM1001 3.1 0.0 1.0
C1A A:HEM1001 3.1 0.0 1.0
C4A A:HEM1001 3.1 0.0 1.0
C4B A:HEM1001 3.1 0.0 1.0
C1B A:HEM1001 3.1 0.0 1.0
O A:HOH1103 3.1 0.0 1.0
CD2 A:HIS267 3.3 0.0 1.0
CHD A:HEM1001 3.4 0.0 1.0
CHA A:HEM1001 3.4 0.0 1.0
CHC A:HEM1001 3.4 0.0 1.0
CHB A:HEM1001 3.5 0.0 1.0
CE1 A:HIS267 3.5 0.0 1.0
C3C A:HEM1001 4.2 0.0 1.0
C2C A:HEM1001 4.2 0.0 1.0
C2D A:HEM1001 4.2 0.0 1.0
C3D A:HEM1001 4.3 0.0 1.0
C3A A:HEM1001 4.3 0.0 1.0
C2A A:HEM1001 4.3 0.0 1.0
C3B A:HEM1001 4.3 0.0 1.0
C2B A:HEM1001 4.3 0.0 1.0
CG A:HIS267 4.5 0.0 1.0
ND1 A:HIS267 4.6 0.0 1.0
NE1 A:TRP105 4.7 0.0 1.0
O A:HOH1105 4.7 0.0 1.0
CD1 A:TRP105 4.9 0.0 1.0
O A:HOH1102 5.0 0.0 1.0

Iron binding site 2 out of 4 in 7jz6

Go back to Iron Binding Sites List in 7jz6
Iron binding site 2 out of 4 in the The Cryo-Em Structure of the Catalase-Peroxidase From Escherichia Coli


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of The Cryo-Em Structure of the Catalase-Peroxidase From Escherichia Coli within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe1001

b:0.0
occ:1.00
FE B:HEM1001 0.0 0.0 1.0
NC B:HEM1001 1.9 0.0 1.0
ND B:HEM1001 2.1 0.0 1.0
NA B:HEM1001 2.1 0.0 1.0
NB B:HEM1001 2.1 0.0 1.0
NE2 B:HIS267 2.5 0.0 1.0
C4C B:HEM1001 3.0 0.0 1.0
C1C B:HEM1001 3.0 0.0 1.0
C1D B:HEM1001 3.0 0.0 1.0
C4D B:HEM1001 3.1 0.0 1.0
C4A B:HEM1001 3.1 0.0 1.0
C4B B:HEM1001 3.1 0.0 1.0
C1B B:HEM1001 3.1 0.0 1.0
C1A B:HEM1001 3.1 0.0 1.0
O B:HOH1102 3.1 0.0 1.0
CD2 B:HIS267 3.4 0.0 1.0
CHD B:HEM1001 3.4 0.0 1.0
CHC B:HEM1001 3.4 0.0 1.0
CHA B:HEM1001 3.4 0.0 1.0
CHB B:HEM1001 3.4 0.0 1.0
CE1 B:HIS267 3.5 0.0 1.0
C3C B:HEM1001 4.2 0.0 1.0
C2C B:HEM1001 4.2 0.0 1.0
C2D B:HEM1001 4.2 0.0 1.0
C3D B:HEM1001 4.3 0.0 1.0
C3A B:HEM1001 4.3 0.0 1.0
C3B B:HEM1001 4.3 0.0 1.0
C2B B:HEM1001 4.3 0.0 1.0
C2A B:HEM1001 4.3 0.0 1.0
CG B:HIS267 4.6 0.0 1.0
ND1 B:HIS267 4.6 0.0 1.0
NE1 B:TRP105 4.7 0.0 1.0
O B:HOH1104 4.7 0.0 1.0
CD1 B:TRP105 4.8 0.0 1.0
O B:HOH1101 5.0 0.0 1.0

Iron binding site 3 out of 4 in 7jz6

Go back to Iron Binding Sites List in 7jz6
Iron binding site 3 out of 4 in the The Cryo-Em Structure of the Catalase-Peroxidase From Escherichia Coli


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of The Cryo-Em Structure of the Catalase-Peroxidase From Escherichia Coli within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe1001

b:0.0
occ:1.00
FE C:HEM1001 0.0 0.0 1.0
NC C:HEM1001 2.0 0.0 1.0
ND C:HEM1001 2.1 0.0 1.0
NA C:HEM1001 2.1 0.0 1.0
NB C:HEM1001 2.1 0.0 1.0
NE2 C:HIS267 2.5 0.0 1.0
C4C C:HEM1001 3.0 0.0 1.0
C1C C:HEM1001 3.0 0.0 1.0
C1D C:HEM1001 3.0 0.0 1.0
C4D C:HEM1001 3.1 0.0 1.0
C4A C:HEM1001 3.1 0.0 1.0
C4B C:HEM1001 3.1 0.0 1.0
C1A C:HEM1001 3.1 0.0 1.0
C1B C:HEM1001 3.1 0.0 1.0
O C:HOH1102 3.1 0.0 1.0
CD2 C:HIS267 3.3 0.0 1.0
CHD C:HEM1001 3.4 0.0 1.0
CHC C:HEM1001 3.4 0.0 1.0
CHB C:HEM1001 3.4 0.0 1.0
CHA C:HEM1001 3.4 0.0 1.0
CE1 C:HIS267 3.5 0.0 1.0
C3C C:HEM1001 4.2 0.0 1.0
C2C C:HEM1001 4.2 0.0 1.0
C2D C:HEM1001 4.2 0.0 1.0
C3D C:HEM1001 4.3 0.0 1.0
C3A C:HEM1001 4.3 0.0 1.0
C2A C:HEM1001 4.3 0.0 1.0
C3B C:HEM1001 4.3 0.0 1.0
C2B C:HEM1001 4.3 0.0 1.0
CG C:HIS267 4.6 0.0 1.0
NE1 C:TRP105 4.6 0.0 1.0
ND1 C:HIS267 4.6 0.0 1.0
CD1 C:TRP105 4.7 0.0 1.0
O C:HOH1104 4.7 0.0 1.0
O C:HOH1101 5.0 0.0 1.0

Iron binding site 4 out of 4 in 7jz6

Go back to Iron Binding Sites List in 7jz6
Iron binding site 4 out of 4 in the The Cryo-Em Structure of the Catalase-Peroxidase From Escherichia Coli


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of The Cryo-Em Structure of the Catalase-Peroxidase From Escherichia Coli within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Fe1001

b:0.0
occ:1.00
FE D:HEM1001 0.0 0.0 1.0
NC D:HEM1001 2.0 0.0 1.0
ND D:HEM1001 2.1 0.0 1.0
NA D:HEM1001 2.1 0.0 1.0
NB D:HEM1001 2.1 0.0 1.0
NE2 D:HIS267 2.5 0.0 1.0
C4C D:HEM1001 3.0 0.0 1.0
C1C D:HEM1001 3.0 0.0 1.0
C1D D:HEM1001 3.0 0.0 1.0
C4D D:HEM1001 3.1 0.0 1.0
C4A D:HEM1001 3.1 0.0 1.0
C1A D:HEM1001 3.1 0.0 1.0
C1B D:HEM1001 3.1 0.0 1.0
C4B D:HEM1001 3.1 0.0 1.0
O D:HOH1102 3.1 0.0 1.0
CD2 D:HIS267 3.3 0.0 1.0
CHD D:HEM1001 3.4 0.0 1.0
CHA D:HEM1001 3.4 0.0 1.0
CHC D:HEM1001 3.4 0.0 1.0
CHB D:HEM1001 3.4 0.0 1.0
CE1 D:HIS267 3.5 0.0 1.0
C3C D:HEM1001 4.2 0.0 1.0
C2C D:HEM1001 4.2 0.0 1.0
C2D D:HEM1001 4.2 0.0 1.0
C3D D:HEM1001 4.3 0.0 1.0
C3A D:HEM1001 4.3 0.0 1.0
C2A D:HEM1001 4.3 0.0 1.0
C2B D:HEM1001 4.3 0.0 1.0
C3B D:HEM1001 4.3 0.0 1.0
CG D:HIS267 4.5 0.0 1.0
ND1 D:HIS267 4.6 0.0 1.0
NE1 D:TRP105 4.6 0.0 1.0
O D:HOH1104 4.7 0.0 1.0
CD1 D:TRP105 4.7 0.0 1.0
O D:HOH1101 5.0 0.0 1.0

Reference:

C.C.Su, M.Lyu, C.E.Morgan, J.R.Bolla, C.V.Robinson, E.W.Yu. A 'Build and Retrieve' Methodology to Simultaneously Solve Cryo-Em Structures of Membrane Proteins. Nat.Methods V. 18 69 2021.
ISSN: ESSN 1548-7105
PubMed: 33408407
DOI: 10.1038/S41592-020-01021-2
Page generated: Sun Jan 24 17:13:01 2021

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