Atomistry » Iron » PDB 5utd-5ve3 » 5ux1
Atomistry »
  Iron »
    PDB 5utd-5ve3 »
      5ux1 »

Iron in PDB 5ux1: Protein 43 with Aldehyde Deformylating Oxygenase Activity From Synechococcus

Protein crystallography data

The structure of Protein 43 with Aldehyde Deformylating Oxygenase Activity From Synechococcus, PDB code: 5ux1 was solved by D.K.Wilson, W.S.Mak, J.B.Siegel, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 81.50 / 1.50
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 72.342, 78.274, 83.734, 90.00, 103.20, 90.00
R / Rfree (%) 19.2 / 21.5

Iron Binding Sites:

The binding sites of Iron atom in the Protein 43 with Aldehyde Deformylating Oxygenase Activity From Synechococcus (pdb code 5ux1). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 8 binding sites of Iron where determined in the Protein 43 with Aldehyde Deformylating Oxygenase Activity From Synechococcus, PDB code: 5ux1:
Jump to Iron binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Iron binding site 1 out of 8 in 5ux1

Go back to Iron Binding Sites List in 5ux1
Iron binding site 1 out of 8 in the Protein 43 with Aldehyde Deformylating Oxygenase Activity From Synechococcus


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Protein 43 with Aldehyde Deformylating Oxygenase Activity From Synechococcus within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe301

b:23.5
occ:0.80
OE2 A:GLU84 1.9 29.8 1.0
OE2 A:GLU167 1.9 54.6 1.0
OE1 A:GLU137 2.0 33.2 1.0
ND1 A:HIS170 2.2 24.2 1.0
O A:HOH441 2.4 27.3 1.0
CD A:GLU84 2.8 22.9 1.0
CD A:GLU167 2.9 49.7 1.0
OE1 A:GLU84 3.0 28.7 1.0
CE1 A:HIS170 3.0 24.9 1.0
CD A:GLU137 3.1 32.0 1.0
FE A:FE302 3.2 24.0 0.6
CG A:HIS170 3.3 22.9 1.0
OE1 A:GLU167 3.4 56.9 1.0
OE2 A:GLU137 3.5 37.6 1.0
CB A:HIS170 3.7 20.5 1.0
CG A:GLU167 4.2 42.4 1.0
CG A:GLU84 4.2 19.4 1.0
NE2 A:HIS170 4.2 26.4 1.0
OE1 A:GLU53 4.3 30.8 1.0
CG A:GLU137 4.4 28.2 1.0
CD2 A:HIS170 4.4 23.5 1.0
CA A:GLU167 4.4 30.2 1.0
CB A:GLU167 4.8 35.8 1.0
CB A:GLU137 4.9 22.0 1.0
ND1 A:HIS87 4.9 23.4 1.0

Iron binding site 2 out of 8 in 5ux1

Go back to Iron Binding Sites List in 5ux1
Iron binding site 2 out of 8 in the Protein 43 with Aldehyde Deformylating Oxygenase Activity From Synechococcus


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Protein 43 with Aldehyde Deformylating Oxygenase Activity From Synechococcus within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe302

b:24.0
occ:0.60
OE1 A:GLU53 1.9 30.8 1.0
ND1 A:HIS87 2.2 23.4 1.0
OE1 A:GLU84 2.2 28.7 1.0
CD A:GLU53 2.8 27.7 1.0
OE2 A:GLU53 3.0 33.0 1.0
O A:HOH441 3.1 27.3 1.0
CE1 A:HIS87 3.1 24.1 1.0
CD A:GLU84 3.2 22.9 1.0
FE A:FE301 3.2 23.5 0.8
CG A:HIS87 3.3 19.9 1.0
OE1 A:GLU167 3.3 56.9 1.0
OE2 A:GLU84 3.6 29.8 1.0
CB A:HIS87 3.6 17.0 1.0
OE2 A:GLU167 3.9 54.6 1.0
CD A:GLU167 4.0 49.7 1.0
CE1 A:HIS170 4.2 24.9 1.0
CG A:GLU53 4.2 22.6 1.0
NE2 A:HIS87 4.2 24.8 1.0
CD2 A:HIS87 4.3 22.1 1.0
ND1 A:HIS170 4.4 24.2 1.0
CA A:GLU84 4.5 15.2 1.0
CG A:GLU84 4.6 19.4 1.0
CB A:GLU53 4.7 19.4 1.0
CB A:GLU84 4.8 16.8 1.0
O A:GLU83 4.9 15.8 1.0

Iron binding site 3 out of 8 in 5ux1

Go back to Iron Binding Sites List in 5ux1
Iron binding site 3 out of 8 in the Protein 43 with Aldehyde Deformylating Oxygenase Activity From Synechococcus


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Protein 43 with Aldehyde Deformylating Oxygenase Activity From Synechococcus within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe301

b:22.4
occ:0.80
OE2 B:GLU84 2.0 26.8 1.0
OE1 B:GLU137 2.1 27.2 1.0
OE2 B:GLU167 2.1 35.4 1.0
ND1 B:HIS170 2.2 23.0 1.0
O B:HOH453 2.5 32.0 1.0
CD B:GLU84 2.8 23.0 1.0
CE1 B:HIS170 3.0 25.0 1.0
OE1 B:GLU84 3.0 24.9 1.0
CD B:GLU137 3.1 29.0 1.0
CD B:GLU167 3.2 33.3 1.0
FE B:FE302 3.2 22.3 0.6
CG B:HIS170 3.3 20.8 1.0
OE2 B:GLU137 3.4 33.6 1.0
OE1 B:GLU167 3.6 34.6 1.0
O B:HOH415 3.7 29.5 1.0
CB B:HIS170 3.7 19.8 1.0
NE2 B:HIS170 4.2 24.8 1.0
CG B:GLU84 4.2 19.3 1.0
OE1 B:GLU53 4.3 29.5 1.0
CD2 B:HIS170 4.3 24.0 1.0
CG B:GLU137 4.4 24.5 1.0
CG B:GLU167 4.4 29.9 1.0
CA B:GLU167 4.4 23.7 1.0
CB B:GLU167 4.9 26.6 1.0
ND1 B:HIS87 4.9 22.4 1.0

Iron binding site 4 out of 8 in 5ux1

Go back to Iron Binding Sites List in 5ux1
Iron binding site 4 out of 8 in the Protein 43 with Aldehyde Deformylating Oxygenase Activity From Synechococcus


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Protein 43 with Aldehyde Deformylating Oxygenase Activity From Synechococcus within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe302

b:22.3
occ:0.60
OE1 B:GLU53 1.9 29.5 1.0
OE1 B:GLU84 2.1 24.9 1.0
ND1 B:HIS87 2.2 22.4 1.0
CD B:GLU53 2.7 26.9 1.0
OE2 B:GLU53 2.9 32.1 1.0
CE1 B:HIS87 3.1 22.0 1.0
CD B:GLU84 3.2 23.0 1.0
FE B:FE301 3.2 22.4 0.8
O B:HOH453 3.2 32.0 1.0
CG B:HIS87 3.3 18.7 1.0
OE2 B:GLU84 3.5 26.8 1.0
CB B:HIS87 3.7 16.6 1.0
CE1 B:HIS170 4.0 25.0 1.0
OE2 B:GLU167 4.1 35.4 1.0
OE1 B:GLU167 4.2 34.6 1.0
CG B:GLU53 4.2 21.5 1.0
NE2 B:HIS87 4.3 21.1 1.0
ND1 B:HIS170 4.3 23.0 1.0
CD2 B:HIS87 4.4 19.3 1.0
CD B:GLU167 4.5 33.3 1.0
CA B:GLU84 4.5 16.3 1.0
CG B:GLU84 4.5 19.3 1.0
CB B:GLU84 4.8 17.2 1.0
CB B:GLU53 4.8 19.4 1.0

Iron binding site 5 out of 8 in 5ux1

Go back to Iron Binding Sites List in 5ux1
Iron binding site 5 out of 8 in the Protein 43 with Aldehyde Deformylating Oxygenase Activity From Synechococcus


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 5 of Protein 43 with Aldehyde Deformylating Oxygenase Activity From Synechococcus within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe301

b:19.9
occ:0.60
OE1 C:GLU53 1.9 23.4 1.0
OE2 C:GLU167 2.0 35.6 1.0
ND1 C:HIS87 2.1 20.0 1.0
OE1 C:GLU84 2.3 22.4 1.0
CD C:GLU53 2.8 25.4 1.0
O C:HOH480 2.9 21.8 1.0
CD C:GLU167 2.9 36.7 1.0
CE1 C:HIS87 2.9 18.4 1.0
OE2 C:GLU53 3.0 31.0 1.0
CG C:HIS87 3.2 16.5 1.0
FE C:FE302 3.2 22.3 0.8
CD C:GLU84 3.4 19.5 1.0
CB C:HIS87 3.6 15.0 1.0
OE1 C:GLU167 3.7 40.4 1.0
CG C:GLU167 3.8 31.2 1.0
OE2 C:GLU84 3.8 26.2 1.0
NE2 C:HIS87 4.1 19.6 1.0
CD2 C:HIS87 4.2 18.5 1.0
CG C:GLU53 4.2 21.2 1.0
CE1 C:HIS170 4.4 19.7 1.0
CA C:GLU84 4.5 13.6 1.0
ND1 C:HIS170 4.5 18.4 1.0
CG C:GLU84 4.7 17.6 1.0
CB C:GLU53 4.8 18.0 1.0
CB C:GLU84 4.9 14.8 1.0

Iron binding site 6 out of 8 in 5ux1

Go back to Iron Binding Sites List in 5ux1
Iron binding site 6 out of 8 in the Protein 43 with Aldehyde Deformylating Oxygenase Activity From Synechococcus


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 6 of Protein 43 with Aldehyde Deformylating Oxygenase Activity From Synechococcus within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe302

b:22.3
occ:0.80
OE1 C:GLU167 1.9 40.4 1.0
OE2 C:GLU84 1.9 26.2 1.0
OE1 C:GLU137 2.0 25.5 1.0
ND1 C:HIS170 2.2 18.4 1.0
O C:HOH480 2.3 21.8 1.0
OE2 C:GLU167 2.3 35.6 1.0
CD C:GLU167 2.4 36.7 1.0
CD C:GLU84 2.7 19.5 1.0
OE1 C:GLU84 2.7 22.4 1.0
CD C:GLU137 3.0 28.1 1.0
CE1 C:HIS170 3.1 19.7 1.0
FE C:FE301 3.2 19.9 0.6
CG C:HIS170 3.3 16.9 1.0
OE2 C:GLU137 3.4 32.8 1.0
CB C:HIS170 3.7 15.6 1.0
CG C:GLU167 3.9 31.2 1.0
CG C:GLU84 4.1 17.6 1.0
NE2 C:HIS170 4.3 17.8 1.0
CG C:GLU137 4.3 24.8 1.0
CD2 C:HIS170 4.4 16.8 1.0
CA C:GLU167 4.4 22.8 1.0
OE1 C:GLU53 4.5 23.4 1.0
CB C:GLU167 4.6 26.1 1.0
ND1 C:HIS87 4.7 20.0 1.0
CE1 C:HIS87 4.9 18.4 1.0
CB C:GLU137 5.0 19.5 1.0
O C:SER166 5.0 21.4 1.0

Iron binding site 7 out of 8 in 5ux1

Go back to Iron Binding Sites List in 5ux1
Iron binding site 7 out of 8 in the Protein 43 with Aldehyde Deformylating Oxygenase Activity From Synechococcus


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 7 of Protein 43 with Aldehyde Deformylating Oxygenase Activity From Synechococcus within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Fe301

b:25.2
occ:0.60
OE1 D:GLU53 1.9 29.9 1.0
ND1 D:HIS87 2.0 24.6 1.0
OE2 D:GLU167 2.1 41.1 1.0
OE1 D:GLU84 2.2 27.2 1.0
CD D:GLU53 2.8 29.6 1.0
CE1 D:HIS87 2.8 24.7 1.0
O D:HOH445 2.8 27.8 1.0
OE2 D:GLU53 3.0 35.7 1.0
CD D:GLU167 3.1 42.0 1.0
FE D:FE302 3.2 27.8 0.8
CG D:HIS87 3.2 21.0 1.0
CD D:GLU84 3.3 22.7 1.0
CB D:HIS87 3.7 19.3 1.0
OE2 D:GLU84 3.7 30.9 1.0
CG D:GLU167 3.9 38.2 1.0
OE1 D:GLU167 4.0 45.1 1.0
NE2 D:HIS87 4.0 25.9 1.0
CG D:GLU53 4.2 26.8 1.0
CD2 D:HIS87 4.2 22.9 1.0
CE1 D:HIS170 4.3 26.3 1.0
ND1 D:HIS170 4.4 23.8 1.0
CA D:GLU84 4.5 17.1 1.0
CG D:GLU84 4.6 21.6 1.0
CB D:GLU53 4.8 24.4 1.0
CB D:GLU84 4.9 19.0 1.0

Iron binding site 8 out of 8 in 5ux1

Go back to Iron Binding Sites List in 5ux1
Iron binding site 8 out of 8 in the Protein 43 with Aldehyde Deformylating Oxygenase Activity From Synechococcus


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 8 of Protein 43 with Aldehyde Deformylating Oxygenase Activity From Synechococcus within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Fe302

b:27.8
occ:0.80
OE2 D:GLU84 1.9 30.9 1.0
OE2 D:GLU167 2.0 41.1 1.0
OE1 D:GLU137 2.0 33.9 1.0
OE1 D:GLU167 2.1 45.1 1.0
ND1 D:HIS170 2.2 23.8 1.0
O D:HOH445 2.3 27.8 1.0
CD D:GLU167 2.3 42.0 1.0
CD D:GLU84 2.7 22.7 1.0
OE1 D:GLU84 2.8 27.2 1.0
CD D:GLU137 3.0 32.8 1.0
CE1 D:HIS170 3.1 26.3 1.0
FE D:FE301 3.2 25.2 0.6
CG D:HIS170 3.3 22.6 1.0
OE2 D:GLU137 3.4 38.8 1.0
CB D:HIS170 3.7 20.9 1.0
O D:HOH431 3.8 39.4 1.0
CG D:GLU167 3.8 38.2 1.0
CG D:GLU84 4.1 21.6 1.0
NE2 D:HIS170 4.2 23.4 1.0
OE1 D:GLU53 4.3 29.9 1.0
CG D:GLU137 4.4 29.8 1.0
CD2 D:HIS170 4.4 23.4 1.0
CA D:GLU167 4.4 29.9 1.0
CB D:GLU167 4.6 32.8 1.0
ND1 D:HIS87 4.7 24.6 1.0
CE1 D:HIS87 4.8 24.7 1.0
CB D:GLU137 5.0 26.0 1.0

Reference:

D.K.Wilson, W.S.Mak, J.B.Siegel. Protein 43 with Aldehyde Deformylating Oxygenase Activity From Synechococcus To Be Published.
Page generated: Tue Aug 6 10:04:25 2024

Last articles

Ca in 5L8R
Ca in 5L8P
Ca in 5L89
Ca in 5L7F
Ca in 5L7P
Ca in 5L41
Ca in 5L3U
Ca in 5L73
Ca in 5L79
Ca in 5L30
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy