Atomistry » Iron » PDB 4r33-4rxn » 4rh1
Atomistry »
  Iron »
    PDB 4r33-4rxn »
      4rh1 »

Iron in PDB 4rh1: Spore Photoproduct Lyase C140A/S76C Mutant with Bound Adomet and Dinucleoside Spore Photoproduct

Enzymatic activity of Spore Photoproduct Lyase C140A/S76C Mutant with Bound Adomet and Dinucleoside Spore Photoproduct

All present enzymatic activity of Spore Photoproduct Lyase C140A/S76C Mutant with Bound Adomet and Dinucleoside Spore Photoproduct:
4.1.99.14;

Protein crystallography data

The structure of Spore Photoproduct Lyase C140A/S76C Mutant with Bound Adomet and Dinucleoside Spore Photoproduct, PDB code: 4rh1 was solved by A.Benjdia, K.Heil, A.Winkler, T.Carell, I.Schlichting, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 49.53 / 2.60
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 53.440, 58.560, 130.960, 90.00, 90.00, 90.00
R / Rfree (%) 26.4 / 32.5

Iron Binding Sites:

The binding sites of Iron atom in the Spore Photoproduct Lyase C140A/S76C Mutant with Bound Adomet and Dinucleoside Spore Photoproduct (pdb code 4rh1). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 4 binding sites of Iron where determined in the Spore Photoproduct Lyase C140A/S76C Mutant with Bound Adomet and Dinucleoside Spore Photoproduct, PDB code: 4rh1:
Jump to Iron binding site number: 1; 2; 3; 4;

Iron binding site 1 out of 4 in 4rh1

Go back to Iron Binding Sites List in 4rh1
Iron binding site 1 out of 4 in the Spore Photoproduct Lyase C140A/S76C Mutant with Bound Adomet and Dinucleoside Spore Photoproduct


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Spore Photoproduct Lyase C140A/S76C Mutant with Bound Adomet and Dinucleoside Spore Photoproduct within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe401

b:41.9
occ:1.00
 FE1 A:SF4401 0.0 41.9 1.0
S2 A:SF4401 2.1 38.2 1.0
S4 A:SF4401 2.1 39.9 1.0
S3 A:SF4401 2.1 38.3 1.0
SG A:CYS97 2.2 34.7 1.0
FE3 A:SF4401 3.1 39.2 1.0
FE4 A:SF4401 3.1 41.1 1.0
FE2 A:SF4401 3.2 39.4 1.0
CB A:CYS97 3.2 37.0 1.0
S1 A:SF4401 3.7 38.5 1.0
CE A:EEM402 3.8 41.1 1.0
CA A:CYS97 4.1 38.6 1.0
CD1 A:LEU99 4.2 44.7 1.0
CG A:LEU99 4.3 45.0 1.0
SE A:EEM402 4.5 40.0 1.0
CB A:CYS94 4.6 35.4 1.0
CB A:LEU99 4.8 45.2 1.0
SG A:CYS94 4.8 34.5 1.0
C A:CYS97 4.9 41.5 1.0
N A:TYR98 4.9 42.2 1.0
C8 A:EEM402 4.9 33.1 1.0
N A:EEM402 5.0 36.6 1.0
O A:EEM402 5.0 36.4 1.0
CB A:CYS90 5.0 31.0 1.0

Iron binding site 2 out of 4 in 4rh1

Go back to Iron Binding Sites List in 4rh1
Iron binding site 2 out of 4 in the Spore Photoproduct Lyase C140A/S76C Mutant with Bound Adomet and Dinucleoside Spore Photoproduct


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Spore Photoproduct Lyase C140A/S76C Mutant with Bound Adomet and Dinucleoside Spore Photoproduct within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe401

b:39.4
occ:1.00
 FE2 A:SF4401 0.0 39.4 1.0
O A:EEM402 2.0 36.4 1.0
S3 A:SF4401 2.1 38.3 1.0
S4 A:SF4401 2.1 39.9 1.0
S1 A:SF4401 2.1 38.5 1.0
N A:EEM402 2.3 36.6 1.0
C A:EEM402 2.8 36.8 1.0
CA A:EEM402 3.0 36.8 1.0
FE4 A:SF4401 3.1 41.1 1.0
FE3 A:SF4401 3.1 39.2 1.0
FE1 A:SF4401 3.2 41.9 1.0
SE A:EEM402 3.2 40.0 1.0
NZ A:LYS174 3.5 39.0 1.0
CG A:EEM402 3.5 38.2 1.0
S2 A:SF4401 3.7 38.2 1.0
CB A:EEM402 3.8 37.8 1.0
OXT A:EEM402 3.9 36.6 1.0
CE A:EEM402 4.1 41.1 1.0
OD1 A:ASP143 4.5 26.9 1.0
CE A:LYS174 4.7 38.2 1.0
C3' A:EEM402 4.7 33.9 1.0
C2' A:EEM402 4.7 33.2 1.0
CD A:LYS174 4.7 37.9 1.0
SG A:CYS90 4.7 29.3 1.0
CG A:LYS174 4.8 37.4 1.0
C5' A:EEM402 4.9 37.0 1.0
SG A:CYS94 5.0 34.5 1.0

Iron binding site 3 out of 4 in 4rh1

Go back to Iron Binding Sites List in 4rh1
Iron binding site 3 out of 4 in the Spore Photoproduct Lyase C140A/S76C Mutant with Bound Adomet and Dinucleoside Spore Photoproduct


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Spore Photoproduct Lyase C140A/S76C Mutant with Bound Adomet and Dinucleoside Spore Photoproduct within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe401

b:39.2
occ:1.00
 FE3 A:SF4401 0.0 39.2 1.0
SG A:CYS90 2.1 29.3 1.0
S4 A:SF4401 2.1 39.9 1.0
S2 A:SF4401 2.1 38.2 1.0
S1 A:SF4401 2.1 38.5 1.0
CB A:CYS90 2.9 31.0 1.0
FE1 A:SF4401 3.1 41.9 1.0
FE2 A:SF4401 3.1 39.4 1.0
FE4 A:SF4401 3.1 41.1 1.0
S3 A:SF4401 3.7 38.3 1.0
N A:EEM402 3.9 36.6 1.0
CA A:GLY92 4.2 40.4 1.0
N A:GLY92 4.2 39.8 1.0
CA A:CYS90 4.4 32.6 1.0
CB A:ASP143 4.6 28.2 1.0
C A:GLY92 4.8 40.4 1.0
C A:CYS90 4.8 34.5 1.0
O A:EEM402 4.9 36.4 1.0
SG A:CYS97 4.9 34.7 1.0
O A:GLY92 4.9 42.7 1.0

Iron binding site 4 out of 4 in 4rh1

Go back to Iron Binding Sites List in 4rh1
Iron binding site 4 out of 4 in the Spore Photoproduct Lyase C140A/S76C Mutant with Bound Adomet and Dinucleoside Spore Photoproduct


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Spore Photoproduct Lyase C140A/S76C Mutant with Bound Adomet and Dinucleoside Spore Photoproduct within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe401

b:41.1
occ:1.00
 FE4 A:SF4401 0.0 41.1 1.0
SG A:CYS94 2.1 34.5 1.0
S2 A:SF4401 2.1 38.2 1.0
S1 A:SF4401 2.1 38.5 1.0
S3 A:SF4401 2.1 38.3 1.0
CB A:CYS94 2.9 35.4 1.0
FE2 A:SF4401 3.1 39.4 1.0
FE1 A:SF4401 3.1 41.9 1.0
FE3 A:SF4401 3.1 39.2 1.0
NZ A:LYS174 3.5 39.0 1.0
S4 A:SF4401 3.7 39.9 1.0
CA A:CYS94 4.1 36.1 1.0
N A:CYS94 4.1 36.2 1.0
CD A:LYS174 4.2 37.9 1.0
O A:EEM402 4.2 36.4 1.0
CE A:LYS174 4.3 38.2 1.0
CG2 A:THR209 4.4 40.1 1.0
OH A:TYR96 4.8 36.9 1.0
SG A:CYS97 4.9 34.7 1.0
CB A:CYS97 4.9 37.0 1.0

Reference:

A.Benjdia, K.Heil, A.Winkler, T.Carell, I.Schlichting. Rescuing Dna Repair Activity By Rewiring the H-Atom Transfer Pathway in the Radical Sam Enzyme, Spore Photoproduct Lyase. Chem.Commun.(Camb.) V. 50 14201 2014.
ISSN: ISSN 1359-7345
PubMed: 25285338
DOI: 10.1039/C4CC05158K
Page generated: Mon Aug 5 09:17:35 2024

Last articles

Zn in 9J0N
Zn in 9J0O
Zn in 9J0P
Zn in 9FJX
Zn in 9EKB
Zn in 9C0F
Zn in 9CAH
Zn in 9CH0
Zn in 9CH3
Zn in 9CH1
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy