Atomistry » Iron » PDB 5kts-5lg8 » 5lfa
Atomistry »
  Iron »
    PDB 5kts-5lg8 »
      5lfa »

Iron in PDB 5lfa: Crystal Structure of Iron-Sulfur Cluster Containing Bacterial (6-4) Photolyase Phrb - Y424F Mutant with Impaired Dna Repair Activity

Enzymatic activity of Crystal Structure of Iron-Sulfur Cluster Containing Bacterial (6-4) Photolyase Phrb - Y424F Mutant with Impaired Dna Repair Activity

All present enzymatic activity of Crystal Structure of Iron-Sulfur Cluster Containing Bacterial (6-4) Photolyase Phrb - Y424F Mutant with Impaired Dna Repair Activity:
4.1.99.13;

Protein crystallography data

The structure of Crystal Structure of Iron-Sulfur Cluster Containing Bacterial (6-4) Photolyase Phrb - Y424F Mutant with Impaired Dna Repair Activity, PDB code: 5lfa was solved by D.Kwiatkowski, F.Zhang, N.Krauss, T.Lamparter, P.Scheerer, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 69.79 / 2.50
Space group P 2 21 21
Cell size a, b, c (Å), α, β, γ (°) 56.183, 94.441, 103.579, 90.00, 90.00, 90.00
R / Rfree (%) 18.1 / 24

Iron Binding Sites:

The binding sites of Iron atom in the Crystal Structure of Iron-Sulfur Cluster Containing Bacterial (6-4) Photolyase Phrb - Y424F Mutant with Impaired Dna Repair Activity (pdb code 5lfa). 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 Iron-Sulfur Cluster Containing Bacterial (6-4) Photolyase Phrb - Y424F Mutant with Impaired Dna Repair Activity, PDB code: 5lfa:
Jump to Iron binding site number: 1; 2; 3; 4;

Iron binding site 1 out of 4 in 5lfa

Go back to Iron Binding Sites List in 5lfa
Iron binding site 1 out of 4 in the Crystal Structure of Iron-Sulfur Cluster Containing Bacterial (6-4) Photolyase Phrb - Y424F Mutant with Impaired Dna Repair Activity


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 Iron-Sulfur Cluster Containing Bacterial (6-4) Photolyase Phrb - Y424F Mutant with Impaired Dna Repair Activity within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe603

b:28.6
occ:1.00
 FE1 A:SF4603 0.0 28.6 1.0
S4 A:SF4603 2.1 26.2 1.0
S3 A:SF4603 2.1 25.5 1.0
S2 A:SF4603 2.1 26.0 1.0
SG A:CYS438 2.3 33.3 1.0
FE2 A:SF4603 2.9 26.7 1.0
FE3 A:SF4603 3.0 28.4 1.0
FE4 A:SF4603 3.0 31.4 1.0
CB A:CYS438 3.2 33.4 1.0
CA A:CYS438 3.4 31.6 1.0
S1 A:SF4603 3.6 27.3 1.0
N A:CYS438 3.7 32.2 1.0
CG2 A:ILE431 4.1 28.2 1.0
C A:TYR437 4.5 29.0 1.0
CB A:PRO445 4.6 32.8 1.0
CB A:CYS441 4.7 31.2 1.0
CG A:PRO445 4.7 33.2 1.0
CB A:ILE431 4.8 26.1 1.0
C A:CYS438 4.9 33.2 1.0
O A:TYR437 4.9 26.2 1.0
SG A:CYS454 5.0 31.1 1.0
SG A:CYS350 5.0 27.2 1.0
CB A:TYR437 5.0 26.6 1.0

Iron binding site 2 out of 4 in 5lfa

Go back to Iron Binding Sites List in 5lfa
Iron binding site 2 out of 4 in the Crystal Structure of Iron-Sulfur Cluster Containing Bacterial (6-4) Photolyase Phrb - Y424F Mutant with Impaired Dna Repair Activity


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 Iron-Sulfur Cluster Containing Bacterial (6-4) Photolyase Phrb - Y424F Mutant with Impaired Dna Repair Activity within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe603

b:26.7
occ:1.00
 FE2 A:SF4603 0.0 26.7 1.0
S3 A:SF4603 2.1 25.5 1.0
S4 A:SF4603 2.1 26.2 1.0
S1 A:SF4603 2.1 27.3 1.0
SG A:CYS350 2.3 27.2 1.0
FE1 A:SF4603 2.9 28.6 1.0
FE4 A:SF4603 3.0 31.4 1.0
FE3 A:SF4603 3.1 28.4 1.0
CB A:CYS350 3.1 27.6 1.0
S2 A:SF4603 3.7 26.0 1.0
N A:CYS350 3.8 27.0 1.0
CE1 A:PHE456 4.0 31.6 1.0
CA A:CYS350 4.1 27.0 1.0
CG2 A:ILE431 4.2 28.2 1.0
CD1 A:PHE456 4.4 30.1 1.0
CD1 A:ILE431 4.6 26.8 1.0
N A:ASN349 4.6 29.2 1.0
CZ A:PHE456 4.8 30.9 1.0
CB A:MET348 4.8 27.6 1.0
C A:MET348 4.9 28.4 1.0
C A:ASN349 4.9 28.3 1.0
N A:MET351 4.9 25.9 1.0

Iron binding site 3 out of 4 in 5lfa

Go back to Iron Binding Sites List in 5lfa
Iron binding site 3 out of 4 in the Crystal Structure of Iron-Sulfur Cluster Containing Bacterial (6-4) Photolyase Phrb - Y424F Mutant with Impaired Dna Repair Activity


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 Iron-Sulfur Cluster Containing Bacterial (6-4) Photolyase Phrb - Y424F Mutant with Impaired Dna Repair Activity within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe603

b:28.4
occ:1.00
 FE3 A:SF4603 0.0 28.4 1.0
S2 A:SF4603 2.1 26.0 1.0
S4 A:SF4603 2.1 26.2 1.0
S1 A:SF4603 2.2 27.3 1.0
SG A:CYS441 2.3 34.8 1.0
CB A:CYS441 2.9 31.2 1.0
FE1 A:SF4603 3.0 28.6 1.0
FE4 A:SF4603 3.1 31.4 1.0
FE2 A:SF4603 3.1 26.7 1.0
S3 A:SF4603 3.8 25.5 1.0
CB A:TYR443 3.9 34.1 1.0
N A:ASN349 4.0 29.2 1.0
CD2 A:TYR443 4.1 32.8 1.0
CA A:CYS441 4.3 33.0 1.0
O A:TYR443 4.4 36.7 1.0
CG A:TYR443 4.5 32.8 1.0
CB A:ASN349 4.5 30.5 1.0
CA A:CYS438 4.6 31.6 1.0
N A:TYR443 4.6 39.0 1.0
CA A:MET348 4.6 27.8 1.0
CA A:TYR443 4.6 37.1 1.0
C A:MET348 4.7 28.4 1.0
C A:TYR443 4.8 35.9 1.0
CA A:ASN349 4.8 28.8 1.0
N A:CYS350 4.8 27.0 1.0
SG A:CYS438 5.0 33.3 1.0
C A:CYS441 5.0 34.0 1.0

Iron binding site 4 out of 4 in 5lfa

Go back to Iron Binding Sites List in 5lfa
Iron binding site 4 out of 4 in the Crystal Structure of Iron-Sulfur Cluster Containing Bacterial (6-4) Photolyase Phrb - Y424F Mutant with Impaired Dna Repair Activity


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 Iron-Sulfur Cluster Containing Bacterial (6-4) Photolyase Phrb - Y424F Mutant with Impaired Dna Repair Activity within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe603

b:31.4
occ:1.00
 FE4 A:SF4603 0.0 31.4 1.0
S1 A:SF4603 2.1 27.3 1.0
S3 A:SF4603 2.1 25.5 1.0
S2 A:SF4603 2.1 26.0 1.0
SG A:CYS454 2.3 31.1 1.0
FE1 A:SF4603 3.0 28.6 1.0
FE2 A:SF4603 3.0 26.7 1.0
FE3 A:SF4603 3.1 28.4 1.0
CB A:CYS454 3.1 29.8 1.0
S4 A:SF4603 3.7 26.2 1.0
CA A:CYS454 3.9 30.2 1.0
CD1 A:PHE456 4.0 30.1 1.0
CD A:PRO455 4.4 29.7 1.0
CA A:GLY428 4.6 26.9 1.0
CE1 A:PHE456 4.6 31.6 1.0
C A:CYS454 4.6 29.3 1.0
CB A:TYR443 4.6 34.1 1.0
CB A:PRO445 4.6 32.8 1.0
N A:PRO455 4.7 28.5 1.0
CG A:PHE456 4.9 28.5 1.0
SG A:CYS438 4.9 33.3 1.0
CA A:PRO445 4.9 33.7 1.0
CB A:PHE456 5.0 27.2 1.0

Reference:

F.Zhang, H.Ma, K.Bowatte, D.Kwiatkowski, E.Mittmann, H.Qasem, N.Krau, X.Zeng, Z.Ren, P.Scheerer, X.Yang, T.Lamparter. Crystal Structures of Bacterial (6-4) Photolyase Mutants with Impaired Dna Repair Activity. Photochem. Photobiol. V. 93 304 2017.
ISSN: ISSN 1751-1097
PubMed: 27992645
DOI: 10.1111/PHP.12699
Page generated: Tue Aug 6 04:10:56 2024

Last articles

Fe in 2YXO
Fe in 2YRS
Fe in 2YXC
Fe in 2YNM
Fe in 2YVJ
Fe in 2YP1
Fe in 2YU2
Fe in 2YU1
Fe in 2YQB
Fe in 2YOO
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy