Atomistry » Iron » PDB 1ubj-1uvy » 1ui1
Atomistry »
  Iron »
    PDB 1ubj-1uvy »
      1ui1 »

Iron in PDB 1ui1: Crystal Structure of Uracil-Dna Glycosylase From Thermus Thermophilus HB8

Protein crystallography data

The structure of Crystal Structure of Uracil-Dna Glycosylase From Thermus Thermophilus HB8, PDB code: 1ui1 was solved by J.Hoseki, A.Okamoto, R.Masui, T.Shibata, Y.Inoue, S.Yokoyama, S.Kuramitsu, Riken Structural Genomics/Proteomics Initiative (Rsgi), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 20.00 / 2.80
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 45.502, 59.034, 81.404, 90.00, 90.00, 90.00
R / Rfree (%) 21.4 / 27.6

Iron Binding Sites:

The binding sites of Iron atom in the Crystal Structure of Uracil-Dna Glycosylase From Thermus Thermophilus HB8 (pdb code 1ui1). 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 Uracil-Dna Glycosylase From Thermus Thermophilus HB8, PDB code: 1ui1:
Jump to Iron binding site number: 1; 2; 3; 4;

Iron binding site 1 out of 4 in 1ui1

Go back to Iron Binding Sites List in 1ui1
Iron binding site 1 out of 4 in the Crystal Structure of Uracil-Dna Glycosylase From Thermus Thermophilus HB8


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 Uracil-Dna Glycosylase From Thermus Thermophilus HB8 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe210

b:6.4
occ:1.00
FE1 A:SF4210 0.0 6.4 1.0
S2 A:SF4210 2.2 3.6 1.0
S3 A:SF4210 2.3 4.4 1.0
S4 A:SF4210 2.3 4.6 1.0
SG A:CYS84 2.3 5.4 1.0
FE4 A:SF4210 2.7 6.4 1.0
FE3 A:SF4210 2.7 4.9 1.0
FE2 A:SF4210 2.7 3.8 1.0
CB A:CYS84 3.3 6.4 1.0
NH1 A:ARG22 3.8 21.3 1.0
N A:CYS84 3.8 6.2 1.0
S1 A:SF4210 3.8 3.2 1.0
CA A:CYS84 4.2 6.8 1.0
CB A:LYS83 4.5 6.3 1.0
C A:LYS83 4.5 6.1 1.0
SG A:CYS16 4.6 5.5 1.0
SG A:CYS13 4.7 7.6 1.0
N A:LYS83 4.7 6.7 1.0
CA A:LYS83 4.8 6.4 1.0
SG A:CYS100 4.8 8.7 1.0
O A:CYS13 4.9 9.4 1.0
CB A:LEU18 5.0 13.9 1.0
CZ A:ARG22 5.0 20.9 1.0

Iron binding site 2 out of 4 in 1ui1

Go back to Iron Binding Sites List in 1ui1
Iron binding site 2 out of 4 in the Crystal Structure of Uracil-Dna Glycosylase From Thermus Thermophilus HB8


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 Uracil-Dna Glycosylase From Thermus Thermophilus HB8 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe210

b:3.8
occ:1.00
FE2 A:SF4210 0.0 3.8 1.0
S4 A:SF4210 2.2 4.6 1.0
S3 A:SF4210 2.2 4.4 1.0
S1 A:SF4210 2.3 3.2 1.0
SG A:CYS16 2.3 5.5 1.0
FE4 A:SF4210 2.7 6.4 1.0
FE3 A:SF4210 2.7 4.9 1.0
FE1 A:SF4210 2.7 6.4 1.0
CB A:CYS16 3.3 7.8 1.0
N A:CYS16 3.8 8.2 1.0
S2 A:SF4210 3.8 3.6 1.0
CA A:CYS16 4.0 7.5 1.0
O A:CYS16 4.3 8.4 1.0
CB A:LEU18 4.4 13.9 1.0
C A:CYS16 4.4 7.2 1.0
CB A:CYS100 4.4 8.2 1.0
SG A:CYS100 4.6 8.7 1.0
SG A:CYS84 4.7 5.4 1.0
C A:ALA15 4.8 9.6 1.0
CD1 A:LEU18 4.9 12.1 1.0
N A:LEU18 4.9 11.6 1.0
SG A:CYS13 4.9 7.6 1.0
CG A:LEU18 5.0 12.8 1.0

Iron binding site 3 out of 4 in 1ui1

Go back to Iron Binding Sites List in 1ui1
Iron binding site 3 out of 4 in the Crystal Structure of Uracil-Dna Glycosylase From Thermus Thermophilus HB8


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 Uracil-Dna Glycosylase From Thermus Thermophilus HB8 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe210

b:4.9
occ:1.00
FE3 A:SF4210 0.0 4.9 1.0
S1 A:SF4210 2.2 3.2 1.0
S4 A:SF4210 2.3 4.6 1.0
S2 A:SF4210 2.3 3.6 1.0
SG A:CYS13 2.3 7.6 1.0
FE1 A:SF4210 2.7 6.4 1.0
FE4 A:SF4210 2.7 6.4 1.0
FE2 A:SF4210 2.7 3.8 1.0
CB A:CYS13 3.4 5.6 1.0
S3 A:SF4210 3.8 4.4 1.0
N A:ALA15 3.9 9.0 1.0
NE1 A:TRP104 4.1 8.0 1.0
C A:CYS13 4.1 8.3 1.0
O A:CYS13 4.2 9.4 1.0
CB A:ALA15 4.3 8.4 1.0
N A:THR14 4.4 8.9 1.0
CA A:CYS13 4.4 7.7 1.0
N A:CYS16 4.4 8.2 1.0
CA A:ALA15 4.6 8.6 1.0
NH1 A:ARG22 4.7 21.3 1.0
CD1 A:TRP104 4.8 7.4 1.0
SG A:CYS84 4.8 5.4 1.0
C A:THR14 4.8 9.7 1.0
SG A:CYS16 4.8 5.5 1.0
CA A:THR14 4.8 8.8 1.0
SG A:CYS100 4.9 8.7 1.0
C A:ALA15 5.0 9.6 1.0

Iron binding site 4 out of 4 in 1ui1

Go back to Iron Binding Sites List in 1ui1
Iron binding site 4 out of 4 in the Crystal Structure of Uracil-Dna Glycosylase From Thermus Thermophilus HB8


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 Uracil-Dna Glycosylase From Thermus Thermophilus HB8 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe210

b:6.4
occ:1.00
FE4 A:SF4210 0.0 6.4 1.0
S2 A:SF4210 2.2 3.6 1.0
S3 A:SF4210 2.3 4.4 1.0
S1 A:SF4210 2.3 3.2 1.0
SG A:CYS100 2.4 8.7 1.0
FE1 A:SF4210 2.7 6.4 1.0
FE2 A:SF4210 2.7 3.8 1.0
FE3 A:SF4210 2.7 4.9 1.0
CB A:CYS100 3.0 8.2 1.0
CA A:CYS100 3.8 8.5 1.0
S4 A:SF4210 3.8 4.6 1.0
N A:LYS83 4.0 6.7 1.0
CD1 A:TRP104 4.1 7.4 1.0
NE1 A:TRP104 4.2 8.0 1.0
CB A:LYS83 4.3 6.3 1.0
SG A:CYS13 4.6 7.6 1.0
CA A:LYS83 4.7 6.4 1.0
N A:CYS100 4.7 9.4 1.0
SG A:CYS16 4.8 5.5 1.0
SG A:CYS84 4.8 5.4 1.0
C A:CYS100 4.8 8.0 1.0
N A:CYS84 4.8 6.2 1.0
CA A:VAL82 4.9 6.5 1.0
CD A:LYS83 5.0 9.2 1.0

Reference:

J.Hoseki, A.Okamoto, R.Masui, T.Shibata, Y.Inoue, S.Yokoyama, S.Kuramitsu. Crystal Structure of A Family 4 Uracil-Dna Glycosylase From Thermus Thermophilus HB8 J.Mol.Biol. V. 333 515 2003.
ISSN: ISSN 0022-2836
PubMed: 14556741
DOI: 10.1016/J.JMB.2003.08.030
Page generated: Sun Dec 13 14:33:30 2020

Last articles

Zn in 8WB0
Zn in 8WAX
Zn in 8WAU
Zn in 8WAZ
Zn in 8WAY
Zn in 8WAV
Zn in 8WAW
Zn in 8WAT
Zn in 8W7M
Zn in 8WD3
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy