Atomistry » Iron » PDB 8iap-8ird » 8iie
Atomistry »
  Iron »
    PDB 8iap-8ird »
      8iie »

Iron in PDB 8iie: Complex Form of Msmudgx and Uracil- Obtained From Uracil Dna (Ttutt) Post Its Cleavage By Msmudgx

Enzymatic activity of Complex Form of Msmudgx and Uracil- Obtained From Uracil Dna (Ttutt) Post Its Cleavage By Msmudgx

All present enzymatic activity of Complex Form of Msmudgx and Uracil- Obtained From Uracil Dna (Ttutt) Post Its Cleavage By Msmudgx:
3.2.2.27;

Protein crystallography data

The structure of Complex Form of Msmudgx and Uracil- Obtained From Uracil Dna (Ttutt) Post Its Cleavage By Msmudgx, PDB code: 8iie was solved by S.Aroli, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 23.64 / 1.67
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 36.42, 51.33, 55.14, 90, 104.98, 90
R / Rfree (%) 15.8 / 18.8

Iron Binding Sites:

The binding sites of Iron atom in the Complex Form of Msmudgx and Uracil- Obtained From Uracil Dna (Ttutt) Post Its Cleavage By Msmudgx (pdb code 8iie). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 4 binding sites of Iron where determined in the Complex Form of Msmudgx and Uracil- Obtained From Uracil Dna (Ttutt) Post Its Cleavage By Msmudgx, PDB code: 8iie:
Jump to Iron binding site number: 1; 2; 3; 4;

Iron binding site 1 out of 4 in 8iie

Go back to Iron Binding Sites List in 8iie
Iron binding site 1 out of 4 in the Complex Form of Msmudgx and Uracil- Obtained From Uracil Dna (Ttutt) Post Its Cleavage By Msmudgx


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Complex Form of Msmudgx and Uracil- Obtained From Uracil Dna (Ttutt) Post Its Cleavage By Msmudgx within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe301

b:11.8
occ:1.00
 FE1 A:SF4301 0.0 11.8 1.0
S2 A:SF4301 2.3 10.2 1.0
SG A:CYS120 2.3 10.0 1.0
S3 A:SF4301 2.3 11.0 1.0
S4 A:SF4301 2.3 10.5 1.0
FE3 A:SF4301 2.7 12.6 1.0
FE4 A:SF4301 2.7 12.8 1.0
FE2 A:SF4301 2.7 11.9 1.0
CB A:CYS120 3.2 11.6 1.0
CA A:CYS120 3.9 10.4 1.0
S1 A:SF4301 3.9 12.2 1.0
N A:LYS94 4.1 11.5 1.0
CD1 A:TRP123 4.2 9.9 1.0
CB A:LYS94 4.3 12.4 1.0
NE1 A:TRP123 4.6 10.7 1.0
SG A:CYS24 4.6 12.2 1.0
N A:CYS120 4.7 9.9 1.0
SG A:CYS27 4.7 12.3 1.0
CA A:LYS94 4.7 8.8 1.0
ND1 A:HIS95 4.9 11.2 1.0
N A:HIS95 4.9 10.8 1.0
CA A:VAL93 5.0 10.6 1.0

Iron binding site 2 out of 4 in 8iie

Go back to Iron Binding Sites List in 8iie
Iron binding site 2 out of 4 in the Complex Form of Msmudgx and Uracil- Obtained From Uracil Dna (Ttutt) Post Its Cleavage By Msmudgx


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Complex Form of Msmudgx and Uracil- Obtained From Uracil Dna (Ttutt) Post Its Cleavage By Msmudgx within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe301

b:11.9
occ:1.00
 FE2 A:SF4301 0.0 11.9 1.0
S4 A:SF4301 2.3 10.5 1.0
S1 A:SF4301 2.3 12.2 1.0
S3 A:SF4301 2.3 11.0 1.0
SG A:CYS27 2.3 12.3 1.0
FE4 A:SF4301 2.7 12.8 1.0
FE1 A:SF4301 2.7 11.8 1.0
FE3 A:SF4301 2.7 12.6 1.0
CB A:CYS27 3.4 13.7 1.0
N A:CYS27 3.4 13.6 1.0
CA A:CYS27 3.8 12.4 1.0
S2 A:SF4301 3.9 10.2 1.0
C A:GLY26 4.2 12.7 1.0
C A:CYS27 4.2 14.3 1.0
O A:CYS27 4.3 18.0 1.0
CB A:LEU29 4.5 11.8 1.0
N A:GLY26 4.6 12.0 1.0
CA A:GLY26 4.6 12.4 1.0
N A:LEU29 4.7 12.4 1.0
SG A:CYS120 4.8 10.0 1.0
SG A:CYS24 4.9 12.2 1.0
CB A:CYS120 4.9 11.6 1.0
N A:GLY28 4.9 14.1 1.0
ND1 A:HIS95 4.9 11.2 1.0
O A:GLY26 5.0 16.9 1.0

Iron binding site 3 out of 4 in 8iie

Go back to Iron Binding Sites List in 8iie
Iron binding site 3 out of 4 in the Complex Form of Msmudgx and Uracil- Obtained From Uracil Dna (Ttutt) Post Its Cleavage By Msmudgx


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Complex Form of Msmudgx and Uracil- Obtained From Uracil Dna (Ttutt) Post Its Cleavage By Msmudgx within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe301

b:12.6
occ:1.00
 FE3 A:SF4301 0.0 12.6 1.0
SG A:CYS24 2.3 12.2 1.0
S4 A:SF4301 2.3 10.5 1.0
S2 A:SF4301 2.3 10.2 1.0
S1 A:SF4301 2.3 12.2 1.0
FE4 A:SF4301 2.7 12.8 1.0
FE1 A:SF4301 2.7 11.8 1.0
FE2 A:SF4301 2.7 11.9 1.0
CB A:CYS24 3.2 12.2 1.0
N A:GLY26 3.6 12.0 1.0
S3 A:SF4301 3.9 11.0 1.0
CA A:GLY26 4.1 12.4 1.0
NE1 A:TRP123 4.1 10.7 1.0
C A:CYS24 4.2 14.0 1.0
CA A:CYS24 4.3 12.6 1.0
N A:CYS27 4.3 13.6 1.0
O A:CYS24 4.3 14.2 1.0
N A:ARG25 4.5 11.9 1.0
C A:GLY26 4.6 12.7 1.0
CB A:ALA4 4.6 11.3 1.0
ND1 A:HIS95 4.6 11.2 1.0
C A:ARG25 4.6 13.5 1.0
CD1 A:TRP123 4.6 9.9 1.0
SG A:CYS120 4.7 10.0 1.0
CA A:ARG25 4.9 12.1 1.0
SG A:CYS27 5.0 12.3 1.0

Iron binding site 4 out of 4 in 8iie

Go back to Iron Binding Sites List in 8iie
Iron binding site 4 out of 4 in the Complex Form of Msmudgx and Uracil- Obtained From Uracil Dna (Ttutt) Post Its Cleavage By Msmudgx


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Complex Form of Msmudgx and Uracil- Obtained From Uracil Dna (Ttutt) Post Its Cleavage By Msmudgx within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe301

b:12.8
occ:1.00
 FE4 A:SF4301 0.0 12.8 1.0
S3 A:SF4301 2.3 11.0 1.0
S2 A:SF4301 2.3 10.2 1.0
S1 A:SF4301 2.3 12.2 1.0
ND1 A:HIS95 2.4 11.2 1.0
FE3 A:SF4301 2.7 12.6 1.0
FE2 A:SF4301 2.7 11.9 1.0
FE1 A:SF4301 2.7 11.8 1.0
CG A:HIS95 3.3 11.6 1.0
CE1 A:HIS95 3.4 12.4 1.0
CB A:HIS95 3.5 10.8 1.0
S4 A:SF4301 3.8 10.5 1.0
N A:HIS95 4.0 10.8 1.0
CA A:HIS95 4.4 10.2 1.0
CD2 A:HIS95 4.5 11.4 1.0
N A:TYR30 4.5 11.3 1.0
NE2 A:HIS95 4.6 11.8 1.0
CB A:LYS94 4.6 12.4 1.0
C A:LYS94 4.6 9.8 1.0
CB A:TYR30 4.6 12.1 1.0
SG A:CYS27 4.6 12.3 1.0
SG A:CYS24 4.7 12.2 1.0
CA A:TYR30 4.7 12.3 1.0
CB A:LEU29 4.8 11.8 1.0
SG A:CYS120 4.8 10.0 1.0
CB A:CYS24 4.8 12.2 1.0
N A:LYS94 4.8 11.5 1.0
CA A:LYS94 4.9 8.8 1.0
O A:CYS24 5.0 14.2 1.0

Reference:

S.Aroli, E.J.Woo, B.Gopal, U.Varshney. Mutational and Structural Analyses of Udgx: Insights Into the Active Site Pocket Architecture and Its Evolution. Nucleic Acids Res. 2023.
ISSN: ESSN 1362-4962
PubMed: 37283083
DOI: 10.1093/NAR/GKAD486
Page generated: Sat Aug 10 05:46:35 2024

Last articles

Zn in 9JPJ
Zn in 9JP7
Zn in 9JPK
Zn in 9JPL
Zn in 9GN6
Zn in 9GN7
Zn in 9GKU
Zn in 9GKW
Zn in 9GKX
Zn in 9GL0
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy