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

Iron in PDB 8iil: Complex Form of Msmudgx H109G Mutant and Uracil- Obtained From Uracil Dna (Ttutt) Post Its Cleavage By Msmudgx H109G

Enzymatic activity of Complex Form of Msmudgx H109G Mutant and Uracil- Obtained From Uracil Dna (Ttutt) Post Its Cleavage By Msmudgx H109G

All present enzymatic activity of Complex Form of Msmudgx H109G Mutant and Uracil- Obtained From Uracil Dna (Ttutt) Post Its Cleavage By Msmudgx H109G:
3.2.2.27;

Protein crystallography data

The structure of Complex Form of Msmudgx H109G Mutant and Uracil- Obtained From Uracil Dna (Ttutt) Post Its Cleavage By Msmudgx H109G, PDB code: 8iil was solved by S.Aroli, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 36.85 / 2.30
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 36.78, 50.83, 55.42, 90, 105.08, 90
R / Rfree (%) 19.1 / 23.7

Iron Binding Sites:

The binding sites of Iron atom in the Complex Form of Msmudgx H109G Mutant and Uracil- Obtained From Uracil Dna (Ttutt) Post Its Cleavage By Msmudgx H109G (pdb code 8iil). 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 H109G Mutant and Uracil- Obtained From Uracil Dna (Ttutt) Post Its Cleavage By Msmudgx H109G, PDB code: 8iil:
Jump to Iron binding site number: 1; 2; 3; 4;

Iron binding site 1 out of 4 in 8iil

Go back to Iron Binding Sites List in 8iil
Iron binding site 1 out of 4 in the Complex Form of Msmudgx H109G Mutant and Uracil- Obtained From Uracil Dna (Ttutt) Post Its Cleavage By Msmudgx H109G


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 H109G Mutant and Uracil- Obtained From Uracil Dna (Ttutt) Post Its Cleavage By Msmudgx H109G within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe301

b:15.4
occ:1.00
 FE1 A:SF4301 0.0 15.4 1.0
S3 A:SF4301 2.3 10.9 1.0
S2 A:SF4301 2.3 11.0 1.0
S4 A:SF4301 2.3 12.7 1.0
SG A:CYS120 2.5 14.1 1.0
FE4 A:SF4301 2.8 19.5 1.0
FE3 A:SF4301 2.8 18.2 1.0
FE2 A:SF4301 2.8 16.7 1.0
CB A:CYS120 3.3 11.7 1.0
CA A:CYS120 3.8 15.1 1.0
N A:LYS94 3.9 15.7 1.0
S1 A:SF4301 4.0 16.5 1.0
CD1 A:TRP123 4.2 15.1 1.0
CB A:LYS94 4.3 15.3 1.0
CG A:LYS94 4.4 17.5 1.0
NE1 A:TRP123 4.5 15.4 1.0
N A:CYS120 4.6 14.4 1.0
CA A:LYS94 4.7 16.2 1.0
SG A:CYS24 4.8 16.4 1.0
SG A:CYS27 4.8 15.1 1.0
CA A:VAL93 4.8 13.8 1.0
C A:VAL93 4.8 17.0 1.0
N A:HIS95 4.9 14.4 1.0
ND1 A:HIS95 5.0 16.1 1.0

Iron binding site 2 out of 4 in 8iil

Go back to Iron Binding Sites List in 8iil
Iron binding site 2 out of 4 in the Complex Form of Msmudgx H109G Mutant and Uracil- Obtained From Uracil Dna (Ttutt) Post Its Cleavage By Msmudgx H109G


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 H109G Mutant and Uracil- Obtained From Uracil Dna (Ttutt) Post Its Cleavage By Msmudgx H109G within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe301

b:16.7
occ:1.00
 FE2 A:SF4301 0.0 16.7 1.0
SG A:CYS27 2.3 15.1 1.0
S4 A:SF4301 2.3 12.7 1.0
S1 A:SF4301 2.3 16.5 1.0
S3 A:SF4301 2.3 10.9 1.0
FE3 A:SF4301 2.8 18.2 1.0
FE4 A:SF4301 2.8 19.5 1.0
FE1 A:SF4301 2.8 15.4 1.0
N A:CYS27 3.3 16.9 1.0
CB A:CYS27 3.4 15.5 1.0
CA A:CYS27 3.8 17.4 1.0
S2 A:SF4301 4.0 11.0 1.0
O A:CYS27 4.1 19.2 1.0
C A:CYS27 4.2 19.3 1.0
C A:GLY26 4.2 18.2 1.0
CA A:GLY26 4.5 17.9 1.0
N A:GLY26 4.6 19.1 1.0
CB A:LEU29 4.7 16.2 1.0
N A:LEU29 4.8 16.7 1.0
ND1 A:HIS95 5.0 16.1 1.0
N A:GLY28 5.0 17.7 1.0

Iron binding site 3 out of 4 in 8iil

Go back to Iron Binding Sites List in 8iil
Iron binding site 3 out of 4 in the Complex Form of Msmudgx H109G Mutant and Uracil- Obtained From Uracil Dna (Ttutt) Post Its Cleavage By Msmudgx H109G


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 H109G Mutant and Uracil- Obtained From Uracil Dna (Ttutt) Post Its Cleavage By Msmudgx H109G within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe301

b:18.2
occ:1.00
 FE3 A:SF4301 0.0 18.2 1.0
S1 A:SF4301 2.3 16.5 1.0
S4 A:SF4301 2.3 12.7 1.0
S2 A:SF4301 2.3 11.0 1.0
SG A:CYS24 2.3 16.4 1.0
FE4 A:SF4301 2.8 19.5 1.0
FE2 A:SF4301 2.8 16.7 1.0
FE1 A:SF4301 2.8 15.4 1.0
CB A:CYS24 3.3 17.5 1.0
N A:GLY26 3.5 19.1 1.0
CA A:GLY26 3.9 17.9 1.0
S3 A:SF4301 3.9 10.9 1.0
NE1 A:TRP123 4.0 15.4 1.0
C A:CYS24 4.1 20.8 1.0
O A:CYS24 4.2 19.0 1.0
N A:CYS27 4.3 16.9 1.0
CA A:CYS24 4.3 20.6 1.0
CB A:ALA4 4.3 17.1 1.0
N A:ARG25 4.3 20.4 1.0
C A:ARG25 4.5 22.1 1.0
C A:GLY26 4.5 18.2 1.0
CD1 A:TRP123 4.6 15.1 1.0
ND1 A:HIS95 4.7 16.1 1.0
CA A:ARG25 4.8 20.5 1.0
SG A:CYS27 5.0 15.1 1.0

Iron binding site 4 out of 4 in 8iil

Go back to Iron Binding Sites List in 8iil
Iron binding site 4 out of 4 in the Complex Form of Msmudgx H109G Mutant and Uracil- Obtained From Uracil Dna (Ttutt) Post Its Cleavage By Msmudgx H109G


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 H109G Mutant and Uracil- Obtained From Uracil Dna (Ttutt) Post Its Cleavage By Msmudgx H109G within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe301

b:19.5
occ:1.00
 FE4 A:SF4301 0.0 19.5 1.0
S2 A:SF4301 2.3 11.0 1.0
S3 A:SF4301 2.3 10.9 1.0
S1 A:SF4301 2.3 16.5 1.0
ND1 A:HIS95 2.3 16.1 1.0
FE3 A:SF4301 2.8 18.2 1.0
FE1 A:SF4301 2.8 15.4 1.0
FE2 A:SF4301 2.8 16.7 1.0
CG A:HIS95 3.2 15.9 1.0
CE1 A:HIS95 3.3 14.9 1.0
CB A:HIS95 3.4 11.5 1.0
S4 A:SF4301 3.9 12.7 1.0
N A:HIS95 4.0 14.4 1.0
CA A:HIS95 4.4 13.7 1.0
CD2 A:HIS95 4.4 15.2 1.0
NE2 A:HIS95 4.4 12.7 1.0
N A:TYR30 4.6 18.4 1.0
C A:LYS94 4.6 14.0 1.0
CB A:LYS94 4.7 15.3 1.0
CB A:TYR30 4.7 19.4 1.0
SG A:CYS27 4.7 15.1 1.0
N A:LYS94 4.8 15.7 1.0
SG A:CYS24 4.8 16.4 1.0
CA A:TYR30 4.9 19.6 1.0
CA A:LYS94 4.9 16.2 1.0
O A:CYS24 4.9 19.0 1.0
CB A:CYS24 5.0 17.5 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 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