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Iron in PDB 1orn: Structure of A Trapped Endonuclease III-Dna Covalent Intermediate: Estranged-Guanine Complex

Protein crystallography data

The structure of Structure of A Trapped Endonuclease III-Dna Covalent Intermediate: Estranged-Guanine Complex, PDB code: 1orn was solved by J.C.Fromme, G.L.Verdine, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 29.58 / 1.70
Space group P 21 21 2
Cell size a, b, c (Å), α, β, γ (°) 67.826, 106.828, 41.708, 90.00, 90.00, 90.00
R / Rfree (%) 23.5 / 24.8

Other elements in 1orn:

The structure of Structure of A Trapped Endonuclease III-Dna Covalent Intermediate: Estranged-Guanine Complex also contains other interesting chemical elements:

Sodium (Na) 1 atom

Iron Binding Sites:

The binding sites of Iron atom in the Structure of A Trapped Endonuclease III-Dna Covalent Intermediate: Estranged-Guanine Complex (pdb code 1orn). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 4 binding sites of Iron where determined in the Structure of A Trapped Endonuclease III-Dna Covalent Intermediate: Estranged-Guanine Complex, PDB code: 1orn:
Jump to Iron binding site number: 1; 2; 3; 4;

Iron binding site 1 out of 4 in 1orn

Go back to Iron Binding Sites List in 1orn
Iron binding site 1 out of 4 in the Structure of A Trapped Endonuclease III-Dna Covalent Intermediate: Estranged-Guanine Complex


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Structure of A Trapped Endonuclease III-Dna Covalent Intermediate: Estranged-Guanine Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe300

b:36.9
occ:1.00
FE1 A:SF4300 0.0 36.9 1.0
S2 A:SF4300 2.3 36.3 1.0
S4 A:SF4300 2.3 37.3 1.0
SG A:CYS199 2.3 37.7 1.0
S3 A:SF4300 2.3 37.2 1.0
FE3 A:SF4300 2.6 38.7 1.0
FE4 A:SF4300 2.7 37.1 1.0
FE2 A:SF4300 2.8 34.9 1.0
CB A:CYS199 3.1 43.6 1.0
S1 A:SF4300 3.9 36.8 1.0
CZ A:PHE184 4.3 33.7 1.0
NE2 A:HIS188 4.5 43.7 1.0
CA A:CYS196 4.5 46.1 1.0
CA A:CYS199 4.5 45.1 1.0
CD2 A:HIS188 4.6 42.5 1.0
N A:LEU202 4.8 42.5 1.0
CE2 A:PHE184 4.8 33.8 1.0
CB A:LEU201 4.8 41.8 1.0
SG A:CYS205 4.9 40.3 1.0
SG A:CYS189 5.0 31.4 1.0
C A:LEU201 5.0 42.5 1.0

Iron binding site 2 out of 4 in 1orn

Go back to Iron Binding Sites List in 1orn
Iron binding site 2 out of 4 in the Structure of A Trapped Endonuclease III-Dna Covalent Intermediate: Estranged-Guanine Complex


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Structure of A Trapped Endonuclease III-Dna Covalent Intermediate: Estranged-Guanine Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe300

b:34.9
occ:1.00
FE2 A:SF4300 0.0 34.9 1.0
S3 A:SF4300 2.2 37.2 1.0
S4 A:SF4300 2.3 37.3 1.0
S1 A:SF4300 2.3 36.8 1.0
SG A:CYS189 2.4 31.4 1.0
FE4 A:SF4300 2.7 37.1 1.0
FE3 A:SF4300 2.7 38.7 1.0
FE1 A:SF4300 2.8 36.9 1.0
CB A:CYS189 3.3 31.9 1.0
S2 A:SF4300 3.8 36.3 1.0
CA A:CYS189 4.0 33.7 1.0
CE2 A:PHE184 4.4 33.8 1.0
CB A:PRO194 4.5 44.9 1.0
CD A:ARG148 4.6 32.3 1.0
NH1 A:ARG148 4.7 32.2 1.0
CZ A:PHE184 4.7 33.7 1.0
SG A:CYS205 4.8 40.3 1.0
SG A:CYS199 4.9 37.7 1.0
SG A:CYS196 4.9 46.1 1.0
N A:CYS189 5.0 32.8 1.0
C A:CYS189 5.0 34.8 1.0

Iron binding site 3 out of 4 in 1orn

Go back to Iron Binding Sites List in 1orn
Iron binding site 3 out of 4 in the Structure of A Trapped Endonuclease III-Dna Covalent Intermediate: Estranged-Guanine Complex


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Structure of A Trapped Endonuclease III-Dna Covalent Intermediate: Estranged-Guanine Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe300

b:38.7
occ:1.00
FE3 A:SF4300 0.0 38.7 1.0
S2 A:SF4300 2.2 36.3 1.0
S4 A:SF4300 2.2 37.3 1.0
S1 A:SF4300 2.3 36.8 1.0
SG A:CYS196 2.5 46.1 1.0
FE1 A:SF4300 2.6 36.9 1.0
FE2 A:SF4300 2.7 34.9 1.0
FE4 A:SF4300 2.7 37.1 1.0
CB A:CYS196 3.3 46.7 1.0
CA A:CYS196 3.5 46.1 1.0
S3 A:SF4300 3.8 37.2 1.0
N A:CYS196 3.9 45.0 1.0
CA A:GLY208 4.0 46.9 1.0
CB A:PRO194 4.2 44.9 1.0
N A:GLY208 4.5 45.4 1.0
CB A:CYS199 4.6 43.6 1.0
C A:GLN195 4.7 43.6 1.0
SG A:CYS199 4.7 37.7 1.0
C A:CYS196 4.8 46.8 1.0
SG A:CYS189 4.8 31.4 1.0
SG A:CYS205 4.8 40.3 1.0
CG A:PRO194 4.9 45.3 1.0

Iron binding site 4 out of 4 in 1orn

Go back to Iron Binding Sites List in 1orn
Iron binding site 4 out of 4 in the Structure of A Trapped Endonuclease III-Dna Covalent Intermediate: Estranged-Guanine Complex


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Structure of A Trapped Endonuclease III-Dna Covalent Intermediate: Estranged-Guanine Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe300

b:37.1
occ:1.00
FE4 A:SF4300 0.0 37.1 1.0
S2 A:SF4300 2.2 36.3 1.0
S3 A:SF4300 2.2 37.2 1.0
S1 A:SF4300 2.3 36.8 1.0
SG A:CYS205 2.4 40.3 1.0
FE1 A:SF4300 2.7 36.9 1.0
FE2 A:SF4300 2.7 34.9 1.0
FE3 A:SF4300 2.7 38.7 1.0
CB A:CYS205 3.2 41.6 1.0
N A:GLY208 3.8 45.4 1.0
S4 A:SF4300 3.8 37.3 1.0
CD1 A:LEU149 4.0 41.4 1.0
CA A:GLY208 4.0 46.9 1.0
CA A:CYS205 4.7 43.2 1.0
SG A:CYS199 4.7 37.7 1.0
CB A:GLU207 4.8 45.8 1.0
SG A:CYS189 4.8 31.4 1.0
C A:GLU207 4.9 45.2 1.0
SG A:CYS196 5.0 46.1 1.0

Reference:

J.C.Fromme, G.L.Verdine. Structure of A Trapped Endonuclease III-Dna Covalent Intermediate Embo J. V. 22 3461 2003.
ISSN: ISSN 0261-4189
PubMed: 12840008
DOI: 10.1093/EMBOJ/CDG311
Page generated: Sat Aug 3 12:38:53 2024

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