Atomistry » Iron » PDB 2zph-3a0b » 3a04
Atomistry »
  Iron »
    PDB 2zph-3a0b »
      3a04 »

Iron in PDB 3a04: Crystal Structure of Tryptophanyl-Trna Synthetase From Hyperthermophilic Archaeon, Aeropyrum Pernix K1

Enzymatic activity of Crystal Structure of Tryptophanyl-Trna Synthetase From Hyperthermophilic Archaeon, Aeropyrum Pernix K1

All present enzymatic activity of Crystal Structure of Tryptophanyl-Trna Synthetase From Hyperthermophilic Archaeon, Aeropyrum Pernix K1:
6.1.1.2;

Protein crystallography data

The structure of Crystal Structure of Tryptophanyl-Trna Synthetase From Hyperthermophilic Archaeon, Aeropyrum Pernix K1, PDB code: 3a04 was solved by W.Tsuchiya, Z.Fujimoto, T.Hasegawa, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 32.48 / 1.97
Space group C 2 2 21
Cell size a, b, c (Å), α, β, γ (°) 98.709, 103.194, 97.806, 90.00, 90.00, 90.00
R / Rfree (%) 17.8 / 23.5

Other elements in 3a04:

The structure of Crystal Structure of Tryptophanyl-Trna Synthetase From Hyperthermophilic Archaeon, Aeropyrum Pernix K1 also contains other interesting chemical elements:

Cadmium (Cd) 2 atoms

Iron Binding Sites:

The binding sites of Iron atom in the Crystal Structure of Tryptophanyl-Trna Synthetase From Hyperthermophilic Archaeon, Aeropyrum Pernix K1 (pdb code 3a04). 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 Tryptophanyl-Trna Synthetase From Hyperthermophilic Archaeon, Aeropyrum Pernix K1, PDB code: 3a04:
Jump to Iron binding site number: 1; 2; 3; 4;

Iron binding site 1 out of 4 in 3a04

Go back to Iron Binding Sites List in 3a04
Iron binding site 1 out of 4 in the Crystal Structure of Tryptophanyl-Trna Synthetase From Hyperthermophilic Archaeon, Aeropyrum Pernix K1


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 Tryptophanyl-Trna Synthetase From Hyperthermophilic Archaeon, Aeropyrum Pernix K1 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe373

b:44.7
occ:1.00
 FE1 A:SF4373 0.0 44.7 1.0
S2 A:SF4373 2.2 44.9 1.0
SG A:CYS337 2.3 41.0 1.0
S3 A:SF4373 2.3 44.9 1.0
S4 A:SF4373 2.4 46.2 1.0
FE4 A:SF4373 2.6 42.4 1.0
FE3 A:SF4373 2.7 49.0 1.0
FE2 A:SF4373 2.7 49.3 1.0
CB A:CYS337 3.0 39.3 1.0
S1 A:SF4373 3.9 48.7 1.0
CA A:CYS337 4.4 39.0 1.0
CG2 A:ILE323 4.6 40.7 1.0
SG A:CYS303 4.7 38.5 1.0
SG A:CYS327 4.8 55.2 1.0
CA A:CYS334 4.8 45.3 1.0
CB A:CYS327 4.8 57.5 1.0
CG1 A:VAL305 4.8 36.0 1.0
SG A:CYS334 4.8 47.9 1.0
C A:CYS337 5.0 38.1 1.0

Iron binding site 2 out of 4 in 3a04

Go back to Iron Binding Sites List in 3a04
Iron binding site 2 out of 4 in the Crystal Structure of Tryptophanyl-Trna Synthetase From Hyperthermophilic Archaeon, Aeropyrum Pernix K1


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 Tryptophanyl-Trna Synthetase From Hyperthermophilic Archaeon, Aeropyrum Pernix K1 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe373

b:49.3
occ:1.00
 FE2 A:SF4373 0.0 49.3 1.0
SG A:CYS327 2.2 55.2 1.0
S1 A:SF4373 2.3 48.7 1.0
S4 A:SF4373 2.3 46.2 1.0
S3 A:SF4373 2.3 44.9 1.0
FE1 A:SF4373 2.7 44.7 1.0
FE3 A:SF4373 2.7 49.0 1.0
FE4 A:SF4373 2.8 42.4 1.0
CB A:CYS327 3.1 57.5 1.0
S2 A:SF4373 3.9 44.9 1.0
CA A:CYS327 4.3 57.9 1.0
NE2 A:GLN293 4.4 69.6 1.0
CG A:PRO300 4.5 48.7 1.0
CA A:GLY298 4.5 57.2 1.0
SG A:CYS337 4.8 41.0 1.0
SG A:CYS334 4.8 47.9 1.0
N A:VAL299 4.8 51.2 1.0
CD A:PRO300 4.9 50.2 1.0
C A:GLY298 4.9 54.7 1.0
N A:PRO300 4.9 49.7 1.0
CG2 A:ILE332 5.0 53.1 1.0

Iron binding site 3 out of 4 in 3a04

Go back to Iron Binding Sites List in 3a04
Iron binding site 3 out of 4 in the Crystal Structure of Tryptophanyl-Trna Synthetase From Hyperthermophilic Archaeon, Aeropyrum Pernix K1


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 Tryptophanyl-Trna Synthetase From Hyperthermophilic Archaeon, Aeropyrum Pernix K1 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe373

b:49.0
occ:1.00
 FE3 A:SF4373 0.0 49.0 1.0
SG A:CYS334 2.3 47.9 1.0
S1 A:SF4373 2.3 48.7 1.0
S2 A:SF4373 2.3 44.9 1.0
S4 A:SF4373 2.3 46.2 1.0
FE1 A:SF4373 2.7 44.7 1.0
FE4 A:SF4373 2.7 42.4 1.0
FE2 A:SF4373 2.7 49.3 1.0
CB A:CYS334 3.4 46.4 1.0
CA A:CYS334 3.6 45.3 1.0
S3 A:SF4373 3.9 44.9 1.0
N A:CYS334 4.0 45.5 1.0
CB A:THR284 4.1 44.1 1.0
CG2 A:THR284 4.5 42.8 1.0
NE2 A:GLN293 4.5 69.6 1.0
CB A:CYS337 4.5 39.3 1.0
OG1 A:THR284 4.6 47.0 1.0
N A:GLY286 4.6 52.1 1.0
CA A:GLY286 4.6 56.2 1.0
SG A:CYS303 4.7 38.5 1.0
C A:LEU333 4.7 46.3 1.0
SG A:CYS337 4.7 41.0 1.0
SG A:CYS327 4.7 55.2 1.0
C A:CYS334 4.9 45.5 1.0

Iron binding site 4 out of 4 in 3a04

Go back to Iron Binding Sites List in 3a04
Iron binding site 4 out of 4 in the Crystal Structure of Tryptophanyl-Trna Synthetase From Hyperthermophilic Archaeon, Aeropyrum Pernix K1


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 Tryptophanyl-Trna Synthetase From Hyperthermophilic Archaeon, Aeropyrum Pernix K1 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe373

b:42.4
occ:1.00
 FE4 A:SF4373 0.0 42.4 1.0
S3 A:SF4373 2.2 44.9 1.0
S2 A:SF4373 2.3 44.9 1.0
SG A:CYS303 2.4 38.5 1.0
S1 A:SF4373 2.4 48.7 1.0
FE1 A:SF4373 2.6 44.7 1.0
FE3 A:SF4373 2.7 49.0 1.0
FE2 A:SF4373 2.8 49.3 1.0
CB A:CYS303 3.2 38.8 1.0
S4 A:SF4373 3.9 46.2 1.0
CB A:THR284 4.2 44.1 1.0
N A:GLY285 4.3 46.5 1.0
CB A:TYR306 4.4 34.0 1.0
N A:TYR306 4.4 35.0 1.0
CB A:VAL305 4.4 37.7 1.0
CA A:CYS303 4.6 38.5 1.0
CG2 A:THR284 4.6 42.8 1.0
SG A:CYS337 4.7 41.0 1.0
SG A:CYS334 4.7 47.9 1.0
CA A:THR284 4.7 44.6 1.0
SG A:CYS327 4.8 55.2 1.0
CA A:PRO300 5.0 49.0 1.0
CA A:TYR306 5.0 34.0 1.0

Reference:

W.Tsuchiya, Z.Fujimoto, T.Hasegawa. Crystal Structure of Tryptophanyl-Trna Synthetase From Hyperthermophilic Archaeon, Aeropyrum Pernix K1 To Be Published.
Page generated: Sun Aug 4 06:25:26 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