Atomistry » Iron » PDB 2zph-3a0b » 3a05
Atomistry »
  Iron »
    PDB 2zph-3a0b »
      3a05 »

Iron in PDB 3a05: Crystal Structure of Tryptophanyl-Trna Synthetase From Hyperthermophilic Archaeon, Aeropyrum Pernix K1 Complex with Tryptophan

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

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

Protein crystallography data

The structure of Crystal Structure of Tryptophanyl-Trna Synthetase From Hyperthermophilic Archaeon, Aeropyrum Pernix K1 Complex with Tryptophan, PDB code: 3a05 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) 49.09 / 2.20
Space group C 2 2 21
Cell size a, b, c (Å), α, β, γ (°) 98.212, 102.919, 97.645, 90.00, 90.00, 90.00
R / Rfree (%) 18.9 / 24.4

Other elements in 3a05:

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

Cadmium (Cd) 3 atoms

Iron Binding Sites:

The binding sites of Iron atom in the Crystal Structure of Tryptophanyl-Trna Synthetase From Hyperthermophilic Archaeon, Aeropyrum Pernix K1 Complex with Tryptophan (pdb code 3a05). 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 Complex with Tryptophan, PDB code: 3a05:
Jump to Iron binding site number: 1; 2; 3; 4;

Iron binding site 1 out of 4 in 3a05

Go back to Iron Binding Sites List in 3a05
Iron binding site 1 out of 4 in the Crystal Structure of Tryptophanyl-Trna Synthetase From Hyperthermophilic Archaeon, Aeropyrum Pernix K1 Complex with Tryptophan


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 Complex with Tryptophan within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe373

b:49.1
occ:1.00
FE1 A:SF4373 0.0 49.1 1.0
SG A:CYS327 2.2 54.9 1.0
S3 A:SF4373 2.3 47.5 1.0
S2 A:SF4373 2.3 47.8 1.0
S4 A:SF4373 2.4 44.0 1.0
FE4 A:SF4373 2.7 48.0 1.0
FE2 A:SF4373 2.8 41.9 1.0
FE3 A:SF4373 2.8 43.1 1.0
CB A:CYS327 3.2 56.7 1.0
S1 A:SF4373 3.9 44.8 1.0
CA A:CYS327 4.2 57.4 1.0
CA A:GLY298 4.4 61.1 1.0
NE2 A:GLN293 4.7 79.2 1.0
SG A:CYS337 4.7 41.1 1.0
CG A:PRO300 4.7 47.2 1.0
SG A:CYS334 4.8 43.3 1.0
C A:GLY298 4.8 57.9 1.0
CD A:PRO300 4.9 48.7 1.0
N A:VAL299 4.9 54.1 1.0
C A:CYS327 5.0 58.5 1.0

Iron binding site 2 out of 4 in 3a05

Go back to Iron Binding Sites List in 3a05
Iron binding site 2 out of 4 in the Crystal Structure of Tryptophanyl-Trna Synthetase From Hyperthermophilic Archaeon, Aeropyrum Pernix K1 Complex with Tryptophan


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 Complex with Tryptophan within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe373

b:41.9
occ:1.00
FE2 A:SF4373 0.0 41.9 1.0
SG A:CYS337 2.2 41.1 1.0
S1 A:SF4373 2.3 44.8 1.0
S4 A:SF4373 2.3 44.0 1.0
S3 A:SF4373 2.3 47.5 1.0
FE3 A:SF4373 2.7 43.1 1.0
FE1 A:SF4373 2.8 49.1 1.0
FE4 A:SF4373 2.8 48.0 1.0
CB A:CYS337 3.0 38.5 1.0
S2 A:SF4373 3.9 47.8 1.0
CA A:CYS337 4.4 38.0 1.0
SG A:CYS327 4.7 54.9 1.0
SG A:CYS303 4.7 39.2 1.0
CG2 A:ILE323 4.7 40.7 1.0
CA A:CYS334 4.8 45.1 1.0
CB A:CYS327 4.8 56.7 1.0
CG1 A:VAL305 4.9 30.3 1.0
CB A:VAL305 4.9 32.4 1.0
C A:CYS337 5.0 35.6 1.0
SG A:CYS334 5.0 43.3 1.0

Iron binding site 3 out of 4 in 3a05

Go back to Iron Binding Sites List in 3a05
Iron binding site 3 out of 4 in the Crystal Structure of Tryptophanyl-Trna Synthetase From Hyperthermophilic Archaeon, Aeropyrum Pernix K1 Complex with Tryptophan


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 Complex with Tryptophan within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe373

b:43.1
occ:1.00
FE3 A:SF4373 0.0 43.1 1.0
S4 A:SF4373 2.2 44.0 1.0
S1 A:SF4373 2.3 44.8 1.0
S2 A:SF4373 2.4 47.8 1.0
SG A:CYS303 2.4 39.2 1.0
FE2 A:SF4373 2.7 41.9 1.0
FE1 A:SF4373 2.8 49.1 1.0
FE4 A:SF4373 2.9 48.0 1.0
CB A:CYS303 3.2 35.1 1.0
S3 A:SF4373 3.9 47.5 1.0
N A:GLY285 4.2 45.0 1.0
CB A:THR284 4.3 43.8 1.0
N A:TYR306 4.3 30.5 1.0
CB A:TYR306 4.4 30.4 1.0
CB A:VAL305 4.5 32.4 1.0
CA A:CYS303 4.6 35.9 1.0
CA A:THR284 4.6 43.0 1.0
SG A:CYS327 4.6 54.9 1.0
SG A:CYS337 4.7 41.1 1.0
CG2 A:THR284 4.8 38.6 1.0
SG A:CYS334 4.9 43.3 1.0
CA A:TYR306 4.9 31.2 1.0
C A:THR284 4.9 43.6 1.0

Iron binding site 4 out of 4 in 3a05

Go back to Iron Binding Sites List in 3a05
Iron binding site 4 out of 4 in the Crystal Structure of Tryptophanyl-Trna Synthetase From Hyperthermophilic Archaeon, Aeropyrum Pernix K1 Complex with Tryptophan


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 Complex with Tryptophan within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe373

b:48.0
occ:1.00
FE4 A:SF4373 0.0 48.0 1.0
S2 A:SF4373 2.3 47.8 1.0
S1 A:SF4373 2.3 44.8 1.0
S3 A:SF4373 2.3 47.5 1.0
SG A:CYS334 2.3 43.3 1.0
FE1 A:SF4373 2.7 49.1 1.0
FE2 A:SF4373 2.8 41.9 1.0
FE3 A:SF4373 2.9 43.1 1.0
CB A:CYS334 3.3 45.7 1.0
CA A:CYS334 3.4 45.1 1.0
N A:CYS334 3.9 45.8 1.0
S4 A:SF4373 4.0 44.0 1.0
CB A:THR284 4.1 43.8 1.0
CB A:CYS337 4.5 38.5 1.0
CG2 A:THR284 4.5 38.6 1.0
CA A:GLY286 4.5 52.4 1.0
N A:GLY286 4.5 50.1 1.0
OG1 A:THR284 4.6 44.4 1.0
C A:LEU333 4.7 47.0 1.0
SG A:CYS327 4.7 54.9 1.0
C A:CYS334 4.7 45.3 1.0
SG A:CYS337 4.7 41.1 1.0
OE1 A:GLN293 4.7 79.2 1.0
SG A:CYS303 4.8 39.2 1.0
O A:CYS334 4.9 45.4 1.0
N A:GLY285 4.9 45.0 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 06:25:34 2024

Last articles

Zn in 9JYW
Zn in 9IR4
Zn in 9IR3
Zn in 9GMX
Zn in 9GMW
Zn in 9JEJ
Zn in 9ERF
Zn in 9ERE
Zn in 9EGV
Zn in 9EGW
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy