1H4Q

PROLYL-TRNA SYNTHETASE FROM THERMUS THERMOPHILUS COMPLEXED WITH TRNAPRO(CGG), ATP AND PROLINOL

Structural Biology Knowledgebase: 1H4Q SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.0 Å
  • R-Value Free: 0.254
  • R-Value Work: 0.221

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1H4Q

Classification: AMINOACYL-TRNA SYNTHETASE

Total Structure Weight: 135590.78


Macromolecule Entities
Molecule Chains Length Organism Details
PROLYL-TRNA SYNTHETASE A, B 477 Thermus thermophilus EC#: 6.1.1.15 IUBMB
Details: EACH MONOMER CONTAINS 1 ZINC ATOM CO-ORDINATED TO CYS-427, CYS-432, CYS-458, CYS-461
Gene Name(s): proS TTHA0115
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Macromolecule Entities
Molecule Chains Length Organism Details
TRNAPRO(CGG) T 77 Thermus thermophilus NOTE INSERTION IN D-LOOP (NUCLEOTIDE 17A). NOT ALL BASE MODIFICATIONS DETERMINED. ONLY 5MU-54 AND PSU-55 USED IN STRUCTURE.

Small Molecules
Ligands 4 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
ATP
Query on ATP

A, B ADENOSINE-5'-TRIPHOSPHATE
C10 H16 N5 O13 P3
ZKHQWZAMYRWXGA-KQYNXXCUSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
PRI
Query on PRI

A, B PYRROLIDINE-2-CARBALDEHYDE
PROLINOL (Synonym)
C5 H9 N O
JIDDDPVQQUHACU-YFKPBYRVSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

A, B SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ZN
Query on ZN

A, B ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 2 Unique
ID Chains Type Formula 2D Diagram Parent
5MU
Query on 5MU
T RNA LINKING C10 H15 N2 O9 P U
PSU
Query on PSU
T RNA LINKING C9 H13 N2 O9 P U

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.0 Å
  • R-Value Free: 0.254
  • R-Value Work: 0.221
  • Space Group: P 43 21 2
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 141.29 α = 90.00
b = 141.29 β = 90.00
c = 237.56 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2001-05-13
  • Released Date: 2001-06-18
  • Deposition author(s): Yaremchuk, A., Tukalo, M., Cusack, S.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4