General information
PDB ID 1GAX
Title CRYSTAL STRUCTURE OF THERMUS THERMOPHILUS VALYL-TRNA SYNTHETASE COMPLEXED WITH TRNA(VAL) AND VALYL-ADENYLATE ANALOGUE
PDB header LIGASE/RNA
Date 2000-06-23
Experimental method X-RAY DIFFRACTION
Resolution (A) 2.9
Kind rna
Organism THERMUS THERMOPHILUS
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PDB PDBe MMDB Jena OCA
CATH PDBsum HSSP PDBePISA UniProt
ProteopediA BIPA
PRIDB
Composition of PDB entry and biounits
File: Protein chains: DNA chains: RNA chains: No. of models: Action:
PDB entry:
pdb1gax.pdb AB CD 0
Biounits:
1gax.pdb1.pdb A C 1
1gax.pdb2.pdb B D 1
Pfam domains
Name: Type: Domain: E-value: Significance: Clan: Prot. chain: Start res.: End res.: Nuc. chains: Int. mode: Action:
Anticodon_1 Domain P96142_607-748 5.4e-37 1 CL0258 A 607 748 C   
Anticodon_1 Domain P96142_607-748 5.4e-37 1 CL0258 A 607 748 C   
Val_tRNA-synt_C Domain P96142_797-862 7.6e-21 1 CL0298 A 797 862 C   
Val_tRNA-synt_C Domain P96142_797-862 7.6e-21 1 CL0298 A 797 862 C   
Anticodon_1 Domain P96142_607-748 5.4e-37 1 CL0258 B 607 748 D   
Anticodon_1 Domain P96142_607-748 5.4e-37 1 CL0258 B 607 748 D   
Val_tRNA-synt_C Domain P96142_797-862 7.6e-21 1 CL0298 B 797 862 D   
Val_tRNA-synt_C Domain P96142_797-862 7.6e-21 1 CL0298 B 797 862 D   
tRNA-synt_1 Family P96142_13-568 2.9e-186 1 CL0039 A 13 568 C   
tRNA-synt_1 Family P96142_13-568 2.9e-186 1 CL0039 A 13 568 C   
tRNA-synt_1 Family P96142_13-568 2.9e-186 1 CL0039 B 13 568 D   
tRNA-synt_1 Family P96142_13-568 2.9e-186 1 CL0039 B 13 568 D   
SCOP domains
Classification: Protein: Prot. chain: Start res.: End res.: Nuc. chains: Int. mode: Action:
Class: All beta proteins
  Fold: ValRS/IleRS/LeuRS editing domain
    Superfamily: ValRS/IleRS/LeuRS editing domain
      Family: ValRS/IleRS/LeuRS editing domain
Valyl-tRNA synthetase (ValRS) A 190 342 C -
Class: All beta proteins
  Fold: ValRS/IleRS/LeuRS editing domain
    Superfamily: ValRS/IleRS/LeuRS editing domain
      Family: ValRS/IleRS/LeuRS editing domain
Valyl-tRNA synthetase (ValRS) B 190 342 D -
Class: Alpha and beta proteins (a/b)
  Fold: Adenine nucleotide alpha hydrolase-like
    Superfamily: Nucleotidylyl transferase
      Family: Class I aminoacyl-tRNA synthetases (RS), catalytic domain
Valyl-tRNA synthetase (ValRS) A 1 189 C -
Class: Alpha and beta proteins (a/b)
  Fold: Adenine nucleotide alpha hydrolase-like
    Superfamily: Nucleotidylyl transferase
      Family: Class I aminoacyl-tRNA synthetases (RS), catalytic domain
Valyl-tRNA synthetase (ValRS) A 343 578 C -
Class: Alpha and beta proteins (a/b)
  Fold: Adenine nucleotide alpha hydrolase-like
    Superfamily: Nucleotidylyl transferase
      Family: Class I aminoacyl-tRNA synthetases (RS), catalytic domain
Valyl-tRNA synthetase (ValRS) A 1 189 C -
Class: Alpha and beta proteins (a/b)
  Fold: Adenine nucleotide alpha hydrolase-like
    Superfamily: Nucleotidylyl transferase
      Family: Class I aminoacyl-tRNA synthetases (RS), catalytic domain
Valyl-tRNA synthetase (ValRS) A 343 578 C -
Class: Alpha and beta proteins (a/b)
  Fold: Adenine nucleotide alpha hydrolase-like
    Superfamily: Nucleotidylyl transferase
      Family: Class I aminoacyl-tRNA synthetases (RS), catalytic domain
Valyl-tRNA synthetase (ValRS) B 1 189 D -
Class: Alpha and beta proteins (a/b)
  Fold: Adenine nucleotide alpha hydrolase-like
    Superfamily: Nucleotidylyl transferase
      Family: Class I aminoacyl-tRNA synthetases (RS), catalytic domain
Valyl-tRNA synthetase (ValRS) B 343 578 D -
Class: Alpha and beta proteins (a/b)
  Fold: Adenine nucleotide alpha hydrolase-like
    Superfamily: Nucleotidylyl transferase
      Family: Class I aminoacyl-tRNA synthetases (RS), catalytic domain
Valyl-tRNA synthetase (ValRS) B 1 189 D -
Class: Alpha and beta proteins (a/b)
  Fold: Adenine nucleotide alpha hydrolase-like
    Superfamily: Nucleotidylyl transferase
      Family: Class I aminoacyl-tRNA synthetases (RS), catalytic domain
Valyl-tRNA synthetase (ValRS) B 343 578 D -
Class: All alpha proteins
  Fold: Long alpha-hairpin
    Superfamily: tRNA-binding arm
      Family: Valyl-tRNA synthetase (ValRS) C-terminal domain
Valyl-tRNA synthetase (ValRS) C-terminal domain A 797 862 C -
Class: All alpha proteins
  Fold: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases
    Superfamily: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases
      Family: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases
Valyl-tRNA synthetase (ValRS) A 579 796 C -
Class: All alpha proteins
  Fold: Long alpha-hairpin
    Superfamily: tRNA-binding arm
      Family: Valyl-tRNA synthetase (ValRS) C-terminal domain
Valyl-tRNA synthetase (ValRS) C-terminal domain B 797 862 D -
Class: All alpha proteins
  Fold: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases
    Superfamily: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases
      Family: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases
Valyl-tRNA synthetase (ValRS) B 579 796 D -
GO terms
Protein chains: GO type: GO description:
A/B=1-862 C cytoplasm
A/B=1-862 F valine-tRNA ligase activity
A/B=1-862 F aminoacyl-tRNA editing activity
A/B=1-862 F metal ion binding
A/B=1-862 F ATP binding
A/B=1-862 P valyl-tRNA aminoacylation
A/B=1-862 P regulation of translational fidelity
Sequences
Download file with secondary structure created by Stride  
1gax.pdb1.pdb:   [ download sequences in FASTA format ]
A (protein): 
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C (rna): 
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1gax.pdb2.pdb:   [ download sequences in FASTA format ]
B (protein): 
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D (rna): 
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