Any feedback?
Please rate this page
(literature.php)
(0/150)

BRENDA support

Literature summary extracted from

  • Murakami, R.; Miyoshi, T.; Uchiumi, T.; Ito, K.
    Crystal structure of translation initiation factor 5B from the crenarchaeon Aeropyrum pernix (2016), Proteins, 84, 712-717 .
    View publication on PubMed

Cloned(Commentary)

EC Number Cloned (Comment) Organism
3.6.5.3 recombinant expression of C-terminally His6-tagged enzyme in Escherichia coli strain Rosetta(DE3) Aeropyrum pernix

Crystallization (Commentary)

EC Number Crystallization (Comment) Organism
3.6.5.3 purified recombinant C-terminally His6-tagged enzyme bound to GDP, 10 mg/ml protein and 1.42 mM GDP in buffer C are heated at 70°C for 10 min prior crystallization, sitting drop vapor diffusion method, mixing of 10 mg/ml protein in 10 mM HEPES-KOH, pH 7.6, 100 mM KCl, 10 mM MgCl2, 1.42 GDP, and 7 mM 2-mercaptoethanol with reservoir solution containing 0.1 M Tris-HCl, pH 7.5, 20% w/v PEG 3000, and 0.2 M calcium acetate, at 20°C, 1 week, X-ray diffraction structure determination and analysis at 1.90 A resolution, molecular replacement using the structure of Methanothermobacter thermautotrophicus aIF5B complexed with GDP (PDB ID 1G7S) as the search model Aeropyrum pernix

Metals/Ions

EC Number Metals/Ions Comment Organism Structure
3.6.5.3 Mg2+ required Aeropyrum pernix

Natural Substrates/ Products (Substrates)

EC Number Natural Substrates Organism Comment (Nat. Sub.) Natural Products Comment (Nat. Pro.) Rev. Reac.
3.6.5.3 GTP + H2O Aeropyrum pernix
-
 GDP + phosphate
-
 ?
3.6.5.3 GTP + H2O Aeropyrum pernix ATCC 700893
-
 GDP + phosphate
-
 ?
3.6.5.3 GTP + H2O Aeropyrum pernix DSM 11879
-
 GDP + phosphate
-
 ?
3.6.5.3 GTP + H2O Aeropyrum pernix JCM 9820
-
 GDP + phosphate
-
 ?
3.6.5.3 GTP + H2O Aeropyrum pernix NBRC 100138
-
 GDP + phosphate
-
 ?

Organism

EC Number Organism UniProt Comment Textmining
3.6.5.3 Aeropyrum pernix
-
-
-
3.6.5.3 Aeropyrum pernix ATCC 700893
-
-
-
3.6.5.3 Aeropyrum pernix DSM 11879
-
-
-
3.6.5.3 Aeropyrum pernix JCM 9820
-
-
-
3.6.5.3 Aeropyrum pernix NBRC 100138
-
-
-

Purification (Commentary)

EC Number Purification (Comment) Organism
3.6.5.3 recombinant C-terminally His6-tagged enzyme from Escherichia coli strain Rosetta(DE3) by heat treatment at 80°C for 20 min, nickel affinity chromatography, dialysis, cation exchange chromatography, followed gel filtration, dialysis, and ultrafiltration Aeropyrum pernix

Substrates and Products (Substrate)

EC Number Substrates Comment Substrates Organism Products Comment (Products) Rev. Reac.
3.6.5.3 GTP + H2O
-
 Aeropyrum pernix GDP + phosphate
-
 ?
3.6.5.3 GTP + H2O
-
 Aeropyrum pernix ATCC 700893 GDP + phosphate
-
 ?
3.6.5.3 GTP + H2O
-
 Aeropyrum pernix DSM 11879 GDP + phosphate
-
 ?
3.6.5.3 GTP + H2O
-
 Aeropyrum pernix JCM 9820 GDP + phosphate
-
 ?
3.6.5.3 GTP + H2O
-
 Aeropyrum pernix NBRC 100138 GDP + phosphate
-
 ?

Synonyms

EC Number Synonyms Comment Organism
3.6.5.3 aIF5B
-
 Aeropyrum pernix
3.6.5.3 IF5B
-
 Aeropyrum pernix
3.6.5.3 infB
-
 Aeropyrum pernix
3.6.5.3 initiation factor 5B
-
 Aeropyrum pernix
3.6.5.3 translation initiation factor 5B
-
 Aeropyrum pernix
3.6.5.3 translational GTPase
-
 Aeropyrum pernix

General Information

EC Number General Information Comment Organism
3.6.5.3 evolution different relationships between IF5B and IF1A exist in archaea and eukaryotes, overview Aeropyrum pernix
3.6.5.3 additional information archeal enzyme structure analysis with bound GDP, archaea-specific region of IF5B (helix alpha15) binds and occludes the groove of domain IV, comparison with eukaryotic IF5B enzymes, in which IF5B directly interacts via a groove in its domain IV with initiation factor 1A (IF1A). Archaeal IF5B cannot access IF1A in the same manner as eukaryotic IF5B. Structural comparison of crenarchaeal and euryarchaeal aIF5Bs with crenarchaeal and euryarchaeal, detailed overview Aeropyrum pernix
3.6.5.3 physiological function initiation factor 5B (IF5B) is a universally conserved translational GTPase that catalyzes ribosomal subunit joining Aeropyrum pernix