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Crystal structure of ribose-1,5-bisphosphate isomerase from Pyrococcus horikoshii OT3 in complex with ribulose-1,5-bisphosphate and AMP

Source organism: Pyrococcus horikoshii OT3
Biochemical function: ribose 1,5-bisphosphate isomerase activity
Biological process: cellular biosynthetic process
Cellular component: not assigned

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EC 5.3.1.29: Ribose-1,5-bisphosphate isomerase

Reaction catalysed:
Alpha-D-ribose 1,5-bisphosphate = D-ribulose 1,5-bisphosphate
Systematic name:
Alpha-D-ribose 1,5-bisphosphate aldose-ketose-isomerase
Alternative Name(s):
  • R15P isomerase
  • Ribulose 1,5-bisphosphate synthase
  • RuBP synthase

GO terms

Sequence family

Pfam Protein family (Pfam)
PF01008
Domain description: Initiation factor 2 subunit family
Occurring in:
  1. Ribose 1,5-bisphosphate isomerase
The deposited structure of PDB entry 5yfu contains 3 copies of Pfam domain PF01008 (Initiation factor 2 subunit family) in Ribose 1,5-bisphosphate isomerase. Showing 1 copy in chain A.

InterPro InterPro annotations
IPR005250
Domain description: Ribose-1,5-bisphosphate isomerase
Occurring in:
  1. Ribose 1,5-bisphosphate isomerase
IPR042529
Domain description: Initiation factor 2B-like, C-terminal
Occurring in:
  1. Ribose 1,5-bisphosphate isomerase
IPR000649
Domain description: Initiation factor 2B-related
Occurring in:
  1. Ribose 1,5-bisphosphate isomerase
IPR027363
Domain description: Methylthioribose-1-phosphate isomerase, N-terminal
Occurring in:
  1. Ribose 1,5-bisphosphate isomerase
IPR011559
Domain description: Initiation factor 2B alpha/beta/delta
Occurring in:
  1. Ribose 1,5-bisphosphate isomerase
IPR037171
Domain description: NagB/RpiA transferase-like
Occurring in:
  1. Ribose 1,5-bisphosphate isomerase

Structure domains

CATH CATH domains
1.20.120.420
Class: Mainly Alpha
Architecture: Up-down Bundle
Topology: Four Helix Bundle (Hemerythrin (Met), subunit A)
Homology: translation initiation factor eif-2b, domain 1
Occurring in:
  1. Ribose 1,5-bisphosphate isomerase
The deposited structure of PDB entry 5yfu contains 3 copies of CATH domain 1.20.120.420 (Four Helix Bundle (Hemerythrin (Met), subunit A)) in Ribose 1,5-bisphosphate isomerase. Showing 1 copy in chain A.
3.40.50.10470
Class: Alpha Beta
Architecture: 3-Layer(aba) Sandwich
Topology: Rossmann fold
Homology: Translation initiation factor eif-2b; domain 2
Occurring in:
  1. Ribose 1,5-bisphosphate isomerase
The deposited structure of PDB entry 5yfu contains 3 copies of CATH domain 3.40.50.10470 (Rossmann fold) in Ribose 1,5-bisphosphate isomerase. Showing 1 copy in chain A.

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