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CRYSTAL STRUCTURE OF PYRUVATE-FERREDOXIN OXIDOREDUCTASE FROM DESULFOVIBRIO AFRICANUS

Source organism: Desulfocurvibacter africanus
Biochemical function: 4 iron, 4 sulfur cluster binding
Biological process: electron transport chain
Cellular component: cytoplasm

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EC 1.2.7.1: Pyruvate synthase

Reaction catalysed:
Pyruvate + CoA + 2 oxidized ferredoxin = acetyl-CoA + CO(2) + 2 reduced ferredoxin + 2 H(+)
Systematic name:
Pyruvate:ferredoxin 2-oxidoreductase (CoA-acetylating)
Alternative Name(s):
  • 2-ketobutyrate synthase
  • 2-oxobutanoate:ferredoxin 2-oxidoreductase (CoA-propanoylating)
  • 2-oxobutanoate:ferredoxin 2-oxidoreductase (CoA-propionylating)
  • 2-oxobutyrate synthase
  • 2-oxobutyrate-ferredoxin oxidoreductase
  • Alpha-ketobutyrate synthase
  • Alpha-ketobutyrate-ferredoxin oxidoreductase
  • Pyruvate oxidoreductase
  • Pyruvate synthetase
  • Pyruvate:ferredoxin oxidoreductase
  • Pyruvic-ferredoxin oxidoreductase

GO terms

Sequence families

Pfam Protein families (Pfam)
PF02775
Domain description: Thiamine pyrophosphate enzyme, C-terminal TPP binding domain
Occurring in:
  1. Pyruvate:ferredoxin oxidoreductase
The deposited structure of PDB entry 1b0p contains 2 copies of Pfam domain PF02775 (Thiamine pyrophosphate enzyme, C-terminal TPP binding domain) in Pyruvate:ferredoxin oxidoreductase. Showing 1 copy in chain A.

PF22338
Domain description: Pyruvate-ferredoxin oxidoreductase, insertion domain
Occurring in:
  1. Pyruvate:ferredoxin oxidoreductase

PF00037
Domain description: 4Fe-4S binding domain
Occurring in:
  1. Pyruvate:ferredoxin oxidoreductase
The deposited structure of PDB entry 1b0p contains 2 copies of Pfam domain PF00037 (4Fe-4S binding domain) in Pyruvate:ferredoxin oxidoreductase. Showing 1 copy in chain A.

PF10371
Domain description: Domain of unknown function
Occurring in:
  1. Pyruvate:ferredoxin oxidoreductase
The deposited structure of PDB entry 1b0p contains 2 copies of Pfam domain PF10371 (Domain of unknown function) in Pyruvate:ferredoxin oxidoreductase. Showing 1 copy in chain A.

PF01558
Domain description: Pyruvate ferredoxin/flavodoxin oxidoreductase
Occurring in:
  1. Pyruvate:ferredoxin oxidoreductase
The deposited structure of PDB entry 1b0p contains 2 copies of Pfam domain PF01558 (Pyruvate ferredoxin/flavodoxin oxidoreductase) in Pyruvate:ferredoxin oxidoreductase. Showing 1 copy in chain A.

PF17147
Domain description: Pyruvate:ferredoxin oxidoreductase core domain II
Occurring in:
  1. Pyruvate:ferredoxin oxidoreductase
The deposited structure of PDB entry 1b0p contains 2 copies of Pfam domain PF17147 (Pyruvate:ferredoxin oxidoreductase core domain II) in Pyruvate:ferredoxin oxidoreductase. Showing 1 copy in chain A.

PF01855
Domain description: Pyruvate flavodoxin/ferredoxin oxidoreductase, thiamine diP-bdg
Occurring in:
  1. Pyruvate:ferredoxin oxidoreductase
The deposited structure of PDB entry 1b0p contains 2 copies of Pfam domain PF01855 (Pyruvate flavodoxin/ferredoxin oxidoreductase, thiamine diP-bdg) in Pyruvate:ferredoxin oxidoreductase. Showing 1 copy in chain A.

InterPro InterPro annotations
IPR017900
Domain description: 4Fe-4S ferredoxin, iron-sulphur binding, conserved site
Occurring in:
  1. Pyruvate:ferredoxin oxidoreductase
IPR017896
Domain description: 4Fe-4S ferredoxin-type, iron-sulphur binding domain
Occurring in:
  1. Pyruvate:ferredoxin oxidoreductase
IPR019456
Domain description: Pyruvate-flavodoxin oxidoreductase, EKR domain
Occurring in:
  1. Pyruvate:ferredoxin oxidoreductase
IPR002869
Domain description: Pyruvate-flavodoxin oxidoreductase, central domain
Occurring in:
  1. Pyruvate:ferredoxin oxidoreductase
IPR009014
Domain description: Transketolase C-terminal/Pyruvate-ferredoxin oxidoreductase domain II
Occurring in:
  1. Pyruvate:ferredoxin oxidoreductase
IPR002880
Domain description: Pyruvate flavodoxin/ferredoxin oxidoreductase, pyrimidine binding domain
Occurring in:
  1. Pyruvate:ferredoxin oxidoreductase
IPR029061
Domain description: Thiamin diphosphate-binding fold
Occurring in:
  1. Pyruvate:ferredoxin oxidoreductase
IPR011895
Domain description: Pyruvate-flavodoxin oxidoreductase
Occurring in:
  1. Pyruvate:ferredoxin oxidoreductase
IPR011766
Domain description: Thiamine pyrophosphate enzyme, TPP-binding
Occurring in:
  1. Pyruvate:ferredoxin oxidoreductase
IPR037112
Domain description: Pyruvate-flavodoxin oxidoreductase, EKR domain superfamily
Occurring in:
  1. Pyruvate:ferredoxin oxidoreductase
IPR019752
Domain description: Pyruvate/ketoisovalerate oxidoreductase, catalytic domain
Occurring in:
  1. Pyruvate:ferredoxin oxidoreductase
IPR033412
Domain description: Pyruvate:ferredoxin oxidoreductase, core domain II
Occurring in:
  1. Pyruvate:ferredoxin oxidoreductase

Structure domains

CATH CATH domains
3.40.50.970
Class: Alpha Beta
Architecture: 3-Layer(aba) Sandwich
Topology: Rossmann fold
Homology: Rossmann fold
Occurring in:
  1. Pyruvate:ferredoxin oxidoreductase
The deposited structure of PDB entry 1b0p contains 4 copies of CATH domain 3.40.50.970 (Rossmann fold) in Pyruvate:ferredoxin oxidoreductase. Showing 2 copies in chain A.
4.10.790.10
Class: Few Secondary Structures
Architecture: Irregular
Topology: Pyruvate-ferredoxin Oxidoreductase; domain 7
Homology: Pyruvate-ferredoxin Oxidoreductase; domain 7
Occurring in:
  1. Pyruvate:ferredoxin oxidoreductase
The deposited structure of PDB entry 1b0p contains 2 copies of CATH domain 4.10.790.10 (Pyruvate-ferredoxin Oxidoreductase; domain 7) in Pyruvate:ferredoxin oxidoreductase. Showing 1 copy in chain A.
3.30.70.20
Class: Alpha Beta
Architecture: 2-Layer Sandwich
Topology: Alpha-Beta Plaits
Homology: Alpha-Beta Plaits
Occurring in:
  1. Pyruvate:ferredoxin oxidoreductase
The deposited structure of PDB entry 1b0p contains 2 copies of CATH domain 3.30.70.20 (Alpha-Beta Plaits) in Pyruvate:ferredoxin oxidoreductase. Showing 1 copy in chain A.
4.10.780.10
Class: Few Secondary Structures
Architecture: Irregular
Topology: Pyruvate-ferredoxin Oxidoreductase; domain 4
Homology: Pyruvate-flavodoxin oxidoreductase, EKR domain
Occurring in:
  1. Pyruvate:ferredoxin oxidoreductase
The deposited structure of PDB entry 1b0p contains 2 copies of CATH domain 4.10.780.10 (Pyruvate-ferredoxin Oxidoreductase; domain 4) in Pyruvate:ferredoxin oxidoreductase. Showing 1 copy in chain A.
3.40.920.10
Class: Alpha Beta
Architecture: 3-Layer(aba) Sandwich
Topology: Pyruvate-ferredoxin Oxidoreductase; domain 3
Homology: Pyruvate-ferredoxin oxidoreductase, PFOR, domain III
Occurring in:
  1. Pyruvate:ferredoxin oxidoreductase
The deposited structure of PDB entry 1b0p contains 2 copies of CATH domain 3.40.920.10 (Pyruvate-ferredoxin Oxidoreductase; domain 3) in Pyruvate:ferredoxin oxidoreductase. Showing 1 copy in chain A.
3.40.50.920
Class: Alpha Beta
Architecture: 3-Layer(aba) Sandwich
Topology: Rossmann fold
Homology: Rossmann fold
Occurring in:
  1. Pyruvate:ferredoxin oxidoreductase
The deposited structure of PDB entry 1b0p contains 2 copies of CATH domain 3.40.50.920 (Rossmann fold) in Pyruvate:ferredoxin oxidoreductase. Showing 1 copy in chain A.
SCOP SCOP annotations
88771
Class: Alpha and beta proteins (a/b)
Fold: Thiamin diphosphate-binding fold (THDP-binding)
Superfamily: Thiamin diphosphate-binding fold (THDP-binding)
Occurring in:
  1. Pyruvate:ferredoxin oxidoreductase
The deposited structure of PDB entry 1b0p contains 2 copies of SCOP domain 88771 (PFOR PP module) in Pyruvate:ferredoxin oxidoreductase. Showing 1 copy in chain A.
54884
Class: Alpha and beta proteins (a+b)
Fold: Ferredoxin-like
Superfamily: 4Fe-4S ferredoxins
Occurring in:
  1. Pyruvate:ferredoxin oxidoreductase
The deposited structure of PDB entry 1b0p contains 2 copies of SCOP domain 54884 (Ferredoxin domains from multidomain proteins) in Pyruvate:ferredoxin oxidoreductase. Showing 1 copy in chain A.
53324
Class: Alpha and beta proteins (a/b)
Fold: Pyruvate-ferredoxin oxidoreductase, PFOR, domain III
Superfamily: Pyruvate-ferredoxin oxidoreductase, PFOR, domain III
Occurring in:
  1. Pyruvate:ferredoxin oxidoreductase
The deposited structure of PDB entry 1b0p contains 2 copies of SCOP domain 53324 (Pyruvate-ferredoxin oxidoreductase, PFOR, domain III) in Pyruvate:ferredoxin oxidoreductase. Showing 1 copy in chain A.
52931
Class: Alpha and beta proteins (a/b)
Fold: TK C-terminal domain-like
Superfamily: TK C-terminal domain-like
Occurring in:
  1. Pyruvate:ferredoxin oxidoreductase
The deposited structure of PDB entry 1b0p contains 2 copies of SCOP domain 52931 (Pyruvate-ferredoxin oxidoreductase, PFOR, domain II) in Pyruvate:ferredoxin oxidoreductase. Showing 1 copy in chain A.
88746
Class: Alpha and beta proteins (a/b)
Fold: Thiamin diphosphate-binding fold (THDP-binding)
Superfamily: Thiamin diphosphate-binding fold (THDP-binding)
Occurring in:
  1. Pyruvate:ferredoxin oxidoreductase
The deposited structure of PDB entry 1b0p contains 2 copies of SCOP domain 88746 (PFOR Pyr module) in Pyruvate:ferredoxin oxidoreductase. Showing 1 copy in chain A.

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