Database Authors
ApiDB Bioinformatics Resource Center
Summary This Pathway/Genome Database (PGDB) was created from the annotated genome using the PathoLogic component of the Pathway Tools software [Karp11, Karp19] and the MetaCyc reference database [Caspi20]. The PGDB, which integrates the biochemical reaction network and metabolic pathways of the organism with its genome, was improved by limited manual curation.
Genome
RepliconTotal GenesProtein GenesRNA GenesPseudogenesSize (bp)NCBI Link
P.fal contig MAL14.792792003,291,006
P.fal contig MAL13.716716002,895,605
P.fal contig MAL12.539539002,271,477
P.fal contig MAL11.514514002,035,250
P.fal contig MAL10.409409001,694,445
P.fal contig MAL9.370370001,541,723
P.fal contig MAL7.330330001,501,719
P.fal contig MAL8.324324001,419,563
P.fal contig MAL6.324324001,418,244
P.fal contig MAL5.333333001,343,552
P.fal contig MAL4.258258001,204,112
P.fal contig MAL3.248248001,060,087
P.fal contig MAL2.22922900947,102
P.fal contig MAL1.15415400643,292
P.fal contig X95275.17170015,421
P.fal contig X95276.41410014,009
P.fal contig AJ276844.22005,967
Total:5,6005,6000023,302,574
Ortholog data available?No
Database Contents
Genes5,600
Pathways261
Enzymatic Reactions970
Transport Reactions8
Polypeptides5,605
Protein Complexes0
Enzymes542
Transporters57
Compounds624
tRNAs0
GO Terms32,049
Database Version29.0
Synonyms Plasmodium falciparum (isolate 3D7)
Plasmodium falciparum 3D7
Taxonomic Lineage cellular organisms
Eukaryota
Sar
Alveolata
Apicomplexa
Aconoidasida
Haemosporida
Plasmodiidae
Plasmodium <Plasmodium>
Plasmodium (Laverania)
Plasmodium falciparum
Plasmodium falciparum 3D7
Genetic Code Number 1 -- Standard
GOLD0042125
NCBI-Taxonomy36329
Trophic Levelheterotroph
Temperature Rangemesophile
Biotic Relationshipparasite
Pathogenicityhuman

References

Caspi20: Caspi R, Billington R, Keseler IM, Kothari A, Krummenacker M, Midford PE, Ong WK, Paley S, Subhraveti P, Karp PD (2020). "The MetaCyc database of metabolic pathways and enzymes - a 2019 update." Nucleic Acids Res 48(D1);D445-D453. PMID: 31586394

Karp11: Karp PD, Latendresse M, Caspi R (2011). "The pathway tools pathway prediction algorithm." Stand Genomic Sci 5(3);424-9. PMID: 22675592

Karp19: Karp PD, Midford PE, Billington R, Kothari A, Krummenacker M, Latendresse M, Ong WK, Subhraveti P, Caspi R, Fulcher C, Keseler IM, Paley SM (2019). "Pathway Tools version 23.0 update: software for pathway/genome informatics and systems biology." Brief Bioinform. PMID: 31813964

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