Database Authors
Pallavi Subhraveti1, Anamika Kothari1, Peter Midford1, Ron Caspi1, Lisa Moore1, Peter D Karp1
1SRI International
Summary This Pathway/Genome Database (PGDB) was generated on 30-Oct-2024 from the annotated genome of Actinobacillus pleuropneumoniae serovar 1 str. 4074, as obtained from RefSeq (annotation date: 21-MAR-2024). The PGDB was created computationally by the PathoLogic component of the Pathway Tools software (version 28.5) [Karp11, Karp16] using MetaCyc version 28.1 [Caspi20]. It has not undergone any manual curation or review, and may contain errors.
Genome
RepliconTotal GenesProtein GenesRNA GenesPseudogenesSize (bp)NCBI Link
NZ_CP0290032,2192,08385512,318,649RefSeq:NZ_CP029003
Ortholog data available?No
Database Contents
Genes2,219
Pathways275
Enzymatic Reactions1,523
Transport Reactions107
Polypeptides2,083
Protein Complexes82
Enzymes708
Transporters242
Compounds1,350
Transcription Units1,507
tRNAs62
Protein Features3,049
GO Terms3,525
Database Version29.0
Sequence SourceGCF_000178495.2
Synonyms Actinobacillus pleuropneumoniae 4074
Actinobacillus pleuropneumoniae serovar 1 strain 4074
Actinobacillus pleuropneumoniae serovar 1 str. 4074
Taxonomic Lineage cellular organisms
Bacteria <bacteria>
Pseudomonadota
Gammaproteobacteria
Pasteurellales
Pasteurellaceae
Actinobacillus
Actinobacillus pleuropneumoniae
Actinobacillus pleuropneumoniae serovar 1
Actinobacillus pleuropneumoniae serovar 1 str. 4074
Genetic Code Number 11 -- Bacterial, Archaeal and Plant Plastid (same as Standard, except for alternate initiation codons)
BIOSAMPLESAMN02469615
NCBI BioProjectPRJNA224116
NCBI-Taxonomy228399
Annotation ProviderNCBI RefSeq
Annotation Date2024-03-21
Annotation PipelineNCBI Prokaryotic Genome Annotation Pipeline (PGAP)
Annotation Pipeline Version6.7
Annotation CommentBest-placed reference protein set; GeneMarkS-2+

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

Karp16: Karp PD, Latendresse M, Paley SM, Krummenacker M, Ong QD, Billington R, Kothari A, Weaver D, Lee T, Subhraveti P, Spaulding A, Fulcher C, Keseler IM, Caspi R (2016). "Pathway Tools version 19.0 update: software for pathway/genome informatics and systems biology." Brief Bioinform 17(5);877-90. PMID: 26454094

Report Errors or Provide Feedback
Page generated by Pathway Tools version 29.0 (software by SRI International) on Mon Jun 30, 2025, BIOCYC18A.