Database Authors
Pallavi Subhraveti1, Peter Midford1, Anamika Kothari1, Ron Caspi1, Peter D Karp1
1SRI International
Summary This Pathway/Genome Database (PGDB) was generated on 8-Mar-2022 from the annotated genome of Neobacillus drentensis FJAT-10044, as obtained from RefSeq (see the RefSeq entry for the authors of the original genome sequence). The PGDB was created computationally by the PathoLogic component of the Pathway Tools software (version 26.0) [Karp16, Karp11] using MetaCyc version 26.0 [Caspi20]. It has not undergone any manual curation or review, and may contain errors. Development of this PGDB was supported by grant GM080746 from the National Institutes of Health.
Genome
ContigTotal GenesProtein GenesRNA GenesPseudogenesSize (bp)NCBI Link
NZ_KV4409525,1804,922184745,303,701RefSeq:NZ_KV440952
NZ_LUUU010000040000916RefSeq:NZ_LUUU01000004
NZ_LUUU010000051100689RefSeq:NZ_LUUU01000005
Total:5,1814,923184745,305,306
Ortholog data available?Yes
Database Contents
Genes5,181
Pathways317
Enzymatic Reactions1,492
Transport Reactions78
Polypeptides4,926
Protein Complexes5
Enzymes1,038
Transporters644
Compounds1,064
Transcription Units3,632
tRNAs127
Protein Features6,281
GO Terms392
Database Version29.0
Sequence SourceGCF_001636415.1
Synonyms Bacillus drentensis
Bacillus sp. BHR1P2B1
Taxonomic Lineage cellular organisms
Bacteria <bacteria>
Terrabacteria group
Bacillota
Bacilli
Bacillales
Bacillaceae
Neobacillus
Neobacillus drentensis
Genetic Code Number 11 -- Bacterial, Archaeal and Plant Plastid (same as Standard, except for alternate initiation codons)
BIOSAMPLESAMN04544313
NCBI BioProjectPRJNA224116
NCBI-Taxonomy220684
Environmentsoil
Geographic LocationNetherlands
Collection Date2014-12-1
Annotation ProviderNCBI RefSeq
Annotation Date2021-07-27
Annotation PipelineNCBI Prokaryotic Genome Annotation Pipeline (PGAP)
Annotation Pipeline Version5.2
Annotation CommentBest-placed reference protein set; GeneMarkS-2+
NCBI Genome Typerepresentative

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 Thu Jun 12, 2025, BIOCYC14A.