Database Authors
Pallavi Subhraveti1, Ingrid Keseler1, Anamika Kothari1, Ron Caspi1, Peter D Karp1
1SRI International
Summary This Pathway/Genome Database (PGDB) was generated on 15-Feb-2020 from the annotated genome of Klebsiella pneumoniae HS11286, 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 24.0) [Karp16, Karp11] using MetaCyc version 23.5 [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
RepliconTotal GenesProtein GenesRNA GenesPseudogenesSize (bp)NCBI Link
NC_0168455,4045,3168805,333,942RefSeq:NC_016845
pKPHS114114100122,799RefSeq:NC_016838
pKPHS216016000111,195RefSeq:NC_016846
pKPHS315215200105,974RefSeq:NC_016839
pKPHS444003,751RefSeq:NC_016840
pKPHS555003,353RefSeq:NC_016847
pKPHS611001,308RefSeq:NC_016841
Total:5,8675,7798805,682,322
Ortholog data available?Yes
Database Contents
Genes5,867
Pathways333
Enzymatic Reactions1,586
Transport Reactions210
Polypeptides5,779
Protein Complexes110
Enzymes1,156
Transporters726
Compounds1,315
Transcription Units3,873
tRNAs62
Protein Features7,013
GO Annotations4,019
Database Version29.6
Sequence SourceGCF_000240185.1
Synonyms Klebsiella pneumoniae subsp. pneumoniae str. HS11286
Klebsiella pneumoniae subsp. pneumoniae strain HS11286
Klebsiella pneumoniae subsp. pneumoniae HS11286
Taxonomic Lineage cellular organisms
Bacteria <bacteria>
Pseudomonadati
Pseudomonadota
Gammaproteobacteria
Enterobacterales
Enterobacteriaceae
Klebsiella/Raoultella group
Klebsiella
Klebsiella pneumoniae complex
Klebsiella pneumoniae
Klebsiella pneumoniae pneumoniae
Klebsiella pneumoniae pneumoniae HS11286
Genetic Code Number 11 -- Bacterial, Archaeal and Plant Plastid (same as Standard, except for alternate initiation codons)
NCBI BioProjectPRJNA84387
NCBI-Taxonomy1125630
NCBI Genome Typereference

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

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