Summary This Pathway/Genome Database (PGDB) was generated by the PathoLogic [Karp10, Karp11, Caspi14] component of Pathway Tools software version 22.0 and MetaCyc version 22.0 on 22-May-2018 17:31:10.
Genome
ContigTotal GenesProtein GenesRNA GenesPseudogenesSize (bp)NCBI Link
NZ_KV83586820920324239,342RefSeq:NZ_KV835868
NZ_KV83589221521131235,015RefSeq:NZ_KV835892
NZ_KV83585411911450140,322RefSeq:NZ_KV835854
NZ_KV83589112211651137,634RefSeq:NZ_KV835891
NZ_KV835898958843121,786RefSeq:NZ_KV835898
NZ_KV83585610710421119,155RefSeq:NZ_KV835856
NZ_KV83586910510401114,244RefSeq:NZ_KV835869
NZ_KV8358701029750111,645RefSeq:NZ_KV835870
NZ_KV835910847374105,937RefSeq:NZ_KV835910
NZ_KV83588278771091,476RefSeq:NZ_KV835882
NZ_KV83588670645186,451RefSeq:NZ_KV835886
NZ_KV83588160571284,134RefSeq:NZ_KV835881
NZ_KV83590577741277,679RefSeq:NZ_KV835905
NZ_KV83591461590271,343RefSeq:NZ_KV835914
NZ_KV83590855531169,465RefSeq:NZ_KV835908
NZ_KV83588759561265,697RefSeq:NZ_KV835887
NZ_KV83586152483162,896RefSeq:NZ_KV835861
NZ_KV83590332290350,369RefSeq:NZ_KV835903
NZ_KV83589339390049,040RefSeq:NZ_KV835893
NZ_KV83586546460048,000RefSeq:NZ_KV835865
NZ_KV83590232320040,739RefSeq:NZ_KV835902
NZ_KV83588829290031,879RefSeq:NZ_KV835888
NZ_KV83587715122127,775RefSeq:NZ_KV835877
NZ_KV83585721210027,128RefSeq:NZ_KV835857
NZ_KV83589720200023,452RefSeq:NZ_KV835897
NZ_KV83585823230022,596RefSeq:NZ_KV835858
NZ_KV83591213130018,999RefSeq:NZ_KV835912
NZ_KV83585918180016,206RefSeq:NZ_KV835859
33 Undisplayed Contigs/Replicons615942191,025
Total:2,0421,93952512,381,429
Ortholog data available?Yes
Database Contents
Genes2,041
Pathways156
Enzymatic Reactions824
Transport Reactions44
Polypeptides1,949
Protein Complexes25
Enzymes449
Transporters205
Compounds709
Transcription Units1,333
tRNAs45
Protein Features2,383
GO Terms10,791
Database Version29.0
Taxonomic Lineage cellular organisms
Bacteria <bacteria>
Terrabacteria group
Actinomycetota
Actinomycetes
Actinomycetales
Actinomycetaceae
Actinomyces
Actinomyces sp. HMSC035G02
Genetic Code Number 11 -- Bacterial, Archaeal and Plant Plastid (same as Standard, except for alternate initiation codons)
BIOSAMPLESAMN04498682
NCBI BioProjectPRJNA224116
NCBI-Taxonomy1739406
Environmentsputum
HostHomo sapiens
Human Microbiome Body Siteoral

References

Caspi14: Caspi R, Altman T, Billington R, Dreher K, Foerster H, Fulcher CA, Holland TA, Keseler IM, Kothari A, Kubo A, Krummenacker M, Latendresse M, Mueller LA, Ong Q, Paley S, Subhraveti P, Weaver DS, Weerasinghe D, Zhang P, Karp PD (2014). "The MetaCyc database of metabolic pathways and enzymes and the BioCyc collection of Pathway/Genome Databases." Nucleic Acids Res. 42(1):D459-D471. PMID: 24225315

Karp10: Karp PD, Paley SM, Krummenacker M, Latendresse M, Dale JM, Lee TJ, Kaipa P, Gilham F, Spaulding A, Popescu L, Altman T, Paulsen I, Keseler IM, Caspi R (2010). "Pathway Tools version 13.0: integrated software for pathway/genome informatics and systems biology." Brief Bioinform 11(1);40-79. PMID: 19955237

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

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