Database Authors
Pallavi Subhraveti1, Peter Midford1, Anamika Kothari1, Ron Caspi1, Peter D Karp1
1SRI International
Summary This Pathway/Genome Database (PGDB) was generated on 01-June-2022 from the annotated genome of Acinetobacter junii SH205, 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_GG7050111,8411,73541651,986,327RefSeq:NZ_GG705011
NZ_GG7050124644361216490,378RefSeq:NZ_GG705012
NZ_GG705013293278105313,035RefSeq:NZ_GG705013
NZ_GG70501416516005173,283RefSeq:NZ_GG705014
NZ_GG705015135113022148,183RefSeq:NZ_GG705015
NZ_GG70501612612006141,187RefSeq:NZ_GG705016
NZ_GG70501777722388,005RefSeq:NZ_GG705017
NZ_GG70501856484463,007RefSeq:NZ_GG705018
NZ_GG70501917140320,564RefSeq:NZ_GG705019
35 Undisplayed Contigs/Replicons31301939,090
Total:3,2143,006701383,463,059
Ortholog data available?Yes
Database Contents
Genes3,214
Pathways259
Enzymatic Reactions1,288
Transport Reactions58
Polypeptides3,079
Protein Complexes58
Enzymes714
Transporters273
Compounds940
Transcription Units2,243
tRNAs64
Protein Features3,774
GO Terms239
Database Version29.0
Sequence SourceGCF_000162075.1
Synonyms Acinetobacter junii strain SH205
Acinetobacter junii str. SH205
Acinetobacter junii SH205
Taxonomic Lineage cellular organisms
Bacteria <bacteria>
Pseudomonadota
Gammaproteobacteria
Moraxellales
Moraxellaceae
Acinetobacter
Acinetobacter junii
Acinetobacter junii SH205
Genetic Code Number 11 -- Bacterial, Archaeal and Plant Plastid (same as Standard, except for alternate initiation codons)
BIOSAMPLESAMN02463730
NCBI BioProjectPRJNA224116
NCBI-Taxonomy575587
Environmentbiological product [ENVO:02000043]
HostHomo sapiens
Annotation ProviderNCBI RefSeq
Annotation Date2021-11-7
Annotation PipelineNCBI Prokaryotic Genome Annotation Pipeline (PGAP)
Annotation Pipeline Version5.3
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

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