Database Authors
Summary This Pathway/Genome Database (PGDB) was generated on 01-June-2022 from the annotated genome of Acetonema longum DSM 6540, 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_AFGF0100001722622042223,575RefSeq:NZ_AFGF01000017
NZ_AFGF0100012613913900133,767RefSeq:NZ_AFGF01000126
NZ_AFGF0100005011711502128,928RefSeq:NZ_AFGF01000050
NZ_AFGF010000491029651127,366RefSeq:NZ_AFGF01000049
NZ_AFGF01000234999504115,823RefSeq:NZ_AFGF01000234
NZ_AFGF0100005610410211105,611RefSeq:NZ_AFGF01000056
NZ_AFGF0100010712312021100,070RefSeq:NZ_AFGF01000107
NZ_AFGF010000401011001097,835RefSeq:NZ_AFGF01000040
NZ_AFGF0100024088870192,808RefSeq:NZ_AFGF01000240
NZ_AFGF0100026984820289,007RefSeq:NZ_AFGF01000269
NZ_AFGF0100005385850088,740RefSeq:NZ_AFGF01000053
NZ_AFGF0100008570690184,717RefSeq:NZ_AFGF01000085
NZ_AFGF0100008174686080,672RefSeq:NZ_AFGF01000081
NZ_AFGF0100001566660072,761RefSeq:NZ_AFGF01000015
NZ_AFGF0100001668642272,004RefSeq:NZ_AFGF01000016
NZ_AFGF0100028071681271,996RefSeq:NZ_AFGF01000280
NZ_AFGF0100014458560268,977RefSeq:NZ_AFGF01000144
NZ_AFGF0100000759560367,247RefSeq:NZ_AFGF01000007
NZ_AFGF0100024167640366,976RefSeq:NZ_AFGF01000241
NZ_AFGF0100015758560263,182RefSeq:NZ_AFGF01000157
NZ_AFGF0100001223220161,407RefSeq:NZ_AFGF01000012
NZ_AFGF0100011954520260,880RefSeq:NZ_AFGF01000119
NZ_AFGF0100022154531060,581RefSeq:NZ_AFGF01000221
NZ_AFGF0100005448470159,655RefSeq:NZ_AFGF01000054
NZ_AFGF0100012158505359,457RefSeq:NZ_AFGF01000121
NZ_AFGF0100000548480054,626RefSeq:NZ_AFGF01000005
NZ_AFGF0100001965640153,616RefSeq:NZ_AFGF01000019
NZ_AFGF0100007954530150,140RefSeq:NZ_AFGF01000079
NZ_AFGF0100010260600048,790RefSeq:NZ_AFGF01000102
NZ_AFGF0100006646441147,695RefSeq:NZ_AFGF01000066
NZ_AFGF0100002437370044,577RefSeq:NZ_AFGF01000024
NZ_AFGF0100007637370042,585RefSeq:NZ_AFGF01000076
NZ_AFGF0100007443420142,539RefSeq:NZ_AFGF01000074
NZ_AFGF0100029436360041,863RefSeq:NZ_AFGF01000294
NZ_AFGF0100009834330141,513RefSeq:NZ_AFGF01000098
NZ_AFGF0100002530300039,325RefSeq:NZ_AFGF01000025
NZ_AFGF01000013413110038,224RefSeq:NZ_AFGF01000013
NZ_AFGF0100016331300138,024RefSeq:NZ_AFGF01000163
NZ_AFGF0100007835310437,898RefSeq:NZ_AFGF01000078
NZ_AFGF0100020535323036,815RefSeq:NZ_AFGF01000205
NZ_AFGF0100008730290134,725RefSeq:NZ_AFGF01000087
NZ_AFGF0100016632320033,848RefSeq:NZ_AFGF01000166
NZ_AFGF0100006525250031,813RefSeq:NZ_AFGF01000065
NZ_AFGF0100000629280131,507RefSeq:NZ_AFGF01000006
NZ_AFGF0100013526260031,335RefSeq:NZ_AFGF01000135
NZ_AFGF0100011539307230,489RefSeq:NZ_AFGF01000115
NZ_AFGF0100017327260130,242RefSeq:NZ_AFGF01000173
NZ_AFGF0100016227260129,827RefSeq:NZ_AFGF01000162
NZ_AFGF0100008329280129,752RefSeq:NZ_AFGF01000083
NZ_AFGF0100002623230027,907RefSeq:NZ_AFGF01000026
NZ_AFGF0100003822210127,754RefSeq:NZ_AFGF01000038
NZ_AFGF0100003033321027,661RefSeq:NZ_AFGF01000030
NZ_AFGF0100021128280027,076RefSeq:NZ_AFGF01000211
NZ_AFGF0100006024240026,813RefSeq:NZ_AFGF01000060
NZ_AFGF0100003228280025,186RefSeq:NZ_AFGF01000032
NZ_AFGF0100010123230024,174RefSeq:NZ_AFGF01000101
NZ_AFGF0100001427252022,600RefSeq:NZ_AFGF01000014
NZ_AFGF0100019120170322,445RefSeq:NZ_AFGF01000191
NZ_AFGF0100008420200022,174RefSeq:NZ_AFGF01000084
NZ_AFGF0100011813130021,289RefSeq:NZ_AFGF01000118
NZ_AFGF0100001019190021,176RefSeq:NZ_AFGF01000010
NZ_AFGF0100019726260020,847RefSeq:NZ_AFGF01000197
NZ_AFGF0100019321200120,462RefSeq:NZ_AFGF01000193
NZ_AFGF0100029014140020,456RefSeq:NZ_AFGF01000290
NZ_AFGF0100027020190119,807RefSeq:NZ_AFGF01000270
NZ_AFGF0100003721210019,528RefSeq:NZ_AFGF01000037
NZ_AFGF0100004117161018,779RefSeq:NZ_AFGF01000041
NZ_AFGF0100004219180117,922RefSeq:NZ_AFGF01000042
NZ_AFGF0100018113130017,320RefSeq:NZ_AFGF01000181
NZ_AFGF0100014318180016,212RefSeq:NZ_AFGF01000143
NZ_AFGF0100007114131016,082RefSeq:NZ_AFGF01000071
NZ_AFGF0100005113130015,102RefSeq:NZ_AFGF01000051
NZ_AFGF0100019815150014,870RefSeq:NZ_AFGF01000198
NZ_AFGF0100011612120014,620RefSeq:NZ_AFGF01000116
NZ_AFGF0100015812120014,237RefSeq:NZ_AFGF01000158
NZ_AFGF0100026314131013,534RefSeq:NZ_AFGF01000263
NZ_AFGF0100024312120012,982RefSeq:NZ_AFGF01000243
NZ_AFGF0100018612120012,467RefSeq:NZ_AFGF01000186
NZ_AFGF0100007312100210,662RefSeq:NZ_AFGF01000073
NZ_AFGF0100006812120010,038RefSeq:NZ_AFGF01000068
NZ_AFGF010002581111008,512RefSeq:NZ_AFGF01000258
215 Undisplayed Contigs/Replicons3963811733516,507
Total:4,0113,84472954,323,011
Ortholog data available?Yes
Database Contents
Genes4,009
Pathways246
Enzymatic Reactions1,299
Transport Reactions94
Polypeptides3,993
Protein Complexes107
Enzymes803
Transporters395
Compounds1,010
Transcription Units2,675
tRNAs63
Protein Features4,985
GO Terms354
Database Version29.0
Sequence SourceGCF_000219125.1
Synonyms Acetonema longum APO-1
Acetonema longum strain DSM 6540
Acetonema longum str. DSM 6540
Acetonema longum DSM 6540
Taxonomic Lineage cellular organisms
Bacteria <bacteria>
Terrabacteria group
Bacillota
Negativicutes
Selenomonadales
Sporomusaceae
Acetonema
Acetonema longum
Acetonema longum DSM 6540
Genetic Code Number 11 -- Bacterial, Archaeal and Plant Plastid (same as Standard, except for alternate initiation codons)
BIOSAMPLESAMN02469409
NCBI BioProjectPRJNA224116
NCBI-Taxonomy1009370
Environmenttermite hindgut
Annotation ProviderNCBI RefSeq
Annotation Date2022-02-15
Annotation PipelineNCBI Prokaryotic Genome Annotation Pipeline (PGAP)
Annotation Pipeline Version6.0
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, BIOCYC17.