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 soli NBRC 102451, 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 [Caspi19]. 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_BCVI0100000626926405295,874RefSeq:NZ_BCVI01000006
NZ_BCVI0100002117216723213,462RefSeq:NZ_BCVI01000021
NZ_BCVI0100000522422022203,941RefSeq:NZ_BCVI01000005
NZ_BCVI0100001820219408195,990RefSeq:NZ_BCVI01000018
NZ_BCVI0100003916315922176,432RefSeq:NZ_BCVI01000039
NZ_BCVI01000029181170011176,389RefSeq:NZ_BCVI01000029
NZ_BCVI0100003313413103167,343RefSeq:NZ_BCVI01000033
NZ_BCVI0100001914614114165,720RefSeq:NZ_BCVI01000019
NZ_BCVI0100003614814602163,865RefSeq:NZ_BCVI01000036
NZ_BCVI0100004213012901156,147RefSeq:NZ_BCVI01000042
NZ_BCVI0100000315415310133,338RefSeq:NZ_BCVI01000003
NZ_BCVI0100001612712313126,970RefSeq:NZ_BCVI01000016
NZ_BCVI0100004010510500114,802RefSeq:NZ_BCVI01000040
NZ_BCVI01000052111101010103,637RefSeq:NZ_BCVI01000052
NZ_BCVI0100004891840795,455RefSeq:NZ_BCVI01000048
NZ_BCVI0100005386840295,268RefSeq:NZ_BCVI01000053
NZ_BCVI0100005494892393,945RefSeq:NZ_BCVI01000054
NZ_BCVI0100002797970091,606RefSeq:NZ_BCVI01000027
NZ_BCVI0100005780760491,118RefSeq:NZ_BCVI01000057
NZ_BCVI0100005897890891,035RefSeq:NZ_BCVI01000058
NZ_BCVI0100002593900388,759RefSeq:NZ_BCVI01000025
NZ_BCVI0100000794910383,012RefSeq:NZ_BCVI01000007
NZ_BCVI0100005172710182,333RefSeq:NZ_BCVI01000051
NZ_BCVI0100005978744080,950RefSeq:NZ_BCVI01000059
NZ_BCVI0100006071690274,951RefSeq:NZ_BCVI01000060
NZ_BCVI0100001371701073,527RefSeq:NZ_BCVI01000013
NZ_BCVI0100001563610270,730RefSeq:NZ_BCVI01000015
NZ_BCVI0100001273702170,384RefSeq:NZ_BCVI01000012
NZ_BCVI0100001775730269,757RefSeq:NZ_BCVI01000017
NZ_BCVI0100005672711068,753RefSeq:NZ_BCVI01000056
NZ_BCVI0100006179790064,804RefSeq:NZ_BCVI01000061
NZ_BCVI0100006252500263,810RefSeq:NZ_BCVI01000062
NZ_BCVI0100004155531159,552RefSeq:NZ_BCVI01000041
NZ_BCVI0100000160590153,161RefSeq:NZ_BCVI01000001
NZ_BCVI0100000454540051,025RefSeq:NZ_BCVI01000004
NZ_BCVI0100006565630250,508RefSeq:NZ_BCVI01000065
NZ_BCVI0100003549481049,756RefSeq:NZ_BCVI01000035
NZ_BCVI0100006648480049,006RefSeq:NZ_BCVI01000066
NZ_BCVI0100004644440048,447RefSeq:NZ_BCVI01000046
NZ_BCVI0100006739390039,986RefSeq:NZ_BCVI01000067
NZ_BCVI0100004437370039,756RefSeq:NZ_BCVI01000044
NZ_BCVI0100000237370039,524RefSeq:NZ_BCVI01000002
NZ_BCVI0100002440400039,360RefSeq:NZ_BCVI01000024
NZ_BCVI0100003433330033,696RefSeq:NZ_BCVI01000034
NZ_BCVI0100006338370133,454RefSeq:NZ_BCVI01000063
NZ_BCVI0100006833320131,339RefSeq:NZ_BCVI01000068
NZ_BCVI0100006936340228,526RefSeq:NZ_BCVI01000069
NZ_BCVI0100007027270026,160RefSeq:NZ_BCVI01000070
NZ_BCVI0100006425250026,049RefSeq:NZ_BCVI01000064
NZ_BCVI0100002822211025,301RefSeq:NZ_BCVI01000028
NZ_BCVI0100007322210124,761RefSeq:NZ_BCVI01000073
NZ_BCVI0100003018170123,786RefSeq:NZ_BCVI01000030
NZ_BCVI0100002623230023,644RefSeq:NZ_BCVI01000026
NZ_BCVI0100007416160023,279RefSeq:NZ_BCVI01000074
NZ_BCVI0100005523230022,906RefSeq:NZ_BCVI01000055
NZ_BCVI0100001015100522,310RefSeq:NZ_BCVI01000010
NZ_BCVI0100007521210022,022RefSeq:NZ_BCVI01000075
NZ_BCVI0100007623220121,832RefSeq:NZ_BCVI01000076
NZ_BCVI0100002221210021,474RefSeq:NZ_BCVI01000022
NZ_BCVI0100007718170120,430RefSeq:NZ_BCVI01000077
NZ_BCVI0100004721190220,418RefSeq:NZ_BCVI01000047
NZ_BCVI0100007819190020,283RefSeq:NZ_BCVI01000078
NZ_BCVI0100007922190319,914RefSeq:NZ_BCVI01000079
NZ_BCVI0100007221210019,351RefSeq:NZ_BCVI01000072
NZ_BCVI0100008016160018,719RefSeq:NZ_BCVI01000080
NZ_BCVI0100002019170218,251RefSeq:NZ_BCVI01000020
NZ_BCVI0100008117160118,157RefSeq:NZ_BCVI01000081
NZ_BCVI0100008217170018,139RefSeq:NZ_BCVI01000082
NZ_BCVI0100008314130117,695RefSeq:NZ_BCVI01000083
NZ_BCVI0100008416160017,493RefSeq:NZ_BCVI01000084
NZ_BCVI0100008516160017,316RefSeq:NZ_BCVI01000085
NZ_BCVI0100008616120417,239RefSeq:NZ_BCVI01000086
NZ_BCVI0100008715150017,191RefSeq:NZ_BCVI01000087
NZ_BCVI0100008814140016,741RefSeq:NZ_BCVI01000088
NZ_BCVI0100008914140016,594RefSeq:NZ_BCVI01000089
NZ_BCVI0100009018170115,834RefSeq:NZ_BCVI01000090
NZ_BCVI0100002320200015,112RefSeq:NZ_BCVI01000023
NZ_BCVI0100009114140015,021RefSeq:NZ_BCVI01000091
NZ_BCVI0100001414140015,001RefSeq:NZ_BCVI01000014
NZ_BCVI0100009317160114,919RefSeq:NZ_BCVI01000093
NZ_BCVI0100009412110114,637RefSeq:NZ_BCVI01000094
NZ_BCVI0100009513130014,582RefSeq:NZ_BCVI01000095
NZ_BCVI0100000914130113,929RefSeq:NZ_BCVI01000009
NZ_BCVI0100004516160013,852RefSeq:NZ_BCVI01000045
NZ_BCVI0100009612120013,721RefSeq:NZ_BCVI01000096
NZ_BCVI0100009916160012,422RefSeq:NZ_BCVI01000099
NZ_BCVI0100010012120010,107RefSeq:NZ_BCVI01000100
NZ_BCVI010001011313009,879RefSeq:NZ_BCVI01000101
NZ_BCVI010001021211108,860RefSeq:NZ_BCVI01000102
44 Undisplayed Contigs/Replicons17917545208,274
Total:5,2905,130271335,464,808
Ortholog data available?Yes
Database Contents
Genes5,290
Pathways303
Enzymatic Reactions1,463
Transport Reactions91
Polypeptides5,147
Protein Complexes3
Enzymes1,005
Transporters687
Compounds1,066
Transcription Units3,804
tRNAs19
Protein Features6,396
GO Terms391
Database Version29.0
Sequence SourceGCF_001591665.1
Synonyms Bacillus soli NBRC 102451
Neobacillus soli NBRC 102451
Taxonomic Lineage cellular organisms
Bacteria <bacteria>
Terrabacteria group
Bacillota
Bacilli
Bacillales
Bacillaceae
Neobacillus
Neobacillus soli
Neobacillus soli NBRC 102451
Genetic Code Number 11 -- Bacterial, Archaeal and Plant Plastid (same as Standard, except for alternate initiation codons)
BIOSAMPLESAMD00047003
NCBI BioProjectPRJNA224116
NCBI-Taxonomy1348630
Annotation ProviderNCBI RefSeq
Annotation Date2022-01-26
Annotation PipelineNCBI Prokaryotic Genome Annotation Pipeline (PGAP)
Annotation Pipeline Version5.3
Annotation CommentBest-placed reference protein set; GeneMarkS-2+

References

Caspi19: 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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