Database Authors
Summary This Pathway/Genome Database (PGDB) was generated on 27-Feb-2018 from the annotated genome of Actinokineospora terrae DSM 44260, 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 22.0) [Karp16, Karp11] using MetaCyc version 21.5 [Caspi18]. 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 Institutess of Health.
Genome
ContigTotal GenesProtein GenesRNA GenesPseudogenesSize (bp)NCBI Link
NZ_FOGI01000001687666318866,126RefSeq:NZ_FOGI01000001
NZ_FOGI01000002526514012631,707RefSeq:NZ_FOGI01000002
NZ_FOGI01000003480428250624,911RefSeq:NZ_FOGI01000003
NZ_FOGI01000004583561913610,390RefSeq:NZ_FOGI01000004
NZ_FOGI0100000552351445537,403RefSeq:NZ_FOGI01000005
NZ_FOGI01000006493468421524,103RefSeq:NZ_FOGI01000006
NZ_FOGI0100000747045866505,507RefSeq:NZ_FOGI01000007
NZ_FOGI0100000840339517457,342RefSeq:NZ_FOGI01000008
NZ_FOGI0100000939538168408,653RefSeq:NZ_FOGI01000009
NZ_FOGI0100001025625204328,598RefSeq:NZ_FOGI01000010
NZ_FOGI01000011280255421302,761RefSeq:NZ_FOGI01000011
NZ_FOGI0100001225224813301,628RefSeq:NZ_FOGI01000012
NZ_FOGI01000013215205010248,355RefSeq:NZ_FOGI01000013
NZ_FOGI0100001419218813213,404RefSeq:NZ_FOGI01000014
NZ_FOGI01000015190180010200,669RefSeq:NZ_FOGI01000015
NZ_FOGI0100001615714872170,653RefSeq:NZ_FOGI01000016
NZ_FOGI0100001713513212158,325RefSeq:NZ_FOGI01000017
NZ_FOGI0100001873691392,624RefSeq:NZ_FOGI01000018
NZ_FOGI0100001968652174,370RefSeq:NZ_FOGI01000019
NZ_FOGI0100002061610073,544RefSeq:NZ_FOGI01000020
NZ_FOGI0100002138370162,206RefSeq:NZ_FOGI01000021
NZ_FOGI0100002233311150,960RefSeq:NZ_FOGI01000022
NZ_FOGI0100002356522250,215RefSeq:NZ_FOGI01000023
NZ_FOGI0100002440400033,124RefSeq:NZ_FOGI01000024
NZ_FOGI0100002520181129,878RefSeq:NZ_FOGI01000025
NZ_FOGI0100002622210120,617RefSeq:NZ_FOGI01000026
NZ_FOGI0100002777007,461RefSeq:NZ_FOGI01000027
NZ_FOGI0100002810102,651RefSeq:NZ_FOGI01000028
Total:6,6566,394572057,588,185
Ortholog data available?Yes
Database Contents
Genes6,654
Pathways240
Enzymatic Reactions1,395
Transport Reactions62
Polypeptides6,400
Protein Complexes22
Enzymes1,016
Transporters468
Compounds1,196
Transcription Units4,574
tRNAs51
Protein Features7,310
GO Terms18,083
Database Version29.0
Synonyms Actinokineospora terrae Tamura et al. 1995
DSM 44260
IFO 15668
JCM 9924
NBRC 15668
NRRL B-24049
VKM Ac-1983
strain YU6-3
Taxonomic Lineage cellular organisms
Bacteria <bacteria>
Terrabacteria group
Actinomycetota
Actinomycetes
Pseudonocardiales
Pseudonocardiaceae
Actinokineospora
Actinokineospora terrae
Genetic Code Number 11 -- Bacterial, Archaeal and Plant Plastid (same as Standard, except for alternate initiation codons)
BIOSAMPLESAMN04487818
NCBI BioProjectPRJNA224116
NCBI-Taxonomy155974
NCBI Genome Typerepresentative


References

Caspi18: Caspi R, Billington R, Fulcher CA, Keseler IM, Kothari A, Krummenacker M, Latendresse M, Midford PE, Ong Q, Ong WK, Paley S, Subhraveti P, Karp PD (2018). "The MetaCyc database of metabolic pathways and enzymes." Nucleic Acids Res 46(D1);D633-D639. PMID: 29059334

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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