Candidatus Pelagibacter ubique HTCC1062

Gram-negativeBacilliNon-motileAerobic

Kingdom

Pseudomonadati

Phylum

Pseudomonadota

Class

Alphaproteobacteria

Order

Candidatus Pelagibacterales

Family

Candidatus Pelagibacteraceae

Genus

Candidatus Pelagibacter

Description

Pelagibacter ubique strain HTCC1062. This organism is used in comparative genomics. The chromosome encodes biosynthetic pathways for all twenty amino acids and many enzymatic cofactors. There appears to be no recently horizontally transferred DNA in this organism and it does not even contain transposable elements although it does encode DNA uptake genes. The bacterium can generate energy through a light-driven proteorhodopsin proton pump or via respiration. Many metabolic pathways, including the Entner-Duodoroff, TCA, and glyoxylate bypass are present. This organism also encodes genes for type II secretion and type IV pilus synthesis. (NCBI BioProject: bp_list[1])

Taxonomy

KingdomPseudomonadati
PhylumPseudomonadota
ClassAlphaproteobacteria
OrderCandidatus Pelagibacterales
FamilyCandidatus Pelagibacteraceae
GenusCandidatus Pelagibacter
SpeciesCandidatus Pelagibacter communis
StrainHTCC1062

Profile

Physiology
Gram staining propertiesNegative
ShapeBacilli
MobilityNo
Flagellar presenceNot Available
Number of membranesNot Available
Ecology, Host, and Life Cycle
Oxygen requirementsAerobic
Optimal temperatureNot Available
Temperature rangeMesophilic
HabitatAquatic
Biotic relationshipFree living
Host(s)Not Available
Cell arrangementSingles
SporulationNot Available
Energy sourceOligotroph
PathogenicityNot Available

Genome Summary

Candidatus Pelagibacter ubique HTCC1062

NC_007205.1

Gene Summary

Adenine Count

462100 bp

Thymine Count

458179 bp

Guanine Count

195146 bp

Cytosine Count

193334 bp

Genome Length

1308759 bp

Protein-coding Genes

1345 genes

Non-Coding Genes

37 genes

# of Chromosomes/Plasmids

1

Genes

NameLocus TagUniProtStrandCoordinatesMolecular Weight
ketol-acid reductoisomeraseSAR11_RS00010Q4FPQ6-516 - 153537319.9
acetolactate synthase small subunitSAR11_RS00015O85294-1556 - 210420032.9
acetolactate synthase 3 large subunitSAR11_RS00020P45261-2105 - 387165249.8
trna (adenosine(37)-n6)-dimethylallyltransferase miaaSAR11_RS00025Q4FPN1-3891 - 483236283.8
do family serine endopeptidaseSAR11_RS00030P54925-4835 - 624751401.7
duf2065 domain-containing proteinSAR11_RS00035Not Available-6249 - 64347034.19
protease modulator hflcSAR11_RS00040P40606-6444 - 731032482.6
ftsh protease activity modulator hflkSAR11_RS00045Q9KV09-7310 - 841039966.6
mrp/nbp35 family atp-binding proteinSAR11_RS00050O66946+8411 - 928632176.3
fad-dependent thymidylate synthaseSAR11_RS00055Q4UM78-9267 - 1021436506.6

Displaying genes 1 – 10 of 1382 in total

Metabolites

1700 records
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Result columns

Structure search compares stored SMILES, InChI, and InChIKey text. Exact mass must match the stored database value.

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Metabolite IDMetabolite nameStructureCAS number
Average massMonoisotopic mass
BASm0000237(R)-4'-phosphopantothenateC9H18NO8PChemical structure of (R)-4'-phosphopantothenateNot available
Average299.2149Da
Monoisotopic299.0770031Da
BASm00002502,5-didehydro-D-gluconateC6H7O7Chemical structure of 2,5-didehydro-D-gluconate53736-12-2
Average191.1156Da
Monoisotopic191.019177578Da
BASm00002512-dehydropantoateC6H9O4Chemical structure of 2-dehydropantoateNot available
Average145.1333Da
Monoisotopic145.050083776Da
BASm00002532-oxopent-4-enoateC5H5O3Chemical structure of 2-oxopent-4-enoateNot available
Average113.093Da
Monoisotopic113.024417601Da
BASm00002543-hydroxy-2-methylpropanoateC4H7O3Chemical structure of 3-hydroxy-2-methylpropanoateNot available
Average103.098Da
Monoisotopic103.0400677Da
BASm00002603alpha,7alpha-dihydroxy-12-oxo-5beta-cholanateC24H37O5Chemical structure of 3alpha,7alpha-dihydroxy-12-oxo-5beta-cholanateNot available
Average405.556Da
Monoisotopic405.264647871Da
BASm0000377(S)-malateC4H4O5Chemical structure of (S)-malateNot available
Average132.0716Da
Monoisotopic132.005873238Da
BASm0000387(6R)-5,10-methylene-5,6,7,8-tetrahydrofolateC20H21N7O6Chemical structure of (6R)-5,10-methylene-5,6,7,8-tetrahydrofolateNot available
Average455.432Da
Monoisotopic455.1564286Da
BASm0000401(S)-2-succinylamino-6-oxoheptanedioateC11H12NO8Chemical structure of (S)-2-succinylamino-6-oxoheptanedioateNot available
Average286.218Da
Monoisotopic286.0579371Da
BASm00005275-oxopentanoateC5H7O3Chemical structure of 5-oxopentanoateNot available
Average115.109Da
Monoisotopic115.040067665Da

Displaying 1–10 of 1700 metabolites