Deinococcus deserti VCD115

Gram-negativeRodNon-motileAerobe

Kingdom

Thermotogati

Phylum

Deinococcota

Class

Deinococci

Order

Deinococcales

Family

Deinococcaceae

Genus

Deinococcus

Description

Deinococcus deserti (strain VCD115 / DSM 17065 / LMG 22923) is an aerobic, radiation-resistant bacterium isolated from upper gamma-irradiated sand layers of the Sahara. D. deserti is resistant to gamma radiation, UV radiation, and desiccation due to a very efficient DNA repair mechanism. Heavy UV- and desiccation-induced damage to membranes, proteins and nucleic acids is lethal to most organisms. Vegetative bacteria that survive these stresses must therefore either protect vital components from damage and/or repair them efficiently, especially upon rehydration. The tolerance of D. deserti to high doses of ionizing radiation is a consequence of its response to natural DNA damaging conditions such as desiccation. Repair of massive DNA damage in D. deserti involves widespread DNA repair proteins, such as RecA and PolA. Besides its resistance to high doses of gamma and UV radiation, D. deserti also tolerated prolonged desiccation, with about 50% survival after 40 days of desiccation. The tolerance of D. deserti to desiccation is related to efficient DNA repair rather than DNA protection mechanisms. (adapated from PMID: 19201974). (EBI Integr8)

Taxonomy

KingdomThermotogati
PhylumDeinococcota
ClassDeinococci
OrderDeinococcales
FamilyDeinococcaceae
GenusDeinococcus
SpeciesDeinococcus deserti
StrainVCD115

Profile

Physiology
Gram staining propertiesNegative
ShapeRod
MobilityNo
Flagellar presenceYes
Number of membranes1
Image of Deinococcus deserti VCD115
Ecology, Host, and Life Cycle
Oxygen requirementsAerobe
Optimal temperature29
Temperature rangeMesophilic
HabitatTerrestrial
Biotic relationshipFree living
Host(s)Not Available
Cell arrangementNot Available
SporulationNonsporulating
Energy sourceNot Available
PathogenicityNo

Genome Summary

Deinococcus deserti VCD115

Accession NumberNC_012526.1

Gene Summary

Adenine Count

516615 bp

Thymine Count

515781 bp

Guanine Count

893155 bp

Cytosine Count

894291 bp

Genome Length

2819842 bp

Protein-coding Genes

2630 genes

Non-Coding Genes

60 genes

# of Chromosomes/Plasmids

4

Genes

NameLocus TagUniProtStrandCoordinatesMolecular Weight
branched-chain amino acid abc transporter substrate-binding proteinDEIDE_RS07265Not Available+1530388 - 153154240051.0
branched-chain amino acid abc transporter permeaseDEIDE_RS07270Not Available+1531879 - 153290135636.8
branched-chain amino acid abc transporter permeaseDEIDE_RS18410Not Available+1532898 - 153472164193.0
abc transporter atp-binding proteinDEIDE_RS07280Not Available+1534718 - 153554230288.6
atp-binding cassette domain-containing proteinDEIDE_RS07285Not Available+1535586 - 153629625832.7
atp-dependent chaperone clpbDEIDE_RS07290Not Available+1536474 - 153903294120.1
hit family proteinDEIDE_RS07295Not Available-1539299 - 153971215065.0
wgxxgxxg family proteinDEIDE_RS07300Not Available-1539868 - 15400807495.08
dna repair protein radaDEIDE_RS07305Not Available-1540151 - 154150046455.1
duf2087 domain-containing proteinDEIDE_RS07310Not Available-1541493 - 154177410555.4

Displaying genes 2331 – 2340 of 3565 in total

Pathways

0 pathways

No pathways found

No metabolic pathways have been associated with this bacterium yet.

Metabolites

35 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
BASm00002512-dehydropantoateC6H9O4Chemical structure of 2-dehydropantoateNot available
Average145.1333Da
Monoisotopic145.050083776Da
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
BASm0001697(S)-4,5-dihydroxypentane-2,3-dioneC5H8O4Chemical structure of (S)-4,5-dihydroxypentane-2,3-dioneNot available
Average132.1146Da
Monoisotopic132.042258744Da
BASm0001717fumarateC4H2O4Chemical structure of fumarateNot available
Average114.0563Da
Monoisotopic113.9953086Da
BASm0001865diphosphateHO7P2Chemical structure of diphosphateNot available
Average174.95Da
Monoisotopic174.9213971Da
BASm0002305(S)-2-ethyl-2-hydroxy-3-oxobutanoateC6H9O4Chemical structure of (S)-2-ethyl-2-hydroxy-3-oxobutanoateNot available
Average145.135Da
Monoisotopic145.0506324Da
BASm0002307(2R,3R)-2,3-dihydroxy-3-methylpentanoateC6H11O4Chemical structure of (2R,3R)-2,3-dihydroxy-3-methylpentanoateNot available
Average147.1491Da
Monoisotopic147.06573384Da
BASm00027107,8-dihydrofolateC19H19N7O6Chemical structure of 7,8-dihydrofolateNot available
Average441.405Da
Monoisotopic441.1407785Da
BASm0002749ADP-alpha-D-glucoseC16H23N5O15P2Chemical structure of ADP-alpha-D-glucoseNot available
Average587.329Da
Monoisotopic587.0676862Da

Displaying 1–10 of 35 metabolites