Treponema pallidum subsp. pallidum str. Nichols

Gram-negativeSpirillaNon-motileAnaerobe

Kingdom

Pseudomonadati

Phylum

Spirochaetota

Class

Spirochaetia

Order

Spirochaetales

Family

Treponemataceae

Genus

Treponema

Description

Treponema pallidum, is a helical to sinusoidal spirochaete with 2 membranes, a thin peptidoglycan layer and flagella that lie in the periplasmic space. It is the causative agent of syphilis, plays a role in the transmission and acquisition of HIV, and is a major cause of stillbirth and perinatal morbidity in the developing world. Even if the primary infection is localized, bacteria rapidly disseminate and cause manifestations in the cardiovascular and nervous systems. It is an obligate human parasite.The first T.pallidum strain to be sequenced was strain Nichols, which was isolated in 1912 from the cerebrospinal fluid of patient with secondary syphilis. It has since been passed in rabbits for nearly a century. This Chicago strain was isolated in 1951, has not been passed continually in rabbits and has had an important role in research on antigenic variation, immune escape and pathogen persistence. There are 44 nucleotide substitutions, 21 deletions and 75 insertions compared to the Nichols genome (adapted from PMID). (EBI Integr8)

Taxonomy

KingdomPseudomonadati
PhylumSpirochaetota
ClassSpirochaetia
OrderSpirochaetales
FamilyTreponemataceae
GenusTreponema
SpeciesTreponema pallidum
StrainNichols

Profile

Physiology
Gram staining propertiesNegative
ShapeSpirilla
MobilityNo
Flagellar presenceYes
Number of membranes2
Ecology, Host, and Life Cycle
Oxygen requirementsAnaerobe
Optimal temperatureNot Available
Temperature rangeMesophilic
HabitatHostAssociated
Biotic relationshipFree living
Host(s)Homo sapiens
Cell arrangementSingles
SporulationNonsporulating
Energy sourceNot Available
PathogenicityYes

Genome Summary

Treponema pallidum subsp. pallidum str. Nichols

Accession NumberNC_021490.2

Gene Summary

Adenine Count

Not Available

Thymine Count

Not Available

Guanine Count

Not Available

Cytosine Count

Not Available

Genome Length

Not Available

Protein-coding Genes

984 genes

Non-Coding Genes

54 genes

# of Chromosomes/Plasmids

1

Genes

NameLocus TagUniProtStrandCoordinatesMolecular Weight
chromosomal replication initiator protein dnaaTPANIC_RS00005Not Available+4 - 139852968.4
dna polymerase iii subunit betaTPANIC_RS00010Not Available+1641 - 275641292.8
dna replication/repair protein recfTPANIC_RS00015Not Available+2701 - 383444064.4
duf721 domain-containing proteinTPANIC_RS00020Not Available+3827 - 426416338.6
dna topoisomerase (atp-hydrolyzing) subunit aTPANIC_RS00025Not Available+4391 - 683289931.9
30s ribosomal protein s16TPANIC_RS00035Not Available+7203 - 826139368.2
major outer sheath c-terminal domain-containing proteinTPANIC_RS05525Not Available-8341 - 926133587.1
30s ribosomal protein s16TPANIC_RS05530Not Available-9274 - 94476250.57
major outer sheath n-terminal domain-containing proteinTPANIC_RS05535Not Available-9374 - 995221325.1
major outer sheath c-terminal domain-containing proteinTPANIC_RS00045Not Available+10397 - 1237971110.1

Displaying genes 1 – 10 of 1038 in total

Pathways

0 pathways

No pathways found

No metabolic pathways have been associated with this bacterium yet.

Metabolites

36 records
Metabolite IDMetabolite nameStructureCAS number
BASm0017271NADC21H28N7O14P2Chemical structure of NAD53-84-9
Average664.433Da
Monoisotopic664.116946663Da
BASm00172855-MethylthioriboseC6H12O4SChemical structure of 5-Methylthioribose23656-67-9
Average180.222Da
Monoisotopic180.045629562Da
BASm0017299Nicotinic acid adenine dinucleotideC21H27N6O15P2Chemical structure of Nicotinic acid adenine dinucleotide6450-77-7
Average665.4178Da
Monoisotopic665.100962248Da
BASm00177315,10-MethenyltetrahydrofolateC20H22N7O6Chemical structure of 5,10-Methenyltetrahydrofolate7444-29-3
Average456.432Da
Monoisotopic456.163156471Da
BASm00189185'-DeoxyriboseC5H10O4Chemical structure of 5'-DeoxyriboseNULL
Average134.1305Da
Monoisotopic134.057908808Da
BASm0034737(6S)-5,6,7,8-tetrahydrofolic acidC19H23N7O6Chemical structure of (6S)-5,6,7,8-tetrahydrofolic acidNULL
Average445.4292Da
Monoisotopic445.170981503Da

Displaying 31–36 of 36 metabolites