Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101007
Name   oriT_pRet42a experimental
Organism   Rhizobium etli CFN 42
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   NC_007762 (170603..170646 [+], 44 nt)
oriT length   44 nt
IRs (inverted repeats)     _
Location of nic site      _
Conserved sequence flanking the
  nic site    		  AAGGGCGCAATTA
Note   

  oriT sequence  


Download         Length: 44 nt

>oriT_pRet42a
GGATCCGAAGGGCGCAATTATACGTCGCTGTCGCGACGCCCTGC

  oriT secondary structure

Predicted by RNAfold.

Download structure file

  Reference


[1] Laura Cervantes et al. (2019) Plasmid pSfr64a and the symbiotic plasmid pSfr64b of Sinorhizobium fredii GR64 control each other's conjugative transfer through quorum-sensing elements. Plasmid. 106:102443. [PMID:31689451]


Relaxase

ID   1075 GenBank   WP_011427443
Name   TraA_pRet42a experimental UniProt ID   Q2K2P2
Length   1103 a.a. PDB ID   
Note   

  Relaxase protein sequence


Download         Length: 1103 a.a.        Molecular weight: 122254.41 Da        Isoelectric Point: 9.7588

>WP_011427443.1 MULTISPECIES: Ti-type conjugative transfer relaxase TraA [Rhizobium]
MAVPHFSVSVVARGSGRSAVLSAAYRHCAKMEFEREARTIDYTRKQGLLHEEFVIPADAPDWLRSMIADR
SVSGASEAFWNKVEGFEKRSDAQLAKDVTIALPIELTAEQNIALVRDFVEQHITANGMVADWVYHDAPGN
PHVHLMTTLRPLTADGFGAKKVAVTGPDGNPIRNDAGKIVYELWAGSIDDFNAFRDGWFACQNRHLALAG
LDIRVDGRSFEKQGIDLEPTIHLGVGTKAIERKSDGAPKPIELERLELQNARRSENVRRIDRNPELVLDL
IMREKSVFDERDVAKILHRYVDDAVLFQSLMVRILLCPETFRIERERVDLASGTREPAKYTTRDMIRLEA
EMANRAVWLSQRSSHGVRDTVLAATFERHERLSDEQKTAIEHVAGTERIAAVIGRAGAGKTTMMKAAREA
WEAAGYRVVGAALAGKAAEGLEKEAGIISRTLASWELRWNQGRDQLDSKTVFVLDEAGMVSSRQMALFVE
AVTKAGAKLVLVGDPEQLQPIEAGAAFRAIADRIGYAELETIYRQRQQWMRDASLDLARGKVGKAIDAYR
ANGRVIGSDLKAEAVDNLIAAWDRDYDPTKTSLILAHLRRDVRMLNQMARIKLIERGILGEGSMFKTADG
SRNFAVGDQIVFLKNEGSLGVKNGMLAKVVEAGPGRIIALIGDGENARKVLVEQRFYDNLDHGYATTIHK
SQGATVDQVKVLASLSLDRHLTYVAMTRHREDLAVYYGRRSFAKNGGLIPILSRRNAKETTLDYEKSAFY
RAALRFAETRGLHLVNVARTLVRDRLEWVVSQKQKLANLGARLAAVADRLRLVRGVAQSPIQNSNKEAKP
MVSGITTFAKSVDQAIEDKVAADPGLKKQWEEVSARFHLVYAQAESAFKAVNVDAMLKNETVAKSTLTKL
GSEPESFGALKGKTGILASRSDKQEREKAQTNAPALARNLERYLRQRAEAERKFEVEERAVRLKVSIDIP
ALSPNAKQTLERVRDAIDRNDLPAGLEYALADKMVKAELEGFAKAVSERFGERTFLSLAAKDPNGQTFNA
VTSGMTAGQKAEVQSAWNMIRTVQQLAAHERTTEALKQAEALRQTKSQGLSLK

  Protein domains


Predicted by InterproScan.

AAA domain (AAA_30)

(382-567)

MobA/MobL family (MobA_MobL)

(17-243)

BID domain of Bartonella effector protein (Bep) (Bep_C_terminal)

(859-955)

Viral (Superfamily 1) RNA helicase (Viral_helicase1)

(692-735)


  Protein structure


Source ID Structure
AlphaFold DB Q2K2P2

  Reference


[1] Laura Cervantes et al. (2019) Plasmid pSfr64a and the symbiotic plasmid pSfr64b of Sinorhizobium fredii GR64 control each other's conjugative transfer through quorum-sensing elements. Plasmid. 106:102443. [PMID:31689451]


Host bacterium

ID   1468 GenBank   NC_007762
Plasmid name   pRet42a Incompatibility group   -
Plasmid size   194229 bp Coordinate of oriT [Strand]   170603..170646 [+]
Host baterium   Rhizobium etli CFN 42

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -