Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100754
Name   oriT_pCFNEI_73-B in_silico
Organism   Sinorhizobium americanum strain CFNEI 73
Sequence Completeness      core
NCBI accession of oriT (coordinates [strand])   NZ_CP013109 (42023..42056 [-], 34 nt)
oriT length   34 nt
IRs (inverted repeats)      17..23, 28..34  (ACGTCGC..GCGACGT)
Location of nic site      7..8
Conserved sequence flanking the
  nic site    		  AGGG|CGCA
Note   predicted by the oriTfinder

  oriT sequence  


Download         Length: 34 nt

>oriT_pCFNEI_73-B
CCAAGGGCGCAATTATACGTCGCTGGCGCGACGT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   826 GenBank   WP_037390291
Name   TraA_pCFNEI_73-B insolico UniProt ID   _
Length   1103 a.a. PDB ID   
Note   putative relaxase

  Relaxase protein sequence


Download         Length: 1103 a.a.        Molecular weight: 122055.48 Da        Isoelectric Point: 10.2168

>WP_037390291.1 Ti-type conjugative transfer relaxase TraA [Sinorhizobium americanum]
MAVPHFSVSIVARGSGRSAVLSAAYRHCAKMGFEREARTIDYTRKQGLLHEEFVVPADAPEWLRAMIADH
SVSGASEAFWNKVEGFEKRADAQLAKDITIALPIELSTEQNIVLIRDFIDRHVTSKGMVADWVYHDAPGN
PHVHLMTTLRPLTEDGFGAKKIAVLGPDGTPIRNNSGKILYELWAGSAADFNAFRDGWFACQNKHLSLAG
LDIRIDGRSFEKQGIELTPTIHLGVGAKAIERKPAEAGRDISLERLELQEERRGENARRIQRRPEIVLDL
ITREKSVFDERDVAKILHRYFDDAGRFHSLMARILQSPETLRLERERIDFASGLRAPAKYTTRELIRLEA
EMADRANWLSLQSSHGIRDAVLEATFARHTRLSEEQKAAIAHVVAGERIAAVIGRAGAGKTTMMKAAREA
WEAAGYRVVGGALAGKAAEGLEKEAGILSRTLSSWELRWSEGRDLIHDRTVFVLDEAGMVSSRQMALFVE
TATKAGAKLVLIGDPQQLQPIEAGAAFRAIADRIGYAELGTIYRQREQWMRDASLDLARGNVGKAVEAYR
AHGHVTGSALKTEAMQALITDWNRDYDPTRTSLILAHLRRDVRMLNEMARAKLVERGIVDEGFAFRTEDG
SRKFATGDQIVFLKNEGALGVKNGMLAKVVDAAPGRIVAEVGEAEHRRRVTVESRFYNNVDLGYATTIHK
SQGVTVDRVKVLASLSLDRHLAYVAMTRHREDLAIYYGRRSFAKAGGLIPILSRKNAKETTLDYANGRLY
RQALRFARARGFHLVSVARTLVRDRLEWTVRQKSRFAELGARLSAIAGKLGLSAAAAGTSQPRTVKELKP
MVSGITTFAKSLEQAVEDRLAADPGLMKQWQEVSARFHLVYAQPEAAFKAADVDAMLKDGAAAKTTISRI
GSEPKAFGPLKGKTGMLVSRAEKQTRETAIANAPALARNLERYLRQRTVAARKYVIEERAMRLKVAFHIP
ALSPAAKQTLERVRDAIDRNDLPAGLEYAVADKMVKAELEGFSRAVSERFGERTFLPLAAKDTGGQAFQS
VSDGMSEAQKAELQSAWNSMRTVQQLAAHERTAEALKQAETMRQTKSQGLSLK

  Protein domains


Predicted by InterproScan.

AAA domain (AAA_30)

(382-566)

MobA/MobL family (MobA_MobL)

(17-243)

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

(859-955)


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 576382..585894

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
SAMCFNEI73_RS21535 571888..572865 - 978 WP_153045161 hypothetical protein -
SAMCFNEI73_RS21540 (SAMCFNEI73_pB0514) 573160..574299 - 1140 WP_037385408 RHE_PE00001 family protein -
SAMCFNEI73_RS21545 (SAMCFNEI73_pB0515) 574726..574938 - 213 WP_018097600 helix-turn-helix transcriptional regulator -
SAMCFNEI73_RS21550 (SAMCFNEI73_pB0516) 575145..575468 + 324 WP_037385819 transcriptional repressor TraM -
SAMCFNEI73_RS21555 (SAMCFNEI73_pB0517) 575472..576176 - 705 WP_037385415 autoinducer binding domain-containing protein -
SAMCFNEI73_RS21560 (SAMCFNEI73_pB0518) 576382..577683 - 1302 WP_037385418 IncP-type conjugal transfer protein TrbI virB10
SAMCFNEI73_RS21565 (SAMCFNEI73_pB0519) 577696..578133 - 438 WP_037385421 conjugal transfer protein TrbH -
SAMCFNEI73_RS21570 (SAMCFNEI73_pB0520) 578136..578948 - 813 WP_037385424 P-type conjugative transfer protein TrbG virB9
SAMCFNEI73_RS21575 (SAMCFNEI73_pB0521) 578963..579625 - 663 WP_037385426 conjugal transfer protein TrbF virB8
SAMCFNEI73_RS21580 (SAMCFNEI73_pB0522) 579650..580825 - 1176 WP_037385428 P-type conjugative transfer protein TrbL virB6
SAMCFNEI73_RS21585 (SAMCFNEI73_pB0523) 580819..581019 - 201 WP_037385430 entry exclusion protein TrbK -
SAMCFNEI73_RS21590 (SAMCFNEI73_pB0524) 581016..581816 - 801 WP_037385433 P-type conjugative transfer protein TrbJ virB5
SAMCFNEI73_RS21595 (SAMCFNEI73_pB0525) 581788..584244 - 2457 WP_037385436 conjugal transfer protein TrbE virb4
SAMCFNEI73_RS21600 (SAMCFNEI73_pB0526) 584255..584554 - 300 WP_037385439 conjugal transfer protein TrbD virB3
SAMCFNEI73_RS21605 (SAMCFNEI73_pB0527) 584547..584927 - 381 WP_037385442 TrbC/VirB2 family protein virB2
SAMCFNEI73_RS21610 (SAMCFNEI73_pB0528) 584917..585894 - 978 WP_037385445 P-type conjugative transfer ATPase TrbB virB11
SAMCFNEI73_RS21615 (SAMCFNEI73_pB0529) 585906..586526 - 621 WP_037385448 acyl-homoserine-lactone synthase -

Host bacterium

ID   1214 GenBank   NZ_CP013109
Plasmid name   pCFNEI_73-B Incompatibility group   _
Plasmid size   586526 bp Coordinate of oriT [Strand]   42023..42056 [-]
Host baterium   Sinorhizobium americanum strain CFNEI 73

Cargo genes

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