Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   114785
Name   oriT_pRS20D_A in_silico
Organism   Lactiplantibacillus plantarum strain RS20D
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP042256 (60026..60061 [+], 36 nt)
oriT length   36 nt
IRs (inverted repeats)      1..7, 17..23  (ACCCCAC..GTGGGGT)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 36 nt

>oriT_pRS20D_A
ACCCCACAATATTTTGGTGGGGTGTAAGTGCGCATT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   9473 GenBank   WP_306236841
Name   mobQ_FQU65_RS15655_pRS20D_A insolico UniProt ID   _
Length   687 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 687 a.a.        Molecular weight: 80622.55 Da        Isoelectric Point: 9.6474

>WP_306236841.1 MobQ family relaxase [Lactiplantibacillus plantarum]
MAIFHMSFSNISAGKGRSAIASAAYRSGEKLFDDKEGQHYFYARSVMPYSFILTPKNAPAWASDREKLWN
EVERKDRRANSRYAKEFNVALPVELSADEQKELLIKYVQENFVDKGMVADVAIHRDHADNPHAHVMLTNR
PFDPDGTWGIKSKKQYILDENGNKTYTGTSKYPKSRKILMVDWDKKEKIIEWRHNWAASVNQVLEQKNIP
DRISEKSFIEQGIDDTPTQHEGINSKRHERKAFNQQVKSYRKSKAGYKNMQEKVVNRGHLDSLSKHFSFN
EKKVVKELSHELKTYISLESLDDKRRMLFNWKNSTLIKHAIGEDVTKQLLTINQQESSLKKADELLNKVV
DRTIKKLYPELDFEQTTAAERRELIKETNSEQTIFKGSELNERLMNIRDDLLTRQLLTFTKRPYVGWKLL
MQQEKEVKIELKYTLMIHDDSLESLEHVDQGLLEKYSPTEQQKITRSVKDLRTIMAVKQVIQTQYQEVLR
RAFPNGNFNELPMIKQEQAYTAMMYYDPALKPCKVETIAQWQENPPRVFTTQEHQQGLAYLSGQLSLDQL
ENHHLQRVLKHDGTKQLFLGECKANPTIKNSQIEKIQKQLKEQQAKDDQYRKANIGHYQPLNYKPVSPDY
YLKTAFSDAIMTVLYTRDEDYQRQKQERGLKETEWEMTKKQRKHQTRNRHEDGGMHL

  Protein domains


Predicted by InterproScan.

Nicking enzyme C-terminal middle helical domain (NES_C_h)

(276-384)

MobA/MobL family (MobA_MobL)

(17-241)


  Protein structure



No available structure.




T4CP

ID   11021 GenBank   WP_072540907
Name   t4cp2_FQU65_RS15595_pRS20D_A insolico UniProt ID   _
Length   514 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 514 a.a.        Molecular weight: 57936.94 Da        Isoelectric Point: 4.6798

>WP_072540907.1 VirD4-like conjugal transfer protein, CD1115 family [Lactiplantibacillus plantarum]
MNGTILGIVDKQVVYQNNSTKPNRNIFVVGGPGSYKTQSVVITNLFNETENSIVVTDPKGELYEKTAGIK
LAQGYQVHVVNFANMAYSDRYNPFDYIQRDIQAETVATKIVQSENAEGKKDVWFSTQRQLLKALILFVMN
HRSPEQRNLAGVTQVLQENDVEAEEKGTDSPLDTLFLDLPMSDPARRAYELGFKKAKGEMKASIIESLLA
TISKFVDEEVADFTSFSDFDLKEIGNTKVVLYVIIPVMDNTYESFINLFFSQLFDELYKLAADHHAKLPH
QVDFILDEFVNLGKFPKYEEFLATCRGYGIGVTTICQTLTQLQALYGKDKAESILGNHAVKICLNAANDV
TAKYFSDLLGKSTVKVETGSESTSHSKEESHSKSDSYSYTSRSLMTPDEIMRMPEDRSLLIFSNARPVKA
TKAFQFKLFPGADHLVNLSQNEYQGQPEASQETNFHQRVEKWEAKLKETAQKEAANEMSQKEEEQQQDNL
DSDLERVSNKDSQTEEPEDDNLLG

  Protein domains


Predicted by InterproScan.

Type IV secretory system Conjugative DNA transfer (T4SS-DNA_transf)

(24-443)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 46618..56473

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
FQU65_RS15555 42034..42204 + 171 WP_097037835 hypothetical protein -
FQU65_RS15560 (FQU65_15850) 42273..42530 - 258 Protein_39 redoxin domain-containing protein -
FQU65_RS15565 (FQU65_15855) 42583..43707 - 1125 WP_072540902 hypothetical protein -
FQU65_RS15570 (FQU65_15860) 43711..43928 - 218 Protein_41 hypothetical protein -
FQU65_RS15575 (FQU65_15865) 44050..46185 - 2136 WP_260663738 type IA DNA topoisomerase -
FQU65_RS15580 (FQU65_15870) 46192..46602 - 411 WP_057705050 hypothetical protein -
FQU65_RS15585 (FQU65_15875) 46618..47457 - 840 WP_072540905 conjugal transfer protein TrbL family protein trsL
FQU65_RS15590 (FQU65_15880) 47476..47865 - 390 WP_072540906 hypothetical protein -
FQU65_RS15595 (FQU65_15885) 47880..49424 - 1545 WP_072540907 VirD4-like conjugal transfer protein, CD1115 family -
FQU65_RS15600 (FQU65_15890) 49426..49896 - 471 WP_072540908 conjugal transfer protein trsJ
FQU65_RS15605 (FQU65_15895) 49897..50265 - 369 WP_072540909 thioredoxin family protein -
FQU65_RS15610 (FQU65_15900) 50252..50869 - 618 WP_072540910 hypothetical protein -
FQU65_RS15615 (FQU65_15905) 50884..52041 - 1158 WP_072540911 phage tail tip lysozyme prgK
FQU65_RS15620 (FQU65_15910) 52042..53460 - 1419 WP_306236839 conjugal transfer protein trsF
FQU65_RS15625 (FQU65_15915) 53453..55471 - 2019 WP_306236840 VirB4 family type IV secretion system protein virb4
FQU65_RS15630 (FQU65_15920) 55483..56142 - 660 WP_106904944 TrsD/TraD family conjugative transfer protein trsD
FQU65_RS15635 (FQU65_15925) 56111..56473 - 363 WP_072540915 conjugal transfer protein trsC
FQU65_RS15640 (FQU65_15930) 56494..56829 - 336 WP_072540916 CagC family type IV secretion system protein -
FQU65_RS15645 (FQU65_15935) 56831..57445 - 615 WP_106904945 hypothetical protein -
FQU65_RS15650 (FQU65_15940) 57481..57795 - 315 WP_060599173 hypothetical protein -
FQU65_RS15655 (FQU65_15945) 57878..59941 - 2064 WP_306236841 MobQ family relaxase -
FQU65_RS15660 (FQU65_15950) 60211..60423 + 213 WP_003645707 hypothetical protein -
FQU65_RS15665 (FQU65_15955) 60440..60718 + 279 WP_003645706 hypothetical protein -
FQU65_RS15670 (FQU65_15960) 60708..61133 - 426 WP_241277737 ATPase -
FQU65_RS15675 (FQU65_15965) 61148..61338 - 191 Protein_62 hypothetical protein -

Host bacterium

ID   15220 GenBank   NZ_CP042256
Plasmid name   pRS20D_A Incompatibility group   -
Plasmid size   61606 bp Coordinate of oriT [Strand]   60026..60061 [+]
Host baterium   Lactiplantibacillus plantarum strain RS20D

Cargo genes

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