Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   112709
Name   oriT_R31|unnamed2 in_silico
Organism   Mesorhizobium mediterraneum strain R31
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP088153 (150141..150183 [+], 43 nt)
oriT length   43 nt
IRs (inverted repeats)      19..25, 30..36  (ACGTCGC..GCGACGT)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 43 nt

>oriT_R31|unnamed2
ATCCAAGGGCGCAATTATACGTCGCTGGCGCGACGTGTTGCGT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   8201 GenBank   WP_095482582
Name   traA_LRP31_RS34715_R31|unnamed2 insolico UniProt ID   _
Length   1100 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1100 a.a.        Molecular weight: 123021.67 Da        Isoelectric Point: 10.2169

>WP_095482582.1 MULTISPECIES: Ti-type conjugative transfer relaxase TraA [Mesorhizobium]
MAIAHFSVSIVSRGDGRSAVLSAAYRHCAKMDYEREARTIDYSRKHGLVHEEFLLPADAPQWARKLIADR
STAGAAEAFWNKVEAFEKRVDAQLAKDLTIALPLELSVEQNIALVRDFVEKHILSKGMVADWVYHDNPGN
PHIHLMTTLRPLTEDGFGAKKVAVTGDDGQPLRINSGKIVYELWAGGTQEFNAFRDGWFERQNHHLALNG
VALQVDGRAYEKQGIELVPTIHVGVGAKAIQRKATAEGWKPSLERLDLQEARKAENLRRIQARPEIVLDL
VTREKSVFDERDIAKVLHRYVDDPAVFQQLLARIIQRPEVLRLQRDTVAFATGERMPARYTLRDLIRLEA
GMARRAIWLSGHETHGVPQRLLEATFARHARLSDEQRTAIDHVAGSARIAAVVGRAGAGKTTMMKAAREA
WEIAGYRVVGAALAGKAAEGLEKEAGIASRTLASWELRWEKGRDTLDAKTVFVMDEAGMVASKQMAGFVE
AVVRAGAKLVLVGDPEQLQPIEAGAAFRAIVDRIGYAELETIYRQREDWMRKASLDLARGRVDQALAAYR
SQGRVLGSELKAEAVENLVADWNRDYDPAKSTLILAHLRRDVRMLNELARKKLVERSILSAGHGFRTADG
IRHFGAGDQIVFLKNEGSLGVKNGMIGRVVEAAPNRIVVMVGEGDQRRQVTVEQRFYNNLDHGYATTIHK
SQGATVDRVKVLASLSLDRHLTYVAMSRHREDLHLYYGRRSFAFNGGLSKILSRRNAKETTLDYDRGTLY
RQALRFAENRGLHIVQVARTMLRDRLDWTLRQGSRLADLAIRLRAAGERLGLLQTPTMRTKKESRPMVAG
VKLFPIPLSDAVEQKLADDPALKKQWEEVSTRFRYVFADPETAFRTMNFDAVLADRQAASQTLQKLTINP
VSIGSLNGKTGLLASKADREARRVADVNVPALKHDIERYLQMRESALQRIEGEEKTLRQRVSIDIPALSP
AARSVLERVRDAIDRNDLPAALGYVLSNREAKLEVDGFNKAVAERFGERTLLTNAARNPAGQLFDKLAEG
LQPQEKERLKEAWPVMRTAQQLAARERTAATLKQADDLALSQRQTPVMKQ

  Protein domains


Predicted by InterproScan.

Viral (Superfamily 1) RNA helicase (Viral_helicase1)

(692-736)

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

(855-951)

AAA domain (AAA_30)

(382-565)

MobA/MobL family (MobA_MobL)

(17-243)


  Protein structure



No available structure.




T4CP

ID   9495 GenBank   WP_095482584
Name   traG_LRP31_RS34700_R31|unnamed2 insolico UniProt ID   _
Length   643 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 643 a.a.        Molecular weight: 69282.55 Da        Isoelectric Point: 10.0588

>WP_095482584.1 MULTISPECIES: Ti-type conjugative transfer system protein TraG [Mesorhizobium]
MTANRIALALIPAMMMVGVTILMPGIEHWLAAFGKTAQAKLMLGRIGLTLPYVTAAAIGVIFLFAASGAA
NIKAAGWGVVAGSVATILIALMREAVRLAGIAGNVPAGRSVFAYADPATTIGAFAAFVAGVFALRVAVKG
NAAFARPAPRRIHGKRAVHGEANWMGMTEAARMFADAGGIVIGERYRVDRDSVAGMSFRADARETWGVGG
KAPLLCFDGSFGSSHGIVFAGSGGFKTTSVTIPTALKWGGGLIVLDPSSEVAPMVVDHRRRAGRKVIVLD
PSSPATGFNALDWIGRFGATREEDIVAVATWIMTDNARAASARDDFFRASAMQLLTALIADVCLSGHTEK
KDQTLRRVRANLSEPEPKLRERLTRIYEQSESAFVRENVAVFVNMTPETFSGVYANAVKETHWLSYPNYA
ALVSGDGFSTDELAGGRTDIFIALDLKVLEAHPGLARVVIGSFLNAIYNRNGEVAGKTLFLLDEVARLSY
LRILETARDAGRKYGISLTLIFQSIGQMREAYGGRDASSKWFESASWISFAAINDPETAEYLSKRCGDTT
VEVDQTNRSSGMKGSSRSRSKQLNRRPLILPHEVMRMRADEQIVFTAGNPPLRCGRAIWFRRDDMKACVG
TNRFHRSEGGDSG

  Protein domains


Predicted by InterproScan.

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

(163-635)

  Protein structure



No available structure.



ID   9496 GenBank   WP_095482562
Name   t4cp2_LRP31_RS34815_R31|unnamed2 insolico UniProt ID   _
Length   822 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 822 a.a.        Molecular weight: 91347.02 Da        Isoelectric Point: 5.4061

>WP_095482562.1 MULTISPECIES: conjugal transfer protein TrbE [Mesorhizobium]
MVALKTFRQSGPSFADLVPYAGLVDNGVILLKDGSLMAGWYFAGPDSESSTDAERNEVSRQINTILARLG
SGWMIQVEAVRVPTSDYPDEAECHFPDPVTRAIDFERRLHFQRESGHFESRHALILTWRPPEPRRSGLAR
YVYSDPASRSASYAVTTLDTFRASIREIEQYLGNVVSIQRMATREADERGGFRVARYDELLQFVRFCITG
ENHPLRLPDIPMYLDWLVTAELQHGLTPLVENRFLGVVAIDGLPAESWPGILNALDLMPLTYRWSSRFVF
LDEQEARQKLERTRKKWQQKVRPFFDQLFQTQSRSVDQDAMMMVAETEDAIAEASSQLVAYGYYTPVIVL
FDEAQARLQEKCEAIRRLIQAEGFGARIETLNATDAFLGSLPGVSYANIREPLINTCNLADLIPLNSVWS
GSPVAPCPFYPPGSPPLVQVASGSTPFRLNLHVDDVGHTLVFGPTGSGKSTLLALIAAQFRRYAGAQVFA
FDKGRSMLPLTLGLGGDHYEIGGDATGGGEGASPALAFCPLAELSSDGDRAWAAEWIETLVALQGVSVTP
DYRNAISRQIGLMAQSRGRSLSDFVSGVQMREIKDALHHYTVDGPMGQLLDAEEDGLSLRAFQCFEVEEL
MNMGERNLVPVLTYLFRRIENRLTGAPSLIVLDEAWLMLGHPTFRDKIREWLKVLRKANCAVVLATQSIS
DAERSGIIDVLKESCPTKICLPNGAARETGTREFYERIGFNERQIEIVATALPKREYYVASPEGRRLFDM
ALGPVALSFVGASGKEDLKQIRALHSKHGAAWPLEWLQQRGIADVASFFPKA

  Protein domains


Predicted by InterproScan.

CagE, TrbE, VirB family, component of type IV transporter system (CagE_TrbE_VirB)

(193-400)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 147565..174521

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
LRP31_RS34670 (LRP31_34530) 143521..143832 + 312 WP_095482589 DUF736 domain-containing protein -
LRP31_RS34675 (LRP31_34535) 144000..144476 + 477 Protein_147 MFS transporter -
LRP31_RS34680 (LRP31_34540) 144750..145019 - 270 WP_095482587 DNA -binding domain-containing protein -
LRP31_RS34685 (LRP31_34545) 145321..146247 + 927 WP_095482586 DUF4037 domain-containing protein -
LRP31_RS34690 (LRP31_34550) 146349..146609 - 261 WP_095482585 WGR domain-containing protein -
LRP31_RS34695 (LRP31_34555) 146694..147089 - 396 WP_245329715 thermonuclease family protein -
LRP31_RS34700 (LRP31_34560) 147565..149496 - 1932 WP_095482584 Ti-type conjugative transfer system protein TraG virb4
LRP31_RS34705 (LRP31_34565) 149483..149698 - 216 WP_164895829 type IV conjugative transfer system coupling protein TraD -
LRP31_RS34710 (LRP31_34570) 149703..149999 - 297 WP_095482583 conjugal transfer protein TraC -
LRP31_RS34715 (LRP31_34575) 150247..153549 + 3303 WP_095482582 Ti-type conjugative transfer relaxase TraA -
LRP31_RS34720 (LRP31_34580) 153546..154076 + 531 WP_095482581 conjugative transfer signal peptidase TraF -
LRP31_RS34725 (LRP31_34585) 153997..155232 + 1236 WP_095482580 conjugal transfer protein TraB -
LRP31_RS34730 (LRP31_34590) 155250..155879 + 630 WP_095482579 TraH family protein virB1
LRP31_RS34735 (LRP31_34595) 156257..156565 + 309 WP_095482578 transcriptional repressor TraM -
LRP31_RS34740 (LRP31_34600) 156569..157273 - 705 WP_095482577 transcriptional regulator TraR -
LRP31_RS34745 (LRP31_34605) 157637..159250 + 1614 WP_095482576 RcgA family putative transporter -
LRP31_RS34750 (LRP31_34610) 159240..160247 + 1008 WP_095482575 alpha/beta fold hydrolase -
LRP31_RS34755 (LRP31_34615) 161119..161736 + 618 Protein_163 lyase family protein -
LRP31_RS34760 (LRP31_34620) 162004..162224 + 221 Protein_164 cold-shock protein -
LRP31_RS34765 (LRP31_34625) 162274..163380 + 1107 WP_095482572 IS5 family transposase -
LRP31_RS34770 (LRP31_34630) 163380..163724 + 345 WP_095482571 hypothetical protein -
LRP31_RS34775 (LRP31_34635) 163819..164205 - 387 WP_158302485 GNAT family N-acetyltransferase -
LRP31_RS34780 (LRP31_34640) 164913..166223 - 1311 WP_095482569 IncP-type conjugal transfer protein TrbI virB10
LRP31_RS34785 (LRP31_34645) 166232..166687 - 456 WP_095482568 conjugal transfer protein TrbH -
LRP31_RS34790 (LRP31_34650) 166687..167475 - 789 WP_245329714 P-type conjugative transfer protein TrbG virB9
LRP31_RS34795 (LRP31_34655) 167555..168217 - 663 WP_095482566 conjugal transfer protein TrbF virB8
LRP31_RS34800 (LRP31_34660) 168232..169431 - 1200 WP_095482565 P-type conjugative transfer protein TrbL virB6
LRP31_RS34805 (LRP31_34665) 169425..169637 - 213 WP_095482564 entry exclusion protein TrbK -
LRP31_RS34810 (LRP31_34670) 169634..170443 - 810 WP_095482563 P-type conjugative transfer protein TrbJ virB5
LRP31_RS34815 (LRP31_34675) 170415..172883 - 2469 WP_095482562 conjugal transfer protein TrbE virb4
LRP31_RS34820 (LRP31_34680) 172891..173190 - 300 WP_095482561 conjugal transfer protein TrbD virB3
LRP31_RS34825 (LRP31_34685) 173183..173560 - 378 WP_095482560 TrbC/VirB2 family protein virB2
LRP31_RS34830 (LRP31_34690) 173550..174521 - 972 WP_095482559 P-type conjugative transfer ATPase TrbB virB11
LRP31_RS34835 (LRP31_34695) 174518..175150 - 633 WP_095482558 acyl-homoserine-lactone synthase TraI -

Host bacterium

ID   13144 GenBank   NZ_CP088153
Plasmid name   R31|unnamed2 Incompatibility group   -
Plasmid size   175478 bp Coordinate of oriT [Strand]   150141..150183 [+]
Host baterium   Mesorhizobium mediterraneum strain R31

Cargo genes

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