Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   106623
Name   oriT_pLN1-183666 in_silico
Organism   Agrobacterium tumefaciens strain LN-1
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP092895 (121259..121305 [-], 47 nt)
oriT length   47 nt
IRs (inverted repeats)      22..27, 32..37  (CGTCGC..GCGACG)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 47 nt

>oriT_pLN1-183666
GGTTCCAAGGGCGCAATTATACGTCGCTGATGCGACGCCTTGCGTAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   4392 GenBank   WP_142845909
Name   traA_MLE07_RS26190_pLN1-183666 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: 123671.28 Da        Isoelectric Point: 10.0811

>WP_142845909.1 MULTISPECIES: Ti-type conjugative transfer relaxase TraA [Agrobacterium]
MAIAHFSASIVSRGDGRSTVLSAAYRHCARMEYEREARTIDYTRKQGLVHEEFVLPADAPKWVRMLIADR
SIAGASEAFWNKVEAFEKRSDAQLAKDLTIALPLELTAEQNIALVRDFVERHILSKGMVADWVYHDNPGN
PHIHLMMTLRPLTEDGFGAKKVPVLGEDGQPLRNKAGKIVYELWAGGTDDFNAFRDAWFERLNHHLALNR
ISLRVDGRSYEKQGIDLEPTIHLGVGAKAIERKAEKQGVRPELERLELNEKRRSENTRRIVGNPGIVLDL
ITREKSVFDERDVAKVLHRYVDDPAVFQQLILRIILNPEVLRLQRDTIDFATGAKAPARYSTRAMIRLEA
TMARQAMWLSGRETHGVDHKVLAATFARHARLSEEQKTAIERIAGSARIAAVVGRAGAGKTTMMKAAREA
WGLAGYRVVGGALAGKAAEGLEKEAGIVSRTLASWELRWQQGRDTLDARTVFVMDEAGMVASKQMAGFVE
AVVRAGAKIVLVGDPEQLQPIEAGAAFRAIVDRIGYAELETIYRQREEWMRHASVDLARGNIEQGLLAYR
TRGHIVGENLKSEAVESLISAWNHDYDPTKSMLMLAHLRRDVRMLNMMAREKVVERGIIGEGHAFKTADG
TRQFDAGDQIVFLKNEGSLGVKNGMIGRVIEAAPDRIAVTVGEGDQRRQVTVESRSYNNIDHGYATTIHK
SQGATVDRVKVLASLSLDRHLTYVAMTRHREDLQLYFGRRSFEMNGGLAKILSRRNAKETTLDYERGTLY
REALAFSENRGLRIVQVARTLLRDRLDWTLRQKSKLTDLANRLRALGERLGLRQSPKTQSSKESRPMVAG
ISRFENSVADTVSERLDSDPTLKKQWEEVSIRFRYVFADPETALRVMNFDAVLADKDMARQVLQKLAADP
ASIGPLRGKTGILASKTDREARRIAEVNVPALKRDLERYLQMRESAVQRHEAEEKALRQRVSIDIPALSP
AARVVLERVRDAIDRNDLSAALAYALSNRETKLEIDGFNKAITERFGERTLLTNAAREPSGKLFDKLSEG
LSHQEKERLKEAWPIMRTAQQLAAHERTTETLRQAEELRLAQRQAPVMKQ

  Protein domains


Predicted by InterproScan.

MobA/MobL family (MobA_MobL)

(17-243)

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

(855-951)

Viral (Superfamily 1) RNA helicase (Viral_helicase1)

(692-736)

AAA domain (AAA_30)

(382-566)


  Protein structure



No available structure.




T4CP

ID   4423 GenBank   WP_243017676
Name   t4cp2_MLE07_RS25845_pLN1-183666 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: 91872.76 Da        Isoelectric Point: 5.7696

>WP_243017676.1 MULTISPECIES: conjugal transfer protein TrbE [Agrobacterium]
MVALKSFRHSGPSFADLVPYAGLVDNGVILLKDGSLMAGWYFAGPDSESSTDAERNEVSRQINAILSRLG
SGWMIQVEAIRVPTREYPTEAESHFPDPITRAIDDERRAHFQKERGHFESRHALILTWRPPEPRRSGLTR
YVYSDAASRSATHADKALESFLTSIREVEQYLANVVSIRRMMTRETQERGGFRVARYDELFQFIRFCITG
ENHPVRLPEIPMYLDWLVTAELQHGLTPLVENRFLGVVAIDGLPAESWPGILNSLDLMPLTYRWSSRFVF
LDAEEARAKLERTRKKWQQKVRPFFDQLFQTQSRSLDQDAMTMVAETEDAIAEASSQLVAYGYYTPVIIL
FDEDQIALQEKCEAIRRLIQAEGFGARIETLNATDAFLGSLPGVSYANIREPLINTRNLADLIPLNSVWS
GSPMAPCPFYPPGSPPLMQVASGSTPFRLNLHVDDVGHTLIFGPTGSGKSTLLALIAAQFRRYSQAQVFA
FDKGGSMLPLTLGLAGDHYQIGGDIGPSSEGEVRALSFCPLAELSTDGDRGWATEWIETLVALQGVTITP
DYRNAISRQIGLMAESRGRSLSDFVSGVQMREIKDALHHYTVDGPMGQLLDAEEDGLALGAFQCFEIEEL
MNMGERNLVPVLTYLFRRIEKRLTGAPSLIILDEAWLMLGHPVFRDKIREWLKVLRKANCAVVLATQSIS
DAERSGIIDVLKESCPTKICLPNGAARDPGTREFYERLGFNERQIEIVATALPKREYYVVSPEGRRLFDM
ALGPVALSFVGASGKEDLKRIRALHSEHGAAWPLHWLQQRGIAHAETLFPAN

  Protein domains


Predicted by InterproScan.

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

(188-400)

  Protein structure



No available structure.



ID   4424 GenBank   WP_220319015
Name   traG_MLE07_RS26205_pLN1-183666 insolico UniProt ID   _
Length   636 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 636 a.a.        Molecular weight: 68683.76 Da        Isoelectric Point: 9.5802

>WP_220319015.1 MULTISPECIES: Ti-type conjugative transfer system protein TraG [Agrobacterium]
MNRLLLTILPAAFMIATMLAISGIENWLSGFGTSPQAKLLLGRVGLALPYTAAAAIGVIFLFATAGAANI
KAAGLSVLAGASVACIAAIAREGWRLYALADRVPHSQSVFAYTDPSAMLGACAAVLAGIFALRVAIRGNA
AFAKSAPRRIAGKRAVHGEADWMKMADAAKLFPHTGGIVIGERYRVDKDGVAGLSFRAGEPKSWGAGGRS
PLLCFDGSFGSSHGIVFAGSGGFKTTSVTVPTALKWGGGMVVLDPSSEVAPMVIDHRRKAGRNVIVLDPA
TPAIGFNALDWIGRHGNTKEEDIVAVATWIMTDNARTASARDDFFRASAMQLLTALIADVCLSGHTDEKD
QTLRRVRANLSEPEPKLRERLTRIYEQSESDFVKENVAVFVNMTPETFSGVYANAVKETHWLSYPNYAAL
VSGDSFSTDDLAEGDADVFIALDLKVLEAHPGLARVVIGSLLNAIYNRNGKVKGRTLFLLDEVARLGYLR
ILETARDAGRKYGITLTMIFQSIGQTREAYGGRDATSKWFESASWISFAAINDPDTADYISKRCGDTTVE
VDQTNRSTGMKGSSRSRSKQLSRRPLIMPHEVLRMRGDEQIVFTAGNPPLRCGRAIWFRRDDMKACVGQN
RFHLKE

  Protein domains


Predicted by InterproScan.

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

(161-633)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 48692..58369

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
MLE07_RS25810 (MLE07_25810) 44011..45255 - 1245 WP_220319045 plasmid replication protein RepC -
MLE07_RS25815 (MLE07_25815) 45412..46407 - 996 WP_080821211 plasmid partitioning protein RepB -
MLE07_RS25820 (MLE07_25820) 46492..47682 - 1191 WP_080821210 plasmid partitioning protein RepA -
MLE07_RS25825 (MLE07_25825) 48060..48695 + 636 WP_142845862 acyl-homoserine-lactone synthase TraI -
MLE07_RS25830 (MLE07_25830) 48692..49663 + 972 WP_142845861 P-type conjugative transfer ATPase TrbB virB11
MLE07_RS25835 (MLE07_25835) 49653..50057 + 405 WP_142845860 conjugal transfer pilin TrbC virB2
MLE07_RS25840 (MLE07_25840) 50050..50349 + 300 WP_142845859 conjugal transfer protein TrbD virB3
MLE07_RS25845 (MLE07_25845) 50359..52827 + 2469 WP_243017676 conjugal transfer protein TrbE virb4
MLE07_RS25850 (MLE07_25850) 52799..53608 + 810 WP_142845857 P-type conjugative transfer protein TrbJ virB5
MLE07_RS25855 (MLE07_25855) 53605..53835 + 231 WP_142845856 entry exclusion protein TrbK -
MLE07_RS25860 (MLE07_25860) 53829..55025 + 1197 WP_142845855 P-type conjugative transfer protein TrbL virB6
MLE07_RS25865 (MLE07_25865) 55043..55720 + 678 WP_142845854 conjugal transfer protein TrbF virB8
MLE07_RS25870 (MLE07_25870) 55738..56592 + 855 WP_142845853 P-type conjugative transfer protein TrbG virB9
MLE07_RS25875 (MLE07_25875) 56592..57053 + 462 WP_142845852 conjugal transfer protein TrbH -
MLE07_RS25880 (MLE07_25880) 57065..58369 + 1305 WP_142845851 IncP-type conjugal transfer protein TrbI virB10
MLE07_RS25885 (MLE07_25885) 59074..59181 - 108 Protein_65 IS110 family transposase -
MLE07_RS25890 (MLE07_25890) 59296..59625 - 330 WP_142845850 carboxymuconolactone decarboxylase family protein -
MLE07_RS25895 (MLE07_25895) 59745..60518 - 774 WP_142845886 MBL fold metallo-hydrolase -
MLE07_RS25900 (MLE07_25900) 60640..61182 - 543 WP_142845849 cysteine hydrolase family protein -
MLE07_RS25905 (MLE07_25905) 61287..62294 + 1008 WP_142845848 helix-turn-helix domain-containing protein -
MLE07_RS25910 (MLE07_25910) 62340..63350 - 1011 WP_347567894 helix-turn-helix domain-containing protein -

Host bacterium

ID   7060 GenBank   NZ_CP092895
Plasmid name   pLN1-183666 Incompatibility group   -
Plasmid size   183666 bp Coordinate of oriT [Strand]   121259..121305 [-]
Host baterium   Agrobacterium tumefaciens strain LN-1

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   arsH, arsC
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -