Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   105955
Name   oriT_NER9|pB in_silico
Organism   Ensifer adhaerens strain NER9
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP101519 (1305751..1305794 [-], 44 nt)
oriT length   44 nt
IRs (inverted repeats)      23..28, 33..38  (CGTCGC..GCGACG)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 44 nt

>oriT_NER9|pB
GGATCCGAAGGGCGCAATTATACGTCGCTGACGCGACGCTTTGC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   4012 GenBank   WP_255381715
Name   traA_MYG64_RS34030_NER9|pB insolico UniProt ID   _
Length   1103 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1103 a.a.        Molecular weight: 121714.85 Da        Isoelectric Point: 9.8338

>WP_255381715.1 Ti-type conjugative transfer relaxase TraA [Ensifer adhaerens]
MAAPHFSVSIVARGSGRSAVLSAAYRHCAKMDYKREARTIDYTRKQGLLHEEFVIPADAPEWLQSMIAYH
SVSGASEAFWNKVEDFEKRSDAQLAKDVTIALPIELSAAQNIELVRDFVARHITGQGMVADWVFHDAPGN
PHIHLMTTLRPLTEDGFGSKKVAVTGPDGKPLRNDAGKIVYQLWAGSLNDFIVFRDGWFACQNRHLALAG
LDLRVDGRSFEKQGIALMPAIHLGVGAKAMERKATGCGEVAALERLELQAERRAENARRIQRNPGIVLDL
LTREKSVFDSQDIAKILHRYIDDAGHFQNLMARILESPETLRLNLERIDFATGLRAPAKYTTRELIRLEA
GMANRAIWLSQRSSHEVRRPVLDATFSRHDRLSDEQKTAIEHVVGKARIALVIGRAGAGKTTMMKAAREA
WEAAGYRVVGGALAGKATEGLEKEAGIASRTLASWEMCWGKGREQLDDRCVFVLDEAGMVSSRQMALFVE
AVTSCGAKLVLVGDPEQLQPIEAGAAFRAIADRIGYAELEIIYRQREQWMRDASLDLARGNVGKAVEAYR
ANGRMIGAELKSEAVAALIADWNRDFDPAKSSLILAHLRRDVRMLNELARAKLIQRGIIESGATFKTADG
DRSFAAGDQIVFLKNEGSLGVKNGMLAKVADAAPGRIVAEIGDGKHRRQISVDQRFYSNVDHGYATTIHK
SQGATVDRVKVLASLSLDRHLTYVAMTRHREDLGVYYGRRSFAKAGGLIAILSRKNSKETTLDYVNGSFY
RQALLFAEARGFHLVNVARTLARDRLVWVVRQKQRLVELGAQLSALGQALGLSPIKKSSETASAINEAKP
MVSGIKVFPKSLEQTVEDRLAADPGLKKQWEEVSSRFHVVYAEPEAAFKAINVDAILADEAAAKSAIAKI
NTEPESFGALKGKTGMFVSSAHKQDREKATLNAPALARNLERYLRHRALAERKHETEERSIRAKFSIDIP
ALSPSAKQTLERVRDAIDRNDLPAGLEFALAEGQVKAELDGFTRAVSERFGERTFLTLTAKEPNGETFQR
LTSDMNPSQKGEVQSAWNAMRTAQQLAAHEHTMTALKQSETSRQTKSQGLSLK

  Protein domains


Predicted by InterproScan.

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

(859-955)

AAA domain (AAA_30)

(382-565)

Viral (Superfamily 1) RNA helicase (Viral_helicase1)

(692-735)

MobA/MobL family (MobA_MobL)

(17-243)


  Protein structure



No available structure.




T4CP

ID   4021 GenBank   WP_112984549
Name   t4cp2_MYG64_RS33970_NER9|pB insolico UniProt ID   _
Length   816 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 816 a.a.        Molecular weight: 91721.71 Da        Isoelectric Point: 6.6908

>WP_112984549.1 conjugal transfer protein TrbE [Ensifer adhaerens]
MVALKQFRAKGPSFSDLVPYAGMVDNGVLLLKDGSLMSAWYFAGPDLESATDQERNELSRQINAVLSRLG
SGWMIQVEAIRIPTVDYPSQERCHFPDPVTRAIDAERRMHFARDNGHFESKHALVLTYRPPESRKAVLSK
YIYSDEKSRKKSYADTVLIAFKNAVREVEQYFANTLSLHRMRTRAIADRGGARTAHYDELLQFARFCITG
ENHPIRLPDVPMYLDWIATAELQHGLTPLVENRFLGVVAIDGFPAESWPGILNSLDLMPLAYRWSSRFVF
LDAEEARQKLERTRKKWQQKVRPFFDQLFQTQSRSVDQDALTMVAETEDAIAQASSQLVAYGYYTTVVVL
FDGNKEALQEKAEAVRRLVQAEGFGARIETLNATDAYLGSLPGNWYCNIREPLINTNNLADLIPLNSVWS
GDPVAPSPFYPQNSPPLMQVASGSTPFRLNLHVDDVGHTLIFGPTGSGKSTLLALIAAQFRRYEHAQIFA
FDKGNSLLPLTLAAGGDHYEIGSDEKGRALAFCPLSELSTDEDRAWATEWIEMLVALQGVTITPDLRNAI
ARQIRLMASAPGRSLSDFVSGVQLREIKDALHHYTVDGPMGHLLDAEHDGLSLRSLQCFEIEQLMNMGER
NLVPVLTYLFRRIEKRLDGSPSLILLDEAWLMLGHPVFRDKIREWLKVLRKANCAVVLATQSISDAERSG
IIDVLKESCLTKICLPNGAAREPGTRAFYERIGFNERQIEIVSMATPKREYYVVTPEGRRLFDMALGPFA
LSFVGASGKEDLKRIRALRSEHGRDWPTQWLKTRGVQDAASLLNIE

  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.



ID   4022 GenBank   WP_112975486
Name   traG_MYG64_RS34045_NER9|pB insolico UniProt ID   _
Length   638 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 638 a.a.        Molecular weight: 68662.37 Da        Isoelectric Point: 9.1933

>WP_112975486.1 Ti-type conjugative transfer system protein TraG [Ensifer adhaerens]
MTATRTLLVVAPVALMVTAIFVTTGMETWLQGFGNTEAAKVALGRVGISAPYIAASAVGVVFLFASAGSA
SVRFSGWGVVAGSGATILIAALREAVRLAAFAGKMPAGKNLAASLDPATVLGAAIALMAASFALRVVLIG
NAAFAHPEPKRVNGRRALHGEADWMKLASAARLFPESGGIVVGELYRVDKDSTAAQSFRADSPDTWGAGG
KSPLLCFDGSFGSSHGIVFAGSGGFKTTSVTIPTALKWGGSVVILDPSKEVAPMVSKHRRDADRDVFVLD
PMAPETGFNALDWIGRFGGTKEEDIASVASWIMSESGGVRGVRDDFFRASALQLLTALIADVCLSGRTDK
ADQTLRQVRKNLSEPEPKLRERLQTIYDNSDSDFVKENVAAFVNMTPETFSGVYANAVRETHWLSYSNYA
ALVSGSTFSTGEIATGHADVFINVDLKTLEGHSGLARVIIGALLNAIYNRNGEMNGRTLFLLDEVSRLGY
MRVLETARDAGRKYGITLTMIYQSIGQMREAYGGRDAASKWFESVSWISFAAINDPETADYISRRCGMTT
VEIDQVSRSFQSRGSSRTRSKQLAARPLIQPHEVLQMRADEQIVFTAGNPPLRCGRAIWFRRADMKSCVA
ENRFERMK

  Protein domains


Predicted by InterproScan.

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

(164-634)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 1288958..1300634

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
MYG64_RS33935 (MYG64_33795) 1284579..1285277 + 699 WP_089045403 LuxR family transcriptional regulator -
MYG64_RS33940 (MYG64_33800) 1285614..1286861 - 1248 WP_255381701 HipA domain-containing protein -
MYG64_RS33945 (MYG64_33805) 1286854..1287189 - 336 WP_029742477 helix-turn-helix transcriptional regulator -
MYG64_RS33950 (MYG64_33810) 1287623..1288549 - 927 WP_244495328 nucleotidyltransferase and HEPN domain-containing protein -
MYG64_RS33955 (MYG64_33815) 1288958..1289926 + 969 WP_112984560 P-type conjugative transfer ATPase TrbB virB11
MYG64_RS33960 (MYG64_33820) 1289916..1290296 + 381 WP_029742474 TrbC/VirB2 family protein virB2
MYG64_RS33965 (MYG64_33825) 1290268..1290582 + 315 WP_089045407 conjugal transfer protein TrbD virB3
MYG64_RS33970 (MYG64_33830) 1290593..1293043 + 2451 WP_112984549 conjugal transfer protein TrbE virb4
MYG64_RS33975 (MYG64_33835) 1293015..1293818 + 804 WP_112975498 P-type conjugative transfer protein TrbJ virB5
MYG64_RS33980 (MYG64_33840) 1293812..1293988 + 177 WP_112975497 entry exclusion protein TrbK -
MYG64_RS33985 (MYG64_33845) 1293993..1295177 + 1185 WP_112984548 P-type conjugative transfer protein TrbL virB6
MYG64_RS33990 (MYG64_33850) 1295198..1295860 + 663 WP_112975495 conjugal transfer protein TrbF virB8
MYG64_RS33995 (MYG64_33855) 1295877..1296689 + 813 WP_112975494 P-type conjugative transfer protein TrbG virB9
MYG64_RS34000 (MYG64_33860) 1296693..1297130 + 438 WP_112975493 conjugal transfer protein TrbH -
MYG64_RS34005 (MYG64_33865) 1297143..1298438 + 1296 WP_112975492 IncP-type conjugal transfer protein TrbI virB10
MYG64_RS34010 (MYG64_33870) 1298920..1300008 + 1089 WP_112975523 GSU2403 family nucleotidyltransferase fold protein -
MYG64_RS34015 (MYG64_33875) 1300032..1300634 - 603 WP_255381712 TraH family protein virB1
MYG64_RS34020 (MYG64_33880) 1300648..1301814 - 1167 WP_255381714 conjugal transfer protein TraB -
MYG64_RS34025 (MYG64_33885) 1301804..1302304 - 501 WP_255382351 conjugative transfer signal peptidase TraF -

Host bacterium

ID   6392 GenBank   NZ_CP101519
Plasmid name   NER9|pB Incompatibility group   -
Plasmid size   1586769 bp Coordinate of oriT [Strand]   1305751..1305794 [-]
Host baterium   Ensifer adhaerens strain NER9

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   arsC
Degradation gene   -
Symbiosis gene   fixA, fixB
Anti-CRISPR   AcrIIA7