Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   108332
Name   oriT_pCB3126_2 in_silico
Organism   Sinorhizobium terangae strain CB3126
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP121661 (545152..545186 [+], 35 nt)
oriT length   35 nt
IRs (inverted repeats)      20..25, 30..35  (CGTCGC..GCGACG)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 35 nt

>oriT_pCB3126_2
ATCCAAGGGCGCAATTATACGTCGCTGGCGCGACG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   5573 GenBank   WP_283067698
Name   traA_QA637_RS30755_pCB3126_2 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: 122341.81 Da        Isoelectric Point: 9.4340

>WP_283067698.1 Ti-type conjugative transfer relaxase TraA [Sinorhizobium terangae]
MAVPHFSVSIVARGSGRSAVLSAAYRHCAKMDYEREARTIDYRAKQGLLHEEFVIPADAPQWLRAMIADH
SVSGASEAFWNKVEVFEKRSDAQLAKDITIALPIELSTEQSIALMRDFVERHITSNGMVADWVYHDAPDN
PHVHLMTTLRPLTEDGFGAKKVAVVGPDGNPIRNDAGKIVYELWAGSADDFNAFRDGWFACQNKHLALAG
LDIRVDGRSFERQGIELAPTIHLGVGAKAIERKSAEEDRDISLERLELQEERRAENARRIQRRPEIVLDL
ITREKSVFDERDVAKILHRYIGDAGLFQSLMARILQSPETLRLERERIEFSSGTRAPAKYTTRELIRLEA
RMANRALWLSQRSSHDVRDAVLDATFACHSRLSEEQTSAIAHVTGGERIAAVIGRAGAGKTTMMKAARET
WEAAGYRVLGGALAGKAAEGLQREAGILSRTLSSWELRWKEGRNQLDDRTVFVLDEAGMVSSRQMALFVE
AAVNAGAKLVLIGDPEQLQPIEAGAAFRGIADRIGYAELETIYRQRQQWMRDASLDLARGNVRNAVEAYH
AQGHVNGSELKADAVRALIADWNRDYDPSKSSLILAHLRRDVRMLNEMARAKLVERGIVADGFAFGTEDG
DRKFAAGDQIVFLKNEGSLGVKNGMLAKVVNAAPGRIVAEVGEGEHRRQVTVEQRFYSHVDHGYATTIHK
SQGATVDRVKVLASLSLDRHLSYVAMTRHRDDLGLYYGRLSVAKAGGLIPILSRKNAKETTLDYVHGSFY
RQALRFAEARGLHLVNVARTVVRDRLDWTVRQKSKLIELGARLAMIAGKLGLSAATVRTFQSHTIKESKP
MVSGITTFPNSLEQDVEDRLAADPGLKKQWEEVSARFHLVYAEPQAAFKTVNVDAILKDEAAAKSTIARI
ASEPESFGALNGKTGILASRADKQSRETAVTNAPALSRNLERYLRQRTEAERKYEAEERTVRLKLSLDIP
ALSSAAKQTLEHVRDAIDRNDLPAGLEYALSDKMVKAELEGFARAVSERFGERIFLPLAAKDTNGQAFQF
VTSGMSAGQKAEVQSAWNSMRTVQQLSAHQRTTEALKQAETLRQTKSQGLSLK

  Protein domains


Predicted by InterproScan.

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

(859-955)

AAA domain (AAA_30)

(382-567)

MobA/MobL family (MobA_MobL)

(17-243)


  Protein structure



No available structure.




T4CP

ID   5947 GenBank   WP_283067739
Name   tcpA_QA637_RS28505_pCB3126_2 insolico UniProt ID   _
Length   1751 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 1751 a.a.        Molecular weight: 194714.74 Da        Isoelectric Point: 5.2837

>WP_283067739.1 FtsK/SpoIIIE domain-containing protein [Sinorhizobium terangae]
MDIHELIGKVACSILKEELGDVGGEAGTARFLLDGLSIPQTLAVTRAVLADVFLSERVDIKLPRTLFDGH
ALPEEILTDRNATFYRSADCEKAAFLITNASADEGQAEDMSLHEVTPIGAAQLIERLPAWVSAASAGLAL
TDDAKAWWERSLAGLSQVGSVALERFARYIVATREAVIDEGYPIIEALGYALPALQLPRDPAAFAGIKDK
SRRHASVWKREYIGLRRKRHPYLLKQNPNQIVISESELRDAFEKARDVIPEIVHPVVELFIESRPAWNSS
SEALANCLWEHVKPLFEGLAREKTNLGQDTQRFYSEGPEDLLSKDDEEHLELLARRKTTASPEPEDIDFY
ERHRDEIREDRKLKSSWDKFIYGRPLETEDFLSGVAMMMDTLNARAAVGVERRLTIRCDSLTKRDLRSLN
TEAGLFFSLRYAGLPKLLGTNVAIEFGSLMDYPAVLRGWQDAKDKSAINRSTAKAALQLRFQLELETTDF
EGGTSIASAQLIWKYRSDVISSQLSDDWDRLCSNAFVALQCGREPGMAGRRPGSIDLSDVKTLVPAYDRD
RGSLVPTYTRERDLRLIWQANLKAALEQDLIDAAVSTTLSASFESFCERYQTAIRSFRTEGASNPVCRDQ
AASYAELLDLVRTLAPGDRNKDLLLRPLLELGQAPVGDGAAAAIVAPWHPLRLAAIWRKAHLVREVVRKI
IDLPAGLDGDTKLFFRDLAEDIRHVFYPEVVVSWSGRKPELLSLADHQGDYSLHERPVLDGAGGGETNDD
AKAGTNCLLDLTQRYLNLHPHERANMSLVLYNCDSARLPQQLVDGLGELNDDEDMRCQVMLRHTDGTRLR
DIYRSILTSTSGSAEVLAASEITQDFMARLRISVIADQAPPPDPRDGRPYDIVFSQDVISRHASVEWYRE
SADPADLATLLPARWSRRRPGAMDDLKSSVYLCSPVQSREGWAFLSATTAFLKNDEDLQDGKRLLPVRQL
DFRDDRTARIFEETHDLGAWVVNFDELLDRRQLQNQSVRVIRYKQSATQGRNVVISSRAPLTLLRAMVRR
RLEELQLDLSPEDINALADRFIGDANDISGDIVLRAAKRGEAAGELIGVVLSRFLARQSLGADRLVGWYF
LDDYASWLGAREETQADILALSPAIDASGQLTLRIIVTEAKYVDAVSFPSKRKESEKQLRDTMRRIIDAT
FEPDRLDRESWLSRLGDLLLDGIQIPAASNVPLVDWRRRIRDGLARIEVVGLSHVFVPTALDGSTVTDFS
EVSGAPASRQMIFGRAELKDLITAYIANANVEALLTSIDPIYGKVPAPHTPGQTINPRSDAPRAVAKAKS
EPVAENDDRRSAPPSPAEKPSDENALKPEVTNTIAPASSVAEIVERHLDTSPRQTEADEEWLANTAMMAR
SALQQLGLQAKLIDQKLTPNAAILRFSGSANLTVEQVLKRRSELLTTHRLDIISVRPEPGAIAIYVARTQ
RQIVDIQSLWSRWKPTISPTGNQNLVIGVREDDNELFILSPSQRHAPHTLIAGSTGSGKSVLMQSIILGI
AATNDPRHAKIVLIDPKQGVDYFAFDALPHLEDGIIDQQETAIDQLERMVLEMDRRYRTFKEARVANITA
YNAKATPAEVLPTYWVIHDEFAEWMLTDDYRVAVTSTVGRLGVKARAAGIHLIFAAQRPEANVMPMQLRS
QLGNRLILRVDSEGTSEIALGERGAERLLGKGHMIVRAEGEQSLIYAQVPFASEGFVSDVVAAIRGRGDQ
Q

  Protein domains


Predicted by InterproScan.

FtsK/SpoIIIE family (FtsK_SpoIIIE)

(1513-1618)

  Protein structure



No available structure.



ID   5948 GenBank   WP_283067694
Name   traG_QA637_RS30740_pCB3126_2 insolico UniProt ID   _
Length   640 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 640 a.a.        Molecular weight: 69598.97 Da        Isoelectric Point: 9.0656

>WP_283067694.1 Ti-type conjugative transfer system protein TraG [Sinorhizobium terangae]
MTRIVLFLAPCALMLLVIIGMTGTENWLPVFGKSEAAQQTLGRAGIALPYLVAALLGIVFMFASAGSARI
RTAGWGVLAGATATILIAAMREFVRLSAFAGQVPGGKSIFSYVDPATTIGVCAALMSALFGLRVVIAGNA
AFAKAEPKRIYGKRALYGEAEWMKLPEAEKLFPERGGIVIGERYCVDKDSVAAQSFRADSAETWGAGGKA
PLLCFDGSFGPSHGIVFAGSGGFKTTSVTIPTALKWGGALVVLDPSNEVAPMVSKHRGGANRDVFVLDPK
NSEIGFNALDWIGRFGGTKEEDIASVASWIMSDSGGARGVRDDFFRASALQLLTALIADVCLSGHTREPE
QTLRQVRKNLSEPEPKLRERLQSIYHNSNSDFVKENVAAFVNMTPETFSGVYANAVKETHWLSYLNYAAL
VSGTTFTTSDIAEGNTDVFINIDLKTLETHAGLARVIIGSFLNAIYNRNGEMEGRALFLLDEVARLGYMR
ILETARDAGRKYGIMLTMIYQSIGQMRETYGGRDAASKWFESASWISFAAINDPETADYISRRCGMTTVE
IDQVSRSFQSKGSSRTRSKQLAARPLIQPHEVLRMRADEQIVFTAGNAPLRCGRAIWFRREDMKACVKLN
VLFRASAEKR

  Protein domains


Predicted by InterproScan.

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

(162-630)

  Protein structure



No available structure.



ID   5949 GenBank   WP_283067713
Name   t4cp2_QA637_RS30830_pCB3126_2 insolico UniProt ID   _
Length   818 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 818 a.a.        Molecular weight: 91866.57 Da        Isoelectric Point: 6.1105

>WP_283067713.1 conjugal transfer protein TrbE [Sinorhizobium terangae]
MVALRRFRATGPSFADLVPYAGLVGNGVLLLKDGSLMAGWYFAGPDSESATALERNELSRQINAILSRLG
SGWMIQVEAIRFPTIDYPSEDRCHFPDPVTRAIDAERRAHFEREQGHFESKHALILTYRPLESKRTALSK
YIYSDEESRKKSYADTVLFMFKNAVREIEQYMANSLSIRRMETHEVSEREGTRVARYDELLQFVRFCITG
HSHPIRLPDVPMYLDWIATAELEHGLTPKIENRFLGVVAIDGLPAESWPGILNSLDLMPLTYRWSSRFIF
LDAEEARQKLERTRKKWLQKVRPFFDQLFQTQSRSIDQDAMTMVTETEDAIAHASSQLVAYGYYTPVIVL
FDNDREALQEKAEAIRRLIQAEGFGARIETLNATDAYLGSLPGNWYSNIREPLINTSNLADLIPLNAVWS
GNPAAPCPFYPPNSPPLMQVASGSTPFRLNLHVDDVGHTLVFGPTGSGKSTLLALIAAQFRRYENAQIFA
FDKGNSLLPLTLAGDGDHYEIGGDNEGEGRALAFCPLSALGNDADRAWATEWIEMLVALQGVTITPDHRN
AISRQVELMANARGRSLSDFVSGVQMREIKDALHHYTVDGPMGQLLDAEQDGLSLGALQTFEIEHLMNMG
ERNLVPVLTYLFRRIERRLDGSPSLIVLDEAWLMLGHPVFRAKIREWLKVLRKANCAVVLATQSISDAER
SGIIDVLKESCPTKICLPNGAAREPGTREFYERIGLNERQIDIVASATPKREYYATTPEGRRLFDMALGP
VALSFVGASGKDELKRIRALKSEHGRDWPIHWLNTRGVHDAASLLNFE

  Protein domains


Predicted by InterproScan.

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

(186-400)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 555746..565082

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
QA637_RS30775 (QA637_30775) 551339..552043 - 705 WP_283067701 autoinducer binding domain-containing protein -
QA637_RS30780 (QA637_30780) 552407..553660 + 1254 WP_283067702 ATP-binding protein -
QA637_RS30785 (QA637_30785) 553982..554188 - 207 WP_283067703 helix-turn-helix transcriptional regulator -
QA637_RS30790 (QA637_30790) 554389..554709 + 321 WP_283067704 transcriptional repressor TraM -
QA637_RS30795 (QA637_30795) 554713..555417 - 705 WP_283067706 autoinducer binding domain-containing protein -
QA637_RS30800 (QA637_30800) 555746..557047 - 1302 WP_283067708 IncP-type conjugal transfer protein TrbI virB10
QA637_RS30805 (QA637_30805) 557059..557496 - 438 WP_283067710 conjugal transfer protein TrbH -
QA637_RS30810 (QA637_30810) 557499..558311 - 813 WP_283067711 P-type conjugative transfer protein TrbG virB9
QA637_RS30815 (QA637_30815) 558327..558989 - 663 WP_283067712 conjugal transfer protein TrbF virB8
QA637_RS30820 (QA637_30820) 559014..560162 - 1149 WP_283068068 P-type conjugative transfer protein TrbL virB6
QA637_RS30825 (QA637_30825) 560198..561001 - 804 WP_283068069 P-type conjugative transfer protein TrbJ virB5
QA637_RS30830 (QA637_30830) 560973..563429 - 2457 WP_283067713 conjugal transfer protein TrbE virb4
QA637_RS30835 (QA637_30835) 563440..563736 - 297 WP_283067715 conjugal transfer protein TrbD virB3
QA637_RS30840 (QA637_30840) 563729..564115 - 387 WP_283067717 TrbC/VirB2 family protein virB2
QA637_RS30845 (QA637_30845) 564105..565082 - 978 WP_283067719 P-type conjugative transfer ATPase TrbB virB11
QA637_RS30850 (QA637_30850) 565093..565716 - 624 WP_283067720 acyl-homoserine-lactone synthase -

Host bacterium

ID   8767 GenBank   NZ_CP121661
Plasmid name   pCB3126_2 Incompatibility group   -
Plasmid size   566092 bp Coordinate of oriT [Strand]   545152..545186 [+]
Host baterium   Sinorhizobium terangae strain CB3126

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   -
Degradation gene   linJ, dxnH, LinG
Symbiosis gene   nodD, nodM, nifX, mLTONO_5203, nifN, nifE, nifD, nifH, nifQ, nifS, nifW, fixA, fixB, fixC, fixX, nifA, nifB, nifZ, nifT, nodH, nodJ, nodI, nodU, nodS, nodB, nodA
Anti-CRISPR   -