Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   121317
Name   oriT_pBCJ2315 in_silico
Organism   Burkholderia cenocepacia J2315
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NC_011003 (65490..66190 [+], 701 nt)
oriT length   701 nt
IRs (inverted repeats)      597..602, 607..612  (GCGGGG..CCCCGC)
 535..540, 545..550  (CGCGCC..GGCGCG)
 175..183, 197..205  (TGTCAGACA..TGTCTGACA)
 37..45, 51..59  (GAGTCGAGG..CCTCGACTC)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 701 nt

>oriT_pBCJ2315
GAAAAACGCCTGGAATGAAAAGAGCGGGCGCTCGTGGAGTCGAGGAAAAACCTCGACTCGCGCACGAAACCGCGCTCGATTACGGCCCTCATGACTGCATTATTTTGAGCGACAGTAGCATGGCGACGAGCGTTTCGCAATAACCCATTTATTTTCATAGTGATACTTATCGAATGTCAGACACACCCGTTCTAGCTGTCTGACAACGTGGCCCAATCATGACGGGGCGGGCGCGACATACTGGCAATGTTCGCGCTTTCCGGTCATTCGGGTGTCTGACATCGCGAGCCTTAACGCAAGCCGTTTCTCGCGATACGTGGCGGCGTTTTCTCGACAGGTCGACGGTGGCTGTCTGACGCTGCAAACCGCTACCGTCAGTGGTCGAGCGGGAATTTTCTATTCCTCTGGAGTCCGAATTATATTCTCCGATTCCGAATTTGTCTGACACCGGAGGATATGACGTACAAGGGGTCGCGCTTGATCCCTGCCTCGCTTTTTTCGCCTATTTTCGTAGGTGTCTGACGCCGAAGGCACCGCGCCATACGGCGCGACACACCGCAACAACGTTGCATGGTGTGTGACGATCGTCTTAGGGGGCGGGGATTCCCCCGCTTCCTAAGACGATCGTAGCCAACTTCACTTCAGGTTTGGGCCGGTCGCGGAGCCTTCACCCGGTAAGGTACGGCGGTTCCCGCTCAAGG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   13456 GenBank   WP_006488612
Name   mobF_QU43_RS72825_pBCJ2315 insolico UniProt ID   B4EQJ6
Length   939 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 939 a.a.        Molecular weight: 104810.59 Da        Isoelectric Point: 6.4316

>WP_006488612.1 MobF family relaxase [Burkholderia cenocepacia]
MLSLHNIASAAQTRNYFSKDNYYTQDENTKHSAWFGAGAARLGLAGQVQPAAFLNLLEGRVEEQQLGKWV
TDEETGERRQDHQPGIDITFSAPKSVSLMAEVAGDTAVRDAHEAAVQSALAYLEENVIRTRSTQNGVTSI
EHTGNMVAALFKHNTSRDLDPQTHTHAVVMNATLRADGKWRSIDNREIYQTQKLAGAIYNAELVSGLQQL
GYRLTNPDRHGNFEIQGISREQIEHFSQRRTAMKEKLGKRQLELDTASAADKERAALATRERKVDVDHEQ
LLADWQARALEQGIDLGALRATAAERKAEGIDPPTKLTGRQALAFAAAHLIEREAVVDKSDLVETAVVHG
TGRVSPQEVMKAFRQLEKNGDLVPLPDEKYTTRKMLESERWALDFVKQEKGNAPVVLEATKVQERIAEAE
RLQQFSYTFGQRDAIVLALTSKDRFVAIQGLAGTGKTTMLRTLNDIAAAEGYVVRGMAPTGAAAKVMVKE
TGIAAETVAMFQIKERQLQKDIEFAQQFAPDFKRKPEVWVVDESSFLAQRQMAQLHRLAEHAGAKVVYLG
DTLQLQGVEAGKPFELAQKDGIATAYMTDINRQKTDVMKEAVDIITGRNQLDAGTRLTDIELKRNGQSFQ
YLSQQGRVHETDEVVTSTVDKILAMSPEERARNITITPLNRDRVAINEGVRVGLQARGELSKNESTHEIL
VSKGFTRAQIKEAQYYERGDVVRFNRTYQQINADKGDYTRVIDVDHESGIVTLRKRDGSTLAWEPAKHNK
VEVYDPDLRQLAVGDVIRLTRNDETFKNGETARVVQLTGEHAVLQVDDRGVISHHSVNLETSQHWDHAYA
STVHAAQGASRNTTIFAINMPDNEDKKAQEREFQALAKVFGDRSYYVGVTRASHDISIVTNDIDLAQRAI
TGKLDKTTVIEAMNQEVREQTIQREQHEI

  Protein domains


Predicted by InterproScan.

AAA domain (AAA_30)

(427-609)

TrwC relaxase (TrwC)

(12-290)


  Protein structure


Source ID Structure
AlphaFold DB B4EQJ6


T4CP

ID   15762 GenBank   WP_006488610
Name   t4cp2_QU43_RS72835_pBCJ2315 insolico UniProt ID   _
Length   639 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 639 a.a.        Molecular weight: 72007.72 Da        Isoelectric Point: 6.9695

>WP_006488610.1 type IV secretion system DNA-binding domain-containing protein [Burkholderia cenocepacia]
MTGKKPNGLFQDFSTGSEIWTHRVALVLVAIRNILLLSLFLGLAAGFIYAAFFVDRDIWRPAVANVIAHL
RSVVMMTAVPMEYEVNGQTVRLPVDQVVALTDPVWDVAYFFLRRFLIIVATVTACTCVSIAAYWYEFGRS
TMADKDLRGATLVNGKQLAKMIRQDDMESPYSIAGVPMLRNAETLHTLVVGAQGTGKSQQFFDRLRQVRA
RGKRAIVYDPSGEFAEEFFREGKDVMMNPFDDRSPNWNIKYEIEEEYHYDSMATALIPDPREADPFWSLA
GREVFRDVARTLHREGNLTNRNLYNSIAMSNLDAIYQLLRNTAGASYVDPKTERTGMSLKMTVQNQLSSF
RYLRDDGKPFSIRQWIYNESDSWMFISTREEMLEAIKPIMSLWIDIAIKAVLNLTPIHRERLHFSIDEVP
TLQKLDIMKLAVSNTRKYGLCMMLGAQDMPQFLDIYGEYLARTIINGCQTKLLLRVTDAEAAEMFSKIIG
QTEVEEKDESLSFGVNSQRDGFSIAKRRLLRDLALPSQILRLRDMTGYLVYPGEYPIARVKYGFVKPRKN
APAFIKRQAFSELFAPAAGSPATAAASESVVAGPSPDWIAHPEILVAASGGVDPETGEILPPRPGAWRWG
DGNQRGDHA

  Protein domains


Predicted by InterproScan.

Type IV secretion-system coupling protein DNA-binding domain (TrwB_AAD_bind)

(171-552)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 26157..52638

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
QU43_RS72610 (pBCA014) 21408..21980 - 573 WP_006487431 PH domain-containing protein -
QU43_RS76705 (pBCA015) 21977..22144 - 168 WP_006487400 hypothetical protein -
QU43_RS72615 (pBCA016) 22141..23457 - 1317 WP_006487416 DUF1173 domain-containing protein -
QU43_RS72620 (pBCA017) 23454..24866 - 1413 WP_006487358 zeta toxin family protein -
QU43_RS72625 (pBCA018) 24877..25143 - 267 WP_006487406 hypothetical protein -
QU43_RS72630 (pBCA019) 25787..26167 + 381 WP_020980049 hypothetical protein -
QU43_RS72635 (pBCA020) 26157..29195 - 3039 WP_006487373 conjugal transfer protein TraG N-terminal domain-containing protein traG
QU43_RS72640 (pBCA021) 29205..30659 - 1455 WP_006487442 conjugal transfer protein TraH traH
QU43_RS72645 (pBCA022) 30652..31686 - 1035 WP_006487369 phage Gp37/Gp68 family protein -
QU43_RS72650 (pBCA023) 31683..32126 - 444 WP_006487377 HNH endonuclease -
QU43_RS72655 (pBCA024) 32123..32653 - 531 WP_006487388 hypothetical protein -
QU43_RS72660 (pBCA025) 32664..33497 - 834 WP_006487410 conjugal transfer protein TraF traF
QU43_RS72665 (pBCA026) 33502..33891 - 390 WP_006493947 hypothetical protein -
QU43_RS72670 (pBCA026a) 33888..34196 - 309 WP_006493941 hypothetical protein -
QU43_RS76015 34193..34459 - 267 WP_174900806 hypothetical protein -
QU43_RS72675 (pBCA027) 34456..35700 - 1245 WP_006487422 conjugal transfer protein TraN traN
QU43_RS72680 (pBCA028) 35708..36829 - 1122 WP_006487394 hypothetical protein -
QU43_RS72685 (pBCA029) 36831..37208 - 378 WP_006493944 hypothetical protein -
QU43_RS72690 (pBCA030) 37210..37911 - 702 WP_006487447 type-F conjugative transfer system pilin assembly protein TrbC trbC
QU43_RS72695 (pBCA031) 37908..38918 - 1011 WP_006487375 conjugal transfer pilus assembly protein TraU traU
QU43_RS72700 (pBCA032) 38915..39553 - 639 WP_006487379 type-F conjugative transfer system protein TraW traW
QU43_RS72705 (pBCA033) 39540..40070 - 531 WP_006487449 signal peptidase I -
QU43_RS72710 (pBCA034) 40088..40306 - 219 WP_006487354 hypothetical protein -
QU43_RS72715 (pBCA035) 40284..41096 - 813 WP_006487420 GntR family transcriptional regulator -
QU43_RS72720 (pBCA036) 41110..41643 - 534 WP_020980048 phospholipase D family protein -
QU43_RS72725 (pBCA037) 41719..42084 - 366 WP_006487376 hypothetical protein -
QU43_RS72730 (pBCA037a) 42081..42473 - 393 WP_006493936 hypothetical protein -
QU43_RS72735 42470..43084 - 615 WP_006487383 hypothetical protein -
QU43_RS72740 43081..43821 - 741 WP_006487402 hypothetical protein -
QU43_RS73025 43818..44333 - 516 WP_006487408 hypothetical protein -
QU43_RS72750 (pBCA041) 44330..46936 - 2607 WP_006487362 type IV secretion system protein TraC virb4
QU43_RS72755 (pBCA042) 46939..47601 - 663 WP_006487356 type IV conjugative transfer system lipoprotein TraV traV
QU43_RS72760 (pBCA043) 47598..48392 - 795 WP_006487398 DsbC family protein trbB
QU43_RS72765 (pBCA044) 48385..49818 - 1434 WP_006487384 TraB/VirB10 family protein traB
QU43_RS72770 (pBCA045) 49811..50557 - 747 WP_012493842 type-F conjugative transfer system secretin TraK traK
QU43_RS72775 (pBCA046) 50496..51086 - 591 WP_006487381 TraE/TraK family type IV conjugative transfer system protein traE
QU43_RS72780 (pBCA047) 51093..51386 - 294 WP_006487365 type IV conjugative transfer system protein TraL traL
QU43_RS72785 (pBCA048) 51400..51792 - 393 WP_006487426 hypothetical protein -
QU43_RS75355 (pBCA048a) 51821..52165 - 345 WP_006493942 hypothetical protein -
QU43_RS72790 (pBCA049) 52162..52638 - 477 WP_006487418 lytic transglycosylase domain-containing protein virB1
QU43_RS72795 (pBCA050) 53073..53345 - 273 WP_006493934 hypothetical protein -
QU43_RS72800 (pBCA051) 53467..54237 - 771 WP_006487404 5-oxoprolinase subunit PxpA -
QU43_RS75360 (pBCA052) 54224..54460 - 237 WP_006487429 hypothetical protein -
QU43_RS72805 (pBCA053) 54457..55497 - 1041 WP_006493948 TRAP transporter substrate-binding protein DctP -
QU43_RS72810 (pBCA054) 55620..56480 - 861 WP_227743146 LuxR family transcriptional regulator -

Host bacterium

ID   1474 GenBank   NC_011003
Plasmid name   Ptw Incompatibility group   -
Plasmid size   92661 bp Coordinate of oriT [Strand]   65490..66190 [+]
Host baterium   Burkholderia cenocepacia J2315

Cargo genes

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