Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   120585
Name   oriT_pBL77_5 in_silico
Organism   Citrobacter freundii strain BL77
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP140974 (31964..32069 [+], 106 nt)
oriT length   106 nt
IRs (inverted repeats)      30..35, 41..46  (CCGCCG..CGGCGG)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 106 nt

>oriT_pBL77_5
AGTACGGGACAAGATGTGTTTTTGGAGTACCGCCGACACGCGGCGGCCGTCCAAAAACGTCTTGGTCAGGGCAAGCCCCGACACCCCCTAACGAGGTTAGCTATCT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   12965 GenBank   WP_004187323
Name   traI_U0540_RS28510_pBL77_5 insolico UniProt ID   A0A3U8KUL3
Length   659 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 659 a.a.        Molecular weight: 75179.89 Da        Isoelectric Point: 9.9948

>WP_004187323.1 MULTISPECIES: TraI/MobA(P) family conjugative relaxase [Enterobacterales]
MVIPKIIEGRRDKKSSFGQLIKYMADKPSQELTDTVQPTPETALAVKSDMFEGLNNYLTRKQKVISTPVD
VEPGVQRVVVGDVTCQYNTFSLDGAAQEMNSVSQQSTRCKDPVMHYVLSWPDYEKPNDDQVFDSVKFTLA
SMGMSDHQYVAAIHRDTDNLHVHVAVNRINPQTYKAASSSFTKDTLHQACRLLELKNGWSHSNGAYVVND
RQQIVRNPHSKKERGNWRSLDRINKMENKEGVETLYRYIVGDEQVGGSRQNLIHVSAGLREAKSWDDVHK
TFADIGLRVEKAQGKKGYVITHEHQNQKTAVKASLVFNKAQYTLKSMEERFGEYQPSHIEPAKVSVFKTA
YTPGAYRRDANKRLQRKIERAEERMLLKGRYRAYRNNLPIYSPDKDRIADEYRKIAQHTRLVKNNVRHSV
SDPHTRKLMYNLAEFKRLQAVANLRLSLREERNGFRAANPRLSYREWVEQEALKGDKAALSQMRGFAYSS
RKKEKYKQQLVEQIGFNRTFNAITSHDRDDVAVMASARHGVKPRLLKDGTVIFERDGKPVAADRGHIVLT
ESNGIDKEKTADLAIALTIAGKAKSVRVDGDGEFKELCCNRIVDAAVNHNHPVAQGITFTDAAQQAYAQN
EKHRLIREQNNSKNEMQFRSESDDKFNPK

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(86-334)


  Protein structure


Source ID Structure
AlphaFold DB A0A3U8KUL3


T4CP

ID   15224 GenBank   WP_004206885
Name   t4cp2_U0540_RS28635_pBL77_5 insolico UniProt ID   _
Length   695 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 695 a.a.        Molecular weight: 79538.91 Da        Isoelectric Point: 4.8317

>WP_004206885.1 MULTISPECIES: conjugal transfer protein TrbC [Enterobacterales]
MQQESVDSKKVLRPDGSFMEWFLTPNVQFGLLAILTVLGLFLPFTMLLSILILPPLMVAFTDRKFRPPLR
MPKDCEMFDDTLTTETQAEYRLGPIRIPHKVRERKKAKGILYVGYERGRLFGRELWLNMTDLLRHMVFFG
TTGSGKTETFYGFIVNFLLWCRGYCLSDGKADNKLAFATWSLARRFGREDDYYVLNLLTGSIDRFVNLVK
QESIPAQSNSVNLFSVAPPTFIIQLMESMLPQVGGDSAQWQDTAKAMMSALINALCYKRARGELLLSQRT
IQKNMSLPAMAALYVEAKKNGWHSEGYAALESYLENTPGFLLANAEYPETWEARAFEQHNYMSRQFLKTL
SLFNETYGHVFPEDSGDIRMDDIFHNDRILIVMIPSLELSRGEAATLGRLYVTLQRMTISKDLGYQLEGK
KEEVLLTHALNNQAPYGLIYDELGQYFTSGMDTLSAQMRSLEKMGVFSSQDHPSLARGANGEVDSLIANT
RVKYFESIEDRKTFEILRETVGQDYYSELSGQEAEHGTFSKTVREGDLYQIREKDRVNIRELRKQTEGQG
VISFQDALVRSAAFYIPDNEKFSSELPMRINRFIEVLPPSPATLYSIYPERKDDELAETNPDAMRFPPIK
LFGYDKAANSLLEKIEVFYELQCGAISPEEMSVCLFELFAEWLDGTETDDVLYHQEDDLFPMIEM

  Protein domains



No domain identified.


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 34865..62207

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
U0540_RS28490 (U0540_28490) 29949..30260 + 312 WP_004187333 hypothetical protein -
U0540_RS28495 (U0540_28495) 30393..30929 + 537 WP_004187332 hypothetical protein -
U0540_RS28500 (U0540_28500) 31431..31826 - 396 WP_019725163 hypothetical protein -
U0540_RS28505 (U0540_28505) 31861..32388 + 528 WP_172740549 plasmid mobilization protein MobA -
U0540_RS28510 (U0540_28510) 32375..34354 + 1980 WP_004187323 TraI/MobA(P) family conjugative relaxase -
U0540_RS28515 (U0540_28515) 34368..34868 + 501 WP_004187320 DotD/TraH family lipoprotein -
U0540_RS28520 (U0540_28520) 34865..35644 + 780 WP_004187315 type IV secretory system conjugative DNA transfer family protein traI
U0540_RS28525 (U0540_28525) 35655..36818 + 1164 WP_004187313 plasmid transfer ATPase TraJ virB11
U0540_RS28530 (U0540_28530) 36808..37068 + 261 WP_004187310 IcmT/TraK family protein traK
U0540_RS28535 (U0540_28535) 37093..40530 + 3438 WP_015586048 LPD7 domain-containing protein -
U0540_RS28540 (U0540_28540) 40496..41008 + 513 WP_011091071 hypothetical protein traL
U0540_RS28545 (U0540_28545) 41009..41221 - 213 WP_305953721 Hha/YmoA family nucleoid-associated regulatory protein -
U0540_RS28550 (U0540_28550) 41193..41603 - 411 WP_004187465 H-NS family nucleoid-associated regulatory protein -
U0540_RS28555 (U0540_28555) 41671..42384 + 714 WP_004187467 DotI/IcmL family type IV secretion protein traM
U0540_RS28560 (U0540_28560) 42393..43340 + 948 WP_326972646 DotH/IcmK family type IV secretion protein traN
U0540_RS28565 (U0540_28565) 43301..43543 + 243 WP_158513517 DotH/IcmK family type IV secretion protein traN
U0540_RS28570 (U0540_28570) 43555..44904 + 1350 WP_004187474 conjugal transfer protein TraO traO
U0540_RS28575 (U0540_28575) 44916..45620 + 705 WP_015060002 conjugal transfer protein TraP traP
U0540_RS28580 (U0540_28580) 45644..46174 + 531 WP_004187478 conjugal transfer protein TraQ traQ
U0540_RS28585 (U0540_28585) 46191..46580 + 390 WP_004187479 DUF6750 family protein traR
U0540_RS28590 (U0540_28590) 46626..47120 + 495 WP_004187480 hypothetical protein -
U0540_RS28595 (U0540_28595) 47594..50167 + 2574 WP_227640156 conjugal transfer protein traU
U0540_RS28600 (U0540_28600) 50164..51372 + 1209 WP_011091082 conjugal transfer protein TraW traW
U0540_RS28605 (U0540_28605) 51369..51965 + 597 WP_015060003 hypothetical protein -
U0540_RS28610 (U0540_28610) 51958..54153 + 2196 WP_015062834 DotA/TraY family protein traY
U0540_RS28615 (U0540_28615) 54155..54808 + 654 WP_015060005 hypothetical protein -
U0540_RS28620 (U0540_28620) 54889..55119 + 231 WP_011091085 IncL/M type plasmid replication protein RepC -
U0540_RS28625 (U0540_28625) 55415..56470 + 1056 WP_015060006 plasmid replication initiator RepA -
U0540_RS28630 (U0540_28630) 57693..57788 + 96 WP_004206884 DinQ-like type I toxin DqlB -
U0540_RS28635 (U0540_28635) 57839..59926 - 2088 WP_004206885 conjugal transfer protein TrbC -
U0540_RS28640 (U0540_28640) 59939..60889 - 951 WP_004206886 DsbC family protein trbB
U0540_RS28645 (U0540_28645) 60900..62207 - 1308 WP_015059988 hypothetical protein trbA
U0540_RS28650 (U0540_28650) 62215..62601 - 387 WP_228146396 lytic transglycosylase domain-containing protein -
U0540_RS28655 (U0540_28655) 62706..63056 - 351 WP_124065455 DUF1496 domain-containing protein -

Host bacterium

ID   21014 GenBank   NZ_CP140974
Plasmid name   pBL77_5 Incompatibility group   IncL/M
Plasmid size   63604 bp Coordinate of oriT [Strand]   31964..32069 [+]
Host baterium   Citrobacter freundii strain BL77

Cargo genes

Drug resistance gene   blaOXA-48
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -