Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101282
Name   oriT_StVIM|unnamed 3 in_silico
Organism   Salmonella enterica subsp. enterica serovar Typhimurium strain StVIM
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_LIDY01000028 (48064..48169 [-], 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_StVIM|unnamed 3
AGTACGGGACAAGATGTGTTTTTGGAGTACCGCCGACACGCGGCGGCCGTCCAAAAACGTCTTGGTCAGGGCAAGCCCCGACACCCCCTAACGAGGTTAGCTATCT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1234 GenBank   WP_004187323
Name   traI_AK969_RS17975_StVIM|unnamed 3 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   845 GenBank   WP_004206885
Name   t4cp2_AK969_RS17860_StVIM|unnamed 3 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: 18174..45268

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
AK969_RS17805 (AK969_17840) 13474..13692 + 219 WP_004187411 hypothetical protein -
AK969_RS17810 (AK969_17845) 13695..13904 + 210 WP_004187413 hypothetical protein -
AK969_RS17815 (AK969_17850) 14027..15292 - 1266 WP_021242902 translesion error-prone DNA polymerase V subunit UmuC -
AK969_RS17820 (AK969_17855) 15280..15714 - 435 WP_004187425 translesion error-prone DNA polymerase V autoproteolytic subunit -
AK969_RS17825 (AK969_17860) 15807..16172 - 366 WP_020277900 type II toxin-antitoxin system toxin endoribonuclease PemK-mt -
AK969_RS17830 (AK969_17865) 16141..16398 - 258 WP_004187429 type II toxin-antitoxin system antitoxin PemI -
AK969_RS17835 (AK969_17870) 16490..17143 - 654 WP_004206890 type II CAAX endopeptidase family protein -
AK969_RS17840 (AK969_17875) 17223..17606 + 384 WP_019725042 DUF1496 domain-containing protein -
AK969_RS27915 17711..17881 + 171 WP_234715330 hypothetical protein -
AK969_RS17850 (AK969_17885) 18174..19412 + 1239 WP_225373168 conjugal transfer protein TrbA trbA
AK969_RS17855 (AK969_17890) 19423..20373 + 951 WP_004206886 DsbC family protein trbB
AK969_RS17860 (AK969_17895) 20386..22473 + 2088 WP_004206885 conjugal transfer protein TrbC -
AK969_RS28125 22524..22619 - 96 WP_004206884 DinQ-like type I toxin DqlB -
AK969_RS17865 (AK969_17900) 23842..24756 - 915 WP_063860202 plasmid replication initiator RepA -
AK969_RS17870 (AK969_17905) 25193..25435 - 243 WP_023893611 IncL/M type plasmid replication protein RepC -
AK969_RS17875 (AK969_17910) 25504..26157 - 654 WP_015060005 hypothetical protein -
AK969_RS17880 (AK969_17915) 26159..28354 - 2196 WP_015062834 DotA/TraY family protein traY
AK969_RS17885 (AK969_17920) 28347..28943 - 597 WP_015060003 hypothetical protein -
AK969_RS17890 (AK969_17925) 28940..30148 - 1209 WP_011091082 conjugal transfer protein TraW traW
AK969_RS17895 (AK969_17930) 30145..33195 - 3051 WP_004187482 hypothetical protein traU
AK969_RS17900 (AK969_17935) 33192..33686 - 495 WP_004187480 hypothetical protein -
AK969_RS17905 (AK969_17940) 33732..34121 - 390 WP_004187479 DUF6750 family protein traR
AK969_RS17910 (AK969_17945) 34138..34668 - 531 WP_004187478 conjugal transfer protein TraQ traQ
AK969_RS17915 (AK969_17950) 34692..35396 - 705 WP_015060002 conjugal transfer protein TraP traP
AK969_RS17920 (AK969_17955) 35408..36757 - 1350 WP_004187474 conjugal transfer protein TraO traO
AK969_RS17925 (AK969_17960) 36769..37920 - 1152 WP_004187471 DotH/IcmK family type IV secretion protein traN
AK969_RS17930 (AK969_17965) 37929..38642 - 714 WP_004187467 DotI/IcmL family type IV secretion protein traM
AK969_RS17935 (AK969_17970) 38710..39120 + 411 WP_004187465 H-NS family nucleoid-associated regulatory protein -
AK969_RS17940 (AK969_17975) 39107..39304 + 198 WP_004187464 Hha/YmoA family nucleoid-associated regulatory protein -
AK969_RS17945 39305..39817 - 513 WP_011091071 hypothetical protein traL
AK969_RS27920 39783..43040 - 3258 WP_234715331 LPD7 domain-containing protein -
AK969_RS17955 (AK969_17990) 43065..43325 - 261 WP_004187310 IcmT/TraK family protein traK
AK969_RS17960 (AK969_17995) 43315..44478 - 1164 WP_004187313 plasmid transfer ATPase TraJ virB11
AK969_RS17965 (AK969_18000) 44489..45268 - 780 WP_004187315 type IV secretory system conjugative DNA transfer family protein traI
AK969_RS17970 (AK969_18005) 45265..45765 - 501 WP_004187320 DotD/TraH family lipoprotein -
AK969_RS17975 (AK969_18010) 45779..47758 - 1980 WP_004187323 TraI/MobA(P) family conjugative relaxase -
AK969_RS27925 47745..48272 - 528 WP_172740549 plasmid mobilization protein MobA -
AK969_RS17985 (AK969_18020) 48307..48702 + 396 WP_019725163 hypothetical protein -
AK969_RS17990 (AK969_18025) 49204..49740 - 537 WP_004187332 hypothetical protein -
AK969_RS17995 (AK969_18030) 49873..50184 - 312 WP_004187333 hypothetical protein -

Host bacterium

ID   1726 GenBank   NZ_LIDY01000028
Plasmid name   StVIM|unnamed 3 Incompatibility group   IncL/M
Plasmid size   56418 bp Coordinate of oriT [Strand]   48064..48169 [-]
Host baterium   Salmonella enterica subsp. enterica serovar Typhimurium strain StVIM

Cargo genes

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