Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   103110
Name   oriT_R1215 in_silico
Organism   Serratia marcescens strain NCTC 50331
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_KU315015 (73123..73228 [+], 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_R1215
AGTACGGGACAAGATGTGTTTTTGGAGTACCGCCGACACGCGGCGGCCGTCCAAAAACGTCTTGGTCAGGGCAAGCCCCGACACCCCCTAACGAGGTTAGCTATCT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2331 GenBank   WP_237142760
Name   Relaxase_HTH88_RS00510_R1215 insolico UniProt ID   _
Length   610 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 610 a.a.        Molecular weight: 69749.62 Da        Isoelectric Point: 10.0043

>WP_237142760.1 TraI/MobA(P) family conjugative relaxase [Serratia marcescens]
MFEGLNNYLTRKQKVISTPVDVEPGVQRVVVGDVTCQYNTFSLDGAAQEMNSVSQQSTRCKDPVMHYVLS
WPDYEKPNDDQIFDSVKFTLASMGMSDHQYVAAIHRDTDNLHVHVAVNRINPQTYKAASSSFTKDTLHQA
CRLLELKNGWSHSNGAYVVNDRQQIVRNPHSKKERGNWRSLDRINKMENKEGVETLYRYIVGDEQVGGSR
QNLIHVSAGLREAKSWDDVHKTFADIGLRVEKAQGKKGYVITHEHQNQKTAVKASLVFNKAQYTLKSMEE
RFGEYQPSHIEPAKVSVFKTAYTPGAYRRDANKRLQRKIERAEERMLLKGRYRAYRNNLPIYSPDKDRIA
DEYRKIAQHTRLVKNNVRHSVSDPHTRKLMYNLAEFKRLQAVANLRLSLREERNGFRAANPRLSYREWVE
QEALKGDKAALSQMRGFAYSSRKKEKYKQQLVEQIGFNRTFNAITSHDRDDVAVMASARHGVKPRLLKDG
TVIFERDGKPVAADRGHIVLTESNGIDKEKTADLAIALTIAGKAKSVRVDGDGEFKELCCNRIVDAAVNH
NHPVAQGITFTDAAQQAYAQNEKHRLIREQNNSKNEMQFRSESDDKFNPK

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(39-285)


  Protein structure



No available structure.




T4CP

ID   2058 GenBank   WP_004187443
Name   t4cp2_HTH88_RS00020_R1215 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: 79519.87 Da        Isoelectric Point: 4.8309

>WP_004187443.1 MULTISPECIES: hypothetical protein [Enterobacterales]
MQQESVDSKKVIRPDGSFMEWFLTPNVQFGLLAILTVLGLFLPFTMLLSILILPPLMVAFTDRKFRPPLR
MPKDCEMFDDTLTTETQAEYRLGPIRIPHKVRERKKAKGILYVGYERGRLFGRELWLNMTDLLRHMVFFG
TTGSGKTETFYGFIVNFLLWCRGYCLSDGKADNKLAFATWSLARRFGREDDYYVLNLLTGSIDRFVNLVK
QESIPAQSNSVNLFSVAPPTFIIQLMESMLPQVGGDSAQWQDTAKAMMSALINALCYKRARGELLLSQRT
IQKNMSLPAMAALYVEAKKNGWHSEGYAALESYLENTPGFLLANAEYPETWEARAFEQHNYMSRQFLKTL
SLFNETYGHVFPEDSGDIRMDDIFHNDRILIVMIPSLELSRGEAATLGRLYVTLQRMTISKDLGYQLEGK
KEEVLLTHALNNQAPYGLIYDELGQYFTSGMDTLSAQMRSLEKMGVFSSQDHPSLARGANGEVDSLIANT
RVKYFESIEDRKTFEILRETVGQDYYSELSGQEAEHGTFSKTVREGDLYQIREKDRVNIRELRKQTEGQG
VISFQDALVRSAAFYIPDNEKFSSELPMRINRFIEVLPPSPATLYSIYPERKDDELAETNPDAMHFPPIK
LFGYDKAANSLLEKIEVFYELQCGAISPEEMSVCLFELFAEWLDGTETDDVLYHQEDDLFPMIEM

  Protein domains



No domain identified.


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 76023..95126

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HTH88_RS00490 71108..71419 + 312 WP_004187333 hypothetical protein -
HTH88_RS00495 71553..72089 + 537 WP_011091066 hypothetical protein -
HTH88_RS00500 72590..72985 - 396 WP_172687230 MobC -
HTH88_RS00625 72984..73547 + 564 WP_227992076 plasmid mobilization protein MobA -
HTH88_RS00510 73680..75512 + 1833 WP_237142760 TraI/MobA(P) family conjugative relaxase -
HTH88_RS00515 75526..76026 + 501 WP_004187320 DotD/TraH family lipoprotein -
HTH88_RS00520 76023..76802 + 780 WP_004187315 type IV secretory system conjugative DNA transfer family protein traI
HTH88_RS00525 76813..77976 + 1164 WP_004187313 plasmid transfer ATPase TraJ virB11
HTH88_RS00530 77966..78226 + 261 WP_004187310 IcmT/TraK family protein traK
HTH88_RS00630 78251..81463 + 3213 WP_237142761 LPD7 domain-containing protein -
HTH88_RS00540 81387..81941 + 555 WP_011154467 hypothetical protein traL
HTH88_RS00545 81942..82139 - 198 WP_004187464 Hha/YmoA family nucleoid-associated regulatory protein -
HTH88_RS00550 82126..82536 - 411 WP_004187465 H-NS family nucleoid-associated regulatory protein -
HTH88_RS00555 82535..83317 + 783 WP_011091073 DotI/IcmL family type IV secretion protein traM
HTH88_RS00560 83326..84477 + 1152 WP_011091074 DotH/IcmK family type IV secretion protein traN
HTH88_RS00565 84489..85838 + 1350 WP_011091075 conjugal transfer protein TraO traO
HTH88_RS00570 85850..86554 + 705 WP_031942491 conjugal transfer protein TraP traP
HTH88_RS00575 86578..87108 + 531 WP_011091077 conjugal transfer protein TraQ traQ
HTH88_RS00580 87125..87514 + 390 WP_011091078 DUF6750 family protein traR
HTH88_RS00585 87560..88054 + 495 WP_011091080 hypothetical protein -
HTH88_RS00590 88051..91101 + 3051 WP_031942490 plasmid transfer protein traU
HTH88_RS00595 91098..92306 + 1209 WP_172687231 conjugal transfer protein TraW traW
HTH88_RS00600 92303..92953 + 651 WP_004187488 hypothetical protein -
HTH88_RS00605 92946..95126 + 2181 WP_004187492 DotA/TraY family protein traY
HTH88_RS00610 95129..95782 + 654 WP_004206935 hypothetical protein -

Host bacterium

ID   3553 GenBank   NZ_KU315015
Plasmid name   R1215 Incompatibility group   IncL/M
Plasmid size   95855 bp Coordinate of oriT [Strand]   73123..73228 [+]
Host baterium   Serratia marcescens strain NCTC 50331

Cargo genes

Drug resistance gene   aph(3')-Ia, blaTEM-1D, catA1, aac(3)-Ia, ant(3'')-Ia, qacE, sul1, tet(A)
Virulence gene   -
Metal resistance gene   merE, merD, merA, merC, merP, merT, merR
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -