Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   103782
Name   oriT_pSL264 in_silico
Organism   Enterobacter cloacae strain SL264
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_LC537131 (57780..57885 [+], 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_pSL264
AGTACGGGACAAGATGTGTTTTTGGAGTACCGCCGACACGCGGCGGCCGTCCAAAAACGTCTTGGTCAGGGCAAGCCCCGACACCCCCTAACGAGGTTAGCTATCT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2810 GenBank   WP_004187323
Name   Relaxase_JNG28_RS00400_pSL264 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   2633 GenBank   WP_004206885
Name   t4cp2_JNG28_RS00140_pSL264 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: 60681..79877

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
JNG28_RS00380 55766..56077 + 312 WP_053919080 hypothetical protein -
JNG28_RS00385 56210..56746 + 537 WP_011091066 hypothetical protein -
JNG28_RS00390 57247..57642 - 396 WP_170949733 MobC -
JNG28_RS00510 57641..58204 + 564 WP_020277892 plasmid mobilization protein MobA -
JNG28_RS00400 58191..60170 + 1980 WP_004187323 TraI/MobA(P) family conjugative relaxase -
JNG28_RS00405 60184..60684 + 501 WP_004187320 DotD/TraH family lipoprotein -
JNG28_RS00410 60681..61460 + 780 WP_004187315 type IV secretory system conjugative DNA transfer family protein traI
JNG28_RS00415 61471..62634 + 1164 WP_077138898 plasmid transfer ATPase TraJ virB11
JNG28_RS00420 62624..62884 + 261 WP_004187310 IcmT/TraK family protein traK
JNG28_RS00515 62909..66214 + 3306 WP_227649763 LPD7 domain-containing protein -
JNG28_RS00430 66138..66692 + 555 WP_011154467 hypothetical protein traL
JNG28_RS00435 66693..66890 - 198 WP_004187464 Hha/YmoA family nucleoid-associated regulatory protein -
JNG28_RS00440 66877..67287 - 411 WP_004187465 H-NS family nucleoid-associated regulatory protein -
JNG28_RS00445 67286..68068 + 783 WP_004206929 DotI/IcmL family type IV secretion protein traM
JNG28_RS00450 68077..69228 + 1152 WP_015062843 DotH/IcmK family type IV secretion protein traN
JNG28_RS00455 69240..70589 + 1350 WP_004206932 conjugal transfer protein TraO traO
JNG28_RS00460 70601..71305 + 705 WP_004206933 conjugal transfer protein TraP traP
JNG28_RS00465 71329..71859 + 531 WP_004187478 conjugal transfer protein TraQ traQ
JNG28_RS00470 71876..72265 + 390 WP_011154472 DUF6750 family protein traR
JNG28_RS00475 72311..72805 + 495 WP_004187480 hypothetical protein -
JNG28_RS00480 72802..75852 + 3051 WP_096159684 conjugal transfer protein traU
JNG28_RS00485 75849..77057 + 1209 WP_004187486 conjugal transfer protein TraW traW
JNG28_RS00490 77054..77704 + 651 WP_096159686 TraX-like protein -
JNG28_RS00495 77697..79877 + 2181 WP_004187492 DotA/TraY family protein traY
JNG28_RS00500 79880..80533 + 654 WP_004206935 hypothetical protein -
JNG28_RS00505 80607..80837 + 231 WP_004187496 IncL/M type plasmid replication protein RepC -

Host bacterium

ID   4222 GenBank   NZ_LC537131
Plasmid name   pSL264 Incompatibility group   IncL/M
Plasmid size   81133 bp Coordinate of oriT [Strand]   57780..57885 [+]
Host baterium   Enterobacter cloacae strain SL264

Cargo genes

Drug resistance gene   blaTEM-1B, blaIMP-1, aac(6')-IIc, qacE, sul1
Virulence gene   -
Metal resistance gene   merE, merD, merA, merC, merP, merT, merR
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -