Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101298
Name   oriT_SCPM-O-B-8044|unnamed in_silico
Organism   Klebsiella pneumoniae strain SCPM-O-B-8044
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_NPIJ01000038 (31665..31770 [-], 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_SCPM-O-B-8044|unnamed
AGTACGGGACAAGATGTGTTTTTGGAGTACCGCCGACACGCGGCGGCCGTCCAAAAACGTCTTGGTCAGGGCAAGCCCCGACACCCCCTAACGAGGTTAGCTATCT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1238 GenBank   WP_004187323
Name   traI_CIT29_RS24935_SCPM-O-B-8044|unnamed 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   848 GenBank   WP_004206885
Name   t4cp2_CIT29_RS24820_SCPM-O-B-8044|unnamed 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: 1526..28869

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
CIT29_RS24795 (CIT29_24760) 129..563 - 435 Protein_0 CPBP family intramembrane glutamate endopeptidase -
CIT29_RS24800 (CIT29_24765) 643..1026 + 384 WP_019725042 DUF1496 domain-containing protein -
CIT29_RS24805 (CIT29_24770) 1131..1526 + 396 WP_004187436 lytic transglycosylase domain-containing protein -
CIT29_RS24810 (CIT29_24775) 1526..2833 + 1308 WP_015059988 hypothetical protein trbA
CIT29_RS24815 (CIT29_24780) 2844..3794 + 951 WP_004206886 DsbC family protein trbB
CIT29_RS24820 (CIT29_24785) 3807..5894 + 2088 WP_004206885 conjugal transfer protein TrbC -
CIT29_RS31405 5945..6040 - 96 WP_004206884 DinQ-like type I toxin DqlB -
CIT29_RS24825 (CIT29_24790) 7263..8318 - 1056 WP_015060006 plasmid replication initiator RepA -
CIT29_RS24830 (CIT29_24795) 8614..8856 - 243 WP_023893611 IncL/M type plasmid replication protein RepC -
CIT29_RS24835 (CIT29_24800) 8925..9578 - 654 WP_015060005 hypothetical protein -
CIT29_RS24840 (CIT29_24805) 9580..11775 - 2196 WP_015062834 DotA/TraY family protein traY
CIT29_RS24845 (CIT29_24810) 11768..12364 - 597 WP_015060003 hypothetical protein -
CIT29_RS24850 (CIT29_24815) 12361..13569 - 1209 WP_011091082 conjugal transfer protein TraW traW
CIT29_RS24855 (CIT29_24820) 13566..16616 - 3051 WP_094965870 conjugal transfer protein traU
CIT29_RS24860 (CIT29_24825) 16613..17107 - 495 WP_004187480 hypothetical protein -
CIT29_RS24865 (CIT29_24830) 17153..17542 - 390 WP_004187479 DUF6750 family protein traR
CIT29_RS24870 (CIT29_24835) 17559..18089 - 531 WP_004187478 conjugal transfer protein TraQ traQ
CIT29_RS24875 (CIT29_24840) 18113..18817 - 705 WP_015060002 conjugal transfer protein TraP traP
CIT29_RS24880 (CIT29_24845) 18829..20178 - 1350 WP_004187474 conjugal transfer protein TraO traO
CIT29_RS24885 (CIT29_24850) 20190..21341 - 1152 WP_004187471 DotH/IcmK family type IV secretion protein traN
CIT29_RS24890 (CIT29_24855) 21350..22063 - 714 WP_004187467 DotI/IcmL family type IV secretion protein traM
CIT29_RS24895 (CIT29_24860) 22131..22541 + 411 WP_004187465 H-NS family nucleoid-associated regulatory protein -
CIT29_RS24900 (CIT29_24865) 22528..22725 + 198 WP_004187464 Hha/YmoA family nucleoid-associated regulatory protein -
CIT29_RS24905 (CIT29_24870) 22726..23238 - 513 WP_011091071 hypothetical protein traL
CIT29_RS31120 23204..26641 - 3438 WP_235851935 LPD7 domain-containing protein -
CIT29_RS24915 (CIT29_24880) 26666..26926 - 261 WP_004187310 IcmT/TraK family protein traK
CIT29_RS24920 (CIT29_24885) 26916..28079 - 1164 WP_004187313 plasmid transfer ATPase TraJ virB11
CIT29_RS24925 (CIT29_24890) 28090..28869 - 780 WP_004187315 type IV secretory system conjugative DNA transfer family protein traI
CIT29_RS24930 (CIT29_24895) 28866..29366 - 501 WP_004187320 DotD/TraH family lipoprotein -
CIT29_RS24935 (CIT29_24900) 29380..31359 - 1980 WP_004187323 TraI/MobA(P) family conjugative relaxase -
CIT29_RS31125 31346..31873 - 528 WP_172740549 plasmid mobilization protein MobA -
CIT29_RS24945 (CIT29_24910) 31908..32303 + 396 WP_019725163 hypothetical protein -
CIT29_RS24950 (CIT29_24915) 32805..33341 - 537 WP_004187332 hypothetical protein -
CIT29_RS24955 (CIT29_24920) 33474..33785 - 312 WP_004187333 hypothetical protein -

Host bacterium

ID   1742 GenBank   NZ_NPIJ01000038
Plasmid name   SCPM-O-B-8044|unnamed Incompatibility group   IncL/M
Plasmid size   40780 bp Coordinate of oriT [Strand]   31665..31770 [-]
Host baterium   Klebsiella pneumoniae strain SCPM-O-B-8044

Cargo genes

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