Detailed information of oriT

oriT


The information of the oriT region


oriTDB ID   120425
Name   oriT_p24A17028_A_KPC in_silico
Organism   Citrobacter freundii strain 24A17CRGN028
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_OQ821138 (48846..48951 [+], 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_p24A17028_A_KPC
AGTACGGGACAAGATGTGTTTTTGGAGTACCGCCGACACGCGGCGGCCGTCCAAAAACGTCTTGGTCAGGGCAAGCCCCGACACCCCCTAACGAGGTTAGCTATCT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase


ID   12861 GenBank   WP_004187323
Name   traI_SLH58_RS00335_p24A17028_A_KPC 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.

(86-334)


  Protein structure


Source ID Structure
AlphaFold DB A0A3U8KUL3


T4CP


ID   15109 GenBank   WP_038874906
Name   t4cp2_SLH58_RS00060_p24A17028_A_KPC insolico UniProt ID   _
Length   701 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 701 a.a.        Molecular weight: 80068.49 Da        Isoelectric Point: 4.8705

>WP_038874906.1 MULTISPECIES: conjugal transfer protein TrbC [Enterobacterales]
MQQESVDSKKVIRPDGSFMEWFLTPNVQFGLLAILTVLGLFLPFTMLLSILILPPLMVAFTDRKFRPPLR
MPKDCEMFDDTLTTETQAEYRLGPIRIPHKVRERKKAKGILYVGYERGRLFGRELWLNMTDLLRHMVFFG
TTGSGKTETFYGFIVNFLLWCRGYCLSDGKADNKLAFATWSLARRFGREDDYYVLNLLTGSIDRFVNLVK
QESIPAQSNSVNLFSVAPPTFIIQLMESMLPQVGGDSAQWQDTAKAMMSALINALCYKRARGELLLSQRT
IQKNMSLPAMAALYVEAKKNGWHSEGYAALESYLENTPGFLLANAEYPETWEARAFEQHNYMSRQFLKTL
SLFNETYGHVFPEDSGDIRMDDIFHNDRILIVMIPSLELSRGEAATLGRLYVTLQRMTISKDLGYQLEGK
KEEVLLTHALNNQAPYGLIYDELGQYFTSGMDTLSAQMRSLEKMGVFSSQDHPSLARGANGEVDSLIANT
RVKYFESIEDRKTFEILRETVGQDYYSELSGQEAEHGTFSKTVREGDLYQIREKDRVNIRELRKQTEGQG
VISFQDALVRSAAFYIPDNEKFSSELPMRINRFIEVLPPSPATLYSIYPERKDDELAESNPDAMRFPPIK
LFGYDKAANSLLEKIEVFYELQCGAISPEEMSVCLFELFAEWLDGTETDDVLYHQEDDLFPMIGVVSEFG
K

  Protein domains



No domain identified.


  Protein structure



No available structure.




T4SS


T4SS were predicted by using oriTfinder2.

Region 1: 51747..70715

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
SLH58_RS00315 (HBHFLMCC_00061) 46833..47144 + 312 WP_004187333 hypothetical protein -
SLH58_RS00320 (HBHFLMCC_00062) 47276..47812 + 537 WP_011091066 hypothetical protein -
SLH58_RS00325 (HBHFLMCC_00064) 48313..48708 - 396 WP_020805633 hypothetical protein -
SLH58_RS00330 48707..49270 + 564 WP_319382137 plasmid mobilization protein MobA -
SLH58_RS00335 (HBHFLMCC_00066) 49257..51236 + 1980 WP_004187323 TraI/MobA(P) family conjugative relaxase -
SLH58_RS00340 (HBHFLMCC_00067) 51250..51750 + 501 WP_004187320 DotD/TraH family lipoprotein -
SLH58_RS00345 (HBHFLMCC_00068) 51747..52526 + 780 WP_004187315 type IV secretory system conjugative DNA transfer family protein traI
SLH58_RS00350 (HBHFLMCC_00069) 52537..53700 + 1164 WP_020805653 plasmid transfer ATPase TraJ virB11
SLH58_RS00355 (HBHFLMCC_00070) 53690..53950 + 261 WP_004187310 IcmT/TraK family protein traK
SLH58_RS00360 (HBHFLMCC_00071) 53975..57052 + 3078 WP_222929807 LPD7 domain-containing protein -
SLH58_RS00365 (HBHFLMCC_00072) 56976..57530 + 555 WP_011154467 hypothetical protein traL
SLH58_RS00370 (HBHFLMCC_00073) 57531..57728 - 198 WP_004187464 Hha/YmoA family nucleoid-associated regulatory protein -
SLH58_RS00375 (HBHFLMCC_00074) 57715..58125 - 411 WP_004187465 H-NS family nucleoid-associated regulatory protein -
SLH58_RS00380 (HBHFLMCC_00075) 58124..58906 + 783 WP_004206929 DotI/IcmL family type IV secretion protein traM
SLH58_RS00385 (HBHFLMCC_00076) 58942..60066 + 1125 WP_319382139 DotH/IcmK family type IV secretion protein traN
SLH58_RS00390 (HBHFLMCC_00077) 60078..61427 + 1350 WP_020805691 conjugal transfer protein TraO traO
SLH58_RS00395 (HBHFLMCC_00078) 61439..62143 + 705 WP_020805696 conjugal transfer protein TraP traP
SLH58_RS00400 (HBHFLMCC_00079) 62167..62697 + 531 WP_011091077 conjugal transfer protein TraQ traQ
SLH58_RS00405 (HBHFLMCC_00080) 62714..63103 + 390 WP_020805690 DUF6750 family protein traR
SLH58_RS00410 (HBHFLMCC_00081) 63149..63643 + 495 WP_223294957 hypothetical protein -
SLH58_RS00415 (HBHFLMCC_00082) 63640..66690 + 3051 WP_020805687 ATPase AAA traU
SLH58_RS00420 (HBHFLMCC_00083) 66720..67895 + 1176 WP_167577398 conjugal transfer protein TraW traW
SLH58_RS00425 (HBHFLMCC_00084) 67892..68542 + 651 WP_032426814 hypothetical protein -
SLH58_RS00430 (HBHFLMCC_00085) 68535..70715 + 2181 WP_032426815 DotA/TraY family protein traY
SLH58_RS00435 (HBHFLMCC_00086) 70718..71371 + 654 WP_020805693 hypothetical protein -
SLH58_RS00440 (HBHFLMCC_00087) 71433..71675 + 243 WP_023893611 IncL/M type plasmid replication protein RepC -


Host bacterium


ID   20854 GenBank   NZ_OQ821138
Plasmid name   p24A17028_A_KPC Incompatibility group   IncL/M
Plasmid size   71971 bp Coordinate of oriT [Strand]   48846..48951 [+]
Host baterium   Citrobacter freundii strain 24A17CRGN028

Cargo genes


Drug resistance gene   blaKPC-3
Virulence gene   -
Metal resistance gene   merR
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -