Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101081
Name   oriT_pDCCK1-KPC in_silico
Organism   Klebsiella pneumoniae strain HA15pKpn
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_JAODVI010000029 (44306..44410 [+], 105 nt)
oriT length   105 nt
IRs (inverted repeats)      32..37, 40..45  (GCCGGC..GCCGGC)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 105 nt

>oriT_pDCCK1-KPC
AGTACGGGACAAGATGTGTTTTTGGTACACCGCCGGCACGCCGGCAGTGACGCAAAAACGTCTTGGTCAGGGCAAGCCCCGACACCCCCTAACGAGGTTAGCTAT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1119 GenBank   WP_004206924
Name   traI_N7U43_RS23165_pDCCK1-KPC insolico UniProt ID   A0A2V4FJ40
Length   659 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 659 a.a.        Molecular weight: 75087.84 Da        Isoelectric Point: 10.0285

>WP_004206924.1 MULTISPECIES: TraI/MobA(P) family conjugative relaxase [Enterobacterales]
MVIPKIIEGRRDKKSSFGQLIKYMADKPSQELTDTVQPTPETALAVKSDMFEGLNNYLTRKQKVISTPVD
VEPGVQRVVVGDVTCQYNTFSLDGAAQEMNSVSQQSTRCKDPVMHYVLSWPDYEKPNDDQVFDSVKFTLA
SMGMSDHQYVAAIHRDTDNLHVHVAVNRINPQTYKAASSSFTKDTLHQACRLLELKNGWSHSNGAYVVND
RQQIVRNPHSKKERGNWRSLDRINKMENKEGVETLYRYIVGDEQVGGSRQNLIHVSAGLREAKSWDDVHK
TFAGIGLRVEKAQGKKGYVITHEHQNQKTAVKASLVFNKAQYTLKSMEERFGEYQPSHIEPAKVSVFKTA
YTPGAYRRDANKRLQRKIERAEERMLLKGRYRAYRNNLPIYSPDKDRIADEYRKIAQHTRLVKNNVRHSV
SDPHTRKLMYNLAEFKRLQAVANLRLSLREERNGFRAANPRLSYREWVEQEALKGDKAALSQMRGFAYSS
RKKEKYKQQLVEQIGFNRTFNAITSHDRDDVAVMASARHGVKPRLLKDGTVIFERDGKPVAADRGHIVLT
ESNGIDKEKTADLAIALTIAGKAKSVRVDGDGEFKELCCNRIVDAAVNHNHPVAQGITFTDAAQQAYAQN
EKHRLIREQNNSKNEMQLRSESDDKFNPK

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(86-334)


  Protein structure


Source ID Structure
AlphaFold DB A0A2V4FJ40


T4CP

ID   668 GenBank   WP_004206885
Name   t4cp2_N7U43_RS22915_pDCCK1-KPC 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: 47208..65411

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
N7U43_RS23145 (N7U43_23145) 42292..42603 + 312 WP_004187333 hypothetical protein -
N7U43_RS23150 (N7U43_23150) 42736..43272 + 537 WP_004206920 hypothetical protein -
N7U43_RS23155 (N7U43_23155) 43773..44138 - 366 WP_058672219 hypothetical protein -
N7U43_RS23160 (N7U43_23160) 44414..44731 + 318 WP_004206923 plasmid mobilization protein MobA -
N7U43_RS23165 (N7U43_23165) 44718..46697 + 1980 WP_004206924 TraI/MobA(P) family conjugative relaxase -
N7U43_RS23170 (N7U43_23170) 46711..47211 + 501 WP_004206925 DotD/TraH family lipoprotein -
N7U43_RS23175 (N7U43_23175) 47208..47987 + 780 WP_004187315 type IV secretory system conjugative DNA transfer family protein traI
N7U43_RS23180 (N7U43_23180) 47998..49161 + 1164 WP_004206926 plasmid transfer ATPase TraJ virB11
N7U43_RS23185 (N7U43_23185) 49151..49411 + 261 WP_004187310 IcmT/TraK family protein traK
N7U43_RS23190 (N7U43_23190) 49436..52741 + 3306 WP_242781107 LPD7 domain-containing protein -
N7U43_RS23195 (N7U43_23195) 52707..53219 + 513 WP_011091071 hypothetical protein traL
N7U43_RS23200 (N7U43_23200) 53220..53432 - 213 WP_305953721 Hha/YmoA family nucleoid-associated regulatory protein -
N7U43_RS23205 (N7U43_23205) 53404..53814 - 411 WP_004187465 H-NS family nucleoid-associated regulatory protein -
N7U43_RS23210 (N7U43_23210) 53882..54595 + 714 WP_223294958 DotI/IcmL family type IV secretion protein traM
N7U43_RS23215 (N7U43_23215) 54604..55755 + 1152 WP_015062843 DotH/IcmK family type IV secretion protein traN
N7U43_RS23220 (N7U43_23220) 55767..57116 + 1350 WP_004206932 conjugal transfer protein TraO traO
N7U43_RS23225 (N7U43_23225) 57128..57832 + 705 WP_004206933 conjugal transfer protein TraP traP
N7U43_RS23230 (N7U43_23230) 57856..58386 + 531 WP_004187478 conjugal transfer protein TraQ traQ
N7U43_RS23235 (N7U43_23235) 58403..58792 + 390 WP_011154472 DUF6750 family protein traR
N7U43_RS23240 (N7U43_23240) 58838..59332 + 495 WP_004187480 hypothetical protein -
N7U43_RS23245 (N7U43_23245) 59329..62379 + 3051 WP_011154474 conjugative transfer protein traU
N7U43_RS23250 (N7U43_23250) 62376..63584 + 1209 WP_004187486 conjugal transfer protein TraW traW
N7U43_RS23255 (N7U43_23255) 63581..64231 + 651 WP_004187488 hypothetical protein -
N7U43_RS23260 (N7U43_23260) 64224..65411 + 1188 WP_256918023 DotA/TraY family protein traY

Host bacterium

ID   1525 GenBank   NZ_JAODVI010000029
Plasmid name   pDCCK1-KPC Incompatibility group   -
Plasmid size   65491 bp Coordinate of oriT [Strand]   44306..44410 [+]
Host baterium   Klebsiella pneumoniae strain HA15pKpn

Cargo genes

Drug resistance gene   blaKPC-2
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -