Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100562
Name   oriT_pRMH760 in_silico
Organism   Klebsiella pneumoniae
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   NC_023898 (48617..49167 [+], 551 nt)
oriT length   551 nt
IRs (inverted repeats)      IR1: 62..70, 71..79  (AACCCTTTC..GACAGGGTT)
  IR2: 143..150, 154..161  (TGGCCTGC..GGAGGCCA)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   predicted by the oriTfinder

  oriT sequence  


Download         Length: 551 nt

>oriT_pRMH760
GAGCAGAGCTATGTGTGACAAGAAGTATAGAAATTACGAGGTAGCCATCATGGTCGATGTGAACCCTTTCGACAGGGTTATGAATGAATTGAAAAGTCGTGGCCGCAAGAACGCTCACATCCTGAGCATCCTCCAATTCGACTGGCCTGCATCGGAGGCCATCATCGAGAAGCTGAGCTGCTACATCACAGACGGGATTAAGGCTAATCAGGAGCCTGTGATTTACCCGATCATTGAAGAAGCTCTGCATCGCTACAGCCAGCTCGTGTTTCATGAGCAGAGAGAGAAATATGAAGACCCGGCCAGAATTGGGGCATTTCTGGAAACCCTGATCACCGAAACCTGCCGGGCGTTGGAAGTGCAAATTGTCGATAGTGGCGGTGATTCATGGTCTGTCGATTCAGGAGAGTCGTTCTCACTGTGGCTTTCTTCCCATCCAGGAGAACTATCCATTAACCCGCAGCCCCATGAGGATGAGACCTCTTTGCGTGGCTTGCTGTATGAGCTCATCACCTGTGAGAGCGTGAAAACTGTTTTAAGGAGAACCGACT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   634 GenBank   YP_009022198
Name   TraI_pRMH760 insolico UniProt ID   _
Length   990 a.a. PDB ID   
Note   putative relaxase

  Relaxase protein sequence


Download         Length: 990 a.a.        Molecular weight: 109356.90 Da        Isoelectric Point: 4.9395

>YP_009022198.1 TraI (plasmid) [Klebsiella pneumoniae]
MLKALNKLFGGRSGVIETAPSVRVLPLKDVEDEEIPRYPPFAKGLPVAPLDKILATQAELIEKVRNSLGF
TVDDFNRLVLPVIQRYAAFVHLLPASESHHHRGAGGLFRHGLEVAFWAAQASESVIFSIEGTPRERRDNE
PRWRLASCFSGLLHDVGKPLSDVSITDKDGSITWNPYSESLHDWAHRHEIDRYFIRWRDKRHKRHEQFSL
LAVDRIIPAETREFLSKSGPSIMEAMLEAISGTSVNQPVTKLMLRADQESVSRDLRQSRLDVDEFSYGVP
VERYVFDAIRRLVKTGKWKVNEPGAKVWHLNQGVFIAWKQLGDLYDLISHDKIPGIPRDPDTLADILIER
GFAVPNTVQEKGERAYYRYWEVLPEMLQEAAGSVKILMLRLESNDLVFTTEPPAAVAAEVVGDVEDAEIE
FVDPEEVDDDQEEDVSALNDDMLAAEQEAEKALAGLGFGDAMEMLKSTSDAVEEKPEQKDAGSTESSKPD
AGKKGKPQSKPGKAKPKSDTEKQPHKPEAKEDLSPQDIAKNAPPLANDNPLQALKDVGGGLGDIDFPFDA
FSASAETASTDATNSEIPDVAMPGKQEKQPKQDFVPQEQNSLQGDDFPMFGSSDEPPSWAIEPLPMLTDA
PEQTTPAPAMPPTDKPNLHEKDAKTLLVEMLAGYGEASALLEQAIMPVLEGKTTLGEVLCLMKGQAVILY
PDGARSLGAPSEVLSKLSHANAIVPDPIMPGRKVRDFSGVKAIVLAEQLSDAVVAAIKDAEASMGGYQDA
FELVSPPGLDASKNKSAPKQQSRKKAQQQKPEVNAGKPSPEQKAKGKDSQPQQKEKKVDVTSPVEEPQRQ
PVQEKQNVARLPKREVQPVAPEPKVEREKELGHVEVREREEPEVREFEPPKAKTNPKDINAEDFLPSGVT
PQKALQMLKDMIQKRSGRWLVTPVLEEDGCLVTSDKAFDMIAGENIGISKHILCGMLSRAQRRPLLKKRQ
GKLYLEVNET

  Protein domains


Predicted by InterproScan.

Putative helicase (TraI_2)

(51-357)


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 46751..71894

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HTC06_RS00335 42782..43015 - 234 WP_001191890 hypothetical protein -
HTC06_RS00340 42997..43614 - 618 WP_001249395 hypothetical protein -
HTC06_RS00345 (D647_p42047) 43782..46754 + 2973 WP_001326173 MobH family relaxase -
HTC06_RS00350 (D647_p42048) 46751..48616 + 1866 WP_000178857 conjugative transfer system coupling protein TraD virb4
HTC06_RS00355 (D647_p42049) 48627..49211 + 585 WP_000332868 hypothetical protein -
HTC06_RS00360 (D647_p42050) 49168..49797 + 630 WP_000743449 DUF4400 domain-containing protein tfc7
HTC06_RS00365 (D647_p42051) 49807..50253 + 447 WP_000122507 hypothetical protein -
HTC06_RS00370 (D647_p42052) 50263..50640 + 378 WP_000869297 hypothetical protein -
HTC06_RS00375 (D647_p42053) 50640..51302 + 663 WP_001231464 hypothetical protein -
HTC06_RS00380 (D647_p42054) 51483..51626 + 144 WP_001275801 hypothetical protein -
HTC06_RS00385 (D647_p42055) 51638..52003 + 366 WP_001052530 hypothetical protein -
HTC06_RS00390 (D647_p42056) 52148..52429 + 282 WP_024269730 type IV conjugative transfer system protein TraL traL
HTC06_RS00395 52426..53052 + 627 WP_001049717 TraE/TraK family type IV conjugative transfer system protein traE
HTC06_RS00400 (D647_p42058) 53036..53953 + 918 WP_000794249 type-F conjugative transfer system secretin TraK traK
HTC06_RS00405 (D647_p42059) 53953..55266 + 1314 WP_024131605 TraB/VirB10 family protein traB
HTC06_RS00410 (D647_p42060) 55263..55841 + 579 WP_000793435 type IV conjugative transfer system lipoprotein TraV traV
HTC06_RS00415 (D647_p42061) 55845..56237 + 393 WP_000479535 TraA family conjugative transfer protein -
HTC06_RS00420 (D647_p42062) 56438..61924 + 5487 WP_000606835 Ig-like domain-containing protein -
HTC06_RS00425 62073..62780 + 708 WP_001259346 DsbC family protein -
HTC06_RS00430 (D647_p42063) 62777..65224 + 2448 WP_000637384 type IV secretion system protein TraC virb4
HTC06_RS00435 (D647_p42064) 65239..65556 + 318 WP_000351984 hypothetical protein -
HTC06_RS00440 (D647_p42065) 65553..66083 + 531 WP_001010740 S26 family signal peptidase -
HTC06_RS00445 (D647_p42066) 66046..67311 + 1266 WP_001447719 TrbC family F-type conjugative pilus assembly protein traW
HTC06_RS00450 (D647_p42067) 67308..67979 + 672 WP_000575345 EAL domain-containing protein -
HTC06_RS00455 (D647_p42068) 67979..68983 + 1005 WP_005507569 TraU family protein traU
HTC06_RS00460 (D647_p42069) 69099..71894 + 2796 WP_001256484 conjugal transfer mating pair stabilization protein TraN traN
HTC06_RS00465 (D647_p42070) 71933..72793 - 861 WP_000709517 hypothetical protein -
HTC06_RS00470 (D647_p42071) 72916..73557 - 642 WP_000796664 hypothetical protein -
HTC06_RS00475 73852..74172 + 321 WP_000547566 hypothetical protein -
HTC06_RS00480 (D647_p42073) 74476..74661 + 186 WP_001186917 hypothetical protein -
HTC06_RS00485 (D647_p42074) 74881..75849 + 969 WP_000085160 AAA family ATPase -
HTC06_RS00490 (D647_p42075) 75860..76768 + 909 WP_000739139 hypothetical protein -

Host bacterium

ID   1022 GenBank   NC_023898
Plasmid name   pRMH760 Incompatibility group   IncA/C2
Plasmid size   170613 bp Coordinate of oriT [Strand]   48617..49167 [+]
Host baterium   Klebsiella pneumoniae

Cargo genes

Drug resistance gene   ant(2'')-Ia, qacE, sul1, dfrA10, aph(3')-Ia, blaTEM-1B, catA1
Virulence gene   -
Metal resistance gene   merE, merD, merR, merB, merA, merP, merT
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -