Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   105149
Name   oriT_pRHBSTW-00843_2 in_silico
Organism   Klebsiella pneumoniae strain RHBSTW-00843
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP056302 (234187..234236 [+], 50 nt)
oriT length   50 nt
IRs (inverted repeats)      7..14, 17..24  (GCAAAATT..AATTTTGC)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 50 nt

>oriT_pRHBSTW-00843_2
AAATCTGCAAAATTTTAATTTTGCGTAGTGTGTGGTCATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3561 GenBank   WP_057729326
Name   traI_HV294_RS26620_pRHBSTW-00843_2 insolico UniProt ID   A0A6G9HZM5
Length   1752 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1752 a.a.        Molecular weight: 190782.72 Da        Isoelectric Point: 6.1403

>WP_057729326.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacteriaceae]
MLSFSQVKSAGSAGNYYTEKDNYYVIGSMEERWQGKGAELLGLEGKVDKQVFTELLQGKLPDGSDLTRIQ
DGVNKHRPGYDLTFSAPKSVSMLAMLGGDKRLIDAHNRAVTVALNQVESLASTRVKKDGVSETVLTGNLI
IARFNHDTSRAQDPQIHTHSVVINATQNGDKWQTLASDTVGKTGFSETILANRIAFGKIYQNSLRADVES
MGYKTVDAGRNGMWEMEGVPVESFSTRSQELLEAAGPDASLKSRDVAALDTRKSKEAIDPAENMVEWMNT
LKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLEA
KDGVFDLARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVPF
SDAVSVLAQDRPVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVTG
KSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTYR
WQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRHEGVLGEKDT
TITALTPVWLDSKSRGVRDYYREGMVMERWDPENRTHDRFVIDRVTASSNMLTLKDRDGVRLDLKVSAVD
SQWTLFRADTLPVAEGERLAVLGKIPDTRLKGGESITVMKVEEGQLTVQRPGQKTTQTLAVGAGVFDGIK
IGHGWVESPGRSVSETAMVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSEQ
LKTRSGETDLDAAIAQQKAGLRTPAEQAIHLAIPLLESEKLTFSRPQLLATALETGGGKVPMADIDTTIQ
AQIRSGQLLNVPVAHGYGNDLLISRQTWDAEKSILTHVLEGKDAVAPLMDRVPASLMTDLTAGQRAATRM
ILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLHD
TQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIVAGGGRAVSSGDNDQLQPIAPGQPFRLMQQRS
AADVAIMKEIVRQMPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGAWAPGSSVVEFTPKQEKAIEK
ALSEGKTLPEGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITLP
VLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSEGKERYISPREASAEGVTLY
RQEKITVSQGDRMRFSKSDLERGYVANSIWEVQSVLGDSVTLSDGKLTRTLTPKADQAQQHIDLAYAITA
HGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDSREGWIKAIKHSPEKATAHDILEP
RNDRAVKSADLLFGRARPLDETAAGRAALQQSGLAQGNSPGKFISPGKKYPQPHVALPAFDKNGKAAGIW
LSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLTGDDRP
WNPGAITGGRIWAEPAPVAPVPQTGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEPA
DRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEEAIQQVASERLQRERLQAVERDMVRDLNREKTLG
GD

  Protein domains


Predicted by InterproScan.

AAA domain (AAA_30)

(970-1156)

single-stranded DNA binding TraI N-terminal subdomain (ssDNA_TraI_N)

(576-628)

TrwC relaxase (TrwC)

(11-283)

DNA helicase TraI (TraI_C)

(1432-1554)

DNA relaxase TraI 2B/2B-like domain (TraI_2B)

(634-713)


  Protein structure



No available structure.




T4CP

ID   3526 GenBank   WP_016831058
Name   traD_HV294_RS26625_pRHBSTW-00843_2 insolico UniProt ID   _
Length   760 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 760 a.a.        Molecular weight: 84900.95 Da        Isoelectric Point: 5.0541

>WP_016831058.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTSFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSREIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDAPEPGPADTDSHAGEQPEPVSPPA
PAEMTVSPAPVKAPPTTKRPAAEPPVLPVTPIPLLKPKAAAAAATASSAGTPAAAAGGTEQELAQQSAEQ
GQDMLPAGMNEDGVIEDMQAYAAWLADDQTQRDMQRREEVNINHNHRHDEQDDVEIGGNI

  Protein domains


Predicted by InterproScan.

Type IV secretion-system coupling protein DNA-binding domain (TrwB_AAD_bind)

(172-560)

F sex factor protein N terminal (TraD_N)

(32-128)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 204797..234794

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HV294_RS26625 (HV294_26630) 204797..207079 - 2283 WP_016831058 type IV conjugative transfer system coupling protein TraD virb4
HV294_RS26630 (HV294_26635) 207206..207895 - 690 WP_072159541 hypothetical protein -
HV294_RS26635 (HV294_26640) 208088..208819 - 732 WP_016831056 conjugal transfer complement resistance protein TraT -
HV294_RS26640 (HV294_26645) 209070..209672 - 603 WP_071604857 hypothetical protein -
HV294_RS26645 (HV294_26650) 209695..212517 - 2823 WP_117036185 conjugal transfer mating-pair stabilization protein TraG traG
HV294_RS26650 (HV294_26655) 212517..213896 - 1380 WP_072159542 conjugal transfer pilus assembly protein TraH traH
HV294_RS26655 (HV294_26660) 213874..214317 - 444 WP_016831053 F-type conjugal transfer protein TrbF -
HV294_RS26660 (HV294_26665) 214363..214920 - 558 WP_020325119 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
HV294_RS26665 (HV294_26670) 214892..215131 - 240 WP_004144400 type-F conjugative transfer system pilin chaperone TraQ -
HV294_RS26670 (HV294_26675) 215142..215894 - 753 WP_004152677 type-F conjugative transfer system pilin assembly protein TraF traF
HV294_RS26675 (HV294_26680) 215915..216241 - 327 WP_016831051 hypothetical protein -
HV294_RS26680 (HV294_26685) 216254..216502 - 249 WP_004152675 hypothetical protein -
HV294_RS26685 (HV294_26690) 216480..216734 - 255 WP_015065558 conjugal transfer protein TrbE -
HV294_RS26690 (HV294_26695) 216766..218721 - 1956 WP_016831050 type-F conjugative transfer system mating-pair stabilization protein TraN traN
HV294_RS26695 (HV294_26700) 218780..219427 - 648 WP_016831049 type-F conjugative transfer system pilin assembly protein TrbC trbC
HV294_RS26700 (HV294_26705) 219703..220692 - 990 WP_015632509 conjugal transfer pilus assembly protein TraU traU
HV294_RS26705 (HV294_26710) 220689..221090 - 402 WP_020325101 hypothetical protein -
HV294_RS26710 (HV294_26715) 221125..221760 - 636 WP_020325113 type-F conjugative transfer system protein TraW traW
HV294_RS26715 (HV294_26720) 221760..222149 - 390 WP_004167468 type-F conjugative transfer system protein TrbI -
HV294_RS26720 (HV294_26725) 222149..224788 - 2640 WP_016831045 type IV secretion system protein TraC virb4
HV294_RS26725 (HV294_26730) 224860..225258 - 399 WP_181467446 hypothetical protein -
HV294_RS26730 (HV294_26735) 225266..225658 - 393 WP_117036189 hypothetical protein -
HV294_RS26735 (HV294_26740) 225701..226105 - 405 WP_016831042 hypothetical protein -
HV294_RS26740 (HV294_26745) 226172..226483 - 312 WP_016831041 hypothetical protein -
HV294_RS26745 (HV294_26750) 226484..226702 - 219 WP_014386199 hypothetical protein -
HV294_RS26750 (HV294_26755) 226726..227015 - 290 Protein_256 hypothetical protein -
HV294_RS26755 (HV294_26760) 227020..227430 - 411 WP_032433731 hypothetical protein -
HV294_RS26760 (HV294_26765) 227562..228146 - 585 WP_014386196 type IV conjugative transfer system lipoprotein TraV traV
HV294_RS26765 (HV294_26770) 228169..228765 - 597 Protein_259 conjugal transfer pilus-stabilizing protein TraP -
HV294_RS26770 (HV294_26775) 228758..230182 - 1425 WP_020325105 F-type conjugal transfer pilus assembly protein TraB traB
HV294_RS26775 (HV294_26780) 230182..230922 - 741 WP_014386193 type-F conjugative transfer system secretin TraK traK
HV294_RS26780 (HV294_26785) 230909..231475 - 567 WP_016831035 type IV conjugative transfer system protein TraE traE
HV294_RS26785 (HV294_26790) 231495..231800 - 306 WP_004144424 type IV conjugative transfer system protein TraL traL
HV294_RS26790 (HV294_26795) 231814..232182 - 369 WP_004194426 type IV conjugative transfer system pilin TraA -
HV294_RS26795 (HV294_26800) 232244..232450 - 207 WP_171773970 TraY domain-containing protein -
HV294_RS26800 (HV294_26805) 232583..233302 - 720 WP_016831034 conjugal transfer protein TrbJ -
HV294_RS26805 (HV294_26810) 233502..233918 - 417 WP_072145360 conjugal transfer relaxosome DNA-binding protein TraM -
HV294_RS26810 (HV294_26815) 234309..234794 + 486 WP_004178063 transglycosylase SLT domain-containing protein virB1
HV294_RS26815 (HV294_26820) 234827..235156 - 330 WP_011977736 DUF5983 family protein -
HV294_RS26820 (HV294_26825) 235189..236010 - 822 WP_004182076 DUF932 domain-containing protein -
HV294_RS26825 (HV294_26830) 236843..237256 - 414 WP_004182074 helix-turn-helix domain-containing protein -
HV294_RS26830 (HV294_26835) 237257..237535 - 279 WP_004152721 helix-turn-helix transcriptional regulator -
HV294_RS26835 (HV294_26840) 237525..237845 - 321 WP_004152720 type II toxin-antitoxin system RelE/ParE family toxin -
HV294_RS26840 (HV294_26845) 237926..238150 - 225 WP_020325128 hypothetical protein -
HV294_RS26845 (HV294_26850) 238161..238373 - 213 WP_020325129 hypothetical protein -
HV294_RS26850 (HV294_26855) 238434..238790 - 357 WP_004152717 hypothetical protein -
HV294_RS26855 (HV294_26860) 239426..239776 - 351 WP_004182068 hypothetical protein -

Host bacterium

ID   5587 GenBank   NZ_CP056302
Plasmid name   pRHBSTW-00843_2 Incompatibility group   IncFIB
Plasmid size   267374 bp Coordinate of oriT [Strand]   234187..234236 [+]
Host baterium   Klebsiella pneumoniae strain RHBSTW-00843

Cargo genes

Drug resistance gene   tet(A), blaSHV-12, dfrA1, ant(3'')-Ia, qacE, sul1
Virulence gene   -
Metal resistance gene   silE, silS, silR, silC, silF, silB, silA, silP, pcoA, pcoB, pcoC, pcoD, pcoR, pcoS, pcoE, arsR, arsD, arsA, arsB, arsC, merE, merD, merA, merF, merP, merT, merR2, fecD, fecE, merR, merC
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIE9