Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101742
Name   oriT_pRHBSTW-00189_3 in_silico
Organism   Klebsiella grimontii strain RHBSTW-00189
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_JABXQY010000003 (184604..184653 [+], 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-00189_3
AAATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTCATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1473 GenBank   WP_065953842
Name   traI_HV116_RS27645_pRHBSTW-00189_3 insolico UniProt ID   A0A839CRE9
Length   1753 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1753 a.a.        Molecular weight: 190420.61 Da        Isoelectric Point: 6.3863

>WP_065953842.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Klebsiella]
MMSIGSVKSADKAADYYTNKDNYYVIGSMDERWQGKGAEALGIDGKAVDKALFTELLKGKLPDGSDLTRI
QDGANKHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVTEAVRQLETLAATRVMTDGKSETVLTGNL
IVAKFNHDTNRNQEPQIHTHAVVINATQNGDKWQSLGTDKIGKTGFIENVYANQIAFGKLYREAFKPLVE
KLGYETEVVGKHGMWEMKGVPVEPFSTRTQEVREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMN
TLKETGFDIRGYREAADSRAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLE
AKDGVFELARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVP
FSDAVSVLAQDRPVMGIVSGQGGAAGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVT
GKSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTY
RWQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGLESVAQISGTREQSVLNGLIRDSLRNEGVLGEKD
TTITALTPVWLDSKSRGVRDYYREGMVMESWDPETRTHDRFVIDRVTASSNMLTLKDREGGRLDLKVSAV
DSQWTLFRADTLPVAEGERLAVLGKIPDTRLKGGESITVMKVEDGQLTVQRPGQKTTQTLAVGAGVFDGI
KIGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSE
QLKTRSGETDLDAAIAQQKAGLRTPAEQAIHLAIPLLESEKLTFSRPQLLATALETGGGKVPMADIDTTI
QAQIRSGQLLNVPVAHGYGNDLLISRQTWDAEKSILTHVLEGKDAVAPLMDRVPASLMTDLTAGQRAATR
MILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLH
DTQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIVAGGGRAVSSGDNDQLQPIAPGQPFRLMQQR
SAADIAIMKEIVRQVPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGAWAPGSSVVEFTPAQEKAIQ
KALSEGKTLPAGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHGARRENGETGKEEITL
PVLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQMITLTDSEGKERYISPREASAEGVTL
YRQEKITVSQGDRMRFSKSDLERGYVANSIWEVQSVAGDSVTLSDGKTTRTLTPKADQAQQHIDLAYAIT
AHGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDSREGWIKAIKHSPEKATAHDILE
PRNDRAVKSADLLFGRARLLDETAAGRAALQQSGLAQGNSPGKFISPGKKYPQPHVALPAFDKNGKAAGI
WLSPLTDRDGRLEAIGGEGRIMGNDAARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDR
PWNPGAMTGGRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEP
VDRVKEVIGDVIRGLERDRPGPEKTTLPDDPQFRRQEAAIQQVASESLQRERLQAVERDMVRDLNREKTL
GGD

  Protein domains


Predicted by InterproScan.

TrwC relaxase (TrwC)

(11-284)

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

(635-714)

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

(577-629)

DNA helicase TraI (TraI_C)

(1433-1555)

AAA domain (AAA_30)

(971-1157)


  Protein structure



No available structure.




T4CP

ID   1150 GenBank   WP_032436737
Name   traD_HV116_RS27650_pRHBSTW-00189_3 insolico UniProt ID   _
Length   769 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 769 a.a.        Molecular weight: 85553.49 Da        Isoelectric Point: 5.0065

>WP_032436737.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Klebsiella]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTSFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDDDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREGRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDAPASGPDDAGSHAGERPELASQPA
PAEVTVSPAPVKAPATTTMPAAEPSARTAEPPVLRVTTVPLIKPKAAAAAAAAATASSAGTPAAAAGGTE
QELAQQSAEQGQDMLPAGMNEDGVIEDMQAYDAWADEQTQRDMQRREEVNINHSHRHDEQDDVEIGGNF

  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: 155398..185211

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HV116_RS27650 (HV116_27655) 155398..157707 - 2310 WP_032436737 type IV conjugative transfer system coupling protein TraD virb4
HV116_RS30560 157763..157876 - 114 Protein_154 hypothetical protein -
HV116_RS30760 158067..158246 - 180 WP_317872608 hypothetical protein -
HV116_RS27655 (HV116_27660) 158228..159208 - 981 WP_014386491 IS5-like element ISKpn26 family transposase -
HV116_RS27660 (HV116_27665) 159249..159998 - 750 WP_182189496 conjugal transfer complement resistance protein TraT -
HV116_RS27665 (HV116_27670) 160250..160852 - 603 WP_023280878 hypothetical protein -
HV116_RS27670 (HV116_27675) 160876..163698 - 2823 WP_023320108 conjugal transfer mating-pair stabilization protein TraG traG
HV116_RS27675 (HV116_27680) 163698..165077 - 1380 WP_182189498 conjugal transfer pilus assembly protein TraH traH
HV116_RS27680 (HV116_27685) 165055..165498 - 444 WP_182189500 F-type conjugal transfer protein TrbF -
HV116_RS27685 (HV116_27690) 165543..166100 - 558 WP_004152678 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
HV116_RS27690 (HV116_27695) 166072..166311 - 240 WP_004144400 type-F conjugative transfer system pilin chaperone TraQ -
HV116_RS27695 (HV116_27700) 166322..167074 - 753 WP_015065637 type-F conjugative transfer system pilin assembly protein TraF traF
HV116_RS27700 (HV116_27705) 167095..167421 - 327 WP_032436744 hypothetical protein -
HV116_RS30765 167467..167652 - 186 WP_032436745 hypothetical protein -
HV116_RS27705 (HV116_27710) 167649..167885 - 237 WP_032436746 conjugal transfer protein TrbE -
HV116_RS27710 (HV116_27715) 167917..169872 - 1956 WP_023307537 type-F conjugative transfer system mating-pair stabilization protein TraN traN
HV116_RS27715 (HV116_27720) 169931..170569 - 639 WP_015065635 type-F conjugative transfer system pilin assembly protein TrbC trbC
HV116_RS27720 (HV116_27725) 170582..171541 - 960 WP_015065634 conjugal transfer pilus assembly protein TraU traU
HV116_RS27725 (HV116_27730) 171585..172211 - 627 WP_023307538 type-F conjugative transfer system protein TraW traW
HV116_RS27730 (HV116_27735) 172211..172600 - 390 WP_032436749 type-F conjugative transfer system protein TrbI -
HV116_RS27735 (HV116_27740) 172600..175239 - 2640 WP_016528865 type IV secretion system protein TraC virb4
HV116_RS27740 (HV116_27745) 175311..175709 - 399 WP_072158599 hypothetical protein -
HV116_RS27745 (HV116_27750) 175717..176007 - 291 WP_023307542 hypothetical protein -
HV116_RS27750 (HV116_27755) 176004..176408 - 405 WP_023307543 hypothetical protein -
HV116_RS27755 (HV116_27760) 176453..176791 - 339 WP_182189501 hypothetical protein -
HV116_RS27760 (HV116_27765) 176792..177010 - 219 WP_004171484 hypothetical protein -
HV116_RS27765 (HV116_27770) 177034..177324 - 291 WP_032423381 hypothetical protein -
HV116_RS27770 (HV116_27775) 177329..177739 - 411 WP_023307546 hypothetical protein -
HV116_RS27775 (HV116_27780) 177871..178440 - 570 WP_023307547 type IV conjugative transfer system lipoprotein TraV traV
HV116_RS27780 (HV116_27785) 178652..179071 - 420 Protein_182 conjugal transfer pilus-stabilizing protein TraP -
HV116_RS27785 (HV116_27790) 179064..180488 - 1425 WP_023307549 F-type conjugal transfer pilus assembly protein TraB traB
HV116_RS27790 (HV116_27795) 180488..181228 - 741 WP_004152497 type-F conjugative transfer system secretin TraK traK
HV116_RS27795 (HV116_27800) 181215..181781 - 567 WP_004152602 type IV conjugative transfer system protein TraE traE
HV116_RS27800 (HV116_27805) 181801..182106 - 306 WP_004178059 type IV conjugative transfer system protein TraL traL
HV116_RS27805 (HV116_27810) 182120..182488 - 369 WP_023307550 type IV conjugative transfer system pilin TraA -
HV116_RS27810 (HV116_27815) 182542..182913 - 372 WP_004208838 TraY domain-containing protein -
HV116_RS27815 (HV116_27820) 182997..183692 - 696 WP_023307551 transcriptional regulator TraJ family protein -
HV116_RS27820 (HV116_27825) 183899..184291 - 393 WP_032436755 conjugal transfer relaxosome DNA-binding protein TraM -
HV116_RS27825 (HV116_27830) 184726..185211 + 486 WP_001568108 transglycosylase SLT domain-containing protein virB1
HV116_RS27830 (HV116_27835) 185244..185558 - 315 WP_148673127 DUF5983 family protein -
HV116_RS27835 (HV116_27840) 185606..186427 - 822 WP_004182076 DUF932 domain-containing protein -
HV116_RS27840 (HV116_27845) 187256..187669 - 414 WP_023280875 transcriptional regulator -
HV116_RS27845 (HV116_27850) 187670..187948 - 279 WP_004152721 helix-turn-helix transcriptional regulator -
HV116_RS27850 (HV116_27855) 187938..188258 - 321 WP_004152720 type II toxin-antitoxin system RelE/ParE family toxin -
HV116_RS27855 (HV116_27860) 188339..188563 - 225 WP_004152719 hypothetical protein -
HV116_RS27860 (HV116_27865) 188574..188786 - 213 WP_004152718 hypothetical protein -
HV116_RS27865 (HV116_27870) 188847..189203 - 357 WP_004152717 hypothetical protein -
HV116_RS27870 (HV116_27875) 189840..190190 - 351 WP_004152758 hypothetical protein -

Host bacterium

ID   2186 GenBank   NZ_JABXQY010000003
Plasmid name   pRHBSTW-00189_3 Incompatibility group   IncFIB
Plasmid size   218948 bp Coordinate of oriT [Strand]   184604..184653 [+]
Host baterium   Klebsiella grimontii strain RHBSTW-00189

Cargo genes

Drug resistance gene   -
Virulence gene   mrkA, mrkB, mrkC, mrkD, mrkF
Metal resistance gene   arsC, arsB, arsA, arsD, arsR, pcoE, pcoS, pcoR, pcoD, pcoC, pcoB, pcoA, silP, silA, silB, silF, silC, silR, silS, silE
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIE9