Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   120055
Name   oriT_pKqs_09A323_1 in_silico
Organism   Klebsiella quasipneumoniae subsp. similipneumoniae strain 09A323
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP084784 (170007..170056 [+], 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_pKqs_09A323_1
AAATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTCATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   12633 GenBank   WP_004153029
Name   traI_LGM26_RS25725_pKqs_09A323_1 insolico UniProt ID   A0A422WEA5
Length   1753 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1753 a.a.        Molecular weight: 190808.90 Da        Isoelectric Point: 6.2081

>WP_004153029.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacteriaceae]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMDERWQGKGAEALGIDGKAVDKALFTELLKGKLPDGSDLTRI
QDGANRHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVTEAVRQLETLAATRVMTDGKSETVLTGNL
IVAKFNHDTNRNQEPQIHTHAVVINATQNGDKWQSLGTDKIGKTGFIENVYANQIAFGKLYREAFKPLVE
KLGYETEVVGKHGMWEMKGVPVEPFSTRSQEVREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMN
TLKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLE
AKDGVFDLARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVP
FSDAVSVLAQDRLVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVT
GKSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTY
RWQGGQQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKD
TTITALTPVWLDSKSRGVRDYYREGMVMERWDPENRTHDRFVIDRVTASSNMLTLKDRDGVRLDLKVSAV
DSQWTLFRAETLPVAEGERLAVLGKIPDTRLKGGESITVMKVEEGQLTVQRPGQKTTQTLAVGAGVFDGI
KIGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSE
QLKSRSGETDLDAAIAQQKAGLHTPAEQAIHLAIPLLESQDLTFSRPQLLATAMETGGGKVSMADIDTTI
QAQIRSGQLLNVPVAHGYGNDLLISRQTWDAEKSILTHVLEGKDAVAPLMDRVPASLMTDLTAGQRAATR
MILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLH
DTQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIVAGGGRAVSSGDNDQLQPIAPGQPFRLMQQR
SAADVAIMKEIVRQMPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGAWAPGSSVVEFTPKQEKAIE
KALSEGKTLPEGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITL
PVLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSEGKERFISPREASAEGVTL
YRQEKITVSQGDRMRFSKSDPERGYVANSIWEVQSVSGDSVTLSDGKITRTLTPKAEQAQQHIDLAYAIT
AHGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDNREGWIKAIKNSPEKATAHDILE
PRNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGSSPGKFISPGKKYPQPHVALPAFDKNGKAAGI
WLSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDR
PWNPGAMTGGRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKKAEQTAREMAGEARKAGEP
ADRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEEAIQQVASERLQRERLQAVERDMVRDLNREKTL
GGD

  Protein domains


Predicted by InterproScan.

DNA helicase TraI (TraI_C)

(1433-1555)

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

(577-629)

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

(635-714)

AAA domain (AAA_30)

(971-1157)

TrwC relaxase (TrwC)

(10-284)


  Protein structure



No available structure.




T4CP

ID   14833 GenBank   WP_004152630
Name   traD_LGM26_RS25730_pKqs_09A323_1 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: 85951.02 Da        Isoelectric Point: 5.0632

>WP_004152630.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTGFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSREIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKITEGFIPRRLDTRVDARLSALLEEREAEGSLARALFTPDAPASGPADTDSHAGEQPEPVSQPA
PADMTVSPAPVKAPPTTKMPAAEPSVRATEPPVLRVTTVPLIKPKAAAAAAAASTASSAGIPAAAAGGTE
QELAQQSAEQGQDMLPAGMNEDGVIEDMQAYDAWADEQTQRDMQRREEVNINHSHRHDEQDDVEIGGNF

  Protein domains


Predicted by InterproScan.

F sex factor protein N terminal (TraD_N)

(32-128)

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

(172-560)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 142196..170614

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
LGM26_RS25730 (LGM26_25730) 142196..144505 - 2310 WP_004152630 type IV conjugative transfer system coupling protein TraD virb4
LGM26_RS25735 (LGM26_25735) 144865..145596 - 732 WP_004152629 conjugal transfer complement resistance protein TraT -
LGM26_RS25740 (LGM26_25740) 145786..146313 - 528 WP_004153030 hypothetical protein -
LGM26_RS25745 (LGM26_25745) 146319..149168 - 2850 WP_004178054 conjugal transfer mating-pair stabilization protein TraG traG
LGM26_RS25750 (LGM26_25750) 149168..150538 - 1371 WP_004178055 conjugal transfer pilus assembly protein TraH traH
LGM26_RS25755 (LGM26_25755) 150525..150953 - 429 WP_004152689 hypothetical protein -
LGM26_RS25760 (LGM26_25760) 150946..151518 - 573 WP_004152688 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
LGM26_RS25765 (LGM26_25765) 151490..151729 - 240 WP_004152687 type-F conjugative transfer system pilin chaperone TraQ -
LGM26_RS25770 (LGM26_25770) 151740..152492 - 753 WP_004152686 type-F conjugative transfer system pilin assembly protein TraF traF
LGM26_RS25775 (LGM26_25775) 152513..152839 - 327 WP_004152685 hypothetical protein -
LGM26_RS26665 152885..153070 - 186 WP_004152684 hypothetical protein -
LGM26_RS25780 (LGM26_25780) 153067..153303 - 237 WP_004152683 conjugal transfer protein TrbE -
LGM26_RS25785 (LGM26_25785) 153335..155290 - 1956 WP_004153093 type-F conjugative transfer system mating-pair stabilization protein TraN traN
LGM26_RS25790 (LGM26_25790) 155338..155976 - 639 WP_004152682 type-F conjugative transfer system pilin assembly protein TrbC trbC
LGM26_RS25795 (LGM26_25795) 155989..156948 - 960 WP_015065634 conjugal transfer pilus assembly protein TraU traU
LGM26_RS25800 (LGM26_25800) 156992..157618 - 627 WP_004152590 type-F conjugative transfer system protein TraW traW
LGM26_RS25805 (LGM26_25805) 157618..158007 - 390 WP_004152591 type-F conjugative transfer system protein TrbI -
LGM26_RS25810 (LGM26_25810) 158007..160646 - 2640 WP_004152592 type IV secretion system protein TraC virb4
LGM26_RS25815 (LGM26_25815) 160718..161116 - 399 WP_004153071 hypothetical protein -
LGM26_RS25820 (LGM26_25820) 161412..161816 - 405 WP_004152594 hypothetical protein -
LGM26_RS25825 (LGM26_25825) 161883..162200 - 318 WP_004152595 hypothetical protein -
LGM26_RS25830 (LGM26_25830) 162201..162419 - 219 WP_004171484 hypothetical protein -
LGM26_RS25835 (LGM26_25835) 162443..162733 - 291 WP_004152596 hypothetical protein -
LGM26_RS25840 (LGM26_25840) 162738..163148 - 411 WP_004152597 lipase chaperone -
LGM26_RS25845 (LGM26_25845) 163280..163849 - 570 WP_004152598 type IV conjugative transfer system lipoprotein TraV traV
LGM26_RS25850 (LGM26_25850) 163872..164468 - 597 WP_004152599 conjugal transfer pilus-stabilizing protein TraP -
LGM26_RS25855 (LGM26_25855) 164461..165885 - 1425 WP_004152600 F-type conjugal transfer pilus assembly protein TraB traB
LGM26_RS25860 (LGM26_25860) 165885..166625 - 741 WP_004152601 type-F conjugative transfer system secretin TraK traK
LGM26_RS25865 (LGM26_25865) 166612..167178 - 567 WP_004152602 type IV conjugative transfer system protein TraE traE
LGM26_RS25870 (LGM26_25870) 167198..167503 - 306 WP_004178059 type IV conjugative transfer system protein TraL traL
LGM26_RS25875 (LGM26_25875) 167517..167885 - 369 WP_004178060 type IV conjugative transfer system pilin TraA -
LGM26_RS25880 (LGM26_25880) 167939..168310 - 372 WP_004208838 TraY domain-containing protein -
LGM26_RS25885 (LGM26_25885) 168394..169089 - 696 WP_004178061 transcriptional regulator TraJ family protein -
LGM26_RS25890 (LGM26_25890) 169303..169695 - 393 WP_004178062 conjugal transfer relaxosome DNA-binding protein TraM -
LGM26_RS25895 (LGM26_25895) 170129..170614 + 486 WP_004178063 transglycosylase SLT domain-containing protein virB1
LGM26_RS25900 (LGM26_25900) 170647..170976 - 330 WP_011977736 DUF5983 family protein -
LGM26_RS25905 (LGM26_25905) 171009..171830 - 822 WP_004178064 DUF932 domain-containing protein -
LGM26_RS25910 (LGM26_25910) 172664..173077 - 414 WP_004152722 type II toxin-antitoxin system HigA family antitoxin -
LGM26_RS25915 (LGM26_25915) 173078..173356 - 279 WP_004152721 helix-turn-helix transcriptional regulator -
LGM26_RS25920 (LGM26_25920) 173346..173666 - 321 WP_004152720 type II toxin-antitoxin system RelE/ParE family toxin -
LGM26_RS25925 (LGM26_25925) 173747..173971 - 225 WP_004152719 hypothetical protein -
LGM26_RS25930 (LGM26_25930) 173982..174194 - 213 WP_004152718 hypothetical protein -
LGM26_RS25935 (LGM26_25935) 174255..174611 - 357 WP_004152717 hypothetical protein -
LGM26_RS25940 (LGM26_25940) 175247..175597 - 351 WP_004152758 hypothetical protein -

Host bacterium

ID   20485 GenBank   NZ_CP084784
Plasmid name   pKqs_09A323_1 Incompatibility group   IncFIB
Plasmid size   195396 bp Coordinate of oriT [Strand]   170007..170056 [+]
Host baterium   Klebsiella quasipneumoniae subsp. similipneumoniae strain 09A323

Cargo genes

Drug resistance gene   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, arsH, arsC, arsB, arsA, arsD, arsR, fecD, fecE
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIE9