Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   104810
Name   oriT_p18-43_02 in_silico
Organism   Klebsiella pneumoniae subsp. pneumoniae strain ST2017:950142398
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP023555 (104135..104184 [-], 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_p18-43_02
AAATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTCATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3409 GenBank   WP_057171858
Name   traI_AN676_RS30005_p18-43_02 insolico UniProt ID   _
Length   1753 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1753 a.a.        Molecular weight: 190826.93 Da        Isoelectric Point: 6.2081

>WP_057171858.1 conjugative transfer relaxase/helicase TraI [Klebsiella pneumoniae]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMDERWQGKGAEALGIDGKAVDKALFTELLKGKLPDGSDLTRI
QDGANRHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVTEAVRQLETLAATRVMTDGKSETVLTGNL
IVAKFNHDTNRNQEPQIHTHAVVINATQNGDKWQSLGTDKIGKTGFIENVYANQIAFGKLYREAFKPLVE
KLGYETEVVGKHGMWEMKGVPVEPFSTRSQEVREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMN
TLKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLE
AKDGVFDLARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVP
FSDAVSVLAQDRLVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVT
GKSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTY
RWQGGQQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKD
TTITALTPVWLDSKSRGVRDYYREGMVMERWDPENRTHDRFVIDRVTASSNMLTLKDRDGVRLDLKVSAV
DSQWTLFRAETLPVAEGERLAVLGKIPDTRLKGGESITVMKVEEGQLTVQRPGQKTTQTLAVGAGVFDGI
KIGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSE
QLKSRSGETDLDAAIAQQKAGLHTPAEQAIHLAIPLLESQDLTFSRPQLLATAMETGGGKVSMADIDTTI
QAQIRSGQLLNVPVAHGYGNDLLISRQTWDAEKSILTHVLEGKDAVAPLMDRVPASLMTDLTAGQRAATR
MILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLH
DTQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIVAGGGRAVSSGDNDQLQPIAPGQPFRLMQQR
SAADVAIMKEIVRQMPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGAWAPGSSVVEFTPKQEKAIE
KALSEGKTLPEGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITL
PVLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSEGKERFISPREASAEGVTL
YRQEKITVSQGDRMRFSKSDPERGYVANSIWEVQSVSGDSVTLSDGKITRTLTPKAEQAQQHIDLAYAIT
AHGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDNREGWIKAIKNSPEKATAHDILE
PRNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGSSPGKFISPGKKYPQPHVALPAFDKNGKAAGI
WLSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDR
PWNPGAMTGGRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKKAEQTAREMAGEARKAGEP
ADRVKEVIGDVIRGMERDRPGTEKTTLPDDPQFRRQEEAIQQVASERLQRERLQAVERDMVRDLNREKTL
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   3347 GenBank   WP_004152630
Name   traD_AN676_RS30000_p18-43_02 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: 103577..131995

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
AN676_RS29760 (AN676_0329520) 98594..98944 + 351 WP_004152758 hypothetical protein -
AN676_RS29770 (AN676_0329535) 99580..99936 + 357 WP_004152717 hypothetical protein -
AN676_RS29775 (AN676_0329540) 99997..100209 + 213 WP_004152718 hypothetical protein -
AN676_RS29780 (AN676_0329545) 100220..100444 + 225 WP_004152719 hypothetical protein -
AN676_RS29785 (AN676_0329550) 100525..100845 + 321 WP_004152720 type II toxin-antitoxin system RelE/ParE family toxin -
AN676_RS29790 (AN676_0329555) 100835..101113 + 279 WP_004152721 helix-turn-helix transcriptional regulator -
AN676_RS29795 (AN676_0329560) 101114..101527 + 414 WP_004152722 helix-turn-helix domain-containing protein -
AN676_RS29815 (AN676_0329585) 102361..103182 + 822 WP_004178064 DUF932 domain-containing protein -
AN676_RS29820 (AN676_0329590) 103215..103544 + 330 WP_011977736 DUF5983 family protein -
AN676_RS29825 (AN676_0329595) 103577..104062 - 486 WP_004178063 transglycosylase SLT domain-containing protein virB1
AN676_RS29830 (AN676_0329600) 104496..104888 + 393 WP_004178062 conjugal transfer relaxosome DNA-binding protein TraM -
AN676_RS29835 (AN676_0329605) 105102..105797 + 696 WP_004178061 transcriptional regulator TraJ family protein -
AN676_RS29840 (AN676_0329610) 105881..106252 + 372 WP_004208838 TraY domain-containing protein -
AN676_RS29845 (AN676_0329615) 106306..106674 + 369 WP_004178060 type IV conjugative transfer system pilin TraA -
AN676_RS29850 (AN676_0329620) 106688..106993 + 306 WP_004178059 type IV conjugative transfer system protein TraL traL
AN676_RS29855 (AN676_0329625) 107013..107579 + 567 WP_004152602 type IV conjugative transfer system protein TraE traE
AN676_RS29860 (AN676_0329630) 107566..108306 + 741 WP_004152601 type-F conjugative transfer system secretin TraK traK
AN676_RS29865 (AN676_0329635) 108306..109730 + 1425 WP_004152600 F-type conjugal transfer pilus assembly protein TraB traB
AN676_RS29870 (AN676_0329640) 109723..110319 + 597 WP_004152599 conjugal transfer pilus-stabilizing protein TraP -
AN676_RS29875 (AN676_0329645) 110342..110911 + 570 WP_057171856 type IV conjugative transfer system lipoprotein TraV traV
AN676_RS29880 (AN676_0329650) 111043..111453 + 411 WP_004152597 lipase chaperone -
AN676_RS29885 (AN676_0329655) 111458..111748 + 291 WP_004152596 hypothetical protein -
AN676_RS29890 (AN676_0329660) 111772..111990 + 219 WP_004171484 hypothetical protein -
AN676_RS29895 (AN676_0329665) 111991..112308 + 318 WP_004152595 hypothetical protein -
AN676_RS29900 (AN676_0329670) 112375..112779 + 405 WP_004152594 hypothetical protein -
AN676_RS29910 (AN676_0329680) 113075..113473 + 399 WP_004153071 hypothetical protein -
AN676_RS29915 (AN676_0329685) 113545..116184 + 2640 WP_004152592 type IV secretion system protein TraC virb4
AN676_RS29920 (AN676_0329690) 116184..116573 + 390 WP_004152591 type-F conjugative transfer system protein TrbI -
AN676_RS29925 (AN676_0329695) 116573..117199 + 627 WP_004152590 type-F conjugative transfer system protein TraW traW
AN676_RS29930 (AN676_0329700) 117243..118202 + 960 WP_239694243 conjugal transfer pilus assembly protein TraU traU
AN676_RS29935 (AN676_0329705) 118215..118853 + 639 WP_004152682 type-F conjugative transfer system pilin assembly protein TrbC trbC
AN676_RS29940 (AN676_0329710) 118901..120856 + 1956 WP_004153093 type-F conjugative transfer system mating-pair stabilization protein TraN traN
AN676_RS29945 (AN676_0329715) 120888..121124 + 237 WP_004152683 conjugal transfer protein TrbE -
AN676_RS32255 (AN676_0329720) 121121..121306 + 186 WP_004152684 hypothetical protein -
AN676_RS29955 (AN676_0329725) 121352..121678 + 327 WP_004152685 hypothetical protein -
AN676_RS29960 (AN676_0329730) 121699..122451 + 753 WP_004152686 type-F conjugative transfer system pilin assembly protein TraF traF
AN676_RS29965 (AN676_0329735) 122462..122701 + 240 WP_004152687 type-F conjugative transfer system pilin chaperone TraQ -
AN676_RS29970 (AN676_0329740) 122673..123245 + 573 WP_004152688 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
AN676_RS29975 (AN676_0329745) 123238..123666 + 429 WP_004152689 hypothetical protein -
AN676_RS29980 (AN676_0329750) 123653..125023 + 1371 WP_004178055 conjugal transfer pilus assembly protein TraH traH
AN676_RS29985 (AN676_0329755) 125023..127872 + 2850 WP_004178054 conjugal transfer mating-pair stabilization protein TraG traG
AN676_RS29990 (AN676_0329760) 127878..128405 + 528 WP_004153030 hypothetical protein -
AN676_RS29995 (AN676_0329765) 128595..129326 + 732 WP_004152629 conjugal transfer complement resistance protein TraT -
AN676_RS30000 (AN676_0329770) 129686..131995 + 2310 WP_004152630 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   5248 GenBank   NZ_CP023555
Plasmid name   p18-43_02 Incompatibility group   IncFIB
Plasmid size   169145 bp Coordinate of oriT [Strand]   104135..104184 [-]
Host baterium   Klebsiella pneumoniae subsp. pneumoniae strain ST2017:950142398

Cargo genes

Drug resistance gene   sul1, qacE, ant(3'')-Ia, dfrA1, aph(6)-Id, aph(3'')-Ib, sul2, blaCTX-M-15, aac(3)-IIa, blaOXA-1, aac(6')-Ib-cr, aac(6')-Ib, blaOXA-9, blaTEM-1A
Virulence gene   -
Metal resistance gene   merE, merD, merA, fecE, fecD
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIE9