Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101460
Name   oriT_pIncFIIK in_silico
Organism   Klebsiella pneumoniae strain CI13_K
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_JAIUIZ010000022 (59721..59770 [+], 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_pIncFIIK
AAATCTGCAAAATTTTAATTTTGCGTAGTGTGTGGTCATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1314 GenBank   WP_014386206
Name   traI_LB242_RS24455_pIncFIIK insolico UniProt ID   G7RVC9
Length   1752 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1752 a.a.        Molecular weight: 190526.05 Da        Isoelectric Point: 5.9990

>WP_014386206.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacterales]
MLSFSQVKSAGSAGNYYTDKDNYYVIGSMDERWQGKGAEALGLEGKVDKQVFTELLQGKLPDGSDLTRIQ
DGVNKHRPGYDLTFSAPKSVSMLAMLGGDKRLIDAHNRAVTVALNQVESLASTRVKKDGVSETVLTGNLI
IARFNHDTSRAQDPQIHTHSVVINATQNGDKWQTLASDTVGKTGFSETILANRIAFGKIYQNSLRADVES
MGYKTVDAGRNGMWEMEGVPVESFSTRSQELREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMNT
LKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLEA
KDGVFELARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVPF
SDAVSVLAQDRPVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVTG
KSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTYR
WQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKDT
TITALTPVWLDSKSRGVRDYYREGMVMERWDPETRTHDRFVIDRVTASSNMLTLKDREGDRLDLKVSAVD
SQWTLFRADTLPVAEGERLAVLGKIPDTRLKGGESVTVMKVEDGQLTVQRPGQKTTQTLAVGAGVFDGIK
VGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSEQ
LKSRSGETDLDAAIAQQKAGLHTPAEQAIHLAIPLLESQDLTFSRPQLLATAMETGGGKVSMADIDTTIQ
AQIRSGQLLNVPVAHGYGNDLLISRQTWDAEKSILTHVLEGKDAVAPLMDRVPASLMTDLTAGQRAATRM
ILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLHD
TQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIAAGGGRAVPSGDTDQLPPIASGQPFRLTQQRS
AADVAIMKEIVRQVPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGAWAPGSSVVEFTQKQEKEIEK
ALSEGKTLPEGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITLP
VLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSEGKERFISPREASAEGVTLY
RQEKITVSQGDRMRFSKSDPERGYVANSIWEVQSVSGDSVTLSDGKITRTLTPKAEQAQQHIDLAYAITA
HGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDNREGWIKAIKNSPEKATAHDILEP
RNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGSSPGKFISPGKKYPQPHVALPAFDKNGKAAGIW
LSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDRP
WNPGAMTGGRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEPA
DRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEEAIQQVASERLQRERLQAVERDMVRDLNREKTLG
GD

  Protein domains


Predicted by InterproScan.

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

(576-628)

DNA helicase TraI (TraI_C)

(1432-1554)

AAA domain (AAA_30)

(970-1156)

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

(634-713)

TrwC relaxase (TrwC)

(10-283)


  Protein structure



No available structure.




T4CP

ID   932 GenBank   WP_014386205
Name   traD_LB242_RS24460_pIncFIIK 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: 85924.97 Da        Isoelectric Point: 5.1787

>WP_014386205.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacterales]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTSFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDAPASGPADTNSHAGEQPEPVSQPA
PADMTVSPEPVKAPPTIKRPAAEPSVRTTEPSVLRVTTVPLIKPKAAVAAAAASTASSSGAPATAAGGTQ
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: 30649..60328

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
LB242_RS24460 (LB242_24480) 30649..32958 - 2310 WP_014386205 type IV conjugative transfer system coupling protein TraD virb4
LB242_RS24465 (LB242_24485) 33085..33774 - 690 WP_014343485 hypothetical protein -
LB242_RS24470 (LB242_24490) 33967..34698 - 732 WP_013214036 conjugal transfer complement resistance protein TraT -
LB242_RS24475 (LB242_24495) 34949..35551 - 603 WP_013214035 conjugal transfer protein TraS -
LB242_RS24480 (LB242_24500) 35574..38396 - 2823 WP_013214034 conjugal transfer mating-pair stabilization protein TraG traG
LB242_RS24485 (LB242_24505) 38396..39775 - 1380 WP_268199485 conjugal transfer pilus assembly protein TraH traH
LB242_RS24490 (LB242_24510) 39753..40196 - 444 WP_013214032 F-type conjugal transfer protein TrbF -
LB242_RS24495 (LB242_24515) 40242..40799 - 558 WP_013214031 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
LB242_RS24500 (LB242_24520) 40771..41010 - 240 WP_032440623 type-F conjugative transfer system pilin chaperone TraQ -
LB242_RS24505 (LB242_24525) 41021..41773 - 753 WP_004152677 type-F conjugative transfer system pilin assembly protein TraF traF
LB242_RS24510 (LB242_24530) 41794..42120 - 327 WP_013214030 hypothetical protein -
LB242_RS24515 (LB242_24535) 42133..42381 - 249 WP_013214029 hypothetical protein -
LB242_RS24520 (LB242_24540) 42359..42613 - 255 WP_004152674 conjugal transfer protein TrbE -
LB242_RS24525 (LB242_24545) 42645..44600 - 1956 WP_014343489 type-F conjugative transfer system mating-pair stabilization protein TraN traN
LB242_RS24530 (LB242_24550) 44659..45297 - 639 WP_004193871 type-F conjugative transfer system pilin assembly protein TrbC trbC
LB242_RS24535 (LB242_24555) 45310..46299 - 990 WP_013214027 conjugal transfer pilus assembly protein TraU traU
LB242_RS24540 (LB242_24560) 46296..46697 - 402 WP_004194979 hypothetical protein -
LB242_RS24545 (LB242_24565) 46732..47367 - 636 WP_013214026 type-F conjugative transfer system protein TraW traW
LB242_RS24550 (LB242_24570) 47367..47756 - 390 WP_013214025 type-F conjugative transfer system protein TrbI -
LB242_RS24555 (LB242_24575) 47756..50395 - 2640 WP_013214024 type IV secretion system protein TraC virb4
LB242_RS24560 (LB242_24580) 50467..50865 - 399 WP_014343490 hypothetical protein -
LB242_RS24565 (LB242_24585) 51230..51646 - 417 WP_032408906 hypothetical protein -
LB242_RS24570 (LB242_24590) 51713..52024 - 312 WP_014386200 hypothetical protein -
LB242_RS24575 (LB242_24595) 52025..52243 - 219 WP_014386199 hypothetical protein -
LB242_RS24580 (LB242_24600) 52267..52557 - 291 WP_014386198 hypothetical protein -
LB242_RS24585 (LB242_24605) 52562..52972 - 411 WP_014386197 hypothetical protein -
LB242_RS24590 (LB242_24610) 53103..53687 - 585 WP_014386196 type IV conjugative transfer system lipoprotein TraV traV
LB242_RS24595 (LB242_24615) 53734..54306 - 573 WP_014386195 conjugal transfer pilus-stabilizing protein TraP -
LB242_RS24600 (LB242_24620) 54299..55723 - 1425 WP_014386194 F-type conjugal transfer pilus assembly protein TraB traB
LB242_RS24605 (LB242_24625) 55723..56463 - 741 WP_014386193 type-F conjugative transfer system secretin TraK traK
LB242_RS24610 (LB242_24630) 56450..57016 - 567 WP_004152602 type IV conjugative transfer system protein TraE traE
LB242_RS24615 (LB242_24635) 57036..57341 - 306 WP_004144424 type IV conjugative transfer system protein TraL traL
LB242_RS24620 (LB242_24640) 57355..57723 - 369 WP_004194426 type IV conjugative transfer system pilin TraA -
LB242_RS24625 (LB242_24645) 57785..57991 - 207 WP_171773970 TraY domain-containing protein -
LB242_RS24630 (LB242_24650) 58124..58843 - 720 WP_014386192 conjugal transfer protein -
LB242_RS24635 (LB242_24655) 59036..59452 - 417 WP_072145360 conjugal transfer relaxosome DNA-binding protein TraM -
LB242_RS24640 (LB242_24660) 59843..60328 + 486 WP_004178063 transglycosylase SLT domain-containing protein virB1
LB242_RS24645 (LB242_24665) 60361..60690 - 330 WP_014386191 DUF5983 family protein -
LB242_RS24650 (LB242_24670) 60723..61544 - 822 WP_004182076 DUF932 domain-containing protein -
LB242_RS24655 (LB242_24675) 62377..62790 - 414 WP_013023817 helix-turn-helix domain-containing protein -
LB242_RS24660 (LB242_24680) 62791..63069 - 279 WP_004152721 helix-turn-helix transcriptional regulator -
LB242_RS24665 (LB242_24685) 63059..63379 - 321 WP_014386190 type II toxin-antitoxin system RelE/ParE family toxin -
LB242_RS24670 (LB242_24690) 63460..63684 - 225 WP_014386189 hypothetical protein -
LB242_RS24675 (LB242_24695) 63695..63907 - 213 WP_014386188 hypothetical protein -
LB242_RS24680 (LB242_24700) 63969..64295 - 327 WP_014386187 hypothetical protein -
LB242_RS24685 (LB242_24705) 64932..65282 - 351 WP_014386186 hypothetical protein -

Host bacterium

ID   1904 GenBank   NZ_JAIUIZ010000022
Plasmid name   pIncFIIK Incompatibility group   IncFII
Plasmid size   91705 bp Coordinate of oriT [Strand]   59721..59770 [+]
Host baterium   Klebsiella pneumoniae strain CI13_K

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIE9