Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   104587
Name   oriT_STIN_90|unnamed1 in_silico
Organism   Klebsiella pneumoniae strain STIN_90
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP054985 (205785..205834 [+], 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_STIN_90|unnamed1
AAATCTGCAAAATTTTAATTTTGCGTAGTGTGTGGTCATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3301 GenBank   WP_032448280
Name   traI_HUZ59_RS26685_STIN_90|unnamed1 insolico UniProt ID   _
Length   1752 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1752 a.a.        Molecular weight: 190581.22 Da        Isoelectric Point: 5.9995

>WP_032448280.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacteriaceae]
MLSFSQVKSAGSAGNYYTEKDNYYVIGSMEERWQGKGAELLGLEGKVDKQVFTELLQGKLPDGSDLTRIQ
DGVNKHRPGYDLTFSAPKSVSMLAMLGGDKRLIDAHNRAVTVALNQVESLASTRVKKDGVSETVLTGNLI
IARFNHDTSRAQDPQIHTHSVVINATQNGDKWLTLASDTVGKTGFSETILANRIAFGKIYQNSLRADVES
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)

TrwC relaxase (TrwC)

(11-283)

AAA domain (AAA_30)

(970-1156)

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

(634-713)

DNA helicase TraI (TraI_C)

(1432-1554)


  Protein structure



No available structure.




T4CP

ID   3240 GenBank   WP_013214038
Name   traD_HUZ59_RS26690_STIN_90|unnamed1 insolico UniProt ID   _
Length   770 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 770 a.a.        Molecular weight: 86010.07 Da        Isoelectric Point: 5.1787

>WP_013214038.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacterales]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTSFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDAPASGPADTNSHAGEQPEPVSQPA
PADMTVSPEPVKAPPTIKRPAAEPSVRTTEPSVLRVTTVPLIKPKAAAAAAAASTASSSGAPATAAGGTQ
QELAQQSAEQGQDMLPAGMNEDGVIEDMQAYDAWLADEQTQRDMQRREEVNINHSHRHDEQDDVEIGGNF

  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: 176413..206392

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HUZ59_RS26690 (HUZ59_26640) 176413..178725 - 2313 WP_013214038 type IV conjugative transfer system coupling protein TraD virb4
HUZ59_RS26695 (HUZ59_26645) 178852..179541 - 690 WP_013023831 hypothetical protein -
HUZ59_RS26700 (HUZ59_26650) 179734..180465 - 732 WP_016831056 conjugal transfer complement resistance protein TraT -
HUZ59_RS26705 (HUZ59_26655) 180717..181319 - 603 WP_013214035 conjugal transfer protein TraS -
HUZ59_RS26710 (HUZ59_26660) 181342..184164 - 2823 WP_013214034 conjugal transfer mating-pair stabilization protein TraG traG
HUZ59_RS26715 (HUZ59_26665) 184164..185543 - 1380 WP_074160414 conjugal transfer pilus assembly protein TraH traH
HUZ59_RS26720 (HUZ59_26670) 185521..185964 - 444 WP_013214032 F-type conjugal transfer protein TrbF -
HUZ59_RS26725 (HUZ59_26675) 186010..186567 - 558 WP_013214031 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
HUZ59_RS26730 (HUZ59_26680) 186539..186778 - 240 WP_004144400 type-F conjugative transfer system pilin chaperone TraQ -
HUZ59_RS26735 (HUZ59_26685) 186789..187541 - 753 WP_004152677 type-F conjugative transfer system pilin assembly protein TraF traF
HUZ59_RS26740 (HUZ59_26690) 187562..187888 - 327 WP_004152676 hypothetical protein -
HUZ59_RS26745 (HUZ59_26695) 187901..188149 - 249 WP_004152675 hypothetical protein -
HUZ59_RS26750 (HUZ59_26700) 188127..188381 - 255 WP_004152674 conjugal transfer protein TrbE -
HUZ59_RS26755 (HUZ59_26705) 188413..190368 - 1956 WP_159174219 type-F conjugative transfer system mating-pair stabilization protein TraN traN
HUZ59_RS26760 (HUZ59_26710) 190427..191074 - 648 WP_015632510 type-F conjugative transfer system pilin assembly protein TrbC trbC
HUZ59_RS26765 (HUZ59_26715) 191153..191329 - 177 WP_162866177 hypothetical protein -
HUZ59_RS26770 (HUZ59_26720) 191350..192339 - 990 WP_032439620 conjugal transfer pilus assembly protein TraU traU
HUZ59_RS26775 (HUZ59_26725) 192336..192737 - 402 WP_016831047 hypothetical protein -
HUZ59_RS26780 (HUZ59_26730) 192772..193407 - 636 WP_210763749 type-F conjugative transfer system protein TraW traW
HUZ59_RS26785 (HUZ59_26735) 193407..193796 - 390 WP_004167468 type-F conjugative transfer system protein TrbI -
HUZ59_RS26790 (HUZ59_26740) 193796..196435 - 2640 WP_032448278 type IV secretion system protein TraC virb4
HUZ59_RS26795 (HUZ59_26745) 196507..196905 - 399 WP_023158008 hypothetical protein -
HUZ59_RS26800 (HUZ59_26750) 196913..197302 - 390 WP_239619442 hypothetical protein -
HUZ59_RS26805 (HUZ59_26755) 197345..197749 - 405 WP_016831042 hypothetical protein -
HUZ59_RS26810 (HUZ59_26760) 197816..198128 - 313 Protein_198 hypothetical protein -
HUZ59_RS26815 (HUZ59_26765) 198129..198347 - 219 WP_014386199 hypothetical protein -
HUZ59_RS26820 (HUZ59_26770) 198307..198621 - 315 WP_032448277 hypothetical protein -
HUZ59_RS26825 (HUZ59_26775) 198626..199036 - 411 WP_014386197 hypothetical protein -
HUZ59_RS26830 (HUZ59_26780) 199167..199751 - 585 WP_014386196 type IV conjugative transfer system lipoprotein TraV traV
HUZ59_RS26835 (HUZ59_26785) 199798..200370 - 573 WP_014386195 conjugal transfer pilus-stabilizing protein TraP -
HUZ59_RS26840 (HUZ59_26790) 200363..201787 - 1425 WP_014386194 F-type conjugal transfer pilus assembly protein TraB traB
HUZ59_RS26845 (HUZ59_26795) 201787..202527 - 741 WP_014386193 type-F conjugative transfer system secretin TraK traK
HUZ59_RS26850 (HUZ59_26800) 202514..203080 - 567 WP_004152602 type IV conjugative transfer system protein TraE traE
HUZ59_RS26855 (HUZ59_26805) 203100..203405 - 306 WP_004144424 type IV conjugative transfer system protein TraL traL
HUZ59_RS26860 (HUZ59_26810) 203419..203787 - 369 WP_004194426 type IV conjugative transfer system pilin TraA -
HUZ59_RS26865 (HUZ59_26815) 203849..204055 - 207 WP_171773970 TraY domain-containing protein -
HUZ59_RS26870 (HUZ59_26820) 204188..204907 - 720 WP_014386192 conjugal transfer protein -
HUZ59_RS26875 (HUZ59_26825) 205100..205516 - 417 WP_072145360 conjugal transfer relaxosome DNA-binding protein TraM -
HUZ59_RS26880 (HUZ59_26830) 205907..206392 + 486 WP_004178063 transglycosylase SLT domain-containing protein virB1
HUZ59_RS26885 (HUZ59_26835) 206425..206754 - 330 WP_011977736 DUF5983 family protein -
HUZ59_RS26890 (HUZ59_26840) 206787..207608 - 822 WP_004152492 DUF932 domain-containing protein -
HUZ59_RS26895 (HUZ59_26845) 208441..208854 - 414 WP_013023817 helix-turn-helix domain-containing protein -
HUZ59_RS26900 (HUZ59_26850) 208855..209133 - 279 WP_004152721 helix-turn-helix transcriptional regulator -
HUZ59_RS26905 (HUZ59_26855) 209123..209443 - 321 WP_004152720 type II toxin-antitoxin system RelE/ParE family toxin -
HUZ59_RS26910 (HUZ59_26860) 209524..209748 - 225 WP_014386189 hypothetical protein -
HUZ59_RS26915 (HUZ59_26865) 209759..209971 - 213 WP_014386188 hypothetical protein -
HUZ59_RS26920 (HUZ59_26870) 210033..210359 - 327 WP_014386187 hypothetical protein -

Host bacterium

ID   5026 GenBank   NZ_CP054985
Plasmid name   STIN_90|unnamed1 Incompatibility group   IncFIB
Plasmid size   221140 bp Coordinate of oriT [Strand]   205785..205834 [+]
Host baterium   Klebsiella pneumoniae strain STIN_90

Cargo genes

Drug resistance gene   -
Virulence gene   iutA, iucD, iucC, iucB, iucA
Metal resistance gene   silE, silS, silR, silC, silF, silB, silA, silP, pcoA, pcoB, pcoC, pcoD, pcoR, pcoS, pcoE, arsR, arsD, arsA, arsB, arsC, fecD, fecE
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -