Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   121648
Name   oriT_2022CK-00499|unnamed1 in_silico
Organism   Klebsiella oxytoca strain 2022CK-00499
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP114309 (213390..213439 [+], 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_2022CK-00499|unnamed1
AAATCTGCAAAATTTTAATTTTGCGTAGTGTGTGGTCATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   13656 GenBank   WP_040224080
Name   traI_OEE41_RS28700_2022CK-00499|unnamed1 insolico UniProt ID   A0A7W3BA55
Length   1752 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1752 a.a.        Molecular weight: 190352.82 Da        Isoelectric Point: 5.9133

>WP_040224080.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacterales]
MLSFSQVKSAGSAGNYYTDKDNYYVIGSMDERWQGKGAEALGLEGKVDKQVFTELLQGKLPDGSDLTRIQ
DGVNKHRPGYDLTFSAPKSVSMLAMLGGDKRLIDAHNRAVTVALNQVESLASTRVKRDGVSETVLTGNLI
IARFNHDTSRAQDPQIHTHSVVINATQNGDKWQTLASDTVGKTGFSETILANRIAFGKIYQNSLRADVES
MGYKTVDAGKNGMWEMEGVPVESFSTRSQELREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMNT
LKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLEA
KDGVFELARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVPF
SDAVSVLAQDRPVIGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVTG
KSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTYR
WQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKDT
TITALTPVWLDSKSRGVRDYYREGMVMERWDPETRTHDRFVIDRVTASSNMLTLKDREGDRLDLKVSAVD
SQWTLFRADTLPVAEGERLAVLGKIPDTRLKGGESVTVMNVEDGQLTVQRPGQKTTQTLAVGAGVFDGIK
VGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSEQ
LKSRSGETDLDAAIAQQKAGLHTPAEQAIHLAIPLLESQDLTFSRPQLLATAMETGGGKVSMADIDTTIQ
AQIRSGQLLNVPVAPGRGNDLLISRQAWDAEKSILTRVLEGKDAVAPLMDRVPDSLMTELTAGQRAATRM
ILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLHD
TQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIAAGGGRAVPSGDTDQLPPIASGQPFRLTQQRS
AADVAIMKEIVRQVPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGAWAPGSSVVEFTQKQEKEIEK
ALSEGKTLPEGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITLP
VLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSEGKERFISPREASAEGVTLY
RQEKITVSQGDRMRFSKSDPERGYVANSIWEVQSVSGDSVTLSDGKITRTLTPKAEQAQQHIDLAYAITA
HGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDNREGWIKAIKNSPEKATAHDILEP
RNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGSSPGKFISPGKKYPQPHVALPAFDKNGKAAGIW
LSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDRP
WNPGAMTGGRVWADPAPVGPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEPA
DRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEAAIQQVASETLQRERLQAVERDMVRDLNREKTLG
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)

(969-1156)

TrwC relaxase (TrwC)

(10-283)

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

(634-713)


  Protein structure



No available structure.




T4CP

ID   15960 GenBank   WP_023329042
Name   traD_OEE41_RS28705_2022CK-00499|unnamed1 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: 85943.90 Da        Isoelectric Point: 5.0577

>WP_023329042.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacterales]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTSFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDDDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSREIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIQRRLDTRVDARLSALLEARESEGSLARTLFMPDAPASGPADTNSHAGEQPEPISQPA
PADMTVSPAPVKAPPTTKSPAAEPSVRATEPPVLRVTTVPLIKPKAAAAATAASTASSAGAPAAAAGGTE
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: 184753..213997

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
OEE41_RS28705 (OEE41_28700) 184753..187062 - 2310 WP_023329042 type IV conjugative transfer system coupling protein TraD virb4
OEE41_RS28710 (OEE41_28705) 187420..188151 - 732 WP_004152629 conjugal transfer complement resistance protein TraT -
OEE41_RS28715 (OEE41_28710) 188341..188868 - 528 WP_029498351 conjugal transfer protein TraS -
OEE41_RS28720 (OEE41_28715) 188874..191723 - 2850 WP_023329044 conjugal transfer mating-pair stabilization protein TraG traG
OEE41_RS28725 (OEE41_28720) 191723..193102 - 1380 WP_023158000 conjugal transfer pilus assembly protein TraH traH
OEE41_RS28730 (OEE41_28725) 193080..193523 - 444 WP_023158001 F-type conjugal transfer protein TrbF -
OEE41_RS28735 (OEE41_28730) 193569..194126 - 558 WP_023158002 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
OEE41_RS28740 (OEE41_28735) 194098..194337 - 240 WP_023158003 type-F conjugative transfer system pilin chaperone TraQ -
OEE41_RS28745 (OEE41_28740) 194348..195100 - 753 WP_015065535 type-F conjugative transfer system pilin assembly protein TraF traF
OEE41_RS28750 (OEE41_28745) 195121..195447 - 327 WP_015065534 hypothetical protein -
OEE41_RS28755 (OEE41_28750) 195460..195708 - 249 WP_004152675 hypothetical protein -
OEE41_RS28760 (OEE41_28755) 195686..195940 - 255 WP_015065558 conjugal transfer protein TrbE -
OEE41_RS28765 (OEE41_28760) 195972..197927 - 1956 WP_015065533 type-F conjugative transfer system mating-pair stabilization protein TraN traN
OEE41_RS28770 (OEE41_28765) 197986..198633 - 648 WP_015632510 type-F conjugative transfer system pilin assembly protein TrbC trbC
OEE41_RS28775 (OEE41_28770) 198712..198888 - 177 WP_162866177 hypothetical protein -
OEE41_RS28780 (OEE41_28775) 198909..199898 - 990 WP_015632509 conjugal transfer pilus assembly protein TraU traU
OEE41_RS28785 (OEE41_28780) 199895..200296 - 402 WP_023158005 hypothetical protein -
OEE41_RS28790 (OEE41_28785) 200331..200966 - 636 WP_023158006 type-F conjugative transfer system protein TraW traW
OEE41_RS28795 (OEE41_28790) 200966..201355 - 390 WP_004167468 type-F conjugative transfer system protein TrbI -
OEE41_RS28800 (OEE41_28795) 201355..203994 - 2640 WP_023158007 type IV secretion system protein TraC virb4
OEE41_RS28805 (OEE41_28800) 204066..204464 - 399 WP_023158008 hypothetical protein -
OEE41_RS28810 (OEE41_28805) 204472..204861 - 390 WP_023158009 hypothetical protein -
OEE41_RS28815 (OEE41_28810) 204904..205308 - 405 WP_016831042 hypothetical protein -
OEE41_RS28820 (OEE41_28815) 205375..205686 - 312 WP_014386200 hypothetical protein -
OEE41_RS28825 (OEE41_28820) 205687..205905 - 219 WP_014386199 hypothetical protein -
OEE41_RS28830 (OEE41_28825) 205929..206218 - 290 Protein_218 hypothetical protein -
OEE41_RS28835 (OEE41_28830) 206223..206633 - 411 WP_016831039 hypothetical protein -
OEE41_RS28840 (OEE41_28835) 206765..207349 - 585 WP_014386196 type IV conjugative transfer system lipoprotein TraV traV
OEE41_RS28845 (OEE41_28840) 207372..207968 - 597 Protein_221 conjugal transfer pilus-stabilizing protein TraP -
OEE41_RS28850 (OEE41_28845) 207961..209385 - 1425 WP_023158013 F-type conjugal transfer pilus assembly protein TraB traB
OEE41_RS28855 (OEE41_28850) 209385..210125 - 741 WP_014386193 type-F conjugative transfer system secretin TraK traK
OEE41_RS28860 (OEE41_28855) 210112..210678 - 567 WP_016831035 type IV conjugative transfer system protein TraE traE
OEE41_RS28865 (OEE41_28860) 210698..211003 - 306 WP_004144424 type IV conjugative transfer system protein TraL traL
OEE41_RS28870 (OEE41_28865) 211017..211385 - 369 WP_004194426 type IV conjugative transfer system pilin TraA -
OEE41_RS28875 (OEE41_28870) 211447..211653 - 207 WP_171773970 TraY domain-containing protein -
OEE41_RS28880 (OEE41_28875) 211786..212505 - 720 WP_016831034 conjugal transfer protein TrbJ -
OEE41_RS28885 (OEE41_28880) 212705..213121 - 417 WP_072145360 conjugal transfer relaxosome DNA-binding protein TraM -
OEE41_RS28890 (OEE41_28885) 213512..213997 + 486 WP_004178063 transglycosylase SLT domain-containing protein virB1
OEE41_RS28895 (OEE41_28890) 214030..214359 - 330 WP_011977736 DUF5983 family protein -
OEE41_RS28900 (OEE41_28895) 214392..215213 - 822 WP_004182076 DUF932 domain-containing protein -
OEE41_RS28905 (OEE41_28900) 216046..216459 - 414 WP_004182074 type II toxin-antitoxin system HigA family antitoxin -
OEE41_RS28910 (OEE41_28905) 216460..216738 - 279 WP_004152721 helix-turn-helix transcriptional regulator -
OEE41_RS28915 (OEE41_28910) 216728..217048 - 321 WP_004152720 type II toxin-antitoxin system RelE/ParE family toxin -
OEE41_RS28920 (OEE41_28915) 217129..217353 - 225 WP_201501037 hypothetical protein -
OEE41_RS28925 (OEE41_28920) 217364..217576 - 213 WP_004182070 hypothetical protein -
OEE41_RS28930 (OEE41_28925) 217637..217993 - 357 WP_004152717 hypothetical protein -
OEE41_RS28935 (OEE41_28930) 218629..218979 - 351 WP_004182068 hypothetical protein -

Host bacterium

ID   22075 GenBank   NZ_CP114309
Plasmid name   2022CK-00499|unnamed1 Incompatibility group   IncFIB
Plasmid size   246621 bp Coordinate of oriT [Strand]   213390..213439 [+]
Host baterium   Klebsiella oxytoca strain 2022CK-00499

Cargo genes

Drug resistance gene   aph(6)-Id, aph(3'')-Ib
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, merR2, merT, merP, merF, merA, merD, merE
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIE9