Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   117749
Name   oriT_KPN029|unnamed2 in_silico
Organism   Klebsiella variicola strain KPN029
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP065164 (220437..220486 [+], 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_KPN029|unnamed2
AAATCTGCAAAATTTTAATTTTGCGTAGTGTGTGGTCATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   11282 GenBank   WP_015065542
Name   traI_I3U23_RS29690_KPN029|unnamed2 insolico UniProt ID   K7R3U7
Length   1752 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1752 a.a.        Molecular weight: 190318.03 Da        Isoelectric Point: 6.2890

>WP_015065542.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacterales]
MLSFSQVKSAGSAGNYYTEKDNYYVIGSMEERWQGKGAELLGLEGKVDKQVFTELLQGKLPDGSDLTRIQ
DGVNKHRPGYDLTFSAPKSVSMLAMLGGDKRLIDAHNRAVTVALNQVESLASTRVKKDGVSETVLTGNLI
IARFNHDTSRAQDPQIHTHSVVINATQNGDKWQTLASDTVGKTGFSETILANRIAFGKIYQNSLRADVES
MGYKTVDAGRNGMWEMEGVPVESFSTRSQELREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMNT
LKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLEA
KDGVFELARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVPF
SDAVSVLAQDRPVMGIVSGQGGATGQRERVAELTLMSREQGRDVHILAADNRSRDFLAGDVRLAGETVTG
KSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALAVLKDSGVNTYR
WQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKDT
TITALTPVWLDSKSRGVRDYYREGMVMERWDPENRTHDRFVIDRVTASSNMLTLKDREGGRLDLKVSAVD
SQWTLFRADTLPVAEGERLAVLGKIPDTRLKGGESITVMKVEEGQLTVQRPGQKTTQTLAAGAGVFDGIK
VGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSEQ
LKSRSGETDLDTAIAQQKAGLHTPAEQAIHLAIPLLESQDLTFSRPQLLATAMETGGGKVSMADIDTTIQ
AQIRSGQLLNVPVAHGYGNDLLISRQTWDAEKSILTHVLEGKGAVAPLMDRVPASLMTDLTAGQRAATRM
ILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLHD
TQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIAAGGGRAVPSGDTDQLPPIASGQPFRLTQQRS
AADVAIMKEIVRQMPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGAWAPGSSVVEFTPKQEKAIEK
ALSEGKTLPEGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITLP
VLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSEGKERFISPREASAEGVTLY
RQEKITVSQGDRMRFSKSDPERGYVANSIWEVQSVSGDSVTLSDGKLTRTLTPKAEQAQQHIDLAYAITA
HGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDSREGWIKAIKHSPEKATAHDILEP
RNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGSSPGKFISPGKKYPQPHVALPAFDKNGKAAGIW
LSPLTDRDGRLEAIGGGGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDRP
WNPGAMTGGRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEPA
DRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEAAIQQVASERLQRERLQAVERDMVRDLNREKTLG
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)

TrwC relaxase (TrwC)

(11-283)

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

(634-713)

AAA domain (AAA_30)

(970-1156)


  Protein structure



No available structure.




T4CP

ID   13171 GenBank   WP_015065541
Name   traD_I3U23_RS29695_KPN029|unnamed2 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: 86025.00 Da        Isoelectric Point: 5.0577

>WP_015065541.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacterales]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTSFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDDDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSREIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDAPASGPADTNSHAGEQPEPVSQPA
PADMTVSPEPVKAPPTIKRPAAEPSVRTTEPSVLRVTTVPLIKPKAAAAAAAASTASSSGAPATAAGGTQ
QELAQQSAEQGQDMLPAGMNEDGVIEDMQAYDAWLADEQTQRDMQRREEVNINHSHRHDEQDDVEIGGNF

  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: 191030..221044

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
I3U23_RS29695 (I3U23_29695) 191030..193342 - 2313 WP_015065541 type IV conjugative transfer system coupling protein TraD virb4
I3U23_RS29700 (I3U23_29700) 193471..194160 - 690 WP_015065540 hypothetical protein -
I3U23_RS29705 (I3U23_29705) 194352..195083 - 732 WP_032329926 conjugal transfer complement resistance protein TraT -
I3U23_RS29710 (I3U23_29710) 195392..195916 - 525 WP_015065538 hypothetical protein -
I3U23_RS29715 (I3U23_29715) 195927..198770 - 2844 WP_023157999 conjugal transfer mating-pair stabilization protein TraG traG
I3U23_RS29720 (I3U23_29720) 198770..200149 - 1380 WP_023158000 conjugal transfer pilus assembly protein TraH traH
I3U23_RS29725 (I3U23_29725) 200127..200570 - 444 WP_023158001 F-type conjugal transfer protein TrbF -
I3U23_RS29730 (I3U23_29730) 200616..201173 - 558 WP_023158002 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
I3U23_RS29735 (I3U23_29735) 201145..201384 - 240 WP_023158003 type-F conjugative transfer system pilin chaperone TraQ -
I3U23_RS29740 (I3U23_29740) 201395..202147 - 753 WP_015065535 type-F conjugative transfer system pilin assembly protein TraF traF
I3U23_RS29745 (I3U23_29745) 202168..202494 - 327 WP_015065534 hypothetical protein -
I3U23_RS29750 (I3U23_29750) 202507..202755 - 249 WP_004152675 hypothetical protein -
I3U23_RS29755 (I3U23_29755) 202733..202987 - 255 WP_015065558 conjugal transfer protein TrbE -
I3U23_RS29760 (I3U23_29760) 203019..204974 - 1956 WP_015065533 type-F conjugative transfer system mating-pair stabilization protein TraN traN
I3U23_RS29765 (I3U23_29765) 205033..205680 - 648 WP_015632510 type-F conjugative transfer system pilin assembly protein TrbC trbC
I3U23_RS29770 (I3U23_29770) 205759..205935 - 177 WP_162866177 hypothetical protein -
I3U23_RS29775 (I3U23_29775) 205956..206945 - 990 WP_015632509 conjugal transfer pilus assembly protein TraU traU
I3U23_RS29780 (I3U23_29780) 206942..207343 - 402 WP_023158005 hypothetical protein -
I3U23_RS29785 (I3U23_29785) 207378..208013 - 636 WP_023158006 type-F conjugative transfer system protein TraW traW
I3U23_RS29790 (I3U23_29790) 208013..208402 - 390 WP_004167468 type-F conjugative transfer system protein TrbI -
I3U23_RS29795 (I3U23_29795) 208402..211041 - 2640 WP_023158007 type IV secretion system protein TraC virb4
I3U23_RS29800 (I3U23_29800) 211113..211511 - 399 WP_023158008 hypothetical protein -
I3U23_RS29805 (I3U23_29805) 211519..211908 - 390 WP_023158009 hypothetical protein -
I3U23_RS29810 (I3U23_29810) 211951..212355 - 405 WP_016831042 hypothetical protein -
I3U23_RS29815 (I3U23_29815) 212422..212733 - 312 WP_014386200 hypothetical protein -
I3U23_RS29820 (I3U23_29820) 212734..212952 - 219 WP_014386199 hypothetical protein -
I3U23_RS29825 (I3U23_29825) 212976..213265 - 290 Protein_225 hypothetical protein -
I3U23_RS29830 (I3U23_29830) 213270..213680 - 411 WP_016831039 hypothetical protein -
I3U23_RS29835 (I3U23_29835) 213812..214396 - 585 WP_014386196 type IV conjugative transfer system lipoprotein TraV traV
I3U23_RS29840 (I3U23_29840) 214419..215015 - 597 Protein_228 conjugal transfer pilus-stabilizing protein TraP -
I3U23_RS29845 (I3U23_29845) 215008..216432 - 1425 WP_023158013 F-type conjugal transfer pilus assembly protein TraB traB
I3U23_RS29850 (I3U23_29850) 216432..217172 - 741 WP_014386193 type-F conjugative transfer system secretin TraK traK
I3U23_RS29855 (I3U23_29855) 217159..217725 - 567 WP_016831035 type IV conjugative transfer system protein TraE traE
I3U23_RS29860 (I3U23_29860) 217745..218050 - 306 WP_004144424 type IV conjugative transfer system protein TraL traL
I3U23_RS29865 (I3U23_29865) 218064..218432 - 369 WP_004194426 type IV conjugative transfer system pilin TraA -
I3U23_RS29870 (I3U23_29870) 218494..218700 - 207 WP_171773970 TraY domain-containing protein -
I3U23_RS29875 (I3U23_29875) 218833..219552 - 720 WP_016831034 conjugal transfer protein TrbJ -
I3U23_RS29880 (I3U23_29880) 219752..220168 - 417 WP_072145360 conjugal transfer relaxosome DNA-binding protein TraM -
I3U23_RS29885 (I3U23_29885) 220559..221044 + 486 WP_004178063 transglycosylase SLT domain-containing protein virB1
I3U23_RS29890 (I3U23_29890) 221077..221406 - 330 WP_011977736 DUF5983 family protein -
I3U23_RS29895 (I3U23_29895) 221439..222260 - 822 WP_004182076 DUF932 domain-containing protein -
I3U23_RS29900 (I3U23_29900) 223088..223651 - 564 WP_004182054 methyltransferase -
I3U23_RS29905 (I3U23_29905) 223699..225054 - 1356 WP_004182052 DUF3560 domain-containing protein -
I3U23_RS29910 (I3U23_29910) 225106..225336 - 231 WP_001568051 hypothetical protein -
I3U23_RS29915 (I3U23_29915) 225428..225655 - 228 WP_004182050 hypothetical protein -

Host bacterium

ID   18182 GenBank   NZ_CP065164
Plasmid name   KPN029|unnamed2 Incompatibility group   IncFIB
Plasmid size   243621 bp Coordinate of oriT [Strand]   220437..220486 [+]
Host baterium   Klebsiella variicola strain KPN029

Cargo genes

Drug resistance gene   sul2, aph(3'')-Ib, aph(6)-Id, blaTEM-1B, blaCTX-M-15, dfrA14, qnrB1, tet(A), aac(6')-Ib-cr, blaOXA-1
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   -