Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   106239
Name   oriT_pKP037-1 in_silico
Organism   Klebsiella pneumoniae strain KP037
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP089871 (10425..10474 [-], 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_pKP037-1
AAATCTGCAAAATTTTAATTTTGCGTAGTGTGTGGTCATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   4180 GenBank   WP_032448280
Name   traI_LVQ68_RS25835_pKP037-1 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   4199 GenBank   WP_013214038
Name   traD_LVQ68_RS25830_pKP037-1 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: 9867..39868

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
LVQ68_RS25605 (LVQ68_25565) 5900..6226 + 327 WP_014386187 hypothetical protein -
LVQ68_RS25610 (LVQ68_25570) 6288..6500 + 213 WP_014386188 hypothetical protein -
LVQ68_RS25615 (LVQ68_25575) 6511..6735 + 225 WP_014386189 hypothetical protein -
LVQ68_RS25620 (LVQ68_25580) 6816..7136 + 321 WP_004152720 type II toxin-antitoxin system RelE/ParE family toxin -
LVQ68_RS25625 (LVQ68_25585) 7126..7404 + 279 WP_004152721 helix-turn-helix transcriptional regulator -
LVQ68_RS25630 (LVQ68_25590) 7405..7818 + 414 WP_013023817 helix-turn-helix domain-containing protein -
LVQ68_RS25635 (LVQ68_25595) 8651..9472 + 822 WP_004182076 DUF932 domain-containing protein -
LVQ68_RS25640 (LVQ68_25600) 9505..9834 + 330 WP_014386191 DUF5983 family protein -
LVQ68_RS25645 (LVQ68_25605) 9867..10352 - 486 WP_004178063 transglycosylase SLT domain-containing protein virB1
LVQ68_RS25650 (LVQ68_25610) 10743..11159 + 417 WP_072145360 conjugal transfer relaxosome DNA-binding protein TraM -
LVQ68_RS25655 (LVQ68_25615) 11352..12071 + 720 WP_014386192 conjugal transfer protein -
LVQ68_RS25660 (LVQ68_25620) 12204..12410 + 207 WP_171773970 TraY domain-containing protein -
LVQ68_RS25665 (LVQ68_25625) 12472..12840 + 369 WP_004194426 type IV conjugative transfer system pilin TraA -
LVQ68_RS25670 (LVQ68_25630) 12854..13159 + 306 WP_004144424 type IV conjugative transfer system protein TraL traL
LVQ68_RS25675 (LVQ68_25635) 13179..13745 + 567 WP_004152602 type IV conjugative transfer system protein TraE traE
LVQ68_RS25680 (LVQ68_25640) 13732..14472 + 741 WP_014386193 type-F conjugative transfer system secretin TraK traK
LVQ68_RS25685 (LVQ68_25645) 14472..15896 + 1425 WP_014386194 F-type conjugal transfer pilus assembly protein TraB traB
LVQ68_RS25690 (LVQ68_25650) 15889..16461 + 573 WP_014386195 conjugal transfer pilus-stabilizing protein TraP -
LVQ68_RS25695 (LVQ68_25655) 16508..17092 + 585 WP_014386196 type IV conjugative transfer system lipoprotein TraV traV
LVQ68_RS25700 (LVQ68_25660) 17223..17633 + 411 WP_014386197 hypothetical protein -
LVQ68_RS25705 (LVQ68_25665) 17638..17928 + 291 WP_065799585 hypothetical protein -
LVQ68_RS25710 (LVQ68_25670) 17952..18170 + 219 WP_014386199 hypothetical protein -
LVQ68_RS25715 (LVQ68_25675) 18171..18483 + 313 Protein_30 hypothetical protein -
LVQ68_RS25720 (LVQ68_25680) 18550..18954 + 405 WP_016831042 hypothetical protein -
LVQ68_RS25725 (LVQ68_25685) 18997..19386 + 390 WP_065799586 hypothetical protein -
LVQ68_RS25730 (LVQ68_25690) 19394..19792 + 399 WP_023158008 hypothetical protein -
LVQ68_RS25735 (LVQ68_25695) 19864..22503 + 2640 WP_032448278 type IV secretion system protein TraC virb4
LVQ68_RS25740 (LVQ68_25700) 22503..22892 + 390 WP_004167468 type-F conjugative transfer system protein TrbI -
LVQ68_RS25745 (LVQ68_25705) 22892..23527 + 636 WP_020325113 type-F conjugative transfer system protein TraW traW
LVQ68_RS25750 (LVQ68_25710) 23562..23963 + 402 WP_016831047 hypothetical protein -
LVQ68_RS25755 (LVQ68_25715) 23960..24949 + 990 WP_032439620 conjugal transfer pilus assembly protein TraU traU
LVQ68_RS25760 (LVQ68_25720) 25225..25872 + 648 WP_015632510 type-F conjugative transfer system pilin assembly protein TrbC trbC
LVQ68_RS25765 (LVQ68_25725) 25931..27886 + 1956 WP_277696273 type-F conjugative transfer system mating-pair stabilization protein TraN traN
LVQ68_RS25770 (LVQ68_25730) 27918..28172 + 255 WP_004152674 conjugal transfer protein TrbE -
LVQ68_RS25775 (LVQ68_25735) 28150..28398 + 249 WP_013214029 hypothetical protein -
LVQ68_RS25780 (LVQ68_25740) 28411..28737 + 327 WP_013214030 hypothetical protein -
LVQ68_RS25785 (LVQ68_25745) 28758..29510 + 753 WP_004152677 type-F conjugative transfer system pilin assembly protein TraF traF
LVQ68_RS25790 (LVQ68_25750) 29521..29760 + 240 WP_004144400 type-F conjugative transfer system pilin chaperone TraQ -
LVQ68_RS25795 (LVQ68_25755) 29732..30289 + 558 WP_013214031 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
LVQ68_RS25800 (LVQ68_25760) 30335..30778 + 444 WP_013214032 F-type conjugal transfer protein TrbF -
LVQ68_RS25805 (LVQ68_25765) 30756..32135 + 1380 WP_074160414 conjugal transfer pilus assembly protein TraH traH
LVQ68_RS25810 (LVQ68_25770) 32135..34957 + 2823 WP_013214034 conjugal transfer mating-pair stabilization protein TraG traG
LVQ68_RS25815 (LVQ68_25775) 34980..35582 + 603 WP_013214035 conjugal transfer protein TraS -
LVQ68_RS25820 (LVQ68_25780) 35834..36547 + 714 WP_277696274 conjugal transfer complement resistance protein TraT -
LVQ68_RS25825 (LVQ68_25785) 36740..37429 + 690 WP_014343485 hypothetical protein -
LVQ68_RS25830 (LVQ68_25790) 37556..39868 + 2313 WP_013214038 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   6676 GenBank   NZ_CP089871
Plasmid name   pKP037-1 Incompatibility group   IncFII
Plasmid size   231344 bp Coordinate of oriT [Strand]   10425..10474 [-]
Host baterium   Klebsiella pneumoniae strain KP037

Cargo genes

Drug resistance gene   aph(3'')-Ib, aph(6)-Id, tet(A)
Virulence gene   iucA, iucB, iucC, iucD, iutA
Metal resistance gene   fecE, fecD, arsC, arsB, arsA, arsD, arsR, pcoE, pcoS, pcoR, pcoD, pcoC, pcoB, pcoA, silP, silA, silB, silF, silC, silR, silS, silE
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -