Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   120533
Name   oriT_p01A17009_D_KPC in_silico
Organism   Klebsiella oxytoca strain 01A17CRGN009
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_OQ821012 (57988..58035 [-], 48 nt)
oriT length   48 nt
IRs (inverted repeats)      5..12, 15..22  (GCAAAATT..AATTTTGC)
Location of nic site      31..32
Conserved sequence flanking the
  nic site    		  GGTGTGGTGA
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 48 nt

>oriT_p01A17009_D_KPC
ATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   12933 GenBank   WP_319382043
Name   traI_SLH58_RS00580_p01A17009_D_KPC insolico UniProt ID   _
Length   1753 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1753 a.a.        Molecular weight: 190713.57 Da        Isoelectric Point: 6.0679

>WP_319382043.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacteriaceae]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMDERWQGKGAEALGIDGKAVDKALFTELLKGKLPDGSDLTRI
QDGANRHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVTEAVRQLETLAATRVMTDGKSETVLTGNL
IVAKFNHDTNRNQEPQIHTHAVVINATQNGDKWQSLGTDKIGKTGFIENVYANQIAFGKLYREAFKPLVE
KLGYETEVVGKHGMWEMKGVPVEPFSTRSQELREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMN
TLKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLE
AKDGVFELARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVP
FSDAVSVLAQDRPVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVT
GKSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTY
RWQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKD
TTITALTPVWLDSKSRGVRDYYREGMVMERWDPETRTHDRFVIDRVTASSNMLTLKDREGDRLDLKVSAV
DSQWTLFRADTLPVAEGERLAVLGKIPDTRLKGGESVTVMKVEDGQLTVQRPGQKTTQTLAVGAGVFDGI
KVGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSE
QLKSRSGETDLDAAIAQQKAGLHTPAEQAIHLAIPLLESQDLTFSRPQLLATAMETGGGKVSMADIDTTI
QAQIRSGQLLNVPVAPGRGNDLLISRQAWDAEKSILTRVLEGKDAVAPLMDRVPDSLMTELTAGQRAATR
MILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLH
DTQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIAAGGGRAVPSGDTDQLPPIASGQPFRLTQQR
SAADVAIMKEIVRQVPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGAWAPGSSVVEFTQKQEKEIE
KALSEGKTLPEGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITL
PVLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSEGKERFISPREASAEGVTL
YRQEKITVSQGDRMRFSKSDPERGYVANSIWEVQSVSGDSVTLSDGKITRTLTPKAEQAQQHIDLAYAIT
AHGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDNREGWIKAIKNSPEKATAHDILE
PRNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGSSPGKFISPGKKYPQPHVALPAFDKNGKAAGI
WLSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDR
PWNPGAMTGGRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEP
ADRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEEAIQQVASERLQRERLQAVERDMVRDLNREKTL
GGD

  Protein domains


Predicted by InterproScan.

TrwC relaxase (TrwC)

(10-284)

AAA domain (AAA_30)

(970-1157)

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

(577-629)

DNA helicase TraI (TraI_C)

(1433-1555)

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

(635-714)


  Protein structure



No available structure.




T4CP

ID   15190 GenBank   WP_032072078
Name   traD_SLH58_RS00575_p01A17009_D_KPC 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: 85822.78 Da        Isoelectric Point: 4.9615

>WP_032072078.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTGFAFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGVASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDDDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDAPASGPADTNSHAGEQPEPVSQPA
PADMTVSPAPVKAPPTTKMPAEEPSVRATEPSVLRLTTVPLIKPKAAAAAAAAATASSAGTPAAAAGGTE
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: 60486..86507

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
SLH58_RS00385 (DGBHFLOJ_00070) 56493..56663 - 171 WP_319382038 hypothetical protein -
SLH58_RS00390 (DGBHFLOJ_00071) 56856..57398 + 543 WP_319382016 antirestriction protein -
SLH58_RS00395 (DGBHFLOJ_00072) 57421..57843 - 423 WP_239605204 transglycosylase SLT domain-containing protein -
SLH58_RS00400 (DGBHFLOJ_00073) 58336..58731 + 396 WP_022644714 conjugal transfer relaxosome DNA-binding protein TraM -
SLH58_RS00405 (DGBHFLOJ_00074) 58903..59589 + 687 WP_022644713 transcriptional regulator TraJ family protein -
SLH58_RS00410 (DGBHFLOJ_00075) 59668..60048 + 381 WP_032409797 TraY domain-containing protein -
SLH58_RS00415 (DGBHFLOJ_00076) 60107..60472 + 366 WP_020314752 type IV conjugative transfer system pilin TraA -
SLH58_RS00420 (DGBHFLOJ_00077) 60486..60791 + 306 WP_020323523 type IV conjugative transfer system protein TraL traL
SLH58_RS00425 (DGBHFLOJ_00078) 60811..61377 + 567 WP_020323527 type IV conjugative transfer system protein TraE traE
SLH58_RS00430 (DGBHFLOJ_00079) 61364..62104 + 741 WP_020315147 type-F conjugative transfer system secretin TraK traK
SLH58_RS00435 (DGBHFLOJ_00080) 62104..63525 + 1422 WP_020315140 F-type conjugal transfer pilus assembly protein TraB traB
SLH58_RS00440 (DGBHFLOJ_00081) 63518..63952 + 435 WP_020322358 conjugal transfer protein TraP -
SLH58_RS00445 (DGBHFLOJ_00082) 63986..64549 + 564 WP_020315143 type IV conjugative transfer system lipoprotein TraV traV
SLH58_RS00450 (DGBHFLOJ_00083) 64696..64899 + 204 WP_020315141 hypothetical protein -
SLH58_RS00455 (DGBHFLOJ_00084) 65140..65553 + 414 WP_020315139 hypothetical protein -
SLH58_RS00460 (DGBHFLOJ_00085) 65582..65881 + 300 WP_020315144 hypothetical protein -
SLH58_RS00465 (DGBHFLOJ_00086) 65898..66122 + 225 WP_022644711 hypothetical protein -
SLH58_RS00470 (DGBHFLOJ_00087) 66119..66523 + 405 WP_020323520 hypothetical protein -
SLH58_RS00475 (DGBHFLOJ_00088) 66520..66810 + 291 WP_020323516 hypothetical protein -
SLH58_RS00480 (DGBHFLOJ_00089) 66818..67216 + 399 WP_072156904 hypothetical protein -
SLH58_RS00485 (DGBHFLOJ_00090) 67288..69927 + 2640 WP_020323518 type IV secretion system protein TraC virb4
SLH58_RS00490 (DGBHFLOJ_00091) 69927..70316 + 390 WP_020314627 type-F conjugative transfer system protein TrbI -
SLH58_RS00495 (DGBHFLOJ_00092) 70316..70942 + 627 WP_020314628 type-F conjugative transfer system protein TraW traW
SLH58_RS00500 (DGBHFLOJ_00093) 70986..71945 + 960 WP_029497356 conjugal transfer pilus assembly protein TraU traU
SLH58_RS00505 (DGBHFLOJ_00094) 71958..72596 + 639 WP_319382039 type-F conjugative transfer system pilin assembly protein TrbC trbC
SLH58_RS00510 (DGBHFLOJ_00095) 72655..74610 + 1956 WP_319382040 type-F conjugative transfer system mating-pair stabilization protein TraN traN
SLH58_RS00515 (DGBHFLOJ_00096) 74642..74896 + 255 WP_020804203 conjugal transfer protein TrbE -
SLH58_RS00520 (DGBHFLOJ_00097) 74874..75122 + 249 WP_004152675 hypothetical protein -
SLH58_RS00525 (DGBHFLOJ_00098) 75135..75461 + 327 WP_004144402 hypothetical protein -
SLH58_RS00530 (DGBHFLOJ_00099) 75482..76234 + 753 WP_004152677 type-F conjugative transfer system pilin assembly protein TraF traF
SLH58_RS00535 (DGBHFLOJ_00100) 76245..76484 + 240 WP_004144400 type-F conjugative transfer system pilin chaperone TraQ -
SLH58_RS00540 (DGBHFLOJ_00101) 76456..77013 + 558 WP_004152678 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
SLH58_RS00545 (DGBHFLOJ_00102) 77059..77502 + 444 WP_025712708 F-type conjugal transfer protein TrbF -
SLH58_RS00550 (DGBHFLOJ_00103) 77480..78859 + 1380 WP_074187349 conjugal transfer pilus assembly protein TraH traH
SLH58_RS00555 (DGBHFLOJ_00104) 78859..81708 + 2850 WP_117065973 conjugal transfer mating-pair stabilization protein TraG traG
SLH58_RS00560 (DGBHFLOJ_00105) 81721..82269 + 549 WP_004152623 conjugal transfer entry exclusion protein TraS -
SLH58_RS00565 (DGBHFLOJ_00106) 82453..83184 + 732 WP_004152622 conjugal transfer complement resistance protein TraT -
SLH58_RS00570 (DGBHFLOJ_00107) 83377..84066 + 690 WP_319382042 hypothetical protein -
SLH58_RS00575 (DGBHFLOJ_00108) 84195..86507 + 2313 WP_032072078 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   20962 GenBank   NZ_OQ821012
Plasmid name   p01A17009_D_KPC Incompatibility group   -
Plasmid size   96933 bp Coordinate of oriT [Strand]   57988..58035 [-]
Host baterium   Klebsiella oxytoca strain 01A17CRGN009

Cargo genes

Drug resistance gene   blaKPC-2, blaOXA-9, blaTEM-1B
Virulence gene   -
Metal resistance gene   merE, merD, merA
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -