Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   118967
Name   oriT_pHS1219 in_silico
Organism   Serratia marcescens strain HS1219
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_OR805037 (77519..77567 [+], 49 nt)
oriT length   49 nt
IRs (inverted repeats)      6..13, 16..23  (GCAAAATT..AATTTTGC)
Location of nic site      32..33
Conserved sequence flanking the
  nic site    		  GGTGTGGTGA
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 49 nt

>oriT_pHS1219
AATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   12020 GenBank   WP_064291677
Name   traI_VHB26_RS00290_pHS1219 insolico UniProt ID   A0A6I4Y321
Length   1753 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1753 a.a.        Molecular weight: 190676.77 Da        Isoelectric Point: 6.3386

>WP_064291677.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacterales]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMDERWQGKGAEALGIDGKAVDKALFTELLKGKLPDGSDLTRI
QDGANKHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVTEAVRQLETLAATRVMTDGKSETVLTGNL
IVAKFNHDTNRNQEPQIHTHAVVINATQNGDKWQSLGTDKIGKTGFIENVYANQIAFGKLYREAFKPLVE
KLGYETEVVGKHGMWEMKGVPVEPFSTRSQEVREAAGPDASLKSRDVAALDTRKSKDAIDPAEKMVEWMN
TLKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLE
AKDGVFELARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVP
FSDAVSVLAQDRPVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVT
GKSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTY
RWQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKD
TTITALTPVWLDSKSRGVRDYYREGMVMERWDPETRTHDRFVIDRVTGSSNMLTLKDREGVRLDLKVSAV
DSQWTLFRADTLPVAEGERLAVLGKIPDTRLKGGESITVMKVEEGQLTVQRPGQKTTQTLAVGAGVFDGI
KIGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSE
QLKTRSGETDLDAAIAQQKAGLRTPAEQAIHLAIPLLESEKLTFSRPQLLATALETGGGKVSMADIDTTI
QAQIRSGQLLNVPVAHGYGNDLLISRQTWDAEKSILTHVLEGKDAVAPLMDRVPASLMTDLTAGQRAATR
MILESTDRFTVVQGYAGVGKTTQLRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLH
DTQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIVAGGGRAVSSGDNDQLQPIAPGQPFRLTQQR
SAADVAIMKEIVRQMPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGAWAPGSSVVEFTPKQEKAIE
KALSEGKTLPEGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITL
PVLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKANQLITLTDSEGKERYISPREASAEGVTL
YRQEKITVSQGDRMRFSKSDLERGYVANSIWEVQSVSGDSVTLSDGKLTRTLTPKADQAQQHIDLAYAIT
AHGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDNREGWIKAIKHSPEKATAHDILE
PRNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGSSPGKFISPGKKYPQPHVALPAFDKNGKAAGI
WLSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDR
PWNPGAMTGGRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEP
ADRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEEAIQQVASERLQRERLQAVERDMVRDLNREKTL
GGD

  Protein domains


Predicted by InterproScan.

TrwC relaxase (TrwC)

(10-284)

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

(577-629)

AAA domain (AAA_30)

(971-1157)

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   14081 GenBank   WP_072101984
Name   traD_VHB26_RS00295_pHS1219 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: 85967.95 Da        Isoelectric Point: 5.0577

>WP_072101984.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacterales]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTSFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDDDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSREIS
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDTPASGPADTDSHASEQPEPVSPPA
PAVMTVTPAPVKSPPTTKRPAAEPSVRATEPPVLRGTTVPLIKPKAAAAATAASTASSAGAPAAAAGGTE
QELAQQSAEQGQDMLPAGMNEDGVIEDMQAYDAWLTDEQTQRDMQRREEVNINHSHRHDEQDDVEIGGNF

  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: 49652..78125

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
VHB26_RS00295 49652..51964 - 2313 WP_072101984 type IV conjugative transfer system coupling protein TraD virb4
VHB26_RS00300 52093..52782 - 690 WP_072101983 hypothetical protein -
VHB26_RS00305 52975..53706 - 732 WP_004152629 conjugal transfer complement resistance protein TraT -
VHB26_RS00310 53892..54425 - 534 WP_014343486 conjugal transfer protein TraS -
VHB26_RS00315 54428..57277 - 2850 WP_013609534 conjugal transfer mating-pair stabilization protein TraG traG
VHB26_RS00320 57277..58656 - 1380 WP_014343487 conjugal transfer pilus assembly protein TraH traH
VHB26_RS00325 58634..59077 - 444 WP_004194305 F-type conjugal transfer protein TrbF -
VHB26_RS00330 59123..59680 - 558 WP_013214031 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
VHB26_RS00335 59652..59891 - 240 WP_004144400 type-F conjugative transfer system pilin chaperone TraQ -
VHB26_RS00340 59902..60654 - 753 WP_004152677 type-F conjugative transfer system pilin assembly protein TraF traF
VHB26_RS00345 60675..61001 - 327 WP_004152676 hypothetical protein -
VHB26_RS00350 61014..61262 - 249 WP_004152675 hypothetical protein -
VHB26_RS00355 61240..61494 - 255 WP_004152674 conjugal transfer protein TrbE -
VHB26_RS00360 61526..63481 - 1956 WP_030003482 type-F conjugative transfer system mating-pair stabilization protein TraN traN
VHB26_RS00365 63540..64178 - 639 WP_069985712 type-F conjugative transfer system pilin assembly protein TrbC trbC
VHB26_RS00370 64191..65180 - 990 WP_160208050 conjugal transfer pilus assembly protein TraU traU
VHB26_RS00375 65177..65578 - 402 WP_004194979 hypothetical protein -
VHB26_RS00380 65613..66248 - 636 WP_029497419 type-F conjugative transfer system protein TraW traW
VHB26_RS00385 66248..66637 - 390 WP_004167468 type-F conjugative transfer system protein TrbI -
VHB26_RS00390 66637..69276 - 2640 WP_013214024 type IV secretion system protein TraC virb4
VHB26_RS00395 69348..69746 - 399 WP_023179972 hypothetical protein -
VHB26_RS00400 70125..70529 - 405 WP_004197817 hypothetical protein -
VHB26_RS00405 70596..70907 - 312 WP_029497417 hypothetical protein -
VHB26_RS00410 70908..71126 - 219 WP_004195468 hypothetical protein -
VHB26_RS00415 71449..72033 - 585 WP_032440547 type IV conjugative transfer system lipoprotein TraV traV
VHB26_RS00420 72106..73530 - 1425 WP_004194260 F-type conjugal transfer pilus assembly protein TraB traB
VHB26_RS00425 73530..74270 - 741 WP_013023821 type-F conjugative transfer system secretin TraK traK
VHB26_RS00430 74257..74823 - 567 WP_004144423 type IV conjugative transfer system protein TraE traE
VHB26_RS00435 74843..75148 - 306 WP_004144424 type IV conjugative transfer system protein TraL traL
VHB26_RS00440 75162..75530 - 369 WP_004194426 type IV conjugative transfer system pilin TraA -
VHB26_RS00445 75599..75799 - 201 WP_004194116 TraY domain-containing protein -
VHB26_RS00450 75885..76586 - 702 WP_004194113 hypothetical protein -
VHB26_RS00455 76816..77208 - 393 WP_004194114 conjugal transfer relaxosome DNA-binding protein TraM -
VHB26_RS00460 77640..78125 + 486 WP_032440470 transglycosylase SLT domain-containing protein virB1
VHB26_RS00465 78158..78487 - 330 WP_071994324 DUF5983 family protein -
VHB26_RS00470 78520..79341 - 822 WP_023287138 DUF932 domain-containing protein -
VHB26_RS00475 80171..80584 - 414 WP_069985713 type II toxin-antitoxin system HigA family antitoxin -
VHB26_RS00480 80585..80863 - 279 WP_004152721 helix-turn-helix transcriptional regulator -
VHB26_RS00485 80853..81173 - 321 WP_004152720 type II toxin-antitoxin system RelE/ParE family toxin -
VHB26_RS00490 81254..81478 - 225 WP_014343499 hypothetical protein -
VHB26_RS00495 81489..81701 - 213 WP_019706020 hypothetical protein -
VHB26_RS00500 81762..82118 - 357 WP_019706019 hypothetical protein -
VHB26_RS00505 82750..83100 - 351 WP_023287104 hypothetical protein -

Host bacterium

ID   19399 GenBank   NZ_OR805037
Plasmid name   pHS1219 Incompatibility group   -
Plasmid size   104149 bp Coordinate of oriT [Strand]   77519..77567 [+]
Host baterium   Serratia marcescens strain HS1219

Cargo genes

Drug resistance gene   blaKPC-2, qnrS1
Virulence gene   -
Metal resistance gene   merR, merT, merP, merA, merD, merE
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIE9