Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   102314
Name   oriT_p14ES-226 in_silico
Organism   Serratia marcescens strain 14ES
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_PEGZ01000005 (85207..85255 [+], 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_p14ES-226
AATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1767 GenBank   WP_040120371
Name   traI_CS368_RS07330_p14ES-226 insolico UniProt ID   A0A6G9HHF7
Length   1753 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1753 a.a.        Molecular weight: 190710.48 Da        Isoelectric Point: 6.0005

>WP_040120371.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacterales]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMDERWQGKGAEALGIDGKAVDKALFTELLKGKLPDGSDLTRI
QDGANKHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVTEAVRQLETLAATRVMTDGKSETVLTGNL
IVAKFNHDTNRNQEPQIHTHAVVINATQNGDKWQSLGTDKIGKTGFIENVYANQIAFGKLYREAFKPLVE
KLGYETEVVGKHGMWEMKGVPVEPFSTRSQEVREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMN
TLKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLE
AKDGVFELARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVP
FSDAVSVLAQDRPVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVT
GKSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTY
RWQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKD
TTITALTPVWLDSKSRGVRDYYREGMVMERWDPETRTHDRFVIDRVTASSNMLTLKDREGDRLDLKVSAV
DSQWTLFRADTLPVAEGERLAVLGKIPDTRLKGGESVTVMKVEDGQLTVQRPGQKTTQTLAVGAGVFDGI
KVGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSE
QLKSRSGETDLDAAIAQQKAGLHTPAEQAIHLAIPLLESQDLTFSRPQLLATAMETGGGKVSMADIDTTI
QAQIRSGQLLNVPVAHGYGNDLLISRQTWDAEKSILTRVLEGKDAVAPLMDRVPDSLMTDLTAGQRAATR
MILESTDQFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLH
DTQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIAAGGGRAVSSGDTDQLPPIASGQPFRLTQQR
SAADVAIMKEIVRQVPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGAWAPGSSVVEFTQKQEKEIE
KALSEGKTLPEGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITL
PVLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSEGKERFISPREASAEGVTL
YRQEKITVSQGDRMRFSKSDPERGYVANSIWEVQSVSGDSVTLSDGKLTRTLTPKAEQAQQHIDLAYAIT
AHGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDNREGWIKAIKNSPEKATAHDILE
PRNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGSSPGKFISPGKKYPQPHVALPAFDKNGKAAGI
WLSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDR
PWNPGAMTGGRLWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEP
ADRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEEAIQQVASERLQRERLQAVERDMVRDLNREKTL
GGD

  Protein domains


Predicted by InterproScan.

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)

TrwC relaxase (TrwC)

(10-284)

AAA domain (AAA_30)

(971-1157)


  Protein structure



No available structure.




T4CP

ID   1351 GenBank   WP_046664209
Name   traD_CS368_RS07335_p14ES-226 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: 86003.08 Da        Isoelectric Point: 5.1183

>WP_046664209.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacterales]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTSFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSREIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDTPEPGPADTDSHASEQPEPVSPPA
PAVMTVTPAPVKSPPTTKRPAAEPSVRATEPPVLRGTTVPLIKPKAAAAATAASTASSAGAPAAAAGGTE
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: 57217..85813

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
CS368_RS07335 (CS368_07300) 57217..59529 - 2313 WP_046664209 type IV conjugative transfer system coupling protein TraD virb4
CS368_RS25600 59658..60347 - 690 WP_172448744 hypothetical protein -
CS368_RS07345 (CS368_07310) 60540..61271 - 732 WP_016831056 conjugal transfer complement resistance protein TraT -
CS368_RS07350 (CS368_07315) 61522..62124 - 603 WP_013214035 conjugal transfer protein TraS -
CS368_RS07355 (CS368_07320) 62147..64969 - 2823 WP_101455613 conjugal transfer mating-pair stabilization protein TraG traG
CS368_RS07360 (CS368_07325) 64969..66348 - 1380 WP_072198320 conjugal transfer pilus assembly protein TraH traH
CS368_RS07365 (CS368_07330) 66326..66769 - 444 WP_101455614 F-type conjugal transfer protein TrbF -
CS368_RS07370 (CS368_07335) 66815..67372 - 558 WP_013214031 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
CS368_RS07375 (CS368_07340) 67344..67583 - 240 WP_004144400 type-F conjugative transfer system pilin chaperone TraQ -
CS368_RS07380 (CS368_07345) 67594..68346 - 753 WP_101455615 type-F conjugative transfer system pilin assembly protein TraF traF
CS368_RS07385 (CS368_07350) 68367..68693 - 327 WP_004144402 hypothetical protein -
CS368_RS07390 (CS368_07355) 68706..68954 - 249 WP_101455616 hypothetical protein -
CS368_RS07395 (CS368_07360) 68932..69186 - 255 WP_004152674 conjugal transfer protein TrbE -
CS368_RS07400 (CS368_07365) 69218..71173 - 1956 WP_101455617 type-F conjugative transfer system mating-pair stabilization protein TraN traN
CS368_RS07405 (CS368_07370) 71232..71870 - 639 WP_015065635 type-F conjugative transfer system pilin assembly protein TrbC trbC
CS368_RS07410 (CS368_07375) 71883..72872 - 990 WP_029497420 conjugal transfer pilus assembly protein TraU traU
CS368_RS07415 (CS368_07380) 72869..73270 - 402 WP_004194979 hypothetical protein -
CS368_RS07420 (CS368_07385) 73305..73940 - 636 WP_020325113 type-F conjugative transfer system protein TraW traW
CS368_RS07425 (CS368_07390) 73940..74329 - 390 WP_020803372 type-F conjugative transfer system protein TrbI -
CS368_RS07430 (CS368_07395) 74329..76968 - 2640 WP_013214024 type IV secretion system protein TraC virb4
CS368_RS07435 (CS368_07400) 77040..77438 - 399 WP_023179972 hypothetical protein -
CS368_RS25835 77620..77772 - 153 WP_224518895 hypothetical protein -
CS368_RS07445 (CS368_07410) 77815..78219 - 405 WP_004197817 hypothetical protein -
CS368_RS07450 (CS368_07415) 78286..78597 - 312 WP_029497417 hypothetical protein -
CS368_RS07455 (CS368_07420) 78598..78816 - 219 WP_004195468 hypothetical protein -
CS368_RS07460 (CS368_07425) 79139..79723 - 585 WP_040120377 type IV conjugative transfer system lipoprotein TraV traV
CS368_RS07465 (CS368_07430) 79796..81220 - 1425 WP_040228261 F-type conjugal transfer pilus assembly protein TraB traB
CS368_RS07470 (CS368_07435) 81220..81960 - 741 WP_064169777 type-F conjugative transfer system secretin TraK traK
CS368_RS07475 (CS368_07440) 81947..82513 - 567 WP_064161971 type IV conjugative transfer system protein TraE traE
CS368_RS07480 (CS368_07445) 82533..82838 - 306 WP_004144424 type IV conjugative transfer system protein TraL traL
CS368_RS07485 (CS368_07450) 82852..83220 - 369 WP_004194426 type IV conjugative transfer system pilin TraA -
CS368_RS07490 (CS368_07455) 83288..83488 - 201 WP_046664192 TraY domain-containing protein -
CS368_RS07495 (CS368_07460) 83573..84274 - 702 WP_004194113 hypothetical protein -
CS368_RS07500 (CS368_07465) 84504..84896 - 393 WP_004194114 conjugal transfer relaxosome DNA-binding protein TraM -
CS368_RS07505 (CS368_07470) 85328..85813 + 486 WP_001568108 transglycosylase SLT domain-containing protein virB1
CS368_RS07510 (CS368_07475) 85846..86175 - 330 WP_011977736 DUF5983 family protein -
CS368_RS07515 (CS368_07480) 86208..87029 - 822 WP_101455618 DUF932 domain-containing protein -
CS368_RS07525 (CS368_07495) 87845..88678 - 834 WP_032445769 N-6 DNA methylase -
CS368_RS07530 (CS368_07500) 88729..88875 - 147 WP_004152750 hypothetical protein -
CS368_RS07535 (CS368_07505) 88970..89317 - 348 WP_032445771 hypothetical protein -
CS368_RS07540 (CS368_07510) 89384..89764 - 381 WP_020802391 hypothetical protein -

Host bacterium

ID   2758 GenBank   NZ_PEGZ01000005
Plasmid name   p14ES-226 Incompatibility group   IncFIB
Plasmid size   225932 bp Coordinate of oriT [Strand]   85207..85255 [+]
Host baterium   Serratia marcescens strain 14ES

Cargo genes

Drug resistance gene   blaTEM-1A, blaOXA-9, ant(3'')-Ia, aac(6')-Ib, blaSHV-12
Virulence gene   -
Metal resistance gene   merA, merD, merE
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIE9