Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   120002
Name   oriT_FDAARGOS_1504|unnamed in_silico
Organism   Klebsiella quasipneumoniae strain FDAARGOS_1504
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP083632 (2661..2710 [-], 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_FDAARGOS_1504|unnamed
AAATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTCATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   12607 GenBank   WP_032456792
Name   traI_LA339_RS24615_FDAARGOS_1504|unnamed 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: 190686.62 Da        Isoelectric Point: 6.0898

>WP_032456792.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Klebsiella]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMDERWQGKGAEALGIDGKAVDKALFTELLKGKLPDGSDLTRI
QDGANKHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVTEAVRQLETLAATRVMTDGKSETVLTGNL
IVAKFNHDTNRNQEPQIHTHAVVINATQNGDKWQSLGTDKIGKTGFIENVYANQIAFGKLYREAFKPLVE
KLGYETEVVGKHGMWEMKGVPVEPFSTRSQEVREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMN
TLKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLE
AKDGVFELARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVP
FSDAVSVLAQDRPVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVT
GKSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTY
RWQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRHEGVLGEKD
TTITALTPVWLDSKSRGVRDYYREGMVMERWDPENRTHDRFVIDRVTASSNMLTLKDRDGVRLDLKVSAV
DSQWTLFRAETLPVAEGERLAVLGKIPDTRLKGGESITVMKVEDGQLTVQRPGQKTTQTLAVGAGAFDGI
KIGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSE
QLKTRSGETDLDAAIAQQKAGLHTPAEQAIHLSIPLLESQDLTFTRPQLLATALETGGDKVPMWSIEMTI
KKQIKSGQLLNVGVSPGHGNDLLISRQTWDAEKSILTRVLEGKDAVAPLMDRVPASLMTDLTAGQRAATR
MILETPDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPHVIGLGPTHRAVGEMQSAGVDARTTASFLH
DTQLLQRNGQTPDFSNTLFLLDESSMVGLSDTAKALSLIAAGGGRAVLSGDTDQLQSISPGQPFRLMQQR
SAADVAIMKEIVRQVPELRPAVYSLIDRDIDRALATIEQVTPERVPRKEGAWVPGSSVVEFTPTQEEEIR
KALSKGESLPAGQPATLYEALVKDYTGRTPEAQSQTLIITHLNNDRRALNGLIHDARRENGETGREEITL
PVLVTSNIRDGELRKLSTWTAHKGAVALVDNVYHRIDNVDKDNQLITLTDSEGKERYISPREASAEGVTL
YRQEEITVSQGDRMRFSKSDPERGYVANSVWEVQSVSGDSVTLSDGKTTRTLTPKADEAQQHIDLAYAIT
AHGAQGASEPYAIALEGMVGARKLMASFESAYVGLSRMKQHVQVYTDRREGWIKAIQHSPEKATAHDILE
PRNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGSSPGKFISPGKKYPQPHVALPAFDKNGKAAGI
WLSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNIGEGVRMARDNPDTGVVVRLAGDDR
PWNPGAITGGRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEP
VDRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEAAIQQVASETLQRDRLQAVERDMVRDLNREKTL
GGD

  Protein domains


Predicted by InterproScan.

DNA helicase TraI (TraI_C)

(1433-1555)

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

(635-714)

TrwC relaxase (TrwC)

(10-284)

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

(577-629)

AAA domain (AAA_30)

(971-1158)


  Protein structure



No available structure.




T4CP

ID   14805 GenBank   WP_032456791
Name   traD_LA339_RS24610_FDAARGOS_1504|unnamed insolico UniProt ID   _
Length   767 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 767 a.a.        Molecular weight: 85712.78 Da        Isoelectric Point: 5.1149

>WP_032456791.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Klebsiella]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTSFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSREIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDAPASGPADTNSHAGEQPEPISQPA
PADMTVSPAPVKAPPTTKMPAAEPSVRATESPVLRVTTVPLIKPKAAAAATAVATASSAGTPAAGGTEQE
LAQQSAEQGQDMLPAGMNEDGVIEDMQAYDAWADEQTQRDMQRREEVNINHSHRHDEQDEVEIGGNF

  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: 2103..30049

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
LA339_RS24440 (LA339_24440) 887..1708 + 822 WP_004182076 DUF932 domain-containing protein -
LA339_RS24445 (LA339_24445) 1741..2070 + 330 WP_071996722 DUF5983 family protein -
LA339_RS24450 (LA339_24450) 2103..2588 - 486 WP_004178063 transglycosylase SLT domain-containing protein virB1
LA339_RS24455 (LA339_24455) 3023..3415 + 393 WP_004206766 conjugal transfer relaxosome DNA-binding protein TraM -
LA339_RS24460 (LA339_24460) 3622..4317 + 696 WP_074187711 transcriptional regulator TraJ family protein -
LA339_RS24465 (LA339_24465) 4401..4772 + 372 WP_004208838 TraY domain-containing protein -
LA339_RS24470 (LA339_24470) 4826..5194 + 369 WP_023307550 type IV conjugative transfer system pilin TraA -
LA339_RS24475 (LA339_24475) 5208..5513 + 306 WP_004178059 type IV conjugative transfer system protein TraL traL
LA339_RS24480 (LA339_24480) 5533..6099 + 567 WP_004194424 type IV conjugative transfer system protein TraE traE
LA339_RS24485 (LA339_24485) 6086..6826 + 741 WP_004152497 type-F conjugative transfer system secretin TraK traK
LA339_RS24490 (LA339_24490) 6826..8250 + 1425 WP_032456781 F-type conjugal transfer pilus assembly protein TraB traB
LA339_RS24495 (LA339_24495) 8323..8892 + 570 WP_032456782 type IV conjugative transfer system lipoprotein TraV traV
LA339_RS24500 (LA339_24500) 9047..9478 + 432 WP_224222654 hypothetical protein -
LA339_RS24505 (LA339_24505) 9502..9720 + 219 WP_032456783 hypothetical protein -
LA339_RS24510 (LA339_24510) 9721..10032 + 312 WP_032456784 hypothetical protein -
LA339_RS24515 (LA339_24515) 10099..10503 + 405 WP_032456785 hypothetical protein -
LA339_RS24520 (LA339_24520) 10546..10935 + 390 WP_071996724 hypothetical protein -
LA339_RS24525 (LA339_24525) 10943..11341 + 399 WP_169735290 hypothetical protein -
LA339_RS24530 (LA339_24530) 11413..14052 + 2640 WP_032456787 type IV secretion system protein TraC virb4
LA339_RS24535 (LA339_24535) 14052..14441 + 390 WP_004152591 type-F conjugative transfer system protein TrbI -
LA339_RS24540 (LA339_24540) 14441..15067 + 627 WP_004152590 type-F conjugative transfer system protein TraW traW
LA339_RS24545 (LA339_24545) 15111..16070 + 960 WP_015065634 conjugal transfer pilus assembly protein TraU traU
LA339_RS24550 (LA339_24550) 16083..16721 + 639 WP_032456788 type-F conjugative transfer system pilin assembly protein TrbC trbC
LA339_RS24555 (LA339_24555) 16780..18735 + 1956 WP_032456789 type-F conjugative transfer system mating-pair stabilization protein TraN traN
LA339_RS24560 (LA339_24560) 18767..19003 + 237 WP_032456790 conjugal transfer protein TrbE -
LA339_RS24985 19000..19185 + 186 WP_032437912 hypothetical protein -
LA339_RS24565 (LA339_24565) 19231..19557 + 327 WP_004152685 hypothetical protein -
LA339_RS24570 (LA339_24570) 19578..20330 + 753 WP_015065637 type-F conjugative transfer system pilin assembly protein TraF traF
LA339_RS24575 (LA339_24575) 20341..20580 + 240 WP_004152687 type-F conjugative transfer system pilin chaperone TraQ -
LA339_RS24580 (LA339_24580) 20552..21109 + 558 WP_032437911 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
LA339_RS24585 (LA339_24585) 21154..21597 + 444 WP_015065638 F-type conjugal transfer protein TrbF -
LA339_RS24590 (LA339_24590) 21575..22954 + 1380 WP_011977731 conjugal transfer pilus assembly protein TraH traH
LA339_RS24595 (LA339_24595) 22954..25776 + 2823 WP_023320108 conjugal transfer mating-pair stabilization protein TraG traG
LA339_RS24600 (LA339_24600) 25800..26402 + 603 WP_023280878 hypothetical protein -
LA339_RS24605 (LA339_24605) 26653..27384 + 732 WP_032415736 conjugal transfer complement resistance protein TraT -
LA339_RS24610 (LA339_24610) 27746..30049 + 2304 WP_032456791 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   20432 GenBank   NZ_CP083632
Plasmid name   FDAARGOS_1504|unnamed Incompatibility group   IncFIA
Plasmid size   77601 bp Coordinate of oriT [Strand]   2661..2710 [-]
Host baterium   Klebsiella quasipneumoniae strain FDAARGOS_1504

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIE9