Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   119995
Name   oriT_FDAARGOS_1503|unnamed1 in_silico
Organism   Klebsiella quasipneumoniae strain FDAARGOS_1503
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP083634 (7472..7521 [-], 50 nt)
oriT length   50 nt
IRs (inverted repeats)      7..14, 17..24  (GCAAAATT..AATTTTGC)
Location of nic site      33..34
Conserved sequence flanking the
  nic site    		  GGTGTGGTGA
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 50 nt

>oriT_FDAARGOS_1503|unnamed1
AAATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   12603 GenBank   WP_044525168
Name   traI_LA349_RS25795_FDAARGOS_1503|unnamed1 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: 190549.78 Da        Isoelectric Point: 6.4837

>WP_044525168.1 conjugative transfer relaxase/helicase TraI [Klebsiella quasipneumoniae]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMDERWQGKGAEALGIDGKAVDKALFTELLKGKLPDGSDLTRI
QDGANKHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVTEAVRQLETLAATRVMTDGKSETVLTGNL
IVAKFNHDTNRNQEPQLHTHAVVINATQNGDKWQSLGTDKIGKTGFIENVYANQIAFGKLYREAFKPLVE
KLGYETEVVGKHGMWEMKGVPVEPFSTRTQEVREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMN
TLKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLE
AKDGVFELARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVP
FSDAVSVLAQDRPVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVT
GKSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTY
RWQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKD
TTITALTPVWLDSKSRGVRDYYREGMVMERWDPETRTHDRFVIDRVTASSNMLTLKDREGGRLDLKVSAV
DSQWTLFRAETLPVAEGERLAVLGKIPDTRLKGGESITVMKVEEGQLTVQRPGQKTTQTLAVGAGVFDGI
KIGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSE
QLKTRSGETDLDAAIAQQKAGLRTPAEQAIHLAIPLLESEKLTFSRPQLLATALETGGGKVPMADIDTTI
QTQIRSGQLLNVPVAHGYGNDLLISRQTWDAEKSILTHVLEGKGAVAPLMDRVPASLMTDLTAGQRAATR
MILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVEARTTASFLH
DTQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIVAGGGRAVSSGDTDQLQPIAPGQPFRLMQQR
SAADVAIMKEIVRQVPELRPAVYSLIERDVHRALITIEQVTPEQVPRKEGVWAPGSSVVEFTPKQEKAIE
KALSEGKTLPAGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRTLNGMIHDARRENGETGKEEITL
PVLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKANQLITLTDSDGKERYISPREASAEGVTL
YRQEKITVSQGDRMRFSKSDPERGYVANSIWEVQSVSGDSVTLSDGKLTRTLTPKADQAQQHIDLAYAIT
AHGAQGASERYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDSREGWIKAIQHSPEKATAHDILE
PRNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGNSPGKFISPGKKYPQPHVALPAFDKNGKAAGI
WLSPLTDRDGRLEAIGGEGRIMGNDAARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDR
PWNPGAMTGGRIWADPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEP
ADRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEAAIQQVASESLQRERLQAVERDMVRDLNREKTL
GGD

  Protein domains


Predicted by InterproScan.

AAA domain (AAA_30)

(971-1154)

TrwC relaxase (TrwC)

(10-284)

DNA helicase TraI (TraI_C)

(1433-1555)

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

(635-714)

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

(577-629)


  Protein structure



No available structure.




T4CP

ID   14802 GenBank   WP_015065643
Name   traD_LA349_RS25790_FDAARGOS_1503|unnamed1 insolico UniProt ID   _
Length   769 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 769 a.a.        Molecular weight: 85851.84 Da        Isoelectric Point: 5.0577

>WP_015065643.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTVWCGEQLWTSIVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDDDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIQRRLDTRVDARLSALLEAREAEGSLARTLFMPDAPASGPADTNSHAGEQPEPISQPA
PADMTVSPAPVKAPPTTKSPAAEPSVRATEPPVLRVTTVPLIKPKAAAAATAASTASSAGAPAAAAGGTE
QELAQQSAEQGQDMLPAGMNEDGVIEDMQAYDAWADEQTQRDMQRREEVNINHSHRHDEQDDVEIGGNF

  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: 6914..35408

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
LA349_RS25575 (LA349_25575) 1934..2284 + 351 WP_023280874 hypothetical protein -
LA349_RS25580 (LA349_25580) 2921..3277 + 357 WP_004152717 hypothetical protein -
LA349_RS25585 (LA349_25585) 3338..3550 + 213 WP_004152718 hypothetical protein -
LA349_RS25590 (LA349_25590) 3561..3785 + 225 WP_004152719 hypothetical protein -
LA349_RS25595 (LA349_25595) 3866..4186 + 321 WP_004152720 type II toxin-antitoxin system RelE/ParE family toxin -
LA349_RS25600 (LA349_25600) 4176..4454 + 279 WP_004152721 helix-turn-helix transcriptional regulator -
LA349_RS25605 (LA349_25605) 4455..4868 + 414 WP_023280875 type II toxin-antitoxin system HigA family antitoxin -
LA349_RS25610 (LA349_25610) 5698..6525 + 828 WP_023307552 DUF932 domain-containing protein -
LA349_RS25615 (LA349_25615) 6552..6881 + 330 WP_011977736 DUF5983 family protein -
LA349_RS25620 (LA349_25620) 6914..7399 - 486 WP_001568108 transglycosylase SLT domain-containing protein virB1
LA349_RS25625 (LA349_25625) 7834..8226 + 393 WP_004206766 conjugal transfer relaxosome DNA-binding protein TraM -
LA349_RS25630 (LA349_25630) 8433..9128 + 696 WP_023307551 transcriptional regulator TraJ family protein -
LA349_RS25635 (LA349_25635) 9212..9583 + 372 WP_004208838 TraY domain-containing protein -
LA349_RS25640 (LA349_25640) 9637..10005 + 369 WP_023307550 type IV conjugative transfer system pilin TraA -
LA349_RS25645 (LA349_25645) 10019..10324 + 306 WP_004178059 type IV conjugative transfer system protein TraL traL
LA349_RS25650 (LA349_25650) 10344..10910 + 567 WP_004152602 type IV conjugative transfer system protein TraE traE
LA349_RS25655 (LA349_25655) 10897..11637 + 741 WP_004152497 type-F conjugative transfer system secretin TraK traK
LA349_RS25660 (LA349_25660) 11637..13061 + 1425 WP_023307549 F-type conjugal transfer pilus assembly protein TraB traB
LA349_RS25665 (LA349_25665) 13054..13467 + 414 Protein_21 conjugal transfer pilus-stabilizing protein TraP -
LA349_RS25670 (LA349_25670) 13679..14248 + 570 WP_023307547 type IV conjugative transfer system lipoprotein TraV traV
LA349_RS25675 (LA349_25675) 14380..14790 + 411 WP_023307546 hypothetical protein -
LA349_RS25680 (LA349_25680) 14795..15085 + 291 WP_032423381 hypothetical protein -
LA349_RS25685 (LA349_25685) 15109..15327 + 219 WP_023307545 hypothetical protein -
LA349_RS25690 (LA349_25690) 15328..15645 + 318 WP_023307544 hypothetical protein -
LA349_RS25695 (LA349_25695) 15712..16116 + 405 WP_023307543 hypothetical protein -
LA349_RS25700 (LA349_25700) 16113..16403 + 291 WP_023307542 hypothetical protein -
LA349_RS25705 (LA349_25705) 16411..16809 + 399 WP_072158599 hypothetical protein -
LA349_RS25710 (LA349_25710) 16881..19520 + 2640 WP_016528865 type IV secretion system protein TraC virb4
LA349_RS25715 (LA349_25715) 19520..19921 + 402 WP_023307539 type-F conjugative transfer system protein TrbI -
LA349_RS25720 (LA349_25720) 19921..20547 + 627 WP_023307538 type-F conjugative transfer system protein TraW traW
LA349_RS25725 (LA349_25725) 20591..21550 + 960 WP_015065634 conjugal transfer pilus assembly protein TraU traU
LA349_RS25730 (LA349_25730) 21563..22201 + 639 WP_015065635 type-F conjugative transfer system pilin assembly protein TrbC trbC
LA349_RS25735 (LA349_25735) 22260..24215 + 1956 WP_023307537 type-F conjugative transfer system mating-pair stabilization protein TraN traN
LA349_RS25740 (LA349_25740) 24247..24483 + 237 WP_023307536 conjugal transfer protein TrbE -
LA349_RS26515 24480..24665 + 186 WP_023307535 hypothetical protein -
LA349_RS25745 (LA349_25745) 24711..25037 + 327 WP_004152685 hypothetical protein -
LA349_RS25750 (LA349_25750) 25058..25810 + 753 WP_015065637 type-F conjugative transfer system pilin assembly protein TraF traF
LA349_RS25755 (LA349_25755) 25821..26060 + 240 WP_004144400 type-F conjugative transfer system pilin chaperone TraQ -
LA349_RS25760 (LA349_25760) 26032..26589 + 558 WP_004152678 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
LA349_RS25765 (LA349_25765) 26634..27077 + 444 WP_015065638 F-type conjugal transfer protein TrbF -
LA349_RS25770 (LA349_25770) 27055..28434 + 1380 WP_011977731 conjugal transfer pilus assembly protein TraH traH
LA349_RS25775 (LA349_25775) 28434..31283 + 2850 WP_023307534 conjugal transfer mating-pair stabilization protein TraG traG
LA349_RS25780 (LA349_25780) 31289..31816 + 528 WP_032423397 conjugal transfer protein TraS -
LA349_RS25785 (LA349_25785) 32006..32737 + 732 Protein_46 conjugal transfer complement resistance protein TraT -
LA349_RS25790 (LA349_25790) 33099..35408 + 2310 WP_015065643 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   20425 GenBank   NZ_CP083634
Plasmid name   FDAARGOS_1503|unnamed1 Incompatibility group   IncFII
Plasmid size   151102 bp Coordinate of oriT [Strand]   7472..7521 [-]
Host baterium   Klebsiella quasipneumoniae strain FDAARGOS_1503

Cargo genes

Drug resistance gene   sul1, qacE, ant(3'')-Ia
Virulence gene   -
Metal resistance gene   merE, merD, merA, merF, merP, merT, merR2, arsC, arsB, fecD, fecE, arsR, arsH
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIE9