Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   117964
Name   oriT_FDAARGOS_1333|unnamed1 in_silico
Organism   Klebsiella oxytoca strain FDAARGOS_1333
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP070021 (114552..114601 [-], 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_1333|unnamed1
AAATCTGCAAAATTTTAATTTTGCGTAGTGTGTGGTCATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   11399 GenBank   WP_015065542
Name   traI_I6K63_RS27930_FDAARGOS_1333|unnamed1 insolico UniProt ID   K7R3U7
Length   1752 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1752 a.a.        Molecular weight: 190318.03 Da        Isoelectric Point: 6.2890

>WP_015065542.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacterales]
MLSFSQVKSAGSAGNYYTEKDNYYVIGSMEERWQGKGAELLGLEGKVDKQVFTELLQGKLPDGSDLTRIQ
DGVNKHRPGYDLTFSAPKSVSMLAMLGGDKRLIDAHNRAVTVALNQVESLASTRVKKDGVSETVLTGNLI
IARFNHDTSRAQDPQIHTHSVVINATQNGDKWQTLASDTVGKTGFSETILANRIAFGKIYQNSLRADVES
MGYKTVDAGRNGMWEMEGVPVESFSTRSQELREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMNT
LKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLEA
KDGVFELARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVPF
SDAVSVLAQDRPVMGIVSGQGGATGQRERVAELTLMSREQGRDVHILAADNRSRDFLAGDVRLAGETVTG
KSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALAVLKDSGVNTYR
WQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKDT
TITALTPVWLDSKSRGVRDYYREGMVMERWDPENRTHDRFVIDRVTASSNMLTLKDREGGRLDLKVSAVD
SQWTLFRADTLPVAEGERLAVLGKIPDTRLKGGESITVMKVEEGQLTVQRPGQKTTQTLAAGAGVFDGIK
VGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSEQ
LKSRSGETDLDTAIAQQKAGLHTPAEQAIHLAIPLLESQDLTFSRPQLLATAMETGGGKVSMADIDTTIQ
AQIRSGQLLNVPVAHGYGNDLLISRQTWDAEKSILTHVLEGKGAVAPLMDRVPASLMTDLTAGQRAATRM
ILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLHD
TQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIAAGGGRAVPSGDTDQLPPIASGQPFRLTQQRS
AADVAIMKEIVRQMPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGAWAPGSSVVEFTPKQEKAIEK
ALSEGKTLPEGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITLP
VLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSEGKERFISPREASAEGVTLY
RQEKITVSQGDRMRFSKSDPERGYVANSIWEVQSVSGDSVTLSDGKLTRTLTPKAEQAQQHIDLAYAITA
HGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDSREGWIKAIKHSPEKATAHDILEP
RNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGSSPGKFISPGKKYPQPHVALPAFDKNGKAAGIW
LSPLTDRDGRLEAIGGGGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDRP
WNPGAMTGGRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEPA
DRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEAAIQQVASERLQRERLQAVERDMVRDLNREKTLG
GD

  Protein domains


Predicted by InterproScan.

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

(576-628)

DNA helicase TraI (TraI_C)

(1432-1554)

TrwC relaxase (TrwC)

(11-283)

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

(634-713)

AAA domain (AAA_30)

(970-1156)


  Protein structure



No available structure.




T4CP

ID   13320 GenBank   WP_015065541
Name   traD_I6K63_RS27925_FDAARGOS_1333|unnamed1 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: 86025.00 Da        Isoelectric Point: 5.0577

>WP_015065541.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacterales]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTSFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDDDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSREIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDAPASGPADTNSHAGEQPEPVSQPA
PADMTVSPEPVKAPPTIKRPAAEPSVRTTEPSVLRVTTVPLIKPKAAAAAAAASTASSSGAPATAAGGTQ
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: 113994..144008

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
I6K63_RS27705 (I6K63_27705) 109383..109610 + 228 WP_004182050 hypothetical protein -
I6K63_RS27710 (I6K63_27710) 109702..109932 + 231 WP_001568051 hypothetical protein -
I6K63_RS27715 (I6K63_27715) 109984..111339 + 1356 WP_004182052 DUF3560 domain-containing protein -
I6K63_RS27720 (I6K63_27720) 111387..111950 + 564 WP_004182054 methyltransferase -
I6K63_RS27725 (I6K63_27725) 112778..113599 + 822 WP_004182076 DUF932 domain-containing protein -
I6K63_RS27730 (I6K63_27730) 113632..113961 + 330 WP_011977736 DUF5983 family protein -
I6K63_RS27735 (I6K63_27735) 113994..114479 - 486 WP_004178063 transglycosylase SLT domain-containing protein virB1
I6K63_RS27740 (I6K63_27740) 114870..115286 + 417 WP_072145360 conjugal transfer relaxosome DNA-binding protein TraM -
I6K63_RS27745 (I6K63_27745) 115486..116205 + 720 WP_016831034 conjugal transfer protein TrbJ -
I6K63_RS27750 (I6K63_27750) 116338..116544 + 207 WP_171773970 TraY domain-containing protein -
I6K63_RS27755 (I6K63_27755) 116606..116974 + 369 WP_004194426 type IV conjugative transfer system pilin TraA -
I6K63_RS27760 (I6K63_27760) 116988..117293 + 306 WP_004144424 type IV conjugative transfer system protein TraL traL
I6K63_RS27765 (I6K63_27765) 117313..117879 + 567 WP_016831035 type IV conjugative transfer system protein TraE traE
I6K63_RS27770 (I6K63_27770) 117866..118606 + 741 WP_014386193 type-F conjugative transfer system secretin TraK traK
I6K63_RS27775 (I6K63_27775) 118606..120030 + 1425 WP_023158013 F-type conjugal transfer pilus assembly protein TraB traB
I6K63_RS27785 (I6K63_27785) 120023..120619 + 597 Protein_127 conjugal transfer pilus-stabilizing protein TraP -
I6K63_RS27790 (I6K63_27790) 120642..121226 + 585 WP_014386196 type IV conjugative transfer system lipoprotein TraV traV
I6K63_RS27795 (I6K63_27795) 121358..121768 + 411 WP_016831039 hypothetical protein -
I6K63_RS27800 (I6K63_27800) 121773..122062 + 290 Protein_130 hypothetical protein -
I6K63_RS27805 (I6K63_27805) 122086..122304 + 219 WP_014386199 hypothetical protein -
I6K63_RS27810 (I6K63_27810) 122305..122616 + 312 WP_014386200 hypothetical protein -
I6K63_RS27815 (I6K63_27815) 122683..123087 + 405 WP_016831042 hypothetical protein -
I6K63_RS27820 (I6K63_27820) 123130..123519 + 390 WP_023158009 hypothetical protein -
I6K63_RS27825 (I6K63_27825) 123527..123925 + 399 WP_023158008 hypothetical protein -
I6K63_RS27830 (I6K63_27830) 123997..126636 + 2640 WP_023158007 type IV secretion system protein TraC virb4
I6K63_RS27835 (I6K63_27835) 126636..127025 + 390 WP_004167468 type-F conjugative transfer system protein TrbI -
I6K63_RS27840 (I6K63_27840) 127025..127660 + 636 WP_023158006 type-F conjugative transfer system protein TraW traW
I6K63_RS27845 (I6K63_27845) 127695..128096 + 402 WP_023158005 hypothetical protein -
I6K63_RS27850 (I6K63_27850) 128093..129082 + 990 WP_015632509 conjugal transfer pilus assembly protein TraU traU
I6K63_RS27855 (I6K63_27855) 129358..130005 + 648 WP_204746188 type-F conjugative transfer system pilin assembly protein TrbC trbC
I6K63_RS27860 (I6K63_27860) 130064..132019 + 1956 WP_015065533 type-F conjugative transfer system mating-pair stabilization protein TraN traN
I6K63_RS27865 (I6K63_27865) 132051..132305 + 255 WP_015065558 conjugal transfer protein TrbE -
I6K63_RS27870 (I6K63_27870) 132283..132531 + 249 WP_004152675 hypothetical protein -
I6K63_RS27875 (I6K63_27875) 132544..132870 + 327 WP_015065534 hypothetical protein -
I6K63_RS27880 (I6K63_27880) 132891..133643 + 753 WP_015065535 type-F conjugative transfer system pilin assembly protein TraF traF
I6K63_RS27885 (I6K63_27885) 133654..133893 + 240 WP_023158003 type-F conjugative transfer system pilin chaperone TraQ -
I6K63_RS27890 (I6K63_27890) 133865..134422 + 558 WP_023158002 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
I6K63_RS27895 (I6K63_27895) 134468..134911 + 444 WP_023158001 F-type conjugal transfer protein TrbF -
I6K63_RS27900 (I6K63_27900) 134889..136268 + 1380 WP_023158000 conjugal transfer pilus assembly protein TraH traH
I6K63_RS27905 (I6K63_27905) 136268..139111 + 2844 WP_023157999 conjugal transfer mating-pair stabilization protein TraG traG
I6K63_RS27910 (I6K63_27910) 139122..139646 + 525 WP_015065538 hypothetical protein -
I6K63_RS27915 (I6K63_27915) 139955..140686 + 732 WP_032329926 conjugal transfer complement resistance protein TraT -
I6K63_RS27920 (I6K63_27920) 140878..141567 + 690 WP_015065540 hypothetical protein -
I6K63_RS27925 (I6K63_27925) 141696..144008 + 2313 WP_015065541 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   18397 GenBank   NZ_CP070021
Plasmid name   FDAARGOS_1333|unnamed1 Incompatibility group   IncFIB
Plasmid size   176321 bp Coordinate of oriT [Strand]   114552..114601 [-]
Host baterium   Klebsiella oxytoca strain FDAARGOS_1333

Cargo genes

Drug resistance gene   blaCTX-M-15, blaTEM-1B, aph(6)-Id, aph(3'')-Ib, sul2
Virulence gene   -
Metal resistance gene   arsR, arsD, arsA, arsB, arsC, arsH, pcoE, pcoS, pcoR, pcoD, pcoC, pcoB, pcoA, silP, silA, silB, silF, silC, silR, silS, silE
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -