Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   106892
Name   oriT_fxq|pC in_silico
Organism   Klebsiella michiganensis strain fxq
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP095002 (78361..78409 [-], 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    		  TGTGTGGTGA
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 49 nt

>oriT_fxq|pC
AATCTGCAAAATTTTAATTTTGCGTAGTGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   4557 GenBank   WP_064359958
Name   traI_MT472_RS31960_fxq|pC insolico UniProt ID   A0A7D6JMG2
Length   1752 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1752 a.a.        Molecular weight: 189724.34 Da        Isoelectric Point: 5.9228

>WP_064359958.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Klebsiella/Raoultella group]
MLSFSQVKSAGSAGNYYTEKDNYYVTGSMEERWQGKGAETLELEGKVDKQVFTALLQGKLPDGSDLTRMQ
DGVNKHRPGYDLTFSAPKSVSMLAMLGGDKRLIDAHNRAVTVALEQVESLASTRVQKDGVSETVLTGNLI
IARFNHDTSRAQEPQIHTHSVVINATQNGDKWQTLGSDTVGKTGFSENILANRIAFGKIYQSTLRADVES
MGYKTVDAGKHGMWEMEGVPVESFSTRSQELREAAGPDASLKSRDVAALDTRKSKETIDPAEKMVEWMNT
LKETGFDIRGYREAADARAKELASAPAAPVKTDGPDIGDVVTNAIAGLSDRKVQFTYADLLARTVGQLEA
KPGVFERARGGIDAAIEREQLIPLDREKGLFTSNIHVLDELSVKALSQEVQRQNHVTVTPDATVVRLAPF
SDAVSVLAQDRPAMGIVSGQGGAAGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVTG
KSALQNGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKESGVNTYR
WQGGRQTTADIISEPDKGARYNRLAQEFAVSVREGQESVAQISGTREQGVLNGIIRDTLKNEGALGTKEM
AITALTPVWLDSKSRGVRDYYREGMVMERWDPETRKHDRFVIDRVTASSNMLTLRDKEGERLDLKVSAVD
SQWSLFRADKLPVANGERLSVLGKIPETRLKGGESITVLNAEAGQLTVQRPGQKTTQALSVGSSPFDGIK
VGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHIRLYSAQDATRTTEKLARHTAFSVVSEQ
LKARSGETDLDAAIATQKAGLHTPAEQVIHLSIPLLESEALTFTRPQLLATALETGGGKVPMTEIDATIQ
AQIKAGSLLNVPVAPGQGNDLLISRQTWDAEKSILTKVLEGKDAVPPLMDSVPGSLMADLTSGQRAATRM
ILETTDRFTVVQGYAGVGKTTQFRAVTGAISLLPEATRPRVIGLGPTHRAVGEMQSAGVDAQTTASFLHD
TQLLQRNGQAPDFSNTLFLLDESSMVGLSDTAKALSLIAAGGGRAVLSGDTDQLQSIAPGQPFRLMQQRS
AADVAIMKEIVRQVPELRPAVYSLIDRDVHRALTTIEQVTPEQVPRKEGAWAPGSSVVEFTPAQEKAIQK
ALSEGEILPAGQPATLYEALVKDYADRTPEAQLQTLIITHLNDDRRVLNSLIHDARRDNGEVGREEVTLP
VLVTSNIRDGELRRLSTWTAHKGAVALVDNVYHRIGSVDKENQLITLMDGEGKERLISPREALAEGVTLY
REQEITVSQGDKMRFSKSDTERGYVANSVWEVKAVSGDSVTLSDGKTTRTLNPKADEAQRHIDLAYAITA
HGAQGASEPYAIALEGVTGGRKQMASFESAYVGLSRMKLHVQVYTDSREGWVNAIQASPSKATAHDILAP
RNERAVKTADLLFGRAQPLNETAAGRAALQQSGLARGQSPGKFISPGKKYPQPHVALPAFDKNGKNAGIW
LSPLTDKDGRLEAIGGDGRVMGNEEARFVALQNSRNGESLLAGNMGEGVRIARDNPDSGVVVRLAGDDRP
WNPEAITGGRIWADPLPNPPINDTGTDIPLPPEVLAQRAAEEAQRREMGRQTEQATREVSGEEKKAGEPG
ERIKEVIGDVIRGLERDRPGEEKTVLPDDPQTRRQEAAVQQVVSESLQRDRLQQMERDMVRDLSREKTLG
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)

AAA domain (AAA_30)

(970-1156)

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

(634-713)

TrwC relaxase (TrwC)

(10-283)


  Protein structure



No available structure.




Auxiliary protein

ID   2056 GenBank   WP_020805752
Name   WP_020805752_fxq|pC insolico UniProt ID   A0A377TIM3
Length   130 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 130 a.a.        Molecular weight: 14772.81 Da        Isoelectric Point: 4.5715

>WP_020805752.1 MULTISPECIES: conjugal transfer relaxosome DNA-binding protein TraM [Gammaproteobacteria]
MAKIQVYVNDNVAEKINAIAVQRRAEGAKEKDISYSSIASMLLELGLRVYEAQMERKESGFNQMAFNRAL
LESMVKTQFTVNKVLGIECLSPHVNGNPKWEWSGLIENIRDDVSAVMEKFFPNESEIEDE

  Protein domains


Predicted by InterproScan.

TraM protein, DNA-binding (Tra_M)

(1-125)


  Protein structure


Source ID Structure
AlphaFold DB A0A377TIM3


T4CP

ID   4641 GenBank   WP_080848157
Name   traD_MT472_RS31955_fxq|pC insolico UniProt ID   _
Length   764 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 764 a.a.        Molecular weight: 85403.54 Da        Isoelectric Point: 4.9713

>WP_080848157.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Klebsiella/Raoultella group]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLAPMR
DIIRSQPVYTISYYGKSLEYNAEQILADKYTIWCGEQLWTAFVFAAIVSLTVCVVTFFVASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILLNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDQPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKITEGFIQRRLDARVDGRLSALLEAREAEGSLARALFTPDEPVSESAEEKAGVQPEQTKPAEDS
VLPVPVKTSSKAAEGAGKTPDVPLSGAPVTRVKTVPLIRPEPAASVTGTAAAASTAAVIATAGGTAQELA
QQPVEADQNMLPAGMNEDGVIEDMQAYDEWLAGEQTQRDMQRREEVNINHSRSEQDDIEIGGNF

  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: 77794..105776

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
MT472_RS31755 (MT472_31755) 72904..73251 + 348 WP_064182675 hypothetical protein -
MT472_RS31760 (MT472_31760) 73340..73570 + 231 WP_060415465 hypothetical protein -
MT472_RS31765 (MT472_31765) 73617..74450 + 834 WP_060415466 N-6 DNA methylase -
MT472_RS31770 (MT472_31770) 74690..75685 + 996 WP_077254794 IS5 family transposase -
MT472_RS31775 (MT472_31775) 75687..76655 + 969 WP_074185243 IS5 family transposase -
MT472_RS31780 (MT472_31780) 76866..77234 - 369 WP_080848162 hypothetical protein -
MT472_RS31785 (MT472_31785) 77229..77771 + 543 WP_060415467 antirestriction protein -
MT472_RS31790 (MT472_31790) 77794..78216 - 423 WP_073972322 transglycosylase SLT domain-containing protein virB1
MT472_RS31795 (MT472_31795) 78720..79112 + 393 WP_020805752 conjugal transfer relaxosome DNA-binding protein TraM -
MT472_RS31800 (MT472_31800) 79350..80051 + 702 WP_223174962 hypothetical protein -
MT472_RS31805 (MT472_31805) 80137..80337 + 201 WP_048289787 TraY domain-containing protein -
MT472_RS31810 (MT472_31810) 80406..80774 + 369 WP_064343525 type IV conjugative transfer system pilin TraA -
MT472_RS31815 (MT472_31815) 80788..81093 + 306 WP_064343526 type IV conjugative transfer system protein TraL traL
MT472_RS31820 (MT472_31820) 81109..81675 + 567 WP_064359954 type IV conjugative transfer system protein TraE traE
MT472_RS31825 (MT472_31825) 81662..82396 + 735 WP_099743468 type-F conjugative transfer system secretin TraK traK
MT472_RS31830 (MT472_31830) 82396..83817 + 1422 WP_053390199 F-type conjugal transfer pilus assembly protein TraB traB
MT472_RS31835 (MT472_31835) 83810..84244 + 435 WP_020322358 conjugal transfer protein TraP -
MT472_RS31840 (MT472_31840) 84278..84862 + 585 WP_064343530 type IV conjugative transfer system lipoprotein TraV traV
MT472_RS31845 (MT472_31845) 85475..85663 + 189 WP_053390286 hypothetical protein -
MT472_RS31850 (MT472_31850) 85747..86148 + 402 WP_064343532 hypothetical protein -
MT472_RS31855 (MT472_31855) 86145..86444 + 300 WP_053390308 hypothetical protein -
MT472_RS31860 (MT472_31860) 86532..86915 + 384 WP_042946290 hypothetical protein -
MT472_RS31865 (MT472_31865) 87008..89647 + 2640 WP_064343533 type IV secretion system protein TraC virb4
MT472_RS31870 (MT472_31870) 89647..90039 + 393 WP_064343534 type-F conjugative transfer system protein TrbI -
MT472_RS31875 (MT472_31875) 90036..90662 + 627 WP_064343535 type-F conjugative transfer system protein TraW traW
MT472_RS31880 (MT472_31880) 90706..91665 + 960 WP_229295972 conjugal transfer pilus assembly protein TraU traU
MT472_RS31885 (MT472_31885) 91678..92325 + 648 WP_064343536 type-F conjugative transfer system pilin assembly protein TrbC trbC
MT472_RS31890 (MT472_31890) 92322..92705 + 384 WP_053390297 hypothetical protein -
MT472_RS31895 (MT472_31895) 92702..94657 + 1956 WP_080848160 type-F conjugative transfer system mating-pair stabilization protein TraN traN
MT472_RS31900 (MT472_31900) 94689..94949 + 261 WP_053390216 hypothetical protein -
MT472_RS31905 (MT472_31905) 94942..95553 + 612 WP_053390217 hypothetical protein -
MT472_RS31910 (MT472_31910) 95543..95785 + 243 WP_053390218 conjugal transfer protein TrbE -
MT472_RS31915 (MT472_31915) 95831..96157 + 327 WP_053390219 hypothetical protein -
MT472_RS31920 (MT472_31920) 96178..96930 + 753 WP_053390220 type-F conjugative transfer system pilin assembly protein TraF traF
MT472_RS31925 (MT472_31925) 96941..97177 + 237 WP_053390221 type-F conjugative transfer system pilin chaperone TraQ -
MT472_RS31930 (MT472_31930) 97152..97712 + 561 WP_039698500 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
MT472_RS31935 (MT472_31935) 97699..99069 + 1371 WP_080848158 conjugal transfer pilus assembly protein TraH traH
MT472_RS31940 (MT472_31940) 99069..101912 + 2844 WP_101836783 conjugal transfer mating-pair stabilization protein TraG traG
MT472_RS31945 (MT472_31945) 101918..102433 + 516 WP_049078360 conjugal transfer protein TraS -
MT472_RS31950 (MT472_31950) 102496..103242 + 747 WP_049078359 hypothetical protein -
MT472_RS31955 (MT472_31955) 103482..105776 + 2295 WP_080848157 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   7329 GenBank   NZ_CP095002
Plasmid name   fxq|pC Incompatibility group   IncFII
Plasmid size   117403 bp Coordinate of oriT [Strand]   78361..78409 [-]
Host baterium   Klebsiella michiganensis strain fxq

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   merR, merT, merP, merC, merA, merD, merE
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -