Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   105126
Name   oriT_pRHBSTW-00610_2 in_silico
Organism   Klebsiella pneumoniae strain RHBSTW-00610
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP056386 (200014..200063 [+], 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_pRHBSTW-00610_2
AAATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3555 GenBank   WP_048321704
Name   traI_HV247_RS26745_pRHBSTW-00610_2 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: 190787.74 Da        Isoelectric Point: 6.1910

>WP_048321704.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Klebsiella]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMDERWQGKGAEALGIDGKAVDKALFTELLKGKLPDGSDLTRI
QDGANRHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVTEAVRQLETLAATRVMTDGKSETVLTGNL
IVAKFNHDTNRNQEPQIHTHAVVINATQNGDKWQSLGTDKIGKTGFIENVYANQIAFGKLYREAFKPLVE
KLGYETEVVGKHGMWEMKGGPVEPFSTRSQEVREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMN
TLKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLE
AKDGVFDLARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVP
FSDAVSVLAQDRLVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVT
GKSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTY
RWQGGQQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKD
TTITALTPVWLDSKSRGVRDYYREGMVMERWDPENRTHDRFVIDRVTASSNMLTLKDRDGVRLDLKVSAV
DSQWTLFRADTLPVAEGERLAVLGKIPDTRLKGGESITVMKVEEGQLTVQRPGQKTTQTLAVGAGVFDGI
KIGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSE
QLKSRSGETDLDAAIAQQKAGLHTPAEQAIHLAIPLLESQDLTFSRPQLLATAMETGGGKVSMADIDTTI
QAQIRSGQLLNVPVAHGYGNDLLISRQTWDAEKSILTHVLEGKDAVAPLMDRVPASLMTDLTAGQRAATR
MILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLH
DTQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIVAGGGRAVSSGDNDQLQPIAPGQPFRLMQQR
SAADVAIMKEIVRQMPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGSWAPGSSVVEFTPKQEKAIE
KALSEGKTLPEGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITL
PVLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSEGKERFISPREASAEGVTL
YRQEKITVSQGDRMRFSKSDPERGYVANSIWEVQSVSGDSVTLSDGKITRTLTPKAEQAQQHIDLAYAIT
AHGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDNREGWIKAIRHSPEKATAHDILE
PRNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGSSPGKFISPGKKYPQPHVALPAFDKNGKAAGI
WLSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDR
PWNPGAMTGGRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEP
ADRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEEAIQQVASERLQRERLQAVERDMVRDLNREKTL
GGD

  Protein domains


Predicted by InterproScan.

AAA domain (AAA_30)

(971-1157)

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

(577-629)

TrwC relaxase (TrwC)

(10-284)

DNA helicase TraI (TraI_C)

(1433-1555)

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

(635-714)


  Protein structure



No available structure.




T4CP

ID   3521 GenBank   WP_048321702
Name   traD_HV247_RS26750_pRHBSTW-00610_2 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: 85940.04 Da        Isoelectric Point: 5.0615

>WP_048321702.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Klebsiella]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTSFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDAPASGPADTNSHAGEQPEPVSQPA
PADMTVSPAPVKAPPTTKMPAEEPSVRATEPSVLRLTTVPLIKPKAAAAAAAAATASSAGTPAAAAGGTE
QELAQQSAEQGQDMLPAGMNEDGVIEDMQAYDAWLADEQTQRDMQRREEVNINHSHRHDEQDEVEIGGNF

  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: 172005..200621

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HV247_RS26750 (HV247_26755) 172005..174317 - 2313 WP_048321702 type IV conjugative transfer system coupling protein TraD virb4
HV247_RS26755 (HV247_26760) 174677..175408 - 732 WP_032415736 conjugal transfer complement resistance protein TraT -
HV247_RS26760 (HV247_26765) 175660..176262 - 603 WP_023280878 hypothetical protein -
HV247_RS26765 (HV247_26770) 176286..179108 - 2823 WP_049087265 conjugal transfer mating-pair stabilization protein TraG traG
HV247_RS26770 (HV247_26775) 179108..180487 - 1380 WP_011977731 conjugal transfer pilus assembly protein TraH traH
HV247_RS26775 (HV247_26780) 180465..180907 - 443 Protein_184 F-type conjugal transfer protein TrbF -
HV247_RS26780 (HV247_26785) 180952..181509 - 558 WP_032437911 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
HV247_RS26785 (HV247_26790) 181481..181720 - 240 WP_004152687 type-F conjugative transfer system pilin chaperone TraQ -
HV247_RS26790 (HV247_26795) 181731..182483 - 753 WP_015065637 type-F conjugative transfer system pilin assembly protein TraF traF
HV247_RS26795 (HV247_26800) 182504..182830 - 327 WP_004152685 hypothetical protein -
HV247_RS27870 182876..183061 - 186 WP_032437912 hypothetical protein -
HV247_RS26800 (HV247_26805) 183058..183294 - 237 WP_042922352 conjugal transfer protein TrbE -
HV247_RS26805 (HV247_26810) 183326..185281 - 1956 WP_044061268 type-F conjugative transfer system mating-pair stabilization protein TraN traN
HV247_RS26810 (HV247_26815) 185340..185978 - 639 WP_015065635 type-F conjugative transfer system pilin assembly protein TrbC trbC
HV247_RS26815 (HV247_26820) 185991..186950 - 960 WP_015065634 conjugal transfer pilus assembly protein TraU traU
HV247_RS26820 (HV247_26825) 186994..187620 - 627 WP_023307538 type-F conjugative transfer system protein TraW traW
HV247_RS26825 (HV247_26830) 187620..188009 - 390 WP_032436749 type-F conjugative transfer system protein TrbI -
HV247_RS26830 (HV247_26835) 188009..190648 - 2640 WP_048321693 type IV secretion system protein TraC virb4
HV247_RS26835 (HV247_26840) 190720..191118 - 399 WP_072158599 hypothetical protein -
HV247_RS26840 (HV247_26845) 191126..191416 - 291 WP_023307542 hypothetical protein -
HV247_RS26845 (HV247_26850) 191413..191817 - 405 WP_023307543 hypothetical protein -
HV247_RS26850 (HV247_26855) 191884..192201 - 318 WP_023307544 hypothetical protein -
HV247_RS26855 (HV247_26860) 192202..192420 - 219 WP_004171484 hypothetical protein -
HV247_RS26860 (HV247_26865) 192444..192734 - 291 WP_032423381 hypothetical protein -
HV247_RS26865 (HV247_26870) 192739..193149 - 411 WP_023307546 hypothetical protein -
HV247_RS26870 (HV247_26875) 193281..193850 - 570 WP_023307547 type IV conjugative transfer system lipoprotein TraV traV
HV247_RS26875 (HV247_26880) 194062..194481 - 420 Protein_205 conjugal transfer pilus-stabilizing protein TraP -
HV247_RS26880 (HV247_26885) 194474..195898 - 1425 WP_023307549 F-type conjugal transfer pilus assembly protein TraB traB
HV247_RS26885 (HV247_26890) 195898..196638 - 741 WP_004152497 type-F conjugative transfer system secretin TraK traK
HV247_RS26890 (HV247_26895) 196625..197191 - 567 WP_004152602 type IV conjugative transfer system protein TraE traE
HV247_RS26895 (HV247_26900) 197211..197516 - 306 WP_004178059 type IV conjugative transfer system protein TraL traL
HV247_RS26900 (HV247_26905) 197530..197898 - 369 WP_004178060 type IV conjugative transfer system pilin TraA -
HV247_RS26905 (HV247_26910) 197952..198323 - 372 WP_004208838 TraY domain-containing protein -
HV247_RS26910 (HV247_26915) 198407..199102 - 696 WP_023307551 transcriptional regulator TraJ family protein -
HV247_RS26915 (HV247_26920) 199309..199701 - 393 WP_032436755 conjugal transfer relaxosome DNA-binding protein TraM -
HV247_RS26920 (HV247_26925) 200136..200621 + 486 WP_001568108 transglycosylase SLT domain-containing protein virB1
HV247_RS26925 (HV247_26930) 200654..200983 - 330 WP_011977736 DUF5983 family protein -
HV247_RS26930 (HV247_26935) 201016..201837 - 822 WP_023316395 DUF932 domain-containing protein -
HV247_RS26935 (HV247_26940) 202665..203078 - 414 WP_021312979 helix-turn-helix domain-containing protein -
HV247_RS26940 (HV247_26945) 203079..203357 - 279 WP_004152721 helix-turn-helix transcriptional regulator -
HV247_RS26945 (HV247_26950) 203347..203667 - 321 WP_004152720 type II toxin-antitoxin system RelE/ParE family toxin -
HV247_RS26950 (HV247_26955) 203748..203972 - 225 WP_014343499 hypothetical protein -
HV247_RS26955 (HV247_26960) 203983..204195 - 213 WP_019706020 hypothetical protein -
HV247_RS26960 (HV247_26965) 204256..204612 - 357 WP_019706019 hypothetical protein -

Host bacterium

ID   5564 GenBank   NZ_CP056386
Plasmid name   pRHBSTW-00610_2 Incompatibility group   IncFIB
Plasmid size   252882 bp Coordinate of oriT [Strand]   200014..200063 [+]
Host baterium   Klebsiella pneumoniae strain RHBSTW-00610

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   silE, silS, silR, silC, silF, silB, silA, silP, pcoA, pcoB, pcoC, pcoD, pcoR, pcoS, pcoE, fecD, fecE, ncrA, ncrB, ncrC, ncrY
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIE9