Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   105312
Name   oriT_pRHBSTW-00832_2 in_silico
Organism   Klebsiella pneumoniae strain RHBSTW-00832
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP056308 (199782..199831 [+], 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_pRHBSTW-00832_2
AAATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTCATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3629 GenBank   WP_181247939
Name   traI_HV292_RS27845_pRHBSTW-00832_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: 190495.71 Da        Isoelectric Point: 6.4832

>WP_181247939.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Klebsiella]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMDERWQGKGAEALGIDGKAVDKALFTELLKGKLPDGSDLTRI
QDGANKHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVTEAVRQLETLAATRAMTDGKSETVLTGNL
IVAKFNHDTNRNQEPQIHTHAVVINATQNGDKWQSLGTDKIGKTGFIENVYANQIAFGKLYREAFKPLVE
KLGYETEVVGKHGMWEMKGVPVEPFSTRSQEVREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMN
TLKETGFDIRGYREAADARAAELACAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLE
AKDGVFELARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRHNHVSVTPDASVVRQVP
FSDAVSVLAQDRPVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVT
GKSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTY
RWQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKD
TTITALTPVWLDSKSRGVRDYYREGMVMERWDPETRTHDRFVIDRVTASSNMLTLKDREGGRLDLKVSAV
DSQWTLFRAETLPVAEGERLAVLGKIPDTRLKGGESITVMKVEEGQLTVQRPGQKTTQTLAVGAGVFDGI
KIGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSE
QLKTRSGETDLDAAIAQQKAGLRTPAEQAIHLAIPLLESEKLTFSRPQLLATALETGGGKVPMADIDTTI
QTQIRSGQLLNVPVAHGYGNDLLISRQTWDAEKSILTRVLEGKGAVAPLMDRVPASLMTDLTAGQRAATR
MILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVEARTTASFLH
DTQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIVAGGGRAVSSGDNDQLQPIAPGQPFRLMQQR
SAADVAIMKEIVRQVPELRPAVYSLIERDVHRALITIEQVTPEQVPRKEGVWAPGSSVVEFTPKQEKAIE
KALSEGKTLPAGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRTLNGMIHDARRENGETGKEEITL
PVLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKANQLITLTDSDGKERYISPREASAEGVTL
YRQEKITVSQGDRMRFSKSDPERGYVANSIWEVQSVSGDSVTLSDGKLTRTLTPKADQAQQHIDLAYAIT
AHGAQGASERYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDSREGWIKAIQHSPEKATAHDILE
PRNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGNSPGKFISPGKKYPQPHVALPAFDKNGKAAGI
WLSPLTDRDGRLEAIGGEGRIMGNDAARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDR
PWNPGAMTGGRIWADPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEP
ADRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEAAIQQVASESLQRERLQAVERDMVRDLNREKTL
GGD

  Protein domains


Predicted by InterproScan.

DNA helicase TraI (TraI_C)

(1433-1555)

AAA domain (AAA_30)

(971-1154)

TrwC relaxase (TrwC)

(10-284)

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   3598 GenBank   WP_228725929
Name   traD_HV292_RS27850_pRHBSTW-00832_2 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: 85850.90 Da        Isoelectric Point: 5.1769

>WP_228725929.1 type IV conjugative transfer system coupling protein TraD [Klebsiella pneumoniae]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTVWCGEQLWTSIVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSKIQNFCLHGTVGSGKSEVIRRLLNYVR
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: 170009..200389

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HV292_RS27850 (HV292_27850) 170009..172318 - 2310 WP_228725929 type IV conjugative transfer system coupling protein TraD virb4
HV292_RS27855 (HV292_27855) 172680..173411 - 732 Protein_180 conjugal transfer complement resistance protein TraT -
HV292_RS27865 (HV292_27865) 173601..174128 - 528 WP_064185327 hypothetical protein -
HV292_RS27870 (HV292_27870) 174134..176983 - 2850 WP_135717020 conjugal transfer mating-pair stabilization protein TraG traG
HV292_RS27875 (HV292_27875) 176983..178362 - 1380 WP_011977731 conjugal transfer pilus assembly protein TraH traH
HV292_RS27880 (HV292_27880) 178340..178783 - 444 WP_015065638 F-type conjugal transfer protein TrbF -
HV292_RS27885 (HV292_27885) 178828..179385 - 558 WP_004152678 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
HV292_RS27890 (HV292_27890) 179357..179596 - 240 WP_004144400 type-F conjugative transfer system pilin chaperone TraQ -
HV292_RS27895 (HV292_27895) 179607..180359 - 753 WP_015065637 type-F conjugative transfer system pilin assembly protein TraF traF
HV292_RS27900 (HV292_27900) 180380..180706 - 327 WP_004152685 hypothetical protein -
HV292_RS30200 180752..180937 - 186 WP_023307535 hypothetical protein -
HV292_RS27905 (HV292_27905) 180934..181170 - 237 WP_023307536 conjugal transfer protein TrbE -
HV292_RS27910 (HV292_27910) 181202..183157 - 1956 WP_015065636 type-F conjugative transfer system mating-pair stabilization protein TraN traN
HV292_RS27915 (HV292_27915) 183216..183854 - 639 WP_015065635 type-F conjugative transfer system pilin assembly protein TrbC trbC
HV292_RS27920 (HV292_27920) 183867..184826 - 960 WP_015065634 conjugal transfer pilus assembly protein TraU traU
HV292_RS27925 (HV292_27925) 184870..185496 - 627 WP_015065633 type-F conjugative transfer system protein TraW traW
HV292_RS27930 (HV292_27930) 185496..185885 - 390 WP_021312677 type-F conjugative transfer system protein TrbI -
HV292_RS27935 (HV292_27935) 185885..188524 - 2640 WP_064185323 type IV secretion system protein TraC virb4
HV292_RS27940 (HV292_27940) 188596..188994 - 399 WP_015065631 hypothetical protein -
HV292_RS27945 (HV292_27945) 189019..189423 - 405 WP_023320104 hypothetical protein -
HV292_RS27950 (HV292_27950) 189490..189807 - 318 WP_015065629 hypothetical protein -
HV292_RS27955 (HV292_27955) 189808..190026 - 219 WP_004171484 hypothetical protein -
HV292_RS27960 (HV292_27960) 190050..190265 - 216 Protein_201 hypothetical protein -
HV292_RS27965 (HV292_27965) 190327..191295 - 969 WP_016151349 IS5 family transposase -
HV292_RS29915 191435..191833 - 399 WP_227648814 hypothetical protein -
HV292_RS27975 (HV292_27975) 191989..192558 - 570 WP_015065628 type IV conjugative transfer system lipoprotein TraV traV
HV292_RS27980 (HV292_27980) 192729..193697 - 969 WP_072210033 IS5-like element IS903B family transposase -
HV292_RS27985 (HV292_27985) 193830..194249 - 420 Protein_206 conjugal transfer pilus-stabilizing protein TraP -
HV292_RS27990 (HV292_27990) 194242..195666 - 1425 WP_040228261 F-type conjugal transfer pilus assembly protein TraB traB
HV292_RS27995 (HV292_27995) 195666..196406 - 741 WP_004152497 type-F conjugative transfer system secretin TraK traK
HV292_RS28000 (HV292_28000) 196393..196959 - 567 WP_004152602 type IV conjugative transfer system protein TraE traE
HV292_RS28005 (HV292_28005) 196979..197284 - 306 WP_015065625 type IV conjugative transfer system protein TraL traL
HV292_RS28010 (HV292_28010) 197298..197666 - 369 WP_004178060 type IV conjugative transfer system pilin TraA -
HV292_RS28015 (HV292_28015) 197720..198091 - 372 WP_004208838 TraY domain-containing protein -
HV292_RS28020 (HV292_28020) 198175..198870 - 696 WP_015065624 transcriptional regulator TraJ family protein -
HV292_RS28025 (HV292_28025) 199077..199469 - 393 WP_004206766 conjugal transfer relaxosome DNA-binding protein TraM -
HV292_RS28030 (HV292_28030) 199904..200389 + 486 WP_001568108 transglycosylase SLT domain-containing protein virB1
HV292_RS28035 (HV292_28035) 200422..200736 - 315 WP_001568110 DUF5983 family protein -
HV292_RS28040 (HV292_28040) 200784..201605 - 822 WP_015065622 DUF932 domain-containing protein -
HV292_RS28045 (HV292_28045) 202439..202852 - 414 WP_004182074 helix-turn-helix domain-containing protein -
HV292_RS28050 (HV292_28050) 202853..203131 - 279 WP_004152721 helix-turn-helix transcriptional regulator -
HV292_RS28055 (HV292_28055) 203121..203441 - 321 WP_004152720 type II toxin-antitoxin system RelE/ParE family toxin -
HV292_RS28060 (HV292_28060) 203522..203746 - 225 WP_004152719 hypothetical protein -
HV292_RS28065 (HV292_28065) 203757..203969 - 213 WP_021313197 hypothetical protein -
HV292_RS28070 (HV292_28070) 204030..204386 - 357 WP_013023814 hypothetical protein -
HV292_RS28075 (HV292_28075) 205022..205372 - 351 WP_015065620 hypothetical protein -

Host bacterium

ID   5750 GenBank   NZ_CP056308
Plasmid name   pRHBSTW-00832_2 Incompatibility group   IncFIB
Plasmid size   232875 bp Coordinate of oriT [Strand]   199782..199831 [+]
Host baterium   Klebsiella pneumoniae strain RHBSTW-00832

Cargo genes

Drug resistance gene   -
Virulence gene   mrkA, mrkB, mrkC, mrkD, mrkF, mrkJ
Metal resistance gene   silE, silS, silR, silC, silF, silB, silA, silP, pcoA, pcoB, pcoC, pcoD, pcoR, pcoS, pcoE, fecD, fecE
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIE9