Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101757
Name   oriT_pRHBSTW-00092_2 in_silico
Organism   Klebsiella grimontii strain RHBSTW-00092
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_JABXRN010000002 (171796..171845 [+], 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-00092_2
AAATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTCATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1480 GenBank   WP_065953842
Name   traI_HV064_RS27895_pRHBSTW-00092_2 insolico UniProt ID   A0A839CRE9
Length   1753 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1753 a.a.        Molecular weight: 190420.61 Da        Isoelectric Point: 6.3863

>WP_065953842.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Klebsiella]
MMSIGSVKSADKAADYYTNKDNYYVIGSMDERWQGKGAEALGIDGKAVDKALFTELLKGKLPDGSDLTRI
QDGANKHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVTEAVRQLETLAATRVMTDGKSETVLTGNL
IVAKFNHDTNRNQEPQIHTHAVVINATQNGDKWQSLGTDKIGKTGFIENVYANQIAFGKLYREAFKPLVE
KLGYETEVVGKHGMWEMKGVPVEPFSTRTQEVREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMN
TLKETGFDIRGYREAADSRAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLE
AKDGVFELARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVP
FSDAVSVLAQDRPVMGIVSGQGGAAGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVT
GKSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTY
RWQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGLESVAQISGTREQSVLNGLIRDSLRNEGVLGEKD
TTITALTPVWLDSKSRGVRDYYREGMVMESWDPETRTHDRFVIDRVTASSNMLTLKDREGGRLDLKVSAV
DSQWTLFRADTLPVAEGERLAVLGKIPDTRLKGGESITVMKVEDGQLTVQRPGQKTTQTLAVGAGVFDGI
KIGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSE
QLKTRSGETDLDAAIAQQKAGLRTPAEQAIHLAIPLLESEKLTFSRPQLLATALETGGGKVPMADIDTTI
QAQIRSGQLLNVPVAHGYGNDLLISRQTWDAEKSILTHVLEGKDAVAPLMDRVPASLMTDLTAGQRAATR
MILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLH
DTQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIVAGGGRAVSSGDNDQLQPIAPGQPFRLMQQR
SAADIAIMKEIVRQVPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGAWAPGSSVVEFTPAQEKAIQ
KALSEGKTLPAGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHGARRENGETGKEEITL
PVLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQMITLTDSEGKERYISPREASAEGVTL
YRQEKITVSQGDRMRFSKSDLERGYVANSIWEVQSVAGDSVTLSDGKTTRTLTPKADQAQQHIDLAYAIT
AHGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDSREGWIKAIKHSPEKATAHDILE
PRNDRAVKSADLLFGRARLLDETAAGRAALQQSGLAQGNSPGKFISPGKKYPQPHVALPAFDKNGKAAGI
WLSPLTDRDGRLEAIGGEGRIMGNDAARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDR
PWNPGAMTGGRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEP
VDRVKEVIGDVIRGLERDRPGPEKTTLPDDPQFRRQEAAIQQVASESLQRERLQAVERDMVRDLNREKTL
GGD

  Protein domains


Predicted by InterproScan.

TrwC relaxase (TrwC)

(11-284)

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

(635-714)

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

(577-629)

DNA helicase TraI (TraI_C)

(1433-1555)

AAA domain (AAA_30)

(971-1157)


  Protein structure



No available structure.




T4CP

ID   1155 GenBank   WP_032436737
Name   traD_HV064_RS27900_pRHBSTW-00092_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: 85553.49 Da        Isoelectric Point: 5.0065

>WP_032436737.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Klebsiella]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTSFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDDDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREGRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDAPASGPDDAGSHAGERPELASQPA
PAEVTVSPAPVKAPATTTMPAAEPSARTAEPPVLRVTTVPLIKPKAAAAAAAAATASSAGTPAAAAGGTE
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: 142590..172403

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HV064_RS27900 (HV064_27895) 142590..144899 - 2310 WP_032436737 type IV conjugative transfer system coupling protein TraD virb4
HV064_RS30515 144955..145068 - 114 Protein_145 hypothetical protein -
HV064_RS30710 145259..145438 - 180 WP_317872608 hypothetical protein -
HV064_RS27905 (HV064_27900) 145420..146400 - 981 WP_014386491 IS5-like element ISKpn26 family transposase -
HV064_RS27910 (HV064_27905) 146441..147190 - 750 WP_182189496 conjugal transfer complement resistance protein TraT -
HV064_RS27915 (HV064_27910) 147442..148044 - 603 WP_023280878 hypothetical protein -
HV064_RS27920 (HV064_27915) 148068..150890 - 2823 WP_023320108 conjugal transfer mating-pair stabilization protein TraG traG
HV064_RS27925 (HV064_27920) 150890..152269 - 1380 WP_182189498 conjugal transfer pilus assembly protein TraH traH
HV064_RS27930 (HV064_27925) 152247..152690 - 444 WP_182189500 F-type conjugal transfer protein TrbF -
HV064_RS27935 (HV064_27930) 152735..153292 - 558 WP_004152678 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
HV064_RS27940 (HV064_27935) 153264..153503 - 240 WP_004144400 type-F conjugative transfer system pilin chaperone TraQ -
HV064_RS27945 (HV064_27940) 153514..154266 - 753 WP_015065637 type-F conjugative transfer system pilin assembly protein TraF traF
HV064_RS27950 (HV064_27945) 154287..154613 - 327 WP_032436744 hypothetical protein -
HV064_RS30715 154659..154844 - 186 WP_032436745 hypothetical protein -
HV064_RS27955 (HV064_27950) 154841..155077 - 237 WP_032436746 conjugal transfer protein TrbE -
HV064_RS27960 (HV064_27955) 155109..157064 - 1956 WP_023307537 type-F conjugative transfer system mating-pair stabilization protein TraN traN
HV064_RS27965 (HV064_27960) 157123..157761 - 639 WP_015065635 type-F conjugative transfer system pilin assembly protein TrbC trbC
HV064_RS27970 (HV064_27965) 157774..158733 - 960 WP_015065634 conjugal transfer pilus assembly protein TraU traU
HV064_RS27975 (HV064_27970) 158777..159403 - 627 WP_023307538 type-F conjugative transfer system protein TraW traW
HV064_RS27980 (HV064_27975) 159403..159792 - 390 WP_032436749 type-F conjugative transfer system protein TrbI -
HV064_RS27985 (HV064_27980) 159792..162431 - 2640 WP_016528865 type IV secretion system protein TraC virb4
HV064_RS27990 (HV064_27985) 162503..162901 - 399 WP_072158599 hypothetical protein -
HV064_RS27995 (HV064_27990) 162909..163199 - 291 WP_023307542 hypothetical protein -
HV064_RS28000 (HV064_27995) 163196..163600 - 405 WP_023307543 hypothetical protein -
HV064_RS28005 (HV064_28000) 163645..163983 - 339 WP_182189501 hypothetical protein -
HV064_RS28010 (HV064_28005) 163984..164202 - 219 WP_004171484 hypothetical protein -
HV064_RS28015 (HV064_28010) 164226..164516 - 291 WP_032423381 hypothetical protein -
HV064_RS28020 (HV064_28015) 164521..164931 - 411 WP_023307546 hypothetical protein -
HV064_RS28025 (HV064_28020) 165063..165632 - 570 WP_023307547 type IV conjugative transfer system lipoprotein TraV traV
HV064_RS28030 (HV064_28025) 165844..166263 - 420 Protein_173 conjugal transfer pilus-stabilizing protein TraP -
HV064_RS28035 (HV064_28030) 166256..167680 - 1425 WP_023307549 F-type conjugal transfer pilus assembly protein TraB traB
HV064_RS28040 (HV064_28035) 167680..168420 - 741 WP_004152497 type-F conjugative transfer system secretin TraK traK
HV064_RS28045 (HV064_28040) 168407..168973 - 567 WP_004152602 type IV conjugative transfer system protein TraE traE
HV064_RS28050 (HV064_28045) 168993..169298 - 306 WP_004178059 type IV conjugative transfer system protein TraL traL
HV064_RS28055 (HV064_28050) 169312..169680 - 369 WP_023307550 type IV conjugative transfer system pilin TraA -
HV064_RS28060 (HV064_28055) 169734..170105 - 372 WP_004208838 TraY domain-containing protein -
HV064_RS28065 (HV064_28060) 170189..170884 - 696 WP_023307551 transcriptional regulator TraJ family protein -
HV064_RS28070 (HV064_28065) 171091..171483 - 393 WP_032436755 conjugal transfer relaxosome DNA-binding protein TraM -
HV064_RS28075 (HV064_28070) 171918..172403 + 486 WP_001568108 transglycosylase SLT domain-containing protein virB1
HV064_RS28080 (HV064_28075) 172436..172750 - 315 WP_148673127 DUF5983 family protein -
HV064_RS28085 (HV064_28080) 172798..173619 - 822 WP_004182076 DUF932 domain-containing protein -
HV064_RS28090 (HV064_28085) 174448..174861 - 414 WP_023280875 transcriptional regulator -
HV064_RS28095 (HV064_28090) 174862..175140 - 279 WP_004152721 helix-turn-helix transcriptional regulator -
HV064_RS28100 (HV064_28095) 175130..175450 - 321 WP_004152720 type II toxin-antitoxin system RelE/ParE family toxin -
HV064_RS28105 (HV064_28100) 175531..175755 - 225 WP_004152719 hypothetical protein -
HV064_RS28110 (HV064_28105) 175766..175978 - 213 WP_004152718 hypothetical protein -
HV064_RS28115 (HV064_28110) 176039..176395 - 357 WP_004152717 hypothetical protein -
HV064_RS28120 (HV064_28115) 177032..177382 - 351 WP_004152758 hypothetical protein -

Host bacterium

ID   2201 GenBank   NZ_JABXRN010000002
Plasmid name   pRHBSTW-00092_2 Incompatibility group   IncFIB
Plasmid size   208049 bp Coordinate of oriT [Strand]   171796..171845 [+]
Host baterium   Klebsiella grimontii strain RHBSTW-00092

Cargo genes

Drug resistance gene   -
Virulence gene   mrkA, mrkB, mrkC, mrkD, mrkF, mrkJ
Metal resistance gene   arsC, arsB, arsA, arsD, arsR, silP, silA, silB, silF, silC, silR, silS, silE
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIE9