Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   105182
Name   oriT_pRHBSTW-00577_2 in_silico
Organism   Klebsiella grimontii strain RHBSTW-00577
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP056702 (114611..114660 [+], 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    		  TGTGTGGTGA
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 50 nt

>oriT_pRHBSTW-00577_2
AAATCTGCAAAATTTTAATTTTGCGTAGTGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3574 GenBank   WP_048270266
Name   traI_HV240_RS27815_pRHBSTW-00577_2 insolico UniProt ID   _
Length   1752 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1752 a.a.        Molecular weight: 190566.21 Da        Isoelectric Point: 5.9711

>WP_048270266.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacterales]
MLSFSQVKSAGSAGNYYTEKDNYYVIGSMEERWQGKGAELLGLEGKVDKQVFTELLQGKLPDGSDLTRIQ
DGVNKHRPGYDLTFSAPKSVSMLAMLGGDKRLIDAHNRAVTVALNQVESLASTRVKKDGVSETVLTGNLI
IARFNHDTSRAQDPQIHTHSVVINATQNGDKWQTLASDTVGKTGFSETILANRIAFGKIYQNSLRADVES
MGYKTVDAGRNGMWEMEGVPVESFSTRSQELREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMNT
LKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLEA
KDGVFELARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVPF
SDAVSVLAQDRPVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVTG
KSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDGGKRSGTGSALTVLKDSGVNTYR
WQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKDT
TITALTPVWLDSKSRGVRDYYREGMVMERWDPETRTHDRFVIDRVTASSNMLTLKDREGDRLDLKVSAVD
SQWTLFRADTLPVAEGERLAVLGKIPDTRLKGGESVTVMKVEDGQLTVQRPGQKTTQTLAVGAGVFDGIK
VGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSEQ
LKSRSGETDLDAAIAQQKAGLHTPAEQAIHLAIPLLESQDLTFSRPQLLATAMETGGGKVSMADIDTTIQ
AQIRSGQLLNVPVAPGRGNDLLISRQAWDAEKSILTRVLEGKDAVAPLMDRVPDSLMTELTAGQRAATRM
ILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLHD
TQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIAAGGGRAVPSGDTDQLPPIASGQPFRLTQQRS
AADVAIMKEIVRQVPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGAWAPGSSVVEFTQKQEKEIEK
ALSEGKTLPEGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITLP
VLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSEGKERFISPREASAEGVTLY
RQEKITVSQGDRMRFSKSDPERGYVANSIWEVQSVSGDSVTLSDGKITRTLTPKAEQAQQHIDLAYAITA
HGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDNREGWIKAIKNSPEKATAHDILEP
RNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGSSPGKFISPGKKYPQPHVALPAFDKNGKAAGIW
LSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDRP
WNPGAMTGGRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEPA
DRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEEAIQQVASERLQRERLQAVERDMVRDLNREKTLG
GD

  Protein domains


Predicted by InterproScan.

DNA helicase TraI (TraI_C)

(1432-1554)

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

(576-628)

AAA domain (AAA_30)

(969-1156)

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

(634-713)

TrwC relaxase (TrwC)

(11-283)


  Protein structure



No available structure.




T4CP

ID   3537 GenBank   WP_013214038
Name   traD_HV240_RS27820_pRHBSTW-00577_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: 86010.07 Da        Isoelectric Point: 5.1787

>WP_013214038.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacterales]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTSFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDAPASGPADTNSHAGEQPEPVSQPA
PADMTVSPEPVKAPPTIKRPAAEPSVRTTEPSVLRVTTVPLIKPKAAAAAAAASTASSSGAPATAAGGTQ
QELAQQSAEQGQDMLPAGMNEDGVIEDMQAYDAWLADEQTQRDMQRREEVNINHSHRHDEQDDVEIGGNF

  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: 85571..115218

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HV240_RS27820 (HV240_27820) 85571..87883 - 2313 WP_013214038 type IV conjugative transfer system coupling protein TraD virb4
HV240_RS27825 (HV240_27825) 88010..88699 - 690 WP_162497697 hypothetical protein -
HV240_RS27830 (HV240_27830) 88892..89623 - 732 WP_004152629 conjugal transfer complement resistance protein TraT -
HV240_RS27835 (HV240_27835) 89932..90456 - 525 WP_040206919 hypothetical protein -
HV240_RS27840 (HV240_27840) 90467..93310 - 2844 WP_094833276 conjugal transfer mating-pair stabilization protein TraG traG
HV240_RS27845 (HV240_27845) 93310..94689 - 1380 WP_181512256 conjugal transfer pilus assembly protein TraH traH
HV240_RS27850 (HV240_27850) 94667..95110 - 444 WP_040207148 F-type conjugal transfer protein TrbF -
HV240_RS27855 (HV240_27855) 95156..95713 - 558 WP_032445241 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
HV240_RS27860 (HV240_27860) 95685..95924 - 240 WP_004144400 type-F conjugative transfer system pilin chaperone TraQ -
HV240_RS27865 (HV240_27865) 95935..96687 - 753 WP_032429773 type-F conjugative transfer system pilin assembly protein TraF traF
HV240_RS27870 (HV240_27870) 96708..97034 - 327 WP_016529362 hypothetical protein -
HV240_RS30015 97080..97265 - 186 WP_032445239 hypothetical protein -
HV240_RS27875 (HV240_27875) 97262..97498 - 237 WP_032445238 conjugal transfer protein TrbE -
HV240_RS27880 (HV240_27880) 97530..99485 - 1956 WP_140599676 type-F conjugative transfer system mating-pair stabilization protein TraN traN
HV240_RS27885 (HV240_27885) 99544..100182 - 639 WP_040207142 type-F conjugative transfer system pilin assembly protein TrbC trbC
HV240_RS27890 (HV240_27890) 100195..101184 - 990 WP_009309872 conjugal transfer pilus assembly protein TraU traU
HV240_RS27895 (HV240_27895) 101181..101570 - 390 WP_004144408 hypothetical protein -
HV240_RS27900 (HV240_27900) 101612..102238 - 627 WP_032445234 type-F conjugative transfer system protein TraW traW
HV240_RS27905 (HV240_27905) 102238..102627 - 390 WP_032445233 type-F conjugative transfer system protein TrbI -
HV240_RS27910 (HV240_27910) 102627..105266 - 2640 WP_032431388 type IV secretion system protein TraC virb4
HV240_RS27915 (HV240_27915) 105338..105736 - 399 WP_181512257 hypothetical protein -
HV240_RS27920 (HV240_27920) 105744..106043 - 300 WP_055322554 hypothetical protein -
HV240_RS27925 (HV240_27925) 106086..106490 - 405 WP_181512258 hypothetical protein -
HV240_RS27930 (HV240_27930) 106557..106874 - 318 WP_181512259 hypothetical protein -
HV240_RS27935 (HV240_27935) 106875..107093 - 219 WP_004195468 hypothetical protein -
HV240_RS30020 (HV240_27940) 107117..107381 - 265 Protein_108 hypothetical protein -
HV240_RS27940 (HV240_27945) 107986..108570 - 585 WP_181512260 type IV conjugative transfer system lipoprotein TraV traV
HV240_RS27945 (HV240_27950) 108593..109189 - 597 WP_181512261 conjugal transfer pilus-stabilizing protein TraP -
HV240_RS27950 (HV240_27955) 109182..110606 - 1425 WP_004233801 F-type conjugal transfer pilus assembly protein TraB traB
HV240_RS27955 (HV240_27960) 110606..111346 - 741 WP_029498376 type-F conjugative transfer system secretin TraK traK
HV240_RS27960 (HV240_27965) 111333..111899 - 567 WP_004144423 type IV conjugative transfer system protein TraE traE
HV240_RS27965 (HV240_27970) 111919..112224 - 306 WP_004144424 type IV conjugative transfer system protein TraL traL
HV240_RS27970 (HV240_27975) 112238..112606 - 369 WP_004194426 type IV conjugative transfer system pilin TraA -
HV240_RS27975 (HV240_27980) 112668..112874 - 207 WP_171773970 TraY domain-containing protein -
HV240_RS27980 (HV240_27985) 113007..113726 - 720 WP_014386192 conjugal transfer protein -
HV240_RS27985 (HV240_27990) 113926..114342 - 417 WP_072145360 conjugal transfer relaxosome DNA-binding protein TraM -
HV240_RS27990 (HV240_27995) 114733..115218 + 486 WP_001568108 transglycosylase SLT domain-containing protein virB1
HV240_RS27995 (HV240_28000) 115251..115580 - 330 WP_011977736 DUF5983 family protein -
HV240_RS28000 (HV240_28005) 115613..116434 - 822 WP_023316395 DUF932 domain-containing protein -
HV240_RS28005 (HV240_28010) 117356..118645 - 1290 WP_004574636 ISL3-like element ISPpu12 family transposase -
HV240_RS28010 (HV240_28015) 118667..119179 - 513 WP_004863699 signal peptidase II -
HV240_RS28015 (HV240_28020) 119183..120079 - 897 WP_004574643 cation transporter -

Host bacterium

ID   5620 GenBank   NZ_CP056702
Plasmid name   pRHBSTW-00577_2 Incompatibility group   IncFII
Plasmid size   144021 bp Coordinate of oriT [Strand]   114611..114660 [+]
Host baterium   Klebsiella grimontii strain RHBSTW-00577

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   merR, merT, merP, merC, merA, merD, merE
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIE9