Detailed information of oriT

oriT


The information of the oriT region


oriTDB ID   105246
Name   oriT_pRHBSTW-00472_4 in_silico
Organism   Klebsiella pneumoniae strain RHBSTW-00472
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP055512 (55455..55503 [-], 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  
 
 GGTGTGGTGA
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 49 nt

>oriT_pRHBSTW-00472_4
AATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase


ID   3603 GenBank   WP_181247953
Name   traI_HV207_RS29880_pRHBSTW-00472_4 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: 190153.89 Da        Isoelectric Point: 5.9563

>WP_181247953.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Klebsiella]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMDERWQGKGAEALGLDGKVDKQVFTDLLKGKLPDGSDLTRMQ
DGVNKHRPGYDLTFSAPKSVSVMAMIGGDKRLIDAHNQAVTEAVKQVETLAATRVMTDGKSETVLTGNLI
VAKFNHDTNRNQEPQLHTHAVVINATQNGDKWQSLGTDTVGKTGFIENVYASQIAFGKLYREMLKPLVEK
LGYETEVTGKHGMWEMKDVPVEPFSTRSQEVREAAGPDASLKSRDVATLDTRKSKETLDPAEKMVEWVNT
LKETGFDIHSYREDADKRAAEITRAPVSPVKTDGPDISDVVTKAIAGLSDRKVQFTYADLLARTVSQLEA
RPGVFEQARTGIDAAIEREQLIPLDREKGLFTSNIHVLDELSVKALSQEVQRQNHVSLTPDASVVRQAPF
SDAVSVLAQDRPAMGIVSGQGGAAGQRERVAELTLMAREQGRDVHIIAADNRSRDFLAGDARLAGETVTG
KSALQDGTAFIPGGTLVVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKESGVNTYR
WQGGKQATADIISEPDKHVRYSRLAQEFAVSVREGQESVAQISGTREQNALNNVIRDTLKNEGVLGAKEI
TVTALTPVWLDSKSRGVRDYYREGMVMERWDPETRKHDRFVIDRVTASSNMLTLRDKEGERLDLKVSAVD
SQWTLFRADKLPVAEGERLAVLGKIPDTRLKGGESVTVLKAEAGQLTVQRPGQKTTQSLSVGSSPFDGIK
VGHGWVENPGRSVSETATVFASVTQRELDNATLNQLAQSGSHIRLYSAQDVARTTEKLARHTAFSVVSEQ
LKARSGETDLDAAIASQKAGLHTPAEQAIHLSIPLLESENLTFTRPQLLATALETGGGKVPMAEIDATIQ
SQIKAGSLLNVPVAPGQGNDLLISRQTWDAEKSILTKVLEGKDAVPPLMDSVPGSLMADLTSGQRAATRM
ILETTDRFTVVQGYAGVGKTTQFRAVTGAISLLPEATRPRVIGLGPTHRAVGEMQSAGVDAQTTASFLHD
TQLLQRNGQAPDFSNTLFLLDESSMVGLSDTAKALSLIAAGGGRAVLSGDTDQLQSIAPGQPFRLMQQRS
AADVAIMKEIVRQVPELRPAVYSLIDRDVHRALTTIEQVTPEQVPRKEGAWAPGSSVVEFTPAQEKAIQK
ALSEGEILPAGQPATLYEALVKDYADRTPEAQLQTLIITHLNDDRRVLNSLIHDARRDNGEVGREEVTLP
VLVTSNIRDGELRRLSTWTAHKGAVALVDNVYHRIGSVDKENQLITLMDGEGKERLISPREALAEGVTLY
REQEITVSQGDKMRFSKSDTERGYVANSVWEVKAVSGDSVTLSDGKTTRTLNPKADEAQRHIDLAYAITA
HGAQGASEPYAIALEGVTGGRKQMASFESAYVGLSRMKLHVQVYTDSREGWVNAIQASPSKATAHDILAP
RNERAVKTADLLFGRAQPLNETAAGRAALQQSGLARGQSPGKFISPGKKYPQPHVALPAFDKNGKNAGIW
LSPLTDKDGRLEAIGGDGRVMGNEEARFVALQNSRNGESLLAGNMGEGVRIARDNPDSGVVVRLAGDDRP
WNPEAITGGRIWADPLPNPPINDTGTDIPLPPEVLAQRAAEEAQRREMGRQTEQATREVSGEEKKAGEPG
ERIKEVIGDVIRGLERDRPGEEKTVLPDDPQTRRQEAAVQQVVSESLQRDRLQQMERDMVRDLSREKTLG
GD

  Protein domains


Predicted by InterproScan.

(634-713)

(1432-1554)

(10-283)

(576-628)

(970-1156)


  Protein structure



No available structure.




Auxiliary protein


ID   1613 GenBank   WP_022644939
Name   WP_022644939_pRHBSTW-00472_4 insolico UniProt ID   W8QGP1
Length   130 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 130 a.a.        Molecular weight: 15048.16 Da        Isoelectric Point: 4.5248

>WP_022644939.1 MULTISPECIES: conjugal transfer relaxosome DNA-binding protein TraM [Enterobacteriaceae]
MAKVQAYVSDEVAEKINAIVEKRRVEGAKDKDVSFSSISTMLLELGLRVYEAQMERKESGFNQMAFNKAL
LEYVVKTQFSVNKVLGIECLSPHVKDDPRWQWKGMVQNIQEDVQEVMLRFFPDEDNEVEE

  Protein domains


Predicted by InterproScan.

(1-125)


  Protein structure


Source ID Structure
AlphaFold DB W8QGP1


T4CP


ID   3563 GenBank   WP_181247952
Name   traD_HV207_RS29875_pRHBSTW-00472_4 insolico UniProt ID   _
Length   766 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 766 a.a.        Molecular weight: 85822.74 Da        Isoelectric Point: 4.9170

>WP_181247952.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Klebsiella/Raoultella group]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTVWCGEQLWTAFVFAAIVSLTVCVVTFFVASWVLGRQGKQ
QSEDEDTGGRQLSDKPKDVARQIKRDGVASDIKIGDLPILLNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDQPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEREYLKPSEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIQRRLDTRMDGRLSAQLEAREAEGSHARMLFTPDEVAKDEGDTGNSPEAIKPAGDRIP
TPVNATPPEKTPPAEASGNAPVTPQPATPAMRVTTVPLTRPRPVVPASGATAVAAATDVSAATSGGTAQE
LAQQPVEADQNMLPAGMNEDGVIEDMQAYDAWLEGEQIQRDMQRREEVNINHSRSEQDDIEIGGNF

  Protein domains


Predicted by InterproScan.

(32-128)

(172-560)

  Protein structure



No available structure.




T4SS


T4SS were predicted by using oriTfinder2.

Region 1: 59080..84006

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HV207_RS29695 (HV207_29705) 54323..54865 + 543 WP_181247948 antirestriction protein -
HV207_RS29700 (HV207_29710) 54888..55310 - 423 WP_020315406 transglycosylase SLT domain-containing protein -
HV207_RS29705 (HV207_29715) 55816..56208 + 393 WP_022644939 conjugal transfer relaxosome DNA-binding protein TraM -
HV207_RS29710 (HV207_29720) 56443..56940 + 498 WP_181247949 hypothetical protein -
HV207_RS29715 (HV207_29725) 56979..57959 - 981 WP_009310076 IS5-like element ISKpn26 family transposase -
HV207_RS29720 (HV207_29730) 58429..58629 + 201 WP_060415469 TraY domain-containing protein -
HV207_RS29725 (HV207_29735) 58698..59066 + 369 WP_060415470 type IV conjugative transfer system pilin TraA -
HV207_RS29730 (HV207_29740) 59080..59385 + 306 WP_053390196 type IV conjugative transfer system protein TraL traL
HV207_RS29735 (HV207_29745) 59405..59971 + 567 WP_053390197 type IV conjugative transfer system protein TraE traE
HV207_RS29740 (HV207_29750) 59958..60692 + 735 WP_053390198 type-F conjugative transfer system secretin TraK traK
HV207_RS29745 (HV207_29755) 60692..62113 + 1422 WP_075606927 F-type conjugal transfer pilus assembly protein TraB traB
HV207_RS29750 (HV207_29760) 62106..62702 + 597 WP_075606926 conjugal transfer pilus-stabilizing protein TraP -
HV207_RS29755 (HV207_29765) 62725..63294 + 570 WP_075606925 type IV conjugative transfer system lipoprotein TraV traV
HV207_RS29760 (HV207_29770) 63406..63684 + 279 WP_053390295 hypothetical protein -
HV207_RS29765 (HV207_29775) 63691..63879 + 189 WP_053390294 hypothetical protein -
HV207_RS30510 63963..64364 + 402 WP_064343532 hypothetical protein -
HV207_RS29775 (HV207_29785) 64361..64660 + 300 WP_053390308 hypothetical protein -
HV207_RS29780 (HV207_29790) 64748..65131 + 384 WP_042946290 hypothetical protein -
HV207_RS29785 (HV207_29795) 65224..67863 + 2640 WP_064343533 type IV secretion system protein TraC virb4
HV207_RS29790 (HV207_29800) 67863..68255 + 393 WP_064343534 type-F conjugative transfer system protein TrbI -
HV207_RS29795 (HV207_29805) 68252..68878 + 627 WP_064343535 type-F conjugative transfer system protein TraW traW
HV207_RS29800 (HV207_29810) 68922..69881 + 960 WP_229295972 conjugal transfer pilus assembly protein TraU traU
HV207_RS29805 (HV207_29815) 69894..70520 + 627 WP_181247950 type-F conjugative transfer system pilin assembly protein TrbC trbC
HV207_RS29810 (HV207_29820) 70517..72472 + 1956 WP_102016187 type-F conjugative transfer system mating-pair stabilization protein TraN traN
HV207_RS29815 (HV207_29825) 72504..72764 + 261 WP_181247951 hypothetical protein -
HV207_RS29820 (HV207_29830) 72757..73368 + 612 WP_060415486 hypothetical protein -
HV207_RS29825 (HV207_29835) 73358..73600 + 243 WP_060415487 conjugal transfer protein TrbE -
HV207_RS29830 (HV207_29840) 73646..73972 + 327 WP_060415488 hypothetical protein -
HV207_RS29835 (HV207_29845) 73993..74745 + 753 WP_060415489 type-F conjugative transfer system pilin assembly protein TraF traF
HV207_RS29840 (HV207_29850) 74756..74992 + 237 WP_032736848 type-F conjugative transfer system pilin chaperone TraQ -
HV207_RS29845 (HV207_29855) 75006..75542 + 537 WP_180807780 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
HV207_RS29850 (HV207_29860) 75529..76899 + 1371 WP_102016205 conjugal transfer pilus assembly protein TraH traH
HV207_RS29855 (HV207_29865) 76899..79724 + 2826 WP_060415492 conjugal transfer mating-pair stabilization protein TraG traG
HV207_RS29860 (HV207_29870) 79741..80412 + 672 WP_088883382 hypothetical protein -
HV207_RS29865 (HV207_29875) 80659..81351 + 693 WP_162762153 hypothetical protein -
HV207_RS29870 (HV207_29880) 81372..81635 + 264 WP_142372547 hypothetical protein -
HV207_RS29875 (HV207_29885) 81706..84006 + 2301 WP_181247952 type IV conjugative transfer system coupling protein TraD virb4


Host bacterium


ID   5684 GenBank   NZ_CP055512
Plasmid name   pRHBSTW-00472_4 Incompatibility group   IncFII
Plasmid size   95633 bp Coordinate of oriT [Strand]   55455..55503 [-]
Host baterium   Klebsiella pneumoniae strain RHBSTW-00472

Cargo genes


Drug resistance gene   -
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -