Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   115091
Name   oriT_pRHBSTW-00909_6 in_silico
Organism   Klebsiella michiganensis strain RHBSTW-00909
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP056141 (52895..52944 [-], 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-00909_6
AAATCTGCAAAATTTTAATTTTGCGTAGTGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   9652 GenBank   WP_075606914
Name   traI_HV324_RS32025_pRHBSTW-00909_6 insolico UniProt ID   A0A6M3HIK1
Length   1752 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1752 a.a.        Molecular weight: 190386.65 Da        Isoelectric Point: 5.5084

>WP_075606914.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacteriaceae]
MLSFSQVKSAGSAGNYYTEKDNYYVIGSMEERWQGKGAEALGLEGKVDKQVFTELLQGKLPDGSDLTRMQ
DGVNKHRPGYDLTFSAPKSVSMLAMLGGDKRLIDAHNRAVTVALNQVESLASTRVQKDGVSETVLTNNLI
IARFNHDTSRAQEPQIHTHSVVINATQNGDKWQTLGSDTVGKTGFSENILANRIAFGKIYQSTLRADVES
MGYKTVDAGKHGMWEMEGVPVESFSTRSQELREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMNT
LKETGFDIRGYREAADTRAKELASAPAAPVKTDVPDISDVVTKAIAGLSDRKVQFTYADLLARTVSQLEA
KPGVFEQARTGIDAAIEREQLIPLDREKGLFTSNIHVLDELSVKALSQEIQRQNHVSVTPDTAVVRQSPF
SDAVSVLAQDRPTMGIVSGQGGAAGQRERVAELTLMAREQGRDVHIIAADNRSREFLSADARLAGETVTG
KSALQDGTAFIPGGTLIVDQAEKMSLKETLSMLDGAMRHNVQVLLSDSGKRSGTGSALTVLKESGVNTYR
WQGGKQATADIISEPEKGARYSRLAQEFAASVREGQESVAQISGSREQGILNGLIRETLKSEGVLGEKDM
TVTALTPVWLDSKSRGVRDYYREGMVMERWDPETRQHDRFVIDRVTASSNMLTLRDKEGERLDMKVSAVD
SQWTLFRADKLTVAEGERLAVLGKIPDTRLKGGESVTVLKAEEGQLTVQRPGQKTTQSLSVGSSPFDGIK
VGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHIRLYSAQGTARTTEKLARHTAFSVVSEQ
LKARSGETDLDAAIASQKAGLHTPAEQVIHLSIPLLESEELTFTRPQLLATALETGGGKVPMTEIDATIQ
SQIQAGSLLNVPVAPGHGNDLLISRQTWDAEKSILTKVLEGKEAVAPLMDNVPGSLMTDLTSGQRASTRM
ILETTDRFTVVQGYAGVGKTTQFRAVTGAISLLPEATRPRVIGLGPTHRAVGEMQSAGVDAQTTASFLHD
TQLLQRNGQTPDFSNTLFLLDESSMVGLADTAKALSLIAAGGGRAVLSGDTDQLQSIAPGQPFRLMQQRS
AADVAIMKEIVRQVPELRPAVYSLIDRDVNRALATIEQVTPEQVPRKDGAWVPENSVVEFTPAQEEAIQK
ALNKGESVPAGQPTTLYEALVKDYADRTPEAQSQTLIITHLNDDRRVLNSLIHDARRDNGEVGREEVTLP
VLVTSNIRDGELRRLSTWTAHKGAVALVDNVYHRIGSVDKENQLITLMDGEGKERLISPREALAEGVTLY
REQEITVSQGDKMRFSKSDTERGYVANSVWEVKSVSGDSVTLSDGKSTRTLNPKADQAQQHIDLAYAITA
HGAQGASEPFAIALEGVAGGRERMASFESAYVGLSRMKQHVQVYTDNREGWIKAINNSPEKATAHDILEP
RNDRAVKTAGQLFSRARALDEAAAGRAALQQSGLARGQSPGKFISPGKKYPQPHVALPAFDKNGKDAGIW
LSPLTDNDGRLQVIGGEGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRIARDNPDSGVVVRLAGDDRP
WNPEAITGGRIWADPLPNPPINDTGTDIPLPPEVLAQRAAEEAQRREMERQTEQATREVSGEEKKAGEPG
ERIKEVIGDVIRGLERDRPGEEKTVLPDDPQTRRQEAAVQQVVSESLQRDRLQQMERDMVRDLNREKTLG
GD

  Protein domains


Predicted by InterproScan.

DNA helicase TraI (TraI_C)

(1432-1552)

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

(577-628)

TrwC relaxase (TrwC)

(11-283)

AAA domain (AAA_30)

(970-1157)

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

(634-713)


  Protein structure



No available structure.




Auxiliary protein

ID   5672 GenBank   WP_053390193
Name   WP_053390193_pRHBSTW-00909_6 insolico UniProt ID   A0A8G2A327
Length   130 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 130 a.a.        Molecular weight: 14883.89 Da        Isoelectric Point: 4.3779

>WP_053390193.1 MULTISPECIES: conjugal transfer relaxosome DNA-binding protein TraM [Enterobacteriaceae]
MAKVQAYVSDEVADKINAIVEKRRVEGAKDKDISFSSISTMLLELGLRVYEAQMERKESGFNQMAFNKAL
LESVIKTQFTVNKVLGIECLSPHVSGNPRWEWPGLIENIRDDVQEVMLRFFPDEESEDEE

  Protein domains


Predicted by InterproScan.

TraM protein, DNA-binding (Tra_M)

(1-125)


  Protein structure



No available structure.




T4CP

ID   11261 GenBank   WP_075606915
Name   traD_HV324_RS32020_pRHBSTW-00909_6 insolico UniProt ID   _
Length   772 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 772 a.a.        Molecular weight: 86712.47 Da        Isoelectric Point: 5.0825

>WP_075606915.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFIIFWVLCGLILMYRLSWQTFVNGCVYWWCTTLAPMR
DIIRSQPVYTINYYGKSLEYNSEQILADKYTIWCGEQLWTSFVFAAIVSLTVCIVTFFVASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGVASDIKIGDLPILKHSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDIWRECLTLPDFDNVSNTLIPMGTKEDPFWQG
SGRTIFSEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLKNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDQPNGWLFISSNADTHASLKPVISMWLSIAIRGLLGMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKSRPKIAEGFILRNLDTRTDARLDTLLEAREAESSHARTLFTPDAPAPELAEKDEKVGNPPEQSQPAE
SSGTPATVKVPSTAKTPEADESGQSPEVSNPAALLTKVVTVPLTRPRPAAATGTAAVASATDVRATPAGG
TEQALETQPAEQGQDMLPPGVNEYGEIDDMHAWDEWQSGEQTQRDMQRREEVNINHSHRRDEQDDIEIGG
NF

  Protein domains


Predicted by InterproScan.

F sex factor protein N terminal (TraD_N)

(32-128)

Type IV secretion-system coupling protein DNA-binding domain (TrwB_AAD_bind)

(172-560)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 55363..81344

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HV324_RS31845 (HV324_31855) 51763..52305 + 543 WP_053390246 antirestriction protein -
HV324_RS31850 (HV324_31860) 52328..52750 - 423 WP_077268549 transglycosylase SLT domain-containing protein -
HV324_RS31855 (HV324_31865) 53256..53648 + 393 WP_053390193 conjugal transfer relaxosome DNA-binding protein TraM -
HV324_RS31860 (HV324_31870) 53887..54561 + 675 WP_075606928 hypothetical protein -
HV324_RS31865 (HV324_31875) 54755..54916 + 162 WP_172686697 TraY domain-containing protein -
HV324_RS31870 (HV324_31880) 54981..55349 + 369 WP_112150725 type IV conjugative transfer system pilin TraA -
HV324_RS31875 (HV324_31885) 55363..55668 + 306 WP_064343526 type IV conjugative transfer system protein TraL traL
HV324_RS31880 (HV324_31890) 55684..56250 + 567 WP_064359954 type IV conjugative transfer system protein TraE traE
HV324_RS31885 (HV324_31895) 56237..56971 + 735 WP_064343528 type-F conjugative transfer system secretin TraK traK
HV324_RS31890 (HV324_31900) 56971..58392 + 1422 WP_053390199 F-type conjugal transfer pilus assembly protein TraB traB
HV324_RS31895 (HV324_31905) 58385..58819 + 435 WP_020322358 conjugal transfer protein TraP -
HV324_RS31900 (HV324_31910) 58853..59437 + 585 WP_064343530 type IV conjugative transfer system lipoprotein TraV traV
HV324_RS31905 (HV324_31915) 60050..60238 + 189 WP_053390286 hypothetical protein -
HV324_RS32590 60322..60723 + 402 WP_064343532 hypothetical protein -
HV324_RS31915 (HV324_31925) 60720..61019 + 300 WP_053390308 hypothetical protein -
HV324_RS31920 (HV324_31930) 61107..61490 + 384 WP_064359955 hypothetical protein -
HV324_RS31925 (HV324_31935) 61583..64222 + 2640 WP_064343533 type IV secretion system protein TraC virb4
HV324_RS31930 (HV324_31940) 64222..64614 + 393 WP_064343534 type-F conjugative transfer system protein TrbI -
HV324_RS31935 (HV324_31945) 64611..65237 + 627 WP_064343535 type-F conjugative transfer system protein TraW traW
HV324_RS31940 (HV324_31950) 65281..66240 + 960 WP_229295972 conjugal transfer pilus assembly protein TraU traU
HV324_RS31945 (HV324_31955) 66253..66900 + 648 WP_064343536 type-F conjugative transfer system pilin assembly protein TrbC trbC
HV324_RS31950 (HV324_31960) 66897..67280 + 384 WP_053390297 hypothetical protein -
HV324_RS31955 (HV324_31965) 67277..69232 + 1956 WP_064343537 type-F conjugative transfer system mating-pair stabilization protein TraN traN
HV324_RS31960 (HV324_31970) 69264..69524 + 261 WP_053390216 hypothetical protein -
HV324_RS31965 (HV324_31975) 69517..70128 + 612 WP_053390217 hypothetical protein -
HV324_RS31970 (HV324_31980) 70118..70360 + 243 WP_053390218 conjugal transfer protein TrbE -
HV324_RS31975 (HV324_31985) 70406..70732 + 327 WP_053390219 hypothetical protein -
HV324_RS31980 (HV324_31990) 70753..71505 + 753 WP_053390220 type-F conjugative transfer system pilin assembly protein TraF traF
HV324_RS31985 (HV324_31995) 71516..71752 + 237 WP_053390221 type-F conjugative transfer system pilin chaperone TraQ -
HV324_RS31990 (HV324_32000) 71727..72287 + 561 WP_039698500 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
HV324_RS31995 (HV324_32005) 72274..73644 + 1371 WP_075606918 conjugal transfer pilus assembly protein TraH traH
HV324_RS32000 (HV324_32010) 73644..76517 + 2874 WP_181507370 conjugal transfer mating-pair stabilization protein TraG traG
HV324_RS32005 (HV324_32015) 76528..77058 + 531 WP_181507371 hypothetical protein -
HV324_RS32010 (HV324_32020) 77331..78062 + 732 WP_064349680 conjugal transfer complement resistance protein TraT -
HV324_RS32595 78254..78907 + 654 WP_223526250 hypothetical protein -
HV324_RS32020 (HV324_32030) 79026..81344 + 2319 WP_075606915 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   15526 GenBank   NZ_CP056141
Plasmid name   pRHBSTW-00909_6 Incompatibility group   IncFIA
Plasmid size   92475 bp Coordinate of oriT [Strand]   52895..52944 [-]
Host baterium   Klebsiella michiganensis strain RHBSTW-00909

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIF20.2