Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   120820
Name   oriT_p9_SCLZS62 in_silico
Organism   Raoultella planticola strain SCLZS62
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP082177 (53683..53732 [+], 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_p9_SCLZS62
AAATCTGCAAAATTTTAATTTTGCGTAGTGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   13130 GenBank   WP_075606914
Name   traI_K6028_RS32595_p9_SCLZS62 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   7324 GenBank   WP_053390193
Name   WP_053390193_p9_SCLZS62 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   15411 GenBank   WP_075606915
Name   traD_K6028_RS32600_p9_SCLZS62 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: 26546..51264

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
K6028_RS32600 (K6028_32600) 26546..28864 - 2319 WP_075606915 type IV conjugative transfer system coupling protein TraD virb4
K6028_RS33315 28983..29675 - 693 WP_202395549 hypothetical protein -
K6028_RS32610 (K6028_32610) 29921..30592 - 672 WP_088883382 hypothetical protein -
K6028_RS32615 (K6028_32615) 30609..33464 - 2856 WP_075606917 conjugal transfer mating-pair stabilization protein TraG traG
K6028_RS32620 (K6028_32620) 33464..34834 - 1371 WP_075606918 conjugal transfer pilus assembly protein TraH traH
K6028_RS32625 (K6028_32625) 34821..35381 - 561 WP_039698500 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
K6028_RS32630 (K6028_32630) 35356..35592 - 237 WP_053390221 type-F conjugative transfer system pilin chaperone TraQ -
K6028_RS32635 (K6028_32635) 35603..36355 - 753 WP_053390220 type-F conjugative transfer system pilin assembly protein TraF traF
K6028_RS32640 (K6028_32640) 36376..36702 - 327 WP_075606919 hypothetical protein -
K6028_RS32645 (K6028_32645) 36748..36990 - 243 WP_053390218 conjugal transfer protein TrbE -
K6028_RS32650 (K6028_32650) 36980..37591 - 612 WP_053390217 hypothetical protein -
K6028_RS32655 (K6028_32655) 37584..37844 - 261 WP_053390216 hypothetical protein -
K6028_RS32660 (K6028_32660) 37876..39831 - 1956 WP_075606920 type-F conjugative transfer system mating-pair stabilization protein TraN traN
K6028_RS32665 (K6028_32665) 39828..40454 - 627 WP_075606921 type-F conjugative transfer system pilin assembly protein TrbC trbC
K6028_RS32670 (K6028_32670) 40467..41426 - 960 WP_088912317 conjugal transfer pilus assembly protein TraU traU
K6028_RS32675 (K6028_32675) 41470..42096 - 627 WP_060415482 type-F conjugative transfer system protein TraW traW
K6028_RS32680 (K6028_32680) 42093..42482 - 390 WP_060415481 type-F conjugative transfer system protein TrbI -
K6028_RS32685 (K6028_32685) 42482..45121 - 2640 WP_075606922 type IV secretion system protein TraC virb4
K6028_RS32690 (K6028_32690) 45214..45525 - 312 WP_227524648 hypothetical protein -
K6028_RS32695 (K6028_32695) 45684..45983 - 300 WP_053390307 hypothetical protein -
K6028_RS33320 45980..46381 - 402 WP_075606924 hypothetical protein -
K6028_RS32705 (K6028_32705) 46465..46653 - 189 WP_053390294 hypothetical protein -
K6028_RS32710 (K6028_32710) 46660..46938 - 279 WP_053390295 hypothetical protein -
K6028_RS32715 (K6028_32715) 47050..47619 - 570 WP_075606925 type IV conjugative transfer system lipoprotein TraV traV
K6028_RS32720 (K6028_32720) 47642..48238 - 597 WP_075606926 conjugal transfer pilus-stabilizing protein TraP -
K6028_RS32725 (K6028_32725) 48231..49652 - 1422 WP_075606927 F-type conjugal transfer pilus assembly protein TraB traB
K6028_RS32730 (K6028_32730) 49652..50386 - 735 WP_053390198 type-F conjugative transfer system secretin TraK traK
K6028_RS32735 (K6028_32735) 50373..50939 - 567 WP_053390197 type IV conjugative transfer system protein TraE traE
K6028_RS32740 (K6028_32740) 50959..51264 - 306 WP_053390196 type IV conjugative transfer system protein TraL traL
K6028_RS32745 (K6028_32745) 51278..51646 - 369 WP_053390195 type IV conjugative transfer system pilin TraA -
K6028_RS32750 (K6028_32750) 51711..51872 - 162 WP_172686697 TraY domain-containing protein -
K6028_RS32755 (K6028_32755) 52066..52740 - 675 WP_075606928 hypothetical protein -
K6028_RS32760 (K6028_32760) 52979..53371 - 393 WP_053390193 conjugal transfer relaxosome DNA-binding protein TraM -
K6028_RS32765 (K6028_32765) 53877..54299 + 423 WP_077268549 transglycosylase SLT domain-containing protein -
K6028_RS32770 (K6028_32770) 54322..54864 - 543 WP_053390246 antirestriction protein -

Host bacterium

ID   21249 GenBank   NZ_CP082177
Plasmid name   p9_SCLZS62 Incompatibility group   IncFII
Plasmid size   74646 bp Coordinate of oriT [Strand]   53683..53732 [+]
Host baterium   Raoultella planticola strain SCLZS62

Cargo genes

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