Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   107049
Name   oriT_pKPC2_EClY2403 in_silico
Organism   Enterobacter cloacae strain EClY2403
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_KY399973 (52857..52906 [-], 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_pKPC2_EClY2403
AAATCTGCAAAATTTTAATTTTGCGTAGTGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   4659 GenBank   WP_075606914
Name   traI_BS633_RS00500_pKPC2_EClY2403 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   2078 GenBank   WP_053390193
Name   WP_053390193_pKPC2_EClY2403 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   4765 GenBank   WP_075606915
Name   traD_BS633_RS00495_pKPC2_EClY2403 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: 55325..80043

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
BS633_RS00320 51263..51730 - 468 WP_053390247 hypothetical protein -
BS633_RS00325 (pKPC2_EClY2403_00063) 51725..52267 + 543 WP_053390246 antirestriction protein -
BS633_RS00330 (pKPC2_EClY2403_00064) 52290..52712 - 423 WP_077268549 transglycosylase SLT domain-containing protein -
BS633_RS00335 (pKPC2_EClY2403_00065) 53218..53610 + 393 WP_053390193 conjugal transfer relaxosome DNA-binding protein TraM -
BS633_RS00340 (pKPC2_EClY2403_00066) 53849..54523 + 675 WP_075606928 hypothetical protein -
BS633_RS00345 54717..54878 + 162 WP_172686697 TraY domain-containing protein -
BS633_RS00350 (pKPC2_EClY2403_00067) 54943..55311 + 369 WP_053390195 type IV conjugative transfer system pilin TraA -
BS633_RS00355 (pKPC2_EClY2403_00068) 55325..55630 + 306 WP_053390196 type IV conjugative transfer system protein TraL traL
BS633_RS00360 (pKPC2_EClY2403_00069) 55650..56216 + 567 WP_053390197 type IV conjugative transfer system protein TraE traE
BS633_RS00365 (pKPC2_EClY2403_00070) 56203..56937 + 735 WP_053390198 type-F conjugative transfer system secretin TraK traK
BS633_RS00370 (pKPC2_EClY2403_00071) 56937..58358 + 1422 WP_075606927 F-type conjugal transfer pilus assembly protein TraB traB
BS633_RS00375 (pKPC2_EClY2403_00072) 58351..58947 + 597 WP_075606926 conjugal transfer pilus-stabilizing protein TraP -
BS633_RS00380 (pKPC2_EClY2403_00073) 58970..59539 + 570 WP_075606925 type IV conjugative transfer system lipoprotein TraV traV
BS633_RS00385 (pKPC2_EClY2403_00074) 59651..59929 + 279 WP_053390295 hypothetical protein -
BS633_RS00390 (pKPC2_EClY2403_00075) 59936..60124 + 189 WP_053390294 hypothetical protein -
BS633_RS00530 (pKPC2_EClY2403_00076) 60208..60609 + 402 WP_075606924 hypothetical protein -
BS633_RS00400 (pKPC2_EClY2403_00077) 60606..60905 + 300 WP_053390307 hypothetical protein -
BS633_RS00405 61064..61375 + 312 WP_227524648 hypothetical protein -
BS633_RS00410 (pKPC2_EClY2403_00078) 61468..64107 + 2640 WP_075606922 type IV secretion system protein TraC virb4
BS633_RS00415 (pKPC2_EClY2403_00079) 64107..64496 + 390 WP_060415481 type-F conjugative transfer system protein TrbI -
BS633_RS00420 (pKPC2_EClY2403_00080) 64493..65119 + 627 WP_060415482 type-F conjugative transfer system protein TraW traW
BS633_RS00425 (pKPC2_EClY2403_00081) 65163..66122 + 960 WP_088912317 conjugal transfer pilus assembly protein TraU traU
BS633_RS00430 (pKPC2_EClY2403_00082) 66135..66761 + 627 WP_075606921 type-F conjugative transfer system pilin assembly protein TrbC trbC
BS633_RS00435 (pKPC2_EClY2403_00083) 66758..68713 + 1956 WP_075606920 type-F conjugative transfer system mating-pair stabilization protein TraN traN
BS633_RS00440 (pKPC2_EClY2403_00084) 68745..69005 + 261 WP_053390216 hypothetical protein -
BS633_RS00445 (pKPC2_EClY2403_00085) 68998..69609 + 612 WP_053390217 hypothetical protein -
BS633_RS00450 (pKPC2_EClY2403_00086) 69599..69841 + 243 WP_053390218 conjugal transfer protein TrbE -
BS633_RS00455 (pKPC2_EClY2403_00087) 69887..70213 + 327 WP_075606919 hypothetical protein -
BS633_RS00460 (pKPC2_EClY2403_00088) 70234..70986 + 753 WP_053390220 type-F conjugative transfer system pilin assembly protein TraF traF
BS633_RS00465 (pKPC2_EClY2403_00089) 70997..71233 + 237 WP_053390221 type-F conjugative transfer system pilin chaperone TraQ -
BS633_RS00470 (pKPC2_EClY2403_00090) 71208..71768 + 561 WP_039698500 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
BS633_RS00475 (pKPC2_EClY2403_00091) 71755..73125 + 1371 WP_075606918 conjugal transfer pilus assembly protein TraH traH
BS633_RS00480 (pKPC2_EClY2403_00092) 73125..75980 + 2856 WP_075606917 conjugal transfer mating-pair stabilization protein TraG traG
BS633_RS00485 (pKPC2_EClY2403_00093) 75997..76668 + 672 WP_088883382 hypothetical protein -
BS633_RS00535 (pKPC2_EClY2403_00094) 76914..77606 + 693 WP_202395549 hypothetical protein -
BS633_RS00495 (pKPC2_EClY2403_00095) 77725..80043 + 2319 WP_075606915 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   7485 GenBank   NZ_KY399973
Plasmid name   pKPC2_EClY2403 Incompatibility group   IncFII
Plasmid size   88213 bp Coordinate of oriT [Strand]   52857..52906 [-]
Host baterium   Enterobacter cloacae strain EClY2403

Cargo genes

Drug resistance gene   blaKPC-2
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -