Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   119508
Name   oriT_pKPC2_020121 in_silico
Organism   Klebsiella grimontii strain WCHKG020121
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_MH192342 (54141..54190 [-], 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_020121
AAATCTGCAAAATTTTAATTTTGCGTAGTGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   12323 GenBank   WP_075606914
Name   traI_HTS08_RS00510_pKPC2_020121 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   7017 GenBank   WP_053390193
Name   WP_053390193_pKPC2_020121 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   14471 GenBank   WP_075606915
Name   traD_HTS08_RS00505_pKPC2_020121 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: 56609..81327

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HTS08_RS00330 52547..53014 - 468 WP_053390247 hypothetical protein -
HTS08_RS00335 (KCOIPNDD_00066) 53009..53551 + 543 WP_053390246 antirestriction protein -
HTS08_RS00340 (KCOIPNDD_00067) 53574..53996 - 423 WP_077268549 transglycosylase SLT domain-containing protein -
HTS08_RS00345 (KCOIPNDD_00068) 54502..54894 + 393 WP_053390193 conjugal transfer relaxosome DNA-binding protein TraM -
HTS08_RS00350 (KCOIPNDD_00069) 55133..55807 + 675 WP_075606928 hypothetical protein -
HTS08_RS00355 56001..56162 + 162 WP_172686697 TraY domain-containing protein -
HTS08_RS00360 (KCOIPNDD_00070) 56227..56595 + 369 WP_053390195 type IV conjugative transfer system pilin TraA -
HTS08_RS00365 (KCOIPNDD_00071) 56609..56914 + 306 WP_053390196 type IV conjugative transfer system protein TraL traL
HTS08_RS00370 (KCOIPNDD_00072) 56934..57500 + 567 WP_053390197 type IV conjugative transfer system protein TraE traE
HTS08_RS00375 (KCOIPNDD_00073) 57487..58221 + 735 WP_053390198 type-F conjugative transfer system secretin TraK traK
HTS08_RS00380 (KCOIPNDD_00074) 58221..59642 + 1422 WP_075606927 F-type conjugal transfer pilus assembly protein TraB traB
HTS08_RS00385 (KCOIPNDD_00075) 59635..60231 + 597 WP_075606926 conjugal transfer pilus-stabilizing protein TraP -
HTS08_RS00390 (KCOIPNDD_00076) 60254..60823 + 570 WP_075606925 type IV conjugative transfer system lipoprotein TraV traV
HTS08_RS00395 (KCOIPNDD_00077) 60935..61213 + 279 WP_053390295 hypothetical protein -
HTS08_RS00400 (KCOIPNDD_00078) 61220..61408 + 189 WP_053390294 hypothetical protein -
HTS08_RS00585 (KCOIPNDD_00079) 61492..61893 + 402 WP_075606924 hypothetical protein -
HTS08_RS00410 (KCOIPNDD_00080) 61890..62189 + 300 WP_053390307 hypothetical protein -
HTS08_RS00415 62348..62659 + 312 WP_227524648 hypothetical protein -
HTS08_RS00420 (KCOIPNDD_00081) 62752..65391 + 2640 WP_075606922 type IV secretion system protein TraC virb4
HTS08_RS00425 (KCOIPNDD_00082) 65391..65780 + 390 WP_060415481 type-F conjugative transfer system protein TrbI -
HTS08_RS00430 (KCOIPNDD_00083) 65777..66403 + 627 WP_060415482 type-F conjugative transfer system protein TraW traW
HTS08_RS00435 (KCOIPNDD_00084) 66447..67406 + 960 WP_088912317 conjugal transfer pilus assembly protein TraU traU
HTS08_RS00440 (KCOIPNDD_00085) 67419..68045 + 627 WP_075606921 type-F conjugative transfer system pilin assembly protein TrbC trbC
HTS08_RS00445 (KCOIPNDD_00086) 68042..69997 + 1956 WP_075606920 type-F conjugative transfer system mating-pair stabilization protein TraN traN
HTS08_RS00450 (KCOIPNDD_00087) 70029..70289 + 261 WP_053390216 hypothetical protein -
HTS08_RS00455 (KCOIPNDD_00088) 70282..70893 + 612 WP_053390217 hypothetical protein -
HTS08_RS00460 (KCOIPNDD_00089) 70883..71125 + 243 WP_053390218 conjugal transfer protein TrbE -
HTS08_RS00465 (KCOIPNDD_00090) 71171..71497 + 327 WP_075606919 hypothetical protein -
HTS08_RS00470 (KCOIPNDD_00091) 71518..72270 + 753 WP_053390220 type-F conjugative transfer system pilin assembly protein TraF traF
HTS08_RS00475 (KCOIPNDD_00092) 72281..72517 + 237 WP_053390221 type-F conjugative transfer system pilin chaperone TraQ -
HTS08_RS00480 (KCOIPNDD_00093) 72492..73052 + 561 WP_039698500 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
HTS08_RS00485 (KCOIPNDD_00094) 73039..74409 + 1371 WP_075606918 conjugal transfer pilus assembly protein TraH traH
HTS08_RS00490 (KCOIPNDD_00095) 74409..77264 + 2856 WP_075606917 conjugal transfer mating-pair stabilization protein TraG traG
HTS08_RS00495 (KCOIPNDD_00096) 77281..77952 + 672 WP_088883382 hypothetical protein -
HTS08_RS00590 (KCOIPNDD_00097) 78198..78890 + 693 WP_202395549 hypothetical protein -
HTS08_RS00505 (KCOIPNDD_00098) 79009..81327 + 2319 WP_075606915 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   19938 GenBank   NZ_MH192342
Plasmid name   pKPC2_020121 Incompatibility group   IncFII
Plasmid size   95734 bp Coordinate of oriT [Strand]   54141..54190 [-]
Host baterium   Klebsiella grimontii strain WCHKG020121

Cargo genes

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