Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   117259
Name   oriT_pK516_KPC in_silico
Organism   Klebsiella michiganensis strain K516
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP022349 (93099..93148 [-], 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_pK516_KPC
AAATCTGCAAAATTTTAATTTTGCGTAGTGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   11001 GenBank   WP_075606914
Name   traI_CF000_RS30845_pK516_KPC 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   6431 GenBank   WP_053390193
Name   WP_053390193_pK516_KPC 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   12853 GenBank   WP_075606915
Name   traD_CF000_RS30840_pK516_KPC 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: 95567..120283

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
CF000_RS30675 (CF000_30675) 91967..92509 + 543 WP_053390246 antirestriction protein -
CF000_RS30680 (CF000_30680) 92532..92954 - 423 WP_077268549 transglycosylase SLT domain-containing protein -
CF000_RS30685 (CF000_30685) 93460..93852 + 393 WP_053390193 conjugal transfer relaxosome DNA-binding protein TraM -
CF000_RS30690 (CF000_30690) 94091..94765 + 675 WP_075606928 hypothetical protein -
CF000_RS30695 (CF000_30695) 94959..95120 + 162 WP_172686697 TraY domain-containing protein -
CF000_RS30700 (CF000_30700) 95185..95553 + 369 WP_053390195 type IV conjugative transfer system pilin TraA -
CF000_RS30705 (CF000_30705) 95567..95872 + 306 WP_053390196 type IV conjugative transfer system protein TraL traL
CF000_RS30710 (CF000_30710) 95892..96458 + 567 WP_053390197 type IV conjugative transfer system protein TraE traE
CF000_RS30715 (CF000_30715) 96445..97179 + 735 WP_053390198 type-F conjugative transfer system secretin TraK traK
CF000_RS30720 (CF000_30720) 97179..98599 + 1421 Protein_118 F-type conjugal transfer pilus assembly protein TraB -
CF000_RS30725 (CF000_30725) 98592..99188 + 597 WP_075606926 conjugal transfer pilus-stabilizing protein TraP -
CF000_RS30730 (CF000_30730) 99211..99780 + 570 WP_075606925 type IV conjugative transfer system lipoprotein TraV traV
CF000_RS30735 (CF000_30735) 99892..100170 + 279 WP_053390295 hypothetical protein -
CF000_RS30740 (CF000_30740) 100177..100365 + 189 WP_053390294 hypothetical protein -
CF000_RS32600 100449..100850 + 402 WP_075606924 hypothetical protein -
CF000_RS30750 (CF000_30750) 100847..101146 + 300 WP_053390307 hypothetical protein -
CF000_RS30755 (CF000_30755) 101305..101616 + 312 WP_227524648 hypothetical protein -
CF000_RS30760 (CF000_30760) 101709..104348 + 2640 WP_075606922 type IV secretion system protein TraC virb4
CF000_RS30765 (CF000_30765) 104348..104737 + 390 WP_060415481 type-F conjugative transfer system protein TrbI -
CF000_RS30770 (CF000_30770) 104734..105360 + 627 WP_060415482 type-F conjugative transfer system protein TraW traW
CF000_RS30775 (CF000_30775) 105404..106363 + 960 WP_088912317 conjugal transfer pilus assembly protein TraU traU
CF000_RS30780 (CF000_30780) 106376..107002 + 627 WP_075606921 type-F conjugative transfer system pilin assembly protein TrbC trbC
CF000_RS30785 (CF000_30785) 106999..108954 + 1956 WP_075606920 type-F conjugative transfer system mating-pair stabilization protein TraN traN
CF000_RS30790 (CF000_30790) 108986..109246 + 261 WP_053390216 hypothetical protein -
CF000_RS30795 (CF000_30795) 109239..109850 + 612 WP_053390217 hypothetical protein -
CF000_RS30800 (CF000_30800) 109840..110082 + 243 WP_082226157 conjugal transfer protein TrbE -
CF000_RS30805 (CF000_30805) 110128..110454 + 327 WP_053390219 hypothetical protein -
CF000_RS30810 (CF000_30810) 110475..111227 + 753 WP_053390220 type-F conjugative transfer system pilin assembly protein TraF traF
CF000_RS30815 (CF000_30815) 111238..111474 + 237 WP_053390221 type-F conjugative transfer system pilin chaperone TraQ -
CF000_RS30820 (CF000_30820) 111449..112009 + 561 WP_039698500 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
CF000_RS30825 (CF000_30825) 111996..113366 + 1371 WP_075606918 conjugal transfer pilus assembly protein TraH traH
CF000_RS30830 (CF000_30830) 113366..116221 + 2856 WP_075606917 conjugal transfer mating-pair stabilization protein TraG traG
CF000_RS32080 116238..116909 + 672 WP_088883382 hypothetical protein -
CF000_RS32605 117155..117847 + 693 WP_202395549 hypothetical protein -
CF000_RS30840 (CF000_30840) 117965..120283 + 2319 WP_075606915 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   17692 GenBank   NZ_CP022349
Plasmid name   pK516_KPC Incompatibility group   IncFII
Plasmid size   126877 bp Coordinate of oriT [Strand]   93099..93148 [-]
Host baterium   Klebsiella michiganensis strain K516

Cargo genes

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