Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101520
Name   oriT_pKP1806281_1_KPC2 in_silico
Organism   Klebsiella pneumoniae strain KP1806281
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_JAZBHJ010000015 (95511..95560 [+], 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    		  GGTGTGGTGA
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 50 nt

>oriT_pKP1806281_1_KPC2
AAATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1353 GenBank   WP_115656491
Name   traI_VZ555_RS27600_pKP1806281_1_KPC2 insolico UniProt ID   _
Length   1753 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1753 a.a.        Molecular weight: 190792.79 Da        Isoelectric Point: 6.1566

>WP_115656491.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Klebsiella]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMDERWQGKGAEALGIDGKAVDKALFTELLKGKLPDGSDLTRI
QDGANRHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVTEAVRQLETLAATRVMTDGKSETVLTGNL
IVAKFNHDTNRNQEPQIHTHAVVINATQNGDKWQSLGTDKIGKTGFIENVYANQIAFGKLYREAFKPLVE
KLGYETEVVGKHGMWEMKGVPVEPFSTRSQEVREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMN
TLKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLE
AKDGVFDLARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVP
FSDAVSVLAQDRLVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVT
GKSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTY
RWQGGQQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKD
TTITALTPVWLDSKSRGVRDYYREGMVMERWDPENRTHDRFVIDRVTASSNMLTLKDRDGVRLDLKVSAV
DSQWTLFRADTLPVAEGERLAVLGKIPDTRLKGGESITVMKVEEGQLTVQRPGQKTTQTLAVGAGVFDGI
KIGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSE
QLKSRSGETDLDAAIAQQKAGLHTPAEQAIHLAIPLLESQDLTFSRPQLLATAMETGGGKVSMADIDTTI
QAQIRSGQLLNVPVAHGYGNDLLISRQTWDAEKSILTHVLEGKDAVAPLMDRVPASLMTDLTAGQRAATR
MILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLH
DTQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIVAGGGRAVSSGDNDQLQPIAPGQPFRLMQQR
SAADVAIMKEIVRQMPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGSWAPGSSVVEFTPKQEKAIE
KALSEGKTLPEGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITL
PVLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSEGKERFISPREASAEGVTL
YRQEKITVSQGDRMRFSKSDPERGYVANSIWEVQSVSGDSVTLSDGKITRTLTPKAEQAQQHIDLAYAIT
AHGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDNREGWIKAIKNSPEKATAHDILE
PRNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGSSPGKFISPGKKYPQPHVALPAFDKNGKAAGI
WLSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNMGEGLRMARDNPDTGVVVRLAGDDR
PWNPGAMTGGRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEP
ADRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEEAIQQVASERLQRERLQAVERDMVRDLNREKTL
GGD

  Protein domains


Predicted by InterproScan.

TrwC relaxase (TrwC)

(10-284)

DNA helicase TraI (TraI_C)

(1433-1555)

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

(577-629)

AAA domain (AAA_30)

(971-1157)

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

(635-714)


  Protein structure



No available structure.




T4CP

ID   984 GenBank   WP_110190319
Name   traD_VZ555_RS27605_pKP1806281_1_KPC2 insolico UniProt ID   _
Length   770 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 770 a.a.        Molecular weight: 85999.06 Da        Isoelectric Point: 5.0615

>WP_110190319.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Klebsiella]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTSFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDAPASGPADTNSHAGEQPEPVSQPA
PADMTVSPAPVKAPPTTKMPEEEPSVRSTEPSALRLTTVPLIKPKAAAAAAAAATVSSAGTPAAAAGGTE
QELAQQSAEQGQDMLPAGMNEDGVIEDMQAYDAWLADEQTQRDMQRREEVNINHSHRHDEQDNVEIGGNF

  Protein domains


Predicted by InterproScan.

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

(172-560)

F sex factor protein N terminal (TraD_N)

(32-128)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 67453..96118

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
VZ555_RS27605 (VZ555_27610) 67453..69765 - 2313 WP_110190319 type IV conjugative transfer system coupling protein TraD virb4
VZ555_RS27610 (VZ555_27615) 69821..69934 - 114 Protein_69 hypothetical protein -
VZ555_RS27615 (VZ555_27620) 70125..70856 - 732 WP_032415736 conjugal transfer complement resistance protein TraT -
VZ555_RS27620 (VZ555_27625) 71108..71710 - 603 WP_023280878 hypothetical protein -
VZ555_RS27625 (VZ555_27630) 71734..74556 - 2823 WP_115656490 conjugal transfer mating-pair stabilization protein TraG traG
VZ555_RS27630 (VZ555_27635) 74556..75935 - 1380 WP_004165169 conjugal transfer pilus assembly protein TraH traH
VZ555_RS27635 (VZ555_27640) 75913..76356 - 444 WP_032436741 F-type conjugal transfer protein TrbF -
VZ555_RS27640 (VZ555_27645) 76401..76958 - 558 WP_004152678 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
VZ555_RS27645 (VZ555_27650) 76930..77169 - 240 WP_004144400 type-F conjugative transfer system pilin chaperone TraQ -
VZ555_RS27650 (VZ555_27655) 77180..77932 - 753 WP_004152686 type-F conjugative transfer system pilin assembly protein TraF traF
VZ555_RS27655 (VZ555_27660) 77953..78279 - 327 WP_032436744 hypothetical protein -
VZ555_RS27660 (VZ555_27665) 78325..78510 - 186 WP_032436745 hypothetical protein -
VZ555_RS27665 (VZ555_27670) 78507..78743 - 237 WP_032436746 conjugal transfer protein TrbE -
VZ555_RS27670 (VZ555_27675) 78775..80730 - 1956 WP_023307537 type-F conjugative transfer system mating-pair stabilization protein TraN traN
VZ555_RS27675 (VZ555_27680) 80789..81427 - 639 WP_015065635 type-F conjugative transfer system pilin assembly protein TrbC trbC
VZ555_RS27680 (VZ555_27685) 81440..82399 - 960 WP_015065634 conjugal transfer pilus assembly protein TraU traU
VZ555_RS27685 (VZ555_27690) 82443..83069 - 627 WP_023307538 type-F conjugative transfer system protein TraW traW
VZ555_RS27690 (VZ555_27695) 83069..83458 - 390 WP_032436749 type-F conjugative transfer system protein TrbI -
VZ555_RS27695 (VZ555_27700) 83458..86097 - 2640 WP_241185251 type IV secretion system protein TraC virb4
VZ555_RS27700 (VZ555_27705) 86169..86567 - 399 WP_074188112 hypothetical protein -
VZ555_RS27705 (VZ555_27710) 86575..86874 - 300 WP_055322554 hypothetical protein -
VZ555_RS27710 (VZ555_27715) 86917..87320 - 404 Protein_89 hypothetical protein -
VZ555_RS27715 (VZ555_27720) 87384..87698 - 315 WP_055322492 hypothetical protein -
VZ555_RS27720 (VZ555_27725) 87699..87917 - 219 WP_014386199 hypothetical protein -
VZ555_RS27725 (VZ555_27730) 87941..88231 - 291 WP_032423381 hypothetical protein -
VZ555_RS27730 (VZ555_27735) 88236..88646 - 411 WP_023307546 hypothetical protein -
VZ555_RS27735 (VZ555_27740) 88778..89347 - 570 WP_023307547 type IV conjugative transfer system lipoprotein TraV traV
VZ555_RS27740 (VZ555_27745) 89559..89978 - 420 Protein_95 conjugal transfer pilus-stabilizing protein TraP -
VZ555_RS27745 (VZ555_27750) 89971..91395 - 1425 WP_023307549 F-type conjugal transfer pilus assembly protein TraB traB
VZ555_RS27750 (VZ555_27755) 91395..92135 - 741 WP_004152497 type-F conjugative transfer system secretin TraK traK
VZ555_RS27755 (VZ555_27760) 92122..92688 - 567 WP_004152602 type IV conjugative transfer system protein TraE traE
VZ555_RS27760 (VZ555_27765) 92708..93013 - 306 WP_004178059 type IV conjugative transfer system protein TraL traL
VZ555_RS27765 (VZ555_27770) 93027..93395 - 369 WP_004178060 type IV conjugative transfer system pilin TraA -
VZ555_RS27770 (VZ555_27775) 93449..93820 - 372 WP_004208838 TraY domain-containing protein -
VZ555_RS27775 (VZ555_27780) 93904..94599 - 696 WP_023307551 transcriptional regulator TraJ family protein -
VZ555_RS27780 (VZ555_27785) 94806..95198 - 393 WP_004206766 conjugal transfer relaxosome DNA-binding protein TraM -
VZ555_RS27785 (VZ555_27790) 95633..96118 + 486 WP_001568108 transglycosylase SLT domain-containing protein virB1
VZ555_RS27790 (VZ555_27795) 96151..96480 - 330 WP_011977736 DUF5983 family protein -
VZ555_RS27795 (VZ555_27800) 96513..97334 - 822 WP_023316395 DUF932 domain-containing protein -
VZ555_RS27800 (VZ555_27805) 98740..99153 - 414 WP_021312979 helix-turn-helix domain-containing protein -
VZ555_RS27805 (VZ555_27810) 99154..99432 - 279 WP_004152721 helix-turn-helix transcriptional regulator -
VZ555_RS27810 (VZ555_27815) 99422..99742 - 321 WP_004152720 type II toxin-antitoxin system RelE/ParE family toxin -
VZ555_RS27815 (VZ555_27820) 99823..100047 - 225 WP_014343499 hypothetical protein -
VZ555_RS27820 (VZ555_27825) 100058..100270 - 213 WP_019706020 hypothetical protein -
VZ555_RS27825 (VZ555_27830) 100331..100687 - 357 WP_019706019 hypothetical protein -

Host bacterium

ID   1964 GenBank   NZ_JAZBHJ010000015
Plasmid name   pKP1806281_1_KPC2 Incompatibility group   IncFII
Plasmid size   128635 bp Coordinate of oriT [Strand]   95511..95560 [+]
Host baterium   Klebsiella pneumoniae strain KP1806281

Cargo genes

Drug resistance gene   blaOXA-9, blaTEM-1A, blaKPC-2
Virulence gene   -
Metal resistance gene   merE, merD, merA
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIE9