Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   118728
Name   oriT_pWP3-W18-CRE-02_5 in_silico
Organism   Klebsiella quasipneumoniae strain WP3-W18-CRE-02
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_AP021955 (46984..47033 [-], 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_pWP3-W18-CRE-02_5
AAATCTGCAAAATTTTAATTTTGCGTAGTGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   11889 GenBank   WP_182980894
Name   traI_H7R86_RS30645_pWP3-W18-CRE-02_5 insolico UniProt ID   _
Length   1752 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1752 a.a.        Molecular weight: 190471.28 Da        Isoelectric Point: 6.2889

>WP_182980894.1 conjugative transfer relaxase/helicase TraI [Klebsiella quasipneumoniae]
MLSFSQVKSAGSAGNYYTEKDNYYVIGSMEERWQGKGAELLGLEGKVDKQVFTELLQGKLPDGSDLTRIQ
DGVNKHRPGYDLTFSAPKSVSMLAMLGGDKRLIDAHNRAVTVALNQVESLASTRVKKDGVSETVLTGNLI
IARFNHDTSRAQDPQIHTHSVVINATQNGDKWQTLASDTVGKTGFSETILANRIAFGKIYQNSLRADVES
MGYKTVDAGRNGMWEMEGVPVESFSTRSQELREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMNT
LKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLEA
KDGVFELARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVPF
SDAVSVLAQDRPVMGIVSGQGGATGQRERVAELTLMARKQGRDVHILAADNRSRDFLAGDVRLAGETVTG
KSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTYR
WQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRHEGVLGEKDT
TITALTPVWLDSKSRGVRDYYREGMVMERWDPETRTHDRFVIDRVTASSNMLTLKDREGGRLDLKVSAVD
SQWTLFRAETLPVAEGERLAVLGKIPDTRLKGGESITVMKVEEGQLTVQRPGQKTTQTLAVGAGVFDGIK
IGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTSFSVVSEQ
LKTRSGETDLDAAIAQQKAGLRTPAEQAIHLAIPLLESEKLTFSRPQLLATALETGGGKVPMADIDTTIQ
TQIRSGQLLNAPVAHGYGNDLLISRQTWDAEKSILTHVLEGKGAVAPLMDRVPASLMTDLTAGQRAATRM
ILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVEARTTASFLHD
TQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIVAGGGRAVSSGDNDQLQPIAPGQPFRLMQQRS
AADVAIMKEIVRQVPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGVWAPGSSVVEFTQAQEKAIQK
ALSEGETLPAGQPASLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITLP
VLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSEGKERFISPREASAEGVTLY
RQEKITVSQGDRMRFSKSDPERGYVANSIWEVQSVSGDSVTLSDGKLTRTLTPKADQAQQHIDLAYAITA
HGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDSREGWIKAIQHSPEKATAHDILEP
RNDRAVKSADLLFGRARPLDETATGRAALQQSGLAQGSSPGKFISPGKKYPQPHVALPAFDKNGKAAGIW
LSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDRP
WNPVAMTGGRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEPA
DRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEAAIQQVASESLQRERLQAVERDMVRDLNREKTLG
GD

  Protein domains


Predicted by InterproScan.

DNA helicase TraI (TraI_C)

(1432-1554)

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

(576-628)

TrwC relaxase (TrwC)

(11-283)

AAA domain (AAA_30)

(970-1156)

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

(634-713)


  Protein structure



No available structure.




T4CP

ID   13916 GenBank   WP_061891869
Name   traD_H7R86_RS30640_pWP3-W18-CRE-02_5 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: 85982.96 Da        Isoelectric Point: 5.0577

>WP_061891869.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Klebsiella]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTVWCGEQLWTSFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDDDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDAPASGPADTNSHAGEQPEPVSQPA
PADMTVSPEPVKAPPTIKRPAAEPSVRTTEPSVLRVTTVPLIKPKAAAAAAAASTASSSGAPATAAGGTQ
QELAQQSAEQGQDMLPAGMNEDGVIEDMQAYDAWLADEQTQRDMQRREEVNINHSHRHDEQDDVEIGGNF

  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: 46426..76623

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
H7R86_RS30420 (WP3W18C02_P50360) 41978..42190 + 213 WP_019706020 hypothetical protein -
H7R86_RS30425 (WP3W18C02_P50370) 42201..42425 + 225 WP_014343499 hypothetical protein -
H7R86_RS30430 (WP3W18C02_P50380) 42506..42826 + 321 WP_004152720 type II toxin-antitoxin system RelE/ParE family toxin -
H7R86_RS30435 (WP3W18C02_P50390) 42816..43094 + 279 WP_004152721 helix-turn-helix transcriptional regulator -
H7R86_RS30440 (WP3W18C02_P50400) 43095..43508 + 414 WP_023287139 type II toxin-antitoxin system HigA family antitoxin -
H7R86_RS30445 (WP3W18C02_P50420) 44338..44580 + 243 Protein_47 DUF932 domain-containing protein -
H7R86_RS30455 45447..46031 + 585 Protein_49 DUF932 domain-containing protein -
H7R86_RS30460 46064..46393 + 330 WP_053390269 DUF5983 family protein -
H7R86_RS30465 (WP3W18C02_P50450) 46426..46911 - 486 WP_001568108 transglycosylase SLT domain-containing protein virB1
H7R86_RS30470 (WP3W18C02_P50460) 47346..47738 + 393 WP_032441878 conjugal transfer relaxosome DNA-binding protein TraM -
H7R86_RS30475 (WP3W18C02_P50470) 47945..48640 + 696 WP_072271345 transcriptional regulator TraJ family protein -
H7R86_RS30480 48724..49095 + 372 WP_181726206 TraY domain-containing protein -
H7R86_RS30485 (WP3W18C02_P50480) 49149..49517 + 369 WP_004194426 type IV conjugative transfer system pilin TraA -
H7R86_RS30490 (WP3W18C02_P50490) 49531..49836 + 306 WP_080923122 type IV conjugative transfer system protein TraL traL
H7R86_RS30495 (WP3W18C02_P50500) 49856..50422 + 567 WP_004144423 type IV conjugative transfer system protein TraE traE
H7R86_RS30500 (WP3W18C02_P50510) 50409..51149 + 741 WP_080923121 type-F conjugative transfer system secretin TraK traK
H7R86_RS30505 (WP3W18C02_P50520) 51149..52057 + 909 Protein_59 conjugal transfer protein TraB -
H7R86_RS30510 (WP3W18C02_P50530) 52087..52692 - 606 WP_000509966 recombinase family protein -
H7R86_RS30515 (WP3W18C02_P50540) 52787..55207 + 2421 Protein_61 Tn3-like element Tn5403 family transposase -
H7R86_RS30520 (WP3W18C02_P50550) 55275..56279 + 1005 WP_000427620 IS110-like element IS4321 family transposase -
H7R86_RS30525 (WP3W18C02_P50560) 56547..57011 + 465 Protein_63 Tn3 family transposase -
H7R86_RS30530 (WP3W18C02_P50570) 57045..58268 + 1224 Protein_64 type IV secretion system protein TraC -
H7R86_RS30535 (WP3W18C02_P50580) 58268..58657 + 390 WP_013214025 type-F conjugative transfer system protein TrbI -
H7R86_RS30540 (WP3W18C02_P50590) 58657..59292 + 636 WP_013214026 type-F conjugative transfer system protein TraW traW
H7R86_RS30545 (WP3W18C02_P50600) 59327..59728 + 402 WP_004194979 hypothetical protein -
H7R86_RS30550 (WP3W18C02_P50610) 59725..60714 + 990 WP_013214027 conjugal transfer pilus assembly protein TraU traU
H7R86_RS30555 (WP3W18C02_P50620) 60727..61365 + 639 WP_004193871 type-F conjugative transfer system pilin assembly protein TrbC trbC
H7R86_RS30560 (WP3W18C02_P50630) 61424..63379 + 1956 WP_085855703 type-F conjugative transfer system mating-pair stabilization protein TraN traN
H7R86_RS30565 (WP3W18C02_P50640) 63411..63665 + 255 WP_023287133 conjugal transfer protein TrbE -
H7R86_RS30570 (WP3W18C02_P50650) 63643..63891 + 249 WP_013214029 hypothetical protein -
H7R86_RS30575 (WP3W18C02_P50660) 63904..64230 + 327 WP_004152676 hypothetical protein -
H7R86_RS30580 (WP3W18C02_P50670) 64251..65003 + 753 WP_004152677 type-F conjugative transfer system pilin assembly protein TraF traF
H7R86_RS30585 (WP3W18C02_P50680) 65014..65253 + 240 WP_004144400 type-F conjugative transfer system pilin chaperone TraQ -
H7R86_RS30590 (WP3W18C02_P50690) 65225..65782 + 558 WP_013214031 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
H7R86_RS30595 (WP3W18C02_P50700) 65828..66271 + 444 WP_023287131 F-type conjugal transfer protein TrbF -
H7R86_RS30600 (WP3W18C02_P50710) 66249..67628 + 1380 WP_072159474 conjugal transfer pilus assembly protein TraH traH
H7R86_RS30605 (WP3W18C02_P50720) 67628..67810 + 183 Protein_79 conjugal transfer protein TraG N-terminal domain-containing protein -
H7R86_RS30610 (WP3W18C02_P50730) 67842..68918 - 1077 WP_000227969 IS110 family transposase -
H7R86_RS30615 (WP3W18C02_P50740) 69200..71851 + 2652 Protein_81 conjugal transfer mating-pair stabilization protein TraG -
H7R86_RS30620 (WP3W18C02_P50750) 71857..72384 + 528 WP_032409657 conjugal transfer protein TraS -
H7R86_RS30630 (WP3W18C02_P50770) 72573..73302 + 730 Protein_83 conjugal transfer complement resistance protein TraT -
H7R86_RS30635 (WP3W18C02_P50780) 73495..74184 + 690 WP_073972736 hypothetical protein -
H7R86_RS30640 (WP3W18C02_P50790) 74311..76623 + 2313 WP_061891869 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   19160 GenBank   NZ_AP021955
Plasmid name   pWP3-W18-CRE-02_5 Incompatibility group   IncFII
Plasmid size   91316 bp Coordinate of oriT [Strand]   46984..47033 [-]
Host baterium   Klebsiella quasipneumoniae strain WP3-W18-CRE-02

Cargo genes

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