Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   119161
Name   oriT_pKPN1705-1 in_silico
Organism   Klebsiella quasivariicola strain KPN1705
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP022824 (192203..192252 [+], 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_pKPN1705-1
AAATCTGCAAAATTTTAATTTTGCGTAGTGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   12118 GenBank   WP_095033678
Name   traI_B8P98_RS28750_pKPN1705-1 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: 190171.86 Da        Isoelectric Point: 6.2218

>WP_095033678.1 conjugative transfer relaxase/helicase TraI [Klebsiella quasivariicola]
MLSFSQVKSAGSAGNYYTDKDNYYVIGSMDERWQGKGAEALGLEGKVDKQVFTELLQGKLPDGSDLTRIQ
DGVNKHRPGYDLTFSAPKSVSMLAMLGGDKRLIDAHNRAVTVALNQVESLASTRVKRDGVSETVLTGNLI
IARFNHDTSRAQDPQIHTHSVVINATQNGDKWQTLASDTVGKTGFSENILANRIALGKIYQNSLRADVES
MGYKTVDAGKNGMWEMEGVPVESFSTRSQELREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMNT
LKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLEA
KDGVFELARAGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVPF
SDAVSVLAQDRPVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVTG
KSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTYR
WQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGAREQSVLNGLIRDSLRHEGVLGEKDT
TITALTPVWLDSKSRGVRDYYREGMVMERWDPETRTHDRFVIDRVTASSNMLTLKDRDGVRLDLKVSAVD
SQWTLFRAETLPVAEGERLAVLGKIPDTRLKGGESITVMKVEDGQLTVQRPGQKTTQTLAVGAGVFDGIK
IGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSEQ
LKTRSGETDLDAAIAQQKAGLRTPAEQAIHLAIPLLESEKLTFSRPQLLATALETGGGKVPMADIDTTIQ
AQIRSGQLLNVPVAHGHGNDLLISRQTWDAEKSILTHVLEGKDAVAPLMDRVPASLMTDLTAGQRAATRM
ILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLHD
TQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIVAGGGRAVSSGDNDQLQPIAPGQPFRLMQQRS
AADVAIMKEIVRQVPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGVWAPGSSVVEFTPAQEKAIQK
ALSEGETLPAGQPATLYEALVKDYTGRTPEAQSQTLIITHLNKDRRALNSLIHDARRENGETGKEEITLP
VLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSEGKERYISPREASAEGVTLY
RQEKITVSQGDRMRFSKSDLERGYVANSIWEVQSVSGDSVTLSDGKTTRTLTPKADQAQQHIDLAYAITA
HGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDSREGWIKAIKHSPEKATAHDILEP
RNDRAVKSADLLFGRARPLDETAAGRAALQQSGLAQGNSPGKFISPGKKYPQPHVALPAFDKNGKAAGIW
LSPLTDRDGRLEAIGGEGRIMGNDAARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDRP
WNPGAITGGRVWADPAPVGPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEPA
DRVKEVIGDVIRGLERDRPGPEKTTLPDDPQFRRQEAAIQQVASESLQRERLQAVERDMVRDLNREKTLG
GD

  Protein domains


Predicted by InterproScan.

TrwC relaxase (TrwC)

(10-283)

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

(576-628)

DNA helicase TraI (TraI_C)

(1432-1554)

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

(634-713)

AAA domain (AAA_30)

(970-1156)


  Protein structure



No available structure.




T4CP

ID   14195 GenBank   WP_023313941
Name   traD_B8P98_RS28755_pKPN1705-1 insolico UniProt ID   _
Length   769 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 769 a.a.        Molecular weight: 85666.78 Da        Isoelectric Point: 5.2499

>WP_023313941.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacterales]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTSFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDAPASGTADTNSHAGEQPEPVSQPA
PAEVTVSPAPVKAPATTKMPAAEPSARTAEPPVLRVTTVPLIKPKAAAAAAAAATASSAGTPAAAAGGTE
QELAQQSAEQGQDMLPAGMNKDGVIEDMQAYDAWADEQTLRDMQRREEVNINHSHRHDEQDDVEIGGNF

  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: 163263..192810

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
B8P98_RS28755 (B8P98_28735) 163263..165572 - 2310 WP_023313941 type IV conjugative transfer system coupling protein TraD virb4
B8P98_RS31330 165699..166388 - 690 WP_013023831 hypothetical protein -
B8P98_RS28765 (B8P98_28745) 166581..167015 - 435 Protein_175 complement resistance protein TraT -
B8P98_RS28770 (B8P98_28750) 167030..167998 + 969 WP_015958259 IS5 family transposase -
B8P98_RS28775 (B8P98_28755) 168055..168376 - 322 Protein_177 complement resistance protein TraT -
B8P98_RS28785 (B8P98_28760) 168565..169092 - 528 WP_032409657 conjugal transfer protein TraS -
B8P98_RS28790 (B8P98_28765) 169098..171947 - 2850 WP_023287129 conjugal transfer mating-pair stabilization protein TraG traG
B8P98_RS28795 (B8P98_28770) 171947..173326 - 1380 WP_167382709 conjugal transfer pilus assembly protein TraH traH
B8P98_RS28800 (B8P98_28775) 173304..173747 - 444 WP_023287131 F-type conjugal transfer protein TrbF -
B8P98_RS28805 (B8P98_28780) 173793..174350 - 558 WP_013214031 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
B8P98_RS28810 (B8P98_28785) 174322..174561 - 240 WP_004144400 type-F conjugative transfer system pilin chaperone TraQ -
B8P98_RS28815 (B8P98_28790) 174572..175324 - 753 WP_004152677 type-F conjugative transfer system pilin assembly protein TraF traF
B8P98_RS28820 (B8P98_28795) 175345..175671 - 327 WP_004152676 hypothetical protein -
B8P98_RS28825 (B8P98_28800) 175684..175932 - 249 WP_013214029 hypothetical protein -
B8P98_RS28830 (B8P98_28805) 175910..176164 - 255 WP_023287133 conjugal transfer protein TrbE -
B8P98_RS28835 (B8P98_28810) 176196..178151 - 1956 WP_023287134 type-F conjugative transfer system mating-pair stabilization protein TraN traN
B8P98_RS28840 (B8P98_28815) 178210..178848 - 639 WP_004193871 type-F conjugative transfer system pilin assembly protein TrbC trbC
B8P98_RS28845 (B8P98_28820) 178861..179850 - 990 WP_013214027 conjugal transfer pilus assembly protein TraU traU
B8P98_RS28850 (B8P98_28825) 179847..180248 - 402 WP_004194979 hypothetical protein -
B8P98_RS28855 (B8P98_28830) 180283..180918 - 636 WP_013214026 type-F conjugative transfer system protein TraW traW
B8P98_RS28860 (B8P98_28835) 180918..181307 - 390 WP_013214025 type-F conjugative transfer system protein TrbI -
B8P98_RS28865 (B8P98_28840) 181307..183946 - 2640 WP_013214024 type IV secretion system protein TraC virb4
B8P98_RS28870 (B8P98_28845) 184018..184416 - 399 WP_014343490 hypothetical protein -
B8P98_RS28885 (B8P98_28860) 184793..185197 - 405 WP_004197817 hypothetical protein -
B8P98_RS28890 (B8P98_28865) 185264..185575 - 312 WP_013214022 hypothetical protein -
B8P98_RS28895 (B8P98_28870) 185576..185794 - 219 WP_004195468 hypothetical protein -
B8P98_RS28900 (B8P98_28875) 186117..186701 - 585 WP_023287136 type IV conjugative transfer system lipoprotein TraV traV
B8P98_RS28905 (B8P98_28880) 186774..188198 - 1425 WP_023287137 F-type conjugal transfer pilus assembly protein TraB traB
B8P98_RS28910 (B8P98_28885) 188198..188938 - 741 WP_013214019 type-F conjugative transfer system secretin TraK traK
B8P98_RS28915 (B8P98_28890) 188925..189491 - 567 WP_004144423 type IV conjugative transfer system protein TraE traE
B8P98_RS28920 (B8P98_28895) 189511..189816 - 306 WP_004144424 type IV conjugative transfer system protein TraL traL
B8P98_RS28925 (B8P98_28900) 189830..190198 - 369 WP_004194426 type IV conjugative transfer system pilin TraA -
B8P98_RS28930 (B8P98_28905) 190260..190466 - 207 WP_171773970 TraY domain-containing protein -
B8P98_RS28935 (B8P98_28910) 190581..191318 - 738 WP_157738383 conjugal transfer protein TrbJ -
B8P98_RS28940 (B8P98_28915) 191518..191934 - 417 WP_014343494 conjugal transfer relaxosome DNA-binding protein TraM -
B8P98_RS28945 (B8P98_28920) 192325..192810 + 486 WP_001568108 transglycosylase SLT domain-containing protein virB1
B8P98_RS28950 (B8P98_28925) 192843..193172 - 330 WP_053390269 DUF5983 family protein -
B8P98_RS28955 (B8P98_28930) 193205..194026 - 822 WP_004152492 DUF932 domain-containing protein -
B8P98_RS28980 (B8P98_28955) 194856..195269 - 414 WP_023287139 type II toxin-antitoxin system HigA family antitoxin -
B8P98_RS28985 (B8P98_28960) 195270..195548 - 279 WP_004152721 helix-turn-helix transcriptional regulator -
B8P98_RS28990 (B8P98_28965) 195538..195858 - 321 WP_004152720 type II toxin-antitoxin system RelE/ParE family toxin -
B8P98_RS28995 (B8P98_28970) 195939..196163 - 225 WP_014343499 hypothetical protein -
B8P98_RS29000 (B8P98_28975) 196174..196386 - 213 WP_019706020 hypothetical protein -
B8P98_RS29005 (B8P98_28980) 196479..197459 + 981 WP_020806188 IS5-like element ISKpn26 family transposase -
B8P98_RS31960 197441..197650 + 210 WP_143873711 hypothetical protein -

Host bacterium

ID   19591 GenBank   NZ_CP022824
Plasmid name   pKPN1705-1 Incompatibility group   IncFIB
Plasmid size   240771 bp Coordinate of oriT [Strand]   192203..192252 [+]
Host baterium   Klebsiella quasivariicola strain KPN1705

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   silE, silS, silR, silC, silF, silB, silA, silP, pcoA, pcoB, pcoC, pcoD, pcoR, pcoS, pcoE, arsH, arsC, arsB, arsA, arsD, arsR, fecD, fecE
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -