Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   119998
Name   oriT_pWW14A-3 in_silico
Organism   Klebsiella quasipneumoniae strain WW-14A
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP080101 (73518..73567 [-], 50 nt)
oriT length   50 nt
IRs (inverted repeats)      7..13, 18..24  (GCAAAAT..ATTTTGC)
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_pWW14A-3
AAATCTGCAAAATATTAATTTTGCGTGGGGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   12605 GenBank   WP_219804377
Name   traI_KZX49_RS28870_pWW14A-3 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: 190574.55 Da        Isoelectric Point: 6.2580

>WP_219804377.1 conjugative transfer relaxase/helicase TraI [Klebsiella quasipneumoniae]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMDERWQGKGAEALGIDGKAVDKALFTELLKGKLPDGSDLTRI
QDGANRHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVTEAVRQLETLAATRVMTDGKSETVLTGNL
IVAKFNHDTNRNQEPQIHTHAVVINATQNGDKWQSLGTDKIGKTGFIENVYANQIAFGKLYREAFKPLVE
KLGYETEVVGKHGMWEMKGVPVEPFSTRSQEVREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMN
TLKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLE
AKDGVFELARAGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVP
FSDAVSVLAQDRPVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVT
GKSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTY
RWQGGQQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKD
TTITALTPVWLDSKSRGVRDYYREGMVMESWDPETRTHDRFVIDRVTASSNMLTLKDREGGRLDLKVSAV
DSQWTLFRAETLPVAEGERLAVLGKIPDTRLKGGESITVMKVEDGQLTVQRPGQKTTQTLAVGAGVFDGI
KIGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSE
QLKTRSGETDLDAAIAQQKAGLRTPAEQAIHLAIPLLESEKLTFSRPQLLATALETGGGKVSMADIDTTI
QAQIRSGQLLNVPVAHGYGNDLLISRQTWDAEKSILTHVLEGKDAVAPLMDRVPASLMTDLTAGQRAATR
MILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLH
DTQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIVAGGGRAVSSGDNDQLQPIAPGQPFRLMQQR
SAADIAIMKEIVRQVPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGVWAPGSSVVEFTPKQEKAIQ
KALSEGKTLPAGQPATLYEALVKDYTGRTPEAQSQTVVITHLNKDRRALNSLIHDARRENGETGKEEITL
PVLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSDGKERYISPREASAEGVTL
YRQEKITVSQGDRMRFSKSDLERGYVANSIWEVQSVSGDSVTLSDGKTTRTLTPKADQAQQHIDLAYAIT
AHGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDSREGWIKAIKHSPEKATAHDILE
PRNDRAVKSADLLFGRARPLDETAAGRAALQQSGLAQGNSPGKFISPGKKYPQPHVALPAFDKNGKAAGI
WLSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDR
PWNPGAMTGGRVWAEPAPLAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEP
ADRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEEAIQQVASERLQRERLQAVERDMVRDLNREKTL
GGD

  Protein domains


Predicted by InterproScan.

AAA domain (AAA_30)

(971-1157)

TrwC relaxase (TrwC)

(10-284)

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

(577-629)

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

(635-714)

DNA helicase TraI (TraI_C)

(1433-1555)


  Protein structure



No available structure.




T4CP

ID   14804 GenBank   WP_048235023
Name   traD_KZX49_RS28865_pWW14A-3 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: 85941.02 Da        Isoelectric Point: 5.1149

>WP_048235023.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacterales]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTSFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDAPASGPADTNSHAGEQPEPVSQPA
PADMTVSPAPVKAPPTTKMPAEEPSVRSTEPSALRLTTVPLIKPKAAAAAAAAATVSSAGTPAAAAGGTE
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: 72951..103138

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
KZX49_RS28645 (KZX49_28625) 68141..69016 + 876 WP_060415463 DUF4942 domain-containing protein -
KZX49_RS28650 (KZX49_28630) 69796..70134 + 339 WP_020804855 hypothetical protein -
KZX49_RS28655 (KZX49_28635) 70191..70538 + 348 WP_064182675 hypothetical protein -
KZX49_RS28660 (KZX49_28640) 70627..70857 + 231 WP_060415465 hypothetical protein -
KZX49_RS28665 (KZX49_28645) 70904..71737 + 834 WP_060415466 N-6 DNA methylase -
KZX49_RS28670 (KZX49_28650) 72023..72391 - 369 WP_080848162 hypothetical protein -
KZX49_RS28675 (KZX49_28655) 72386..72928 + 543 WP_060415467 antirestriction protein -
KZX49_RS28680 (KZX49_28660) 72951..73373 - 423 WP_073972322 transglycosylase SLT domain-containing protein virB1
KZX49_RS28685 (KZX49_28665) 73875..74267 + 393 WP_032736874 conjugal transfer relaxosome DNA-binding protein TraM -
KZX49_RS28690 (KZX49_28670) 74506..75207 + 702 WP_032736872 hypothetical protein -
KZX49_RS28695 (KZX49_28675) 75292..75492 + 201 WP_060415469 TraY domain-containing protein -
KZX49_RS28700 (KZX49_28680) 75561..75929 + 369 WP_032736871 type IV conjugative transfer system pilin TraA -
KZX49_RS28705 (KZX49_28685) 75943..76248 + 306 WP_032736870 type IV conjugative transfer system protein TraL traL
KZX49_RS28710 (KZX49_28690) 76268..76834 + 567 WP_219804375 type IV conjugative transfer system protein TraE traE
KZX49_RS28715 (KZX49_28695) 76821..77555 + 735 WP_032736867 type-F conjugative transfer system secretin TraK traK
KZX49_RS28720 (KZX49_28700) 77555..78976 + 1422 WP_032736866 F-type conjugal transfer pilus assembly protein TraB traB
KZX49_RS28725 (KZX49_28705) 78969..79130 + 162 WP_154235504 hypothetical protein -
KZX49_RS28730 (KZX49_28710) 79150..79719 + 570 WP_042946293 type IV conjugative transfer system lipoprotein TraV traV
KZX49_RS28735 (KZX49_28715) 79831..80109 + 279 WP_181245216 hypothetical protein -
KZX49_RS30075 80194..80595 + 402 WP_032736864 hypothetical protein -
KZX49_RS28745 (KZX49_28725) 80592..80891 + 300 WP_032736863 hypothetical protein -
KZX49_RS28750 (KZX49_28730) 80978..81361 + 384 WP_042946290 hypothetical protein -
KZX49_RS28755 (KZX49_28735) 81454..84093 + 2640 WP_064343533 type IV secretion system protein TraC virb4
KZX49_RS28760 (KZX49_28740) 84093..84485 + 393 WP_064343534 type-F conjugative transfer system protein TrbI -
KZX49_RS28765 (KZX49_28745) 84482..85108 + 627 WP_064343535 type-F conjugative transfer system protein TraW traW
KZX49_RS28770 (KZX49_28750) 85152..86111 + 960 WP_229295972 conjugal transfer pilus assembly protein TraU traU
KZX49_RS28775 (KZX49_28755) 86124..86771 + 648 WP_064343536 type-F conjugative transfer system pilin assembly protein TrbC trbC
KZX49_RS28780 (KZX49_28760) 86833..88371 - 1539 WP_023316587 IS66-like element ISKpn24 family transposase -
KZX49_RS28785 (KZX49_28765) 88420..88767 - 348 WP_000612626 IS66 family insertion sequence element accessory protein TnpB -
KZX49_RS28790 (KZX49_28770) 88764..89168 - 405 WP_000839182 transposase -
KZX49_RS28795 (KZX49_28775) 89610..91565 + 1956 WP_177340707 type-F conjugative transfer system mating-pair stabilization protein TraN traN
KZX49_RS28800 (KZX49_28780) 91597..91857 + 261 WP_053390216 hypothetical protein -
KZX49_RS28805 (KZX49_28785) 91850..92461 + 612 WP_053390217 hypothetical protein -
KZX49_RS28810 (KZX49_28790) 92451..92693 + 243 WP_053390218 conjugal transfer protein TrbE -
KZX49_RS28815 (KZX49_28795) 92739..93065 + 327 WP_053390219 hypothetical protein -
KZX49_RS28820 (KZX49_28800) 93086..93838 + 753 WP_053390220 type-F conjugative transfer system pilin assembly protein TraF traF
KZX49_RS28825 (KZX49_28805) 93849..94085 + 237 WP_053390221 type-F conjugative transfer system pilin chaperone TraQ -
KZX49_RS28830 (KZX49_28810) 94060..94620 + 561 WP_039698500 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
KZX49_RS28835 (KZX49_28815) 94607..95977 + 1371 WP_075606918 conjugal transfer pilus assembly protein TraH traH
KZX49_RS28840 (KZX49_28820) 95977..98856 + 2880 WP_219804376 conjugal transfer mating-pair stabilization protein TraG traG
KZX49_RS28845 (KZX49_28825) 98862..99389 + 528 WP_142472801 conjugal transfer protein TraS -
KZX49_RS28850 (KZX49_28830) 99428..99609 + 182 Protein_119 complement resistance protein TraT -
KZX49_RS30080 99721..100470 + 750 WP_228751154 hypothetical protein -
KZX49_RS28860 (KZX49_28840) 100494..100754 + 261 WP_142472795 hypothetical protein -
KZX49_RS28865 (KZX49_28845) 100826..103138 + 2313 WP_048235023 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   20428 GenBank   NZ_CP080101
Plasmid name   pWW14A-3 Incompatibility group   -
Plasmid size   113444 bp Coordinate of oriT [Strand]   73518..73567 [-]
Host baterium   Klebsiella quasipneumoniae strain WW-14A

Cargo genes

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