Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   116717
Name   oriT_2023CB-00436|unnamed1 in_silico
Organism   Klebsiella quasipneumoniae strain 2023CB-00436
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP137437 (72879..72927 [-], 49 nt)
oriT length   49 nt
IRs (inverted repeats)      6..13, 16..23  (GCAAAATT..AATTTTGC)
Location of nic site      32..33
Conserved sequence flanking the
  nic site    		  GGTGTGGTGA
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 49 nt

>oriT_2023CB-00436|unnamed1
AATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   10662 GenBank   WP_318523626
Name   traI_R1Q26_RS25715_2023CB-00436|unnamed1 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: 190597.75 Da        Isoelectric Point: 6.5327

>WP_318523626.1 conjugative transfer relaxase/helicase TraI [Klebsiella quasipneumoniae]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMDERWQGKGAEALGIDGKAVDKALFTELLKGKLPDGSDLTRI
QDGTNKHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVTEAVRQLETLAATRVMTDGKSETVLTGNL
IVAKFNHDTNRNQEPQIHTHAVVINATQNGDKWQSLGTDKIGKTGFIENVYANQIAFGKLYREAFKPQVE
KLGYETEVVGKHGMWEMKGVPVEPFSTRSQELREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMN
TLKETGFDIRGYREAADARAAELTRAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLE
AKDGVFELARAGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVRRQNHVSVTPDASVVRQVP
FSDAVSVLAQDRPVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVT
GKSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTY
RWQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRHEGVLGEKD
TTITALTPVWLDSKSRGVRDYYREGMVMERWDPETRTHDRFVIDRVTGSSNMLTLKDREGGRLDLKVSAV
DSQWTLFRAETLPVAEGERLAVLGKIPDTRLKGGESITVMKVEDGQLTVQRPGQKTTQTLAVGAGVFDGI
KIGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSE
QLKTRSGETDLDAAIAQQKAGLRTPAEQAIHLAIPLLESEKLTFSRPQLLATALETGGGKVPMADIDTTI
QAQIRSGQLLNVPVAHGYGNDLLISRQTWDAEKSILTRVLEGKDAVAPLMDRVPASLMTDLTAGQRAATR
MILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLH
DTQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIVAGGGRAVSSGDNDQLQPIAPGQPFRLMQQR
SAADIAIMKEIVRQVPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGVWAPGSSVVEFTPKQEKAIQ
KALSEGKTLPAGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHNARRENGETGKEEITL
PVLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSEGKERYISPREASAEGVTL
YRQEKITVSQGDRMRFSKSDPERGYVANSIWEVQSVSGDSVTLSDGKLTRTLTPKADQAQQHIDLAYAIT
AHGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDSREGWIKAIKHSPEKATAHDILE
PRNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGNSPGKFISPGKKYPQPHVALPAFDKNGKAAGI
WLSPLTDRDGRLEAIGGEGRIMGNDAARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDR
PWNPGAIIGGRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEP
ADRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEAAIQQVASESLQRERLQAVERDMVRDLNREKTL
GGD

  Protein domains


Predicted by InterproScan.

TrwC relaxase (TrwC)

(10-284)

DNA helicase TraI (TraI_C)

(1433-1555)

AAA domain (AAA_30)

(971-1157)

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

(577-629)

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

(635-714)


  Protein structure



No available structure.




Auxiliary protein

ID   6291 GenBank   WP_020805752
Name   WP_020805752_2023CB-00436|unnamed1 insolico UniProt ID   A0A377TIM3
Length   130 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 130 a.a.        Molecular weight: 14772.81 Da        Isoelectric Point: 4.5715

>WP_020805752.1 MULTISPECIES: conjugal transfer relaxosome DNA-binding protein TraM [Gammaproteobacteria]
MAKIQVYVNDNVAEKINAIAVQRRAEGAKEKDISYSSIASMLLELGLRVYEAQMERKESGFNQMAFNRAL
LESMVKTQFTVNKVLGIECLSPHVNGNPKWEWSGLIENIRDDVSAVMEKFFPNESEIEDE

  Protein domains


Predicted by InterproScan.

TraM protein, DNA-binding (Tra_M)

(1-125)


  Protein structure


Source ID Structure
AlphaFold DB A0A377TIM3


T4CP

ID   12468 GenBank   WP_318523625
Name   traD_R1Q26_RS25710_2023CB-00436|unnamed1 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: 85776.70 Da        Isoelectric Point: 5.0045

>WP_318523625.1 type IV conjugative transfer system coupling protein TraD [Klebsiella quasipneumoniae]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTGFAFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGVASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDDDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDAPASGPADTNSHAGEQPEPISQPA
PADMTVSPAPVKAPPTTKSPAAEPSVRATEPPVLRVTTVPLIKPKAATAATAASTASSAGAPAAAAGGTE
QELAQQSAEQGQDMLPAGMNEDGVIEDMQAYDAWLADEQTQRDMQRREEVNINHSHRHDEQDDVEIGGNF

  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: 75306..100938

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
R1Q26_RS25525 (R1Q26_25525) 71759..72289 + 531 WP_015632491 antirestriction protein -
R1Q26_RS25530 (R1Q26_25530) 72327..72734 - 408 WP_020805750 transglycosylase SLT domain-containing protein -
R1Q26_RS25535 (R1Q26_25535) 73238..73630 + 393 WP_020805752 conjugal transfer relaxosome DNA-binding protein TraM -
R1Q26_RS25540 (R1Q26_25540) 73868..74569 + 702 WP_226339745 hypothetical protein -
R1Q26_RS25545 (R1Q26_25545) 74655..74855 + 201 WP_048289787 TraY domain-containing protein -
R1Q26_RS25550 (R1Q26_25550) 74924..75292 + 369 WP_020316649 type IV conjugative transfer system pilin TraA -
R1Q26_RS25555 (R1Q26_25555) 75306..75611 + 306 WP_004178059 type IV conjugative transfer system protein TraL traL
R1Q26_RS25560 (R1Q26_25560) 75631..76197 + 567 WP_004194424 type IV conjugative transfer system protein TraE traE
R1Q26_RS25565 (R1Q26_25565) 76184..76924 + 741 WP_110222093 type-F conjugative transfer system secretin TraK traK
R1Q26_RS25570 (R1Q26_25570) 76924..78348 + 1425 WP_318523617 F-type conjugal transfer pilus assembly protein TraB traB
R1Q26_RS25575 (R1Q26_25575) 78341..78937 + 597 WP_318523618 conjugal transfer pilus-stabilizing protein TraP -
R1Q26_RS25580 (R1Q26_25580) 78960..79529 + 570 WP_318523619 type IV conjugative transfer system lipoprotein TraV traV
R1Q26_RS25585 (R1Q26_25585) 79661..80071 + 411 WP_318523620 hypothetical protein -
R1Q26_RS25590 (R1Q26_25590) 80076..80360 + 285 WP_318523637 hypothetical protein -
R1Q26_RS25595 (R1Q26_25595) 80384..80608 + 225 WP_318523621 hypothetical protein -
R1Q26_RS25600 (R1Q26_25600) 80601..80912 + 312 WP_318523622 hypothetical protein -
R1Q26_RS25605 (R1Q26_25605) 80979..81383 + 405 WP_318523623 hypothetical protein -
R1Q26_RS25610 (R1Q26_25610) 81380..81670 + 291 WP_318523624 hypothetical protein -
R1Q26_RS25615 (R1Q26_25615) 81678..82076 + 399 WP_072156904 hypothetical protein -
R1Q26_RS25620 (R1Q26_25620) 82148..84787 + 2640 WP_060446930 type IV secretion system protein TraC virb4
R1Q26_RS25625 (R1Q26_25625) 84787..85176 + 390 WP_004167468 type-F conjugative transfer system protein TrbI -
R1Q26_RS25630 (R1Q26_25630) 85176..85802 + 627 WP_020314628 type-F conjugative transfer system protein TraW traW
R1Q26_RS25635 (R1Q26_25635) 85846..86805 + 960 WP_168712236 conjugal transfer pilus assembly protein TraU traU
R1Q26_RS25640 (R1Q26_25640) 86818..87456 + 639 WP_040107937 type-F conjugative transfer system pilin assembly protein TrbC trbC
R1Q26_RS25645 (R1Q26_25645) 87515..89470 + 1956 WP_110219676 type-F conjugative transfer system mating-pair stabilization protein TraN traN
R1Q26_RS25650 (R1Q26_25650) 89503..89784 + 282 WP_022644736 hypothetical protein -
R1Q26_RS25655 (R1Q26_25655) 89774..90001 + 228 WP_012540032 conjugal transfer protein TrbE -
R1Q26_RS25660 (R1Q26_25660) 90012..90338 + 327 WP_020323521 hypothetical protein -
R1Q26_RS25665 (R1Q26_25665) 90359..91111 + 753 WP_004152677 type-F conjugative transfer system pilin assembly protein TraF traF
R1Q26_RS25670 (R1Q26_25670) 91122..91361 + 240 WP_023340931 type-F conjugative transfer system pilin chaperone TraQ -
R1Q26_RS25675 (R1Q26_25675) 91333..91890 + 558 WP_086893263 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
R1Q26_RS25680 (R1Q26_25680) 91936..92379 + 444 WP_049248035 F-type conjugal transfer protein TrbF -
R1Q26_RS25685 (R1Q26_25685) 92357..93736 + 1380 WP_072198238 conjugal transfer pilus assembly protein TraH traH
R1Q26_RS25690 (R1Q26_25690) 93736..96579 + 2844 WP_110219715 conjugal transfer mating-pair stabilization protein TraG traG
R1Q26_RS25695 (R1Q26_25695) 96590..97123 + 534 WP_101856268 hypothetical protein -
R1Q26_RS25700 (R1Q26_25700) 97534..98265 + 732 WP_004152629 conjugal transfer complement resistance protein TraT -
R1Q26_RS25705 (R1Q26_25705) 98456..98548 + 93 Protein_124 hypothetical protein -
R1Q26_RS25710 (R1Q26_25710) 98626..100938 + 2313 WP_318523625 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   17150 GenBank   NZ_CP137437
Plasmid name   2023CB-00436|unnamed1 Incompatibility group   IncR
Plasmid size   111591 bp Coordinate of oriT [Strand]   72879..72927 [-]
Host baterium   Klebsiella quasipneumoniae strain 2023CB-00436

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   pcoE, pcoS, pcoR, pcoD, pcoC, pcoB, pcoA, silP, silA, silB, silF, silC, silR, silS, silE
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIE9