Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   118726
Name   oriT_pWP3-W18-CRE-02_3 in_silico
Organism   Klebsiella quasipneumoniae strain WP3-W18-CRE-02
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_AP021953 (75998..76046 [-], 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    		  TGTGTGGTGA
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 49 nt

>oriT_pWP3-W18-CRE-02_3
AATCTGCAAAATTTTAATTTTGCGTAGTGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   11887 GenBank   WP_182980884
Name   traI_H7R86_RS29510_pWP3-W18-CRE-02_3 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: 190592.41 Da        Isoelectric Point: 6.2581

>WP_182980884.1 conjugative transfer relaxase/helicase TraI [Klebsiella quasipneumoniae]
MLSFSQVKSAGSAGNYYTEKDNYYVIGSMEERWQGKGAEALGLEGKVDKQIFTELLQGKLPDGSDLTRIQ
DGVNKHRPGYDLTFSAPKSVSMLAMLGGDKRLIDAHNRAVTVALNQVESLASTRVQKDGVSETVLTGNLI
IARFNHDTSRAQDPQIHTHSVVINATQNGDKWQTLASDTVGKTGFSENILANRIAFGKIYQNTLRADVES
LGYRTVDAGKNGMWEMEGVPVESFSTRSQELREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMNT
LKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLEA
KDGVFELARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVPF
SDAVSVLAQDRPVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVTG
KSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTYR
WQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKDT
TITALTPVWLDSKSRGVRDYYREGMVMERWDPENRTHDRFVIDRVTASSNMLTLKDREGGRLDLKVSAVD
SQWTLFRADTLPVVEGERLAVLGKIPDTRLKGGESITVMKVEDGQLTVQRPGQKTTQTLAVGAGVFDGIK
IGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGNHLRLYSAQDAARTTEKLSRHTAFSVVSEQ
LKTRSGETDLDAAIAQQKAGLRTPAEQAIHLAIPLLESEKLTFSRPQLLATALETGGGKVSMADIDTTIQ
AQIRSGQLLNVPVAHGYGNDLLISRQTWDAEKSILTHVLEGKGAVAPLMDRVPASLMTDLTAGQRAATRM
ILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVEARTTASFLHD
TQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIVAGGGRAVSSGDNDQLQPIAPGQPFRLMQQRS
AADVAIMKEIVRQVPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGVWAPGSSVVEFTPKQEKAIEK
ALSEGKTLPEGQPASLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITLP
VLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSEGKERFISPREASAEGVTLY
RQEKITVSQGDRMRFSKSDPERGYVANSIWEVQSVSGDSVTLSDGKLTRTLTPKAEQAQQHIDLAYAITA
HGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDNREGWIKAIKHSPEKATAHDILEP
RNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGSSPGKFISPGKKYPQPHVALPAFDKNGKAAGIW
LSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDRP
WNPGAMTGGRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEPA
DRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEAAIQQVASERLQRERLQAVERDMVRDLNREKTLG
GD

  Protein domains


Predicted by InterproScan.

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

(576-628)

AAA domain (AAA_30)

(970-1156)

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

(634-713)

DNA helicase TraI (TraI_C)

(1432-1554)

TrwC relaxase (TrwC)

(11-283)


  Protein structure



No available structure.




Auxiliary protein

ID   6804 GenBank   WP_004197733
Name   WP_004197733_pWP3-W18-CRE-02_3 insolico UniProt ID   A0A0E3KB00
Length   129 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 129 a.a.        Molecular weight: 14835.90 Da        Isoelectric Point: 4.6012

>WP_004197733.1 MULTISPECIES: conjugal transfer relaxosome DNA-binding protein TraM [Bacteria]
MGKVQAYPSDEVCEKINAIVEKRRMEGAKDKDVSFSSISTMLLELGLRVYEAQMERKESGFNQMAFNRAL
LESVVKTQFSVNKILGIECLSPHVKDDPRWQWKSMVLNIQEDVQEAMRNFFPDEDAEGE

  Protein domains


Predicted by InterproScan.

TraM protein, DNA-binding (Tra_M)

(1-124)


  Protein structure


Source ID Structure
AlphaFold DB A0A0E3KB00


T4CP

ID   13914 GenBank   WP_227666872
Name   traD_H7R86_RS29505_pWP3-W18-CRE-02_3 insolico UniProt ID   _
Length   766 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 766 a.a.        Molecular weight: 85293.31 Da        Isoelectric Point: 5.1074

>WP_227666872.1 type IV conjugative transfer system coupling protein TraD [Klebsiella quasipneumoniae]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTGFAFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGVASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDDDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDAPASGPDDAGSHAGEQPEPVSQPA
PAVMTVTPAPVKSPPTTKRPAAEPSARTAEPPVLPVTPIPLLKPKAAAAAATASSAGTPAAAAGGTEQVL
AQQSAEQGQAMLPAGMNEDGVIEDMQAYDAWADEQTQRDMQRREEVNINHSHRHDEQDDLEIGGNF

  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: 75431..104754

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
H7R86_RS29310 (WP3W18C02_P30860) 70576..71544 + 969 Protein_93 IS5 family transposase -
H7R86_RS29315 (WP3W18C02_P30880) 71862..72887 - 1026 WP_001101446 IS110 family transposase -
H7R86_RS29320 (WP3W18C02_P30890) 73304..74329 - 1026 WP_001101446 IS110 family transposase -
H7R86_RS29325 74503..74871 - 369 WP_080848162 hypothetical protein -
H7R86_RS29330 (WP3W18C02_P30900) 74866..75408 + 543 WP_060415467 antirestriction protein -
H7R86_RS29335 (WP3W18C02_P30910) 75431..75853 - 423 WP_073972322 transglycosylase SLT domain-containing protein virB1
H7R86_RS29340 (WP3W18C02_P30920) 76358..76747 + 390 WP_004197733 conjugal transfer relaxosome DNA-binding protein TraM -
H7R86_RS29345 (WP3W18C02_P30930) 76986..77660 + 675 WP_004197737 hypothetical protein -
H7R86_RS29350 77852..78016 + 165 WP_032444506 TraY domain-containing protein -
H7R86_RS29355 (WP3W18C02_P30940) 78078..78446 + 369 WP_004194426 type IV conjugative transfer system pilin TraA -
H7R86_RS29360 (WP3W18C02_P30950) 78460..78765 + 306 WP_004144424 type IV conjugative transfer system protein TraL traL
H7R86_RS29365 (WP3W18C02_P30960) 78785..79351 + 567 WP_004194424 type IV conjugative transfer system protein TraE traE
H7R86_RS29370 (WP3W18C02_P30970) 79338..80078 + 741 WP_009309865 type-F conjugative transfer system secretin TraK traK
H7R86_RS29375 (WP3W18C02_P30980) 80078..81502 + 1425 WP_004194260 F-type conjugal transfer pilus assembly protein TraB traB
H7R86_RS29380 (WP3W18C02_P30990) 81616..81924 + 309 Protein_107 type IV conjugative transfer system lipoprotein TraV -
H7R86_RS29385 (WP3W18C02_P31000) 82072..83052 - 981 WP_162263287 IS5-like element ISKpn26 family transposase -
H7R86_RS29390 83078..83266 + 189 WP_182980882 hypothetical protein -
H7R86_RS29395 (WP3W18C02_P31010) 83267..83578 + 312 WP_004195465 hypothetical protein -
H7R86_RS29400 (WP3W18C02_P31020) 83645..84049 + 405 WP_004197817 hypothetical protein -
H7R86_RS29405 (WP3W18C02_P31030) 84426..84824 + 399 WP_023179972 hypothetical protein -
H7R86_RS29410 (WP3W18C02_P31040) 84896..87535 + 2640 WP_004197813 type IV secretion system protein TraC virb4
H7R86_RS29415 (WP3W18C02_P31050) 87535..87924 + 390 WP_004197815 type-F conjugative transfer system protein TrbI -
H7R86_RS29420 (WP3W18C02_P31060) 87924..88550 + 627 WP_009309871 type-F conjugative transfer system protein TraW traW
H7R86_RS29425 (WP3W18C02_P31070) 88592..88981 + 390 WP_004194992 hypothetical protein -
H7R86_RS29430 (WP3W18C02_P31080) 88978..89967 + 990 WP_009309872 conjugal transfer pilus assembly protein TraU traU
H7R86_RS29435 (WP3W18C02_P31090) 89980..90618 + 639 WP_004193871 type-F conjugative transfer system pilin assembly protein TrbC trbC
H7R86_RS29440 (WP3W18C02_P31100) 90677..92632 + 1956 WP_032426778 type-F conjugative transfer system mating-pair stabilization protein TraN traN
H7R86_RS29445 (WP3W18C02_P31110) 92664..92918 + 255 WP_004195500 conjugal transfer protein TrbE -
H7R86_RS29450 (WP3W18C02_P31120) 92896..93144 + 249 WP_004152675 hypothetical protein -
H7R86_RS29455 (WP3W18C02_P31130) 93157..93483 + 327 WP_004194451 hypothetical protein -
H7R86_RS29460 (WP3W18C02_P31140) 93504..94256 + 753 WP_042946327 type-F conjugative transfer system pilin assembly protein TraF traF
H7R86_RS29465 (WP3W18C02_P31150) 94267..94506 + 240 WP_009309875 type-F conjugative transfer system pilin chaperone TraQ -
H7R86_RS29470 (WP3W18C02_P31160) 94478..95050 + 573 WP_009309876 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
H7R86_RS29475 (WP3W18C02_P31170) 95043..95471 + 429 WP_004152689 hypothetical protein -
H7R86_RS29480 (WP3W18C02_P31180) 95458..96828 + 1371 WP_009309877 conjugal transfer pilus assembly protein TraH traH
H7R86_RS29485 (WP3W18C02_P31190) 96828..99701 + 2874 WP_182980883 conjugal transfer mating-pair stabilization protein TraG traG
H7R86_RS29490 100436..100771 + 336 Protein_129 hypothetical protein -
H7R86_RS29495 (WP3W18C02_P31220) 100837..101945 + 1109 WP_182972068 IS3-like element ISKpn20 family transposase -
H7R86_RS29500 (WP3W18C02_P31230) 101963..102328 + 366 Protein_131 hypothetical protein -
H7R86_RS29505 (WP3W18C02_P31240) 102454..104754 + 2301 WP_227666872 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   19158 GenBank   NZ_AP021953
Plasmid name   pWP3-W18-CRE-02_3 Incompatibility group   IncFII
Plasmid size   118328 bp Coordinate of oriT [Strand]   75998..76046 [-]
Host baterium   Klebsiella quasipneumoniae strain WP3-W18-CRE-02

Cargo genes

Drug resistance gene   blaGES-4, catB8, aac(6')-31, qacE, sul1
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -