Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   118727
Name   oriT_pWP3-W18-CRE-02_4 in_silico
Organism   Klebsiella quasipneumoniae strain WP3-W18-CRE-02
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_AP021954 (65246..65294 [-], 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_4
AATCTGCAAAATTTTAATTTTGCGTAGTGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   11888 GenBank   WP_182972118
Name   traI_H7R86_RS30160_pWP3-W18-CRE-02_4 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: 190096.40 Da        Isoelectric Point: 5.9146

>WP_182972118.1 conjugative transfer relaxase/helicase TraI [Klebsiella quasipneumoniae]
MLSFSQVKSAGSAGNYYTDKDNYYVIGSMDERWQGKGAEALGLEGKVDKQVFTELLQGKLPDGSDLTRIQ
DGVNKHRPGYDLTFSAPKSVSMLAMLGGDKRLIDAHNRAVTVALNQVESLASTRVKRDGVSETVLTGNLI
IARFNHDTSRAQDPQIHTHSVVINATQNGDKWQTLASDTVGKTGFSENILANRIALGKIYQNSLRADVES
MGYKTVDAGKNGMWEMEGVPVESFSTRSQELREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMNT
LKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLEA
KDGVFELARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELSVKALSQEIQRQNHVSVTPDASVVREAPF
SDAVSVLAQDRPAMGIVAGQGGAAGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDARLAGETVTG
KSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTYR
WQGGKQATADIISEPDKSARYSRLAQEFAASVREGQESVAQISGTREQNVLNNVIRDTLKNEGALGNRDM
TVTALTPVWLDSKSRGVRDYYREGMVMERWDPETRKHDRFVIDRVTASSNMLTLKDREGERLDLKVSAVD
SQWTLFRTDKLPVAEGERLAVLGKIPDTRLKGGESVTVLKAEAGQLTVQRPGQKTTQTLPVGSSPFDGIK
VGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHIRLYSAQDAARTTEKLARHTAFSVVSEQ
LKARSGETDLEEAIAQQKAGLHTPAEQAIHLSVPLLESNSLTFTRPQLLATALETGGGKVPMKDIEATIQ
AQIKAGSLLNVPVASGHGNDLLISRQTWDAEKSVLTRVLEGKDAVAPLMGRVPGSLMTDLTAGQRAATRM
ILETPDRFTVVQGYAGVGKTTQFKAVMSAISLLPEETRPRVIGLGPTHRAVGEMQSAGVDAQTTASFLHD
TQLQQRNGQTPDFSNTLFLLDESSMVGLSDTAKALSLIAAGGGRAVLSGDTDQLQSIAPGQPFRLMQQRS
AADVAIMKEIVRQVPELRPAVYSLIDRDVSRALSTIEQVTPEQVPRKDGAWVPENSVTEFTPAQEKAIQD
ALKEGKEIPPDTPASLHDAIVKDYTGRTPEAQANTLIITHLNADRRALNGLIHDARVQNGEVSKEEVTLP
VLVTSNIRDGELRKLSTWSEHQGAVALLDNIYQRIESVDKENQLITLKDNEGNIRLLSPREASAEGVTLY
RPEHITVSQGDRMRFSKSDPERGYVANSVWEVKAVSGDSVTLSGGKTTRTLNPKADEAQRHVDLAYAITA
HGAQGASEPFAIALEGVEGRRKALVSFESAYVALSRMKQHAQVYTDNREGWTTAVSRSQEKASAHDVLEP
QNARAVKNAGQLYGRAQPLDETAAGRAALQQSGLARGRSPGKFISPGKKYPQPHVALPAFDKNGKEAGIW
LSPLTDRDGRLEAIGGEGRIMGDETARFVALQNSRNGESLLAGNMGEGVRTARDHPDSGVIVRLAGDDRP
WNPEAITGGRIWADPLPNPPLPDTGTDIPLPPEVLAQRAAEEAQRREMEKQAEQATREVAGEEKKAGEPG
ERIKEVIGDVIRGLERDRPGEEKTLLPDDPQTRRQEAAIQQVASESLQRERLQQMERDMVRDLNREKTLG
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 relaxase TraI 2B/2B-like domain (TraI_2B)

(634-713)

DNA helicase TraI (TraI_C)

(1432-1554)

AAA domain (AAA_30)

(970-1157)


  Protein structure



No available structure.




Auxiliary protein

ID   6805 GenBank   WP_032426796
Name   WP_032426796_pWP3-W18-CRE-02_4 insolico UniProt ID   _
Length   130 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 130 a.a.        Molecular weight: 15036.10 Da        Isoelectric Point: 4.5326

>WP_032426796.1 MULTISPECIES: conjugal transfer relaxosome DNA-binding protein TraM [Enterobacterales]
MGKVQAYPSDEVCEKINAIVEKRRMEGAKEKDVSFSSISTMLLELGLRVYEAQMERKESGFNQMAFNRAL
LESVVKTQFSVNKVLGIECLSPHVKDDPRWQWKGMVQNIQEDVQEVMRTFFPDEQEEADE

  Protein domains


Predicted by InterproScan.

TraM protein, DNA-binding (Tra_M)

(1-125)


  Protein structure



No available structure.




T4CP

ID   13915 GenBank   WP_020803851
Name   traD_H7R86_RS30155_pWP3-W18-CRE-02_4 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: 85873.87 Da        Isoelectric Point: 4.9596

>WP_020803851.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTSFIFAAVVSLVICIVTFFVASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILLNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLSLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDQPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAM
KYKPRPKIAEGFIQRTPDTRADARLSALLEAREAEGSLARALFTPDAPELAGKDSTPGEQPEPVSQPAPA
EVAVSPAPVNAPPTTKSPAAEPSAGAPASPPPEATVLRNTTVPLIKPKAAGTAATASSAGTPVAPAGGTE
QELVQHSTEQGRDMLPAGMNEDGVIEDMQAYDAWLADEQTLRDMQRREEVNINHSHRHDEQDDVEIGGNF

  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: 67713..89080

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
H7R86_RS29975 (WP3W18C02_P40740) 62922..63152 + 231 WP_020314756 hypothetical protein -
H7R86_RS29980 (WP3W18C02_P40750) 63250..63465 + 216 Protein_84 SAM-dependent DNA methyltransferase -
H7R86_RS29985 (WP3W18C02_P40760) 64114..64656 + 543 WP_032426797 antirestriction protein -
H7R86_RS29990 (WP3W18C02_P40770) 64679..65101 - 423 WP_020315406 transglycosylase SLT domain-containing protein -
H7R86_RS29995 (WP3W18C02_P40780) 65607..65999 + 393 WP_032426796 conjugal transfer relaxosome DNA-binding protein TraM -
H7R86_RS30000 (WP3W18C02_P40790) 66237..66929 + 693 WP_032426795 conjugal transfer protein TrbJ -
H7R86_RS30005 67105..67269 + 165 WP_032444506 TraY domain-containing protein -
H7R86_RS30010 (WP3W18C02_P40800) 67331..67699 + 369 WP_087829211 type IV conjugative transfer system pilin TraA -
H7R86_RS30015 (WP3W18C02_P40810) 67713..68018 + 306 WP_087829212 type IV conjugative transfer system protein TraL traL
H7R86_RS30020 (WP3W18C02_P40820) 68038..68604 + 567 WP_064373744 type IV conjugative transfer system protein TraE traE
H7R86_RS30025 (WP3W18C02_P40830) 68591..69331 + 741 WP_020804840 type-F conjugative transfer system secretin TraK traK
H7R86_RS30030 (WP3W18C02_P40840) 69331..70755 + 1425 WP_182949619 F-type conjugal transfer pilus assembly protein TraB traB
H7R86_RS30035 (WP3W18C02_P40850) 70869..71438 + 570 WP_182949616 type IV conjugative transfer system lipoprotein TraV traV
H7R86_RS31260 71594..71992 + 399 WP_223177007 hypothetical protein -
H7R86_RS30045 (WP3W18C02_P40860) 72021..72311 + 291 WP_032426790 hypothetical protein -
H7R86_RS30050 (WP3W18C02_P40870) 72335..72553 + 219 WP_023316402 hypothetical protein -
H7R86_RS30055 (WP3W18C02_P40880) 72554..72865 + 312 WP_023316403 hypothetical protein -
H7R86_RS30060 (WP3W18C02_P40890) 72932..73336 + 405 WP_023316404 hypothetical protein -
H7R86_RS30065 (WP3W18C02_P40900) 73333..73623 + 291 WP_020323516 hypothetical protein -
H7R86_RS30070 (WP3W18C02_P40910) 73631..74029 + 399 WP_072156904 hypothetical protein -
H7R86_RS30075 (WP3W18C02_P40920) 74101..76740 + 2640 WP_020323518 type IV secretion system protein TraC virb4
H7R86_RS30080 (WP3W18C02_P40930) 76740..77129 + 390 WP_020314627 type-F conjugative transfer system protein TrbI -
H7R86_RS30085 (WP3W18C02_P40940) 77129..77755 + 627 WP_020314628 type-F conjugative transfer system protein TraW traW
H7R86_RS30090 (WP3W18C02_P40950) 77799..78758 + 960 WP_029497356 conjugal transfer pilus assembly protein TraU traU
H7R86_RS30095 (WP3W18C02_P40960) 78771..79409 + 639 WP_064182677 type-F conjugative transfer system pilin assembly protein TrbC trbC
H7R86_RS30100 (WP3W18C02_P40970) 79468..81423 + 1956 WP_182949614 type-F conjugative transfer system mating-pair stabilization protein TraN traN
H7R86_RS30105 (WP3W18C02_P40980) 81456..81737 + 282 WP_032419932 hypothetical protein -
H7R86_RS30110 (WP3W18C02_P40990) 81727..81954 + 228 WP_012540032 conjugal transfer protein TrbE -
H7R86_RS30115 (WP3W18C02_P41000) 81965..82291 + 327 WP_020323521 hypothetical protein -
H7R86_RS30120 (WP3W18C02_P41010) 82312..83064 + 753 WP_136071131 type-F conjugative transfer system pilin assembly protein TraF traF
H7R86_RS30125 (WP3W18C02_P41030) 83519..83758 + 240 WP_023316407 type-F conjugative transfer system pilin chaperone TraQ -
H7R86_RS30130 (WP3W18C02_P41040) 83730..84287 + 558 WP_020804677 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
H7R86_RS30135 84375..85072 + 698 WP_223433957 IS1 family transposase -
H7R86_RS31340 85082..85561 + 480 WP_182980893 conjugal transfer protein TraS -
H7R86_RS31265 (WP3W18C02_P41070) 85744..86412 + 669 WP_020803846 hypothetical protein -
H7R86_RS30150 86436..86696 + 261 WP_020803850 hypothetical protein -
H7R86_RS30155 (WP3W18C02_P41080) 86768..89080 + 2313 WP_020803851 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   19159 GenBank   NZ_AP021954
Plasmid name   pWP3-W18-CRE-02_4 Incompatibility group   -
Plasmid size   101937 bp Coordinate of oriT [Strand]   65246..65294 [-]
Host baterium   Klebsiella quasipneumoniae strain WP3-W18-CRE-02

Cargo genes

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