Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   117570
Name   oriT_pWP3-S18-CRE-02_2 in_silico
Organism   Klebsiella quasipneumoniae strain WP3-S18-CRE-02
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_AP022007 (61967..62015 [+], 49 nt)
oriT length   49 nt
IRs (inverted repeats)      6..13, 16..23  (GCAAAATT..AATTTTGC)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 49 nt

>oriT_pWP3-S18-CRE-02_2
AATCTGCAAAATTTTAATTTTGCGTAGTGTGTGATGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   11197 GenBank   WP_182949612
Name   traI_H7R71_RS27530_pWP3-S18-CRE-02_2 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: 190154.43 Da        Isoelectric Point: 5.8591

>WP_182949612.1 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
RPEHITVSQGDRMRFSKSDPERGYVANSVWEVKAVSGDSVTLSDGKTTRTLNPKADEAQRHVDLAYAITA
HGAQGASEPFAIALEGVEGRRKALVSFESAYVALSRMKQHAQVYTDNREGWTTAVSRSQEKASAHDVLEP
QNARAVKNAGQLYGRAQPLDETAAGRAALQQSGLARGRSPGKFISPGKKYPQPHVALPAFDKNGKEAGIW
LSPLTDRDGRLEAIGGEGRIMGDETARFVALQNSRNGESLLAGNMGEGVRTARDHPDSGVIVRLAGDDRP
WNPEAITGGRIWADPLPNPPLPDTGTDIPLPPEVLAQRAAEEAQRREMEKQAEQATREVAGEEKKAGEPG
ERIKEVIGDVIRGLERDRPGEEKTLLPDDPQTRRQEAAIQQVASESLQRERLQQMERDMVRDLNREKTLG
GD

  Protein domains


Predicted by InterproScan.

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

(634-713)

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)

AAA domain (AAA_30)

(970-1157)


  Protein structure



No available structure.




Auxiliary protein

ID   6475 GenBank   WP_032426796
Name   WP_032426796_pWP3-S18-CRE-02_2 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   13081 GenBank   WP_020803851
Name   traD_H7R71_RS27535_pWP3-S18-CRE-02_2 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: 34227..59548

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
H7R71_RS27535 (WP3S18C02_P20240) 34227..36539 - 2313 WP_020803851 type IV conjugative transfer system coupling protein TraD virb4
H7R71_RS27540 36611..36871 - 261 WP_020803850 hypothetical protein -
H7R71_RS29485 (WP3S18C02_P20250) 36895..37563 - 669 WP_020803846 hypothetical protein -
H7R71_RS27550 (WP3S18C02_P20260) 37746..38273 - 528 WP_020803849 hypothetical protein -
H7R71_RS27555 (WP3S18C02_P20270) 38279..41128 - 2850 WP_032744228 conjugal transfer mating-pair stabilization protein TraG traG
H7R71_RS27560 (WP3S18C02_P20280) 41128..42507 - 1380 WP_162495503 conjugal transfer pilus assembly protein TraH traH
H7R71_RS27565 (WP3S18C02_P20290) 42485..42928 - 444 WP_020804675 F-type conjugal transfer protein TrbF -
H7R71_RS27570 (WP3S18C02_P20300) 42974..43531 - 558 WP_020804677 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
H7R71_RS27575 (WP3S18C02_P20310) 43503..43742 - 240 WP_023316407 type-F conjugative transfer system pilin chaperone TraQ -
H7R71_RS27580 (WP3S18C02_P20320) 44197..44949 - 753 WP_136071131 type-F conjugative transfer system pilin assembly protein TraF traF
H7R71_RS27585 (WP3S18C02_P20330) 44970..45296 - 327 WP_020323521 hypothetical protein -
H7R71_RS27590 (WP3S18C02_P20340) 45307..45534 - 228 WP_012540032 conjugal transfer protein TrbE -
H7R71_RS27595 (WP3S18C02_P20350) 45524..45805 - 282 WP_032419932 hypothetical protein -
H7R71_RS27600 (WP3S18C02_P20360) 45838..47793 - 1956 WP_182949614 type-F conjugative transfer system mating-pair stabilization protein TraN traN
H7R71_RS27605 (WP3S18C02_P20370) 47852..48490 - 639 WP_064182677 type-F conjugative transfer system pilin assembly protein TrbC trbC
H7R71_RS27610 (WP3S18C02_P20380) 48503..49462 - 960 WP_029497356 conjugal transfer pilus assembly protein TraU traU
H7R71_RS27615 (WP3S18C02_P20390) 49506..50132 - 627 WP_020314628 type-F conjugative transfer system protein TraW traW
H7R71_RS27620 (WP3S18C02_P20400) 50132..50521 - 390 WP_020314627 type-F conjugative transfer system protein TrbI -
H7R71_RS27625 (WP3S18C02_P20410) 50521..53160 - 2640 WP_020323518 type IV secretion system protein TraC virb4
H7R71_RS27630 (WP3S18C02_P20420) 53232..53630 - 399 WP_072156904 hypothetical protein -
H7R71_RS27635 (WP3S18C02_P20430) 53638..53928 - 291 WP_020323516 hypothetical protein -
H7R71_RS27640 (WP3S18C02_P20440) 53925..54329 - 405 WP_023316404 hypothetical protein -
H7R71_RS27645 (WP3S18C02_P20450) 54396..54707 - 312 WP_023316403 hypothetical protein -
H7R71_RS27650 (WP3S18C02_P20460) 54708..54926 - 219 WP_023316402 hypothetical protein -
H7R71_RS27655 (WP3S18C02_P20470) 54950..55240 - 291 WP_032426790 hypothetical protein -
H7R71_RS29490 55269..55667 - 399 WP_223177007 hypothetical protein -
H7R71_RS27665 (WP3S18C02_P20480) 55823..56392 - 570 WP_182949616 type IV conjugative transfer system lipoprotein TraV traV
H7R71_RS27670 (WP3S18C02_P20490) 56506..57930 - 1425 WP_182949619 F-type conjugal transfer pilus assembly protein TraB traB
H7R71_RS27675 (WP3S18C02_P20500) 57930..58670 - 741 WP_020804840 type-F conjugative transfer system secretin TraK traK
H7R71_RS27680 (WP3S18C02_P20510) 58657..59223 - 567 WP_064373744 type IV conjugative transfer system protein TraE traE
H7R71_RS27685 (WP3S18C02_P20520) 59243..59548 - 306 WP_087829212 type IV conjugative transfer system protein TraL traL
H7R71_RS27690 (WP3S18C02_P20530) 59562..59930 - 369 WP_087829211 type IV conjugative transfer system pilin TraA -
H7R71_RS27695 59992..60156 - 165 WP_032444506 TraY domain-containing protein -
H7R71_RS27700 (WP3S18C02_P20540) 60332..61024 - 693 WP_032426795 conjugal transfer protein TrbJ -
H7R71_RS27705 (WP3S18C02_P20550) 61262..61654 - 393 WP_032426796 conjugal transfer relaxosome DNA-binding protein TraM -
H7R71_RS27710 (WP3S18C02_P20560) 62160..62582 + 423 WP_020315406 transglycosylase SLT domain-containing protein -
H7R71_RS27715 (WP3S18C02_P20570) 62605..63147 - 543 WP_032426797 antirestriction protein -
H7R71_RS27720 (WP3S18C02_P20580) 63796..64011 - 216 Protein_65 SAM-dependent DNA methyltransferase -
H7R71_RS27725 (WP3S18C02_P20590) 64109..64339 - 231 WP_020314756 hypothetical protein -

Host bacterium

ID   18003 GenBank   NZ_AP022007
Plasmid name   pWP3-S18-CRE-02_2 Incompatibility group   -
Plasmid size   123247 bp Coordinate of oriT [Strand]   61967..62015 [+]
Host baterium   Klebsiella quasipneumoniae strain WP3-S18-CRE-02

Cargo genes

Drug resistance gene   -
Virulence gene   pla
Metal resistance gene   merA, merD, merE
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -