Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   120015
Name   oriT_pKqs_CIP110288_1 in_silico
Organism   Klebsiella quasipneumoniae subsp. similipneumoniae strain CIP110288
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP084778 (112494..112543 [+], 50 nt)
oriT length   50 nt
IRs (inverted repeats)      7..14, 17..24  (GCAAAATT..AATTTTGC)
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_pKqs_CIP110288_1
AAATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   12617 GenBank   WP_063106403
Name   traI_LGM28_RS25630_pKqs_CIP110288_1 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: 190775.71 Da        Isoelectric Point: 6.0387

>WP_063106403.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Klebsiella]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMDERWQGKGAEALGIDGKAVDKTLFTELLKGKLPDGSDLTRI
QDGANKHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVTEAVRQLETLAATRVMTDGKSETVLTGNL
IVAKFNHDTNRNQEPQIHTHAVVINATQNGDKWQTLGTDKIGKTGFIENVYANQIAFGKLYREAFKPLVE
KLGYETEVVGKHGMWEMKGVPVEPFSTRTQEVREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMN
TLKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLE
AKDGVFELARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVP
FSDAVSVLAQDRPVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVT
GKSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTY
RWQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRHEGVLGEKD
TTITSLTPVWLDSKSRGVRDYYREGMVMERWDPENQTHDRFVIDRVTASSNMLTLKDREGVRLDLKVSAV
DSQWTLFRADTLPVAEGERLAVLGKIPDTRLKGGESIAVMKVEDGQLTVQRPGQKTTQTLAVGAGVFDGI
KIGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSE
QLKTRSGETDLDAAIAQQKAGLHTPAEQAIHLSIPLLESQDLTFTRPQLLATALETGGDKVPMWSIEMTI
KKQIKSGQLLNVGVSPGHGNDLLISRQTWDAEKSILTRVLEGKDAVAPLMDRVPASLMTDLTAGQRAATR
MILETPDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPHVIGLGPTHRAVGEMQSAGVDARTTASFLH
DTQLLQRNGQTPDFSNTLFLLDESSMVGLSDTAKALSLIAAGGGRAVLSGDTDQLQSISPGQPFRLMQQR
SAADVAIMKEIVRQVPELRPAVYSLIDRDIDRALATIEQVTPERVPRKEGAWVPGSSVVEFTPTQEEEIR
KALSKGESLPAGQPATLYEALVKDYTGRTPEAQSQTLIITHLNNDRRALNGLIHEARRENGETGREEVTL
PVLVTSNIRDGELRKLSTWTAHKGAVALVDNVYHRIDNVDKDNQLITLTDSEGKERYISPREASAEGVTL
YRQEEITVSQGDRMRFSKSDPERGYVANSVWEVQSVSGDSVTLSDGKTTRTLTPKADEAQQHIDLAYAIT
AHGAQGASEPYAIALEGMVGARKLMASFESAYVGLSRMKQHVQVYTDRREGWIKAIQHSPEKATAHDILE
PRNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGSSPGKFISPGKKYPQPHVALPAFDKNGKAAGI
WLSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNIGEGVRMARDNPDTGVVVRLAGDDR
PWNPGAITGGRVWAEQAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEP
VERVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEAAIQQVASETLQRDRLQAVERDMVRDLNREKTL
GGD

  Protein domains


Predicted by InterproScan.

AAA domain (AAA_30)

(971-1158)

TrwC relaxase (TrwC)

(10-284)

DNA helicase TraI (TraI_C)

(1433-1555)

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

(577-629)

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

(636-714)


  Protein structure



No available structure.




T4CP

ID   14815 GenBank   WP_063106402
Name   traD_LGM28_RS25635_pKqs_CIP110288_1 insolico UniProt ID   _
Length   768 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 768 a.a.        Molecular weight: 85829.88 Da        Isoelectric Point: 5.0689

>WP_063106402.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Klebsiella]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTSFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPIGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIQRRLDTRVDARLSALLEAREAEGSLARALFTPDAPEPGPADTDSHAGEQPEPVSQPA
PAEVTVSPAPVKAPPTTKSPAAEPSARAAEPPVLRVTTVPLIKPKAAAAAAAAATASSVGTPAAGGTEQE
LAQQSAEQGQEMLPAGMNEDGVIEDMQAYDAWLADEQTQRDMQRREEVNINRSHRHDEQDDVEIGGNF

  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: 84049..109996

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
LGM28_RS25635 (LGM28_25635) 84049..86355 - 2307 WP_063106402 type IV conjugative transfer system coupling protein TraD virb4
LGM28_RS25640 (LGM28_25640) 86429..86524 - 96 Protein_69 hypothetical protein -
LGM28_RS25645 (LGM28_25645) 86717..87448 - 732 WP_004152629 conjugal transfer complement resistance protein TraT -
LGM28_RS25650 (LGM28_25650) 87638..88165 - 528 WP_136084787 conjugal transfer protein TraS -
LGM28_RS25655 (LGM28_25655) 88171..91020 - 2850 WP_136084783 conjugal transfer mating-pair stabilization protein TraG traG
LGM28_RS25660 (LGM28_25660) 91020..92390 - 1371 WP_047665852 conjugal transfer pilus assembly protein TraH traH
LGM28_RS25665 (LGM28_25665) 92377..92799 - 423 WP_049010971 hypothetical protein -
LGM28_RS25670 (LGM28_25670) 92792..93364 - 573 WP_055323574 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
LGM28_RS25675 (LGM28_25675) 93336..93575 - 240 WP_063106400 type-F conjugative transfer system pilin chaperone TraQ -
LGM28_RS25680 (LGM28_25680) 93586..94338 - 753 WP_136084782 type-F conjugative transfer system pilin assembly protein TraF traF
LGM28_RS25685 (LGM28_25685) 94359..94685 - 327 WP_012539967 hypothetical protein -
LGM28_RS25690 (LGM28_25690) 94696..94923 - 228 WP_047665846 conjugal transfer protein TrbE -
LGM28_RS25695 (LGM28_25695) 94913..95194 - 282 WP_047665844 hypothetical protein -
LGM28_RS25700 (LGM28_25700) 95227..97182 - 1956 WP_063106399 type-F conjugative transfer system mating-pair stabilization protein TraN traN
LGM28_RS25705 (LGM28_25705) 97241..97879 - 639 WP_047667531 type-F conjugative transfer system pilin assembly protein TrbC trbC
LGM28_RS25710 (LGM28_25710) 97892..98881 - 990 WP_046622837 conjugal transfer pilus assembly protein TraU traU
LGM28_RS25715 (LGM28_25715) 98878..99267 - 390 WP_047667530 hypothetical protein -
LGM28_RS25720 (LGM28_25720) 99309..99935 - 627 WP_004152507 type-F conjugative transfer system protein TraW traW
LGM28_RS25725 (LGM28_25725) 99935..100324 - 390 WP_136084781 type-F conjugative transfer system protein TrbI -
LGM28_RS25730 (LGM28_25730) 100324..102963 - 2640 WP_046622834 type IV secretion system protein TraC virb4
LGM28_RS25735 (LGM28_25735) 103035..103433 - 399 WP_168429906 hypothetical protein -
LGM28_RS25740 (LGM28_25740) 103441..103683 - 243 WP_071885119 hypothetical protein -
LGM28_RS25745 (LGM28_25745) 103875..104279 - 405 WP_046622833 hypothetical protein -
LGM28_RS25750 (LGM28_25750) 104346..104657 - 312 Protein_91 hypothetical protein -
LGM28_RS25755 (LGM28_25755) 104658..104876 - 219 WP_014386199 hypothetical protein -
LGM28_RS25760 (LGM28_25760) 104900..105190 - 291 WP_047665765 hypothetical protein -
LGM28_RS25765 (LGM28_25765) 105219..105617 - 399 WP_223170083 hypothetical protein -
LGM28_RS25770 (LGM28_25770) 105773..106342 - 570 WP_046622829 type IV conjugative transfer system lipoprotein TraV traV
LGM28_RS25775 (LGM28_25775) 106365..106961 - 597 WP_136084780 conjugal transfer pilus-stabilizing protein TraP -
LGM28_RS25780 (LGM28_25780) 106954..108378 - 1425 WP_136084779 F-type conjugal transfer pilus assembly protein TraB traB
LGM28_RS25785 (LGM28_25785) 108378..109118 - 741 WP_063106395 type-F conjugative transfer system secretin TraK traK
LGM28_RS25790 (LGM28_25790) 109105..109671 - 567 WP_063106394 type IV conjugative transfer system protein TraE traE
LGM28_RS25795 (LGM28_25795) 109691..109996 - 306 WP_004178059 type IV conjugative transfer system protein TraL traL
LGM28_RS25800 (LGM28_25800) 110010..110378 - 369 WP_047665762 type IV conjugative transfer system pilin TraA -
LGM28_RS25805 (LGM28_25805) 110432..110803 - 372 WP_071885111 TraY domain-containing protein -
LGM28_RS25810 (LGM28_25810) 110887..111582 - 696 WP_072194100 transcriptional regulator TraJ family protein -
LGM28_RS25815 (LGM28_25815) 111789..112181 - 393 WP_136084778 conjugal transfer relaxosome DNA-binding protein TraM -
LGM28_RS25820 (LGM28_25820) 112688..113095 + 408 WP_223170089 transglycosylase SLT domain-containing protein -
LGM28_RS25825 (LGM28_25825) 113133..113663 - 531 Protein_106 antirestriction protein -

Host bacterium

ID   20445 GenBank   NZ_CP084778
Plasmid name   pKqs_CIP110288_1 Incompatibility group   IncFIB
Plasmid size   151441 bp Coordinate of oriT [Strand]   112494..112543 [+]
Host baterium   Klebsiella quasipneumoniae subsp. similipneumoniae strain CIP110288

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   arsH, arsC, arsB, arsA, arsD, arsR
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIE9