Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   118041
Name   oriT_pC91664_1_140k in_silico
Organism   Klebsiella aerogenes strain C91664
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP139388 (115109..115157 [+], 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_pC91664_1_140k
AATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   11443 GenBank   WP_320886613
Name   traI_SM907_RS24950_pC91664_1_140k insolico UniProt ID   _
Length   1751 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1751 a.a.        Molecular weight: 191161.33 Da        Isoelectric Point: 6.1601

>WP_320886613.1 conjugative transfer relaxase/helicase TraI [Klebsiella aerogenes]
MMSIGSVKSAGKAGDYYAKEDNYYVIGSMDERWQGKGAEALGLEGKSVDKALFTELLKGKLPDGSDLSRI
QDGMNKHRPGYDLTFSAPKSVSVMAMLGGDKRLIEAHNQAVTEAIRQVETLAATRVMVDGKSETVLTGNL
IVAKFNHDTNRNQEPQIHTHAVVINATQNGDKWQSLGTDTVGKTGFIENVYANQIAFGKIYRERLKPLVE
GLGYETEVVGKHGMWEMKDVPVEPFSTRTQEINAAAGPDASLKSRDVATLDTRKAKETLDPAQKVTEWLS
TLKETGFNLKEYREAADQRAKTQREVPPPEAPAGPNVDDVVTQAISGLSDRKVQFTYTELLARTVSQMEA
RPGVIETARAGIEAAIGREQLIPLDREKGIFTSGIHVLDELSVRALSQEVLRQNHVSMVPEKATARQTSF
SDAVTVLAQDRPAIGIVSGQGGAAGQRERVTEMAMMAREQGRDVHIIAADNRSLEFLLKEEKLAGEIITG
KSALQDGTAFVPGGTLIIDQAEKLSLKETINLLDGAMRNNVQILMSDSGKRSGTGSALTVMKESGVTAYK
WQGGKQTTASVISEPDRNQRFTRMASDFVASVRDGHESVVQIRGPREQGILTGLIRENLRNEGLIGSHEE
TITALTPVWLDSKNRGIRDNYREGMVMERWDPEKRIHDRFIIDRVTAVSNTLTLKDEKGESLNLKVSAVD
NTWTLFRPQQLPVAEGERLAILGKIPETRLKGGDTVQVLKAENGVLTVQHPGQKTTQKLAAGNTPFTGIK
VGHGWVENPGRSVSENATVFASLSQRELDNATLNALAQSGSQVRLYSAQNEQKTVEKLGRHTAFSVVTEQ
LKTRAGEQDISAAIAHQKSQLHTPAEQAIHLAVPSLESDKLTFTRPQLLVAAHEFSDGTVPFSDIEKTIG
EQIKSGDLLHVPVAAGHGNDLLISRQTWDAEKSLLTMVLEGKNAVTPLMAKVPGSLMEGLTSGQRNATRM
ILETRDRFTLVQGYAGVGKTTQFRAVMSAVNLLPEDSRPKVIGLGPTHRAVGEMQSAGVEAQTTASFLHD
TQLLMRSGQTPDFSNTLFLVDESSMLGLSDTAKAMSLIAAGGGRAVSSGDTDQLQSIAPGQPFRLMQKRS
AADVAIMQEIVRQVPELRPAVYSLIDRDIHSALSTIERVEPAQVPRKENAWVPESSVMEFTPEQEKAIQK
AIGEGEVLPDISPVSLYDAIVRDYTGRTESAQAQTLIITHLNDDRRVLNRMIHDEKMRNGELGEDSVTLP
VLVTSNIRDGELRKVSTWEAHKGAIALVDNQYHQIVGVSKADQLITLRSDEGTERLISPREASAEGVTLY
RQESITVSPGDRMRFSKSDTERGYVANSVWRVESISGDSVTLNDGKRTRTVTPAADKAEAHVDLAYAITT
HGAQGASEPFSIELEGVTGARERMVSFESAYVALSRMKQHTQVYTDDRKGWTDAVSRSQEKASAHDVLEP
LNDRAVKSAEQLFGRAIPLTESPAGRAALQQSGIARGQSTGKFISPGKKYPLPHVALPAFDRNGKSAGIW
LSPLTDKDGRLQAIGGEGRVMGNEEARFVALQGSRNGESLLAGNMGEGVRIARDNPDSGVVVRLAGDDRP
WNPGAITGGRVWGDIDAVVTGGSSANIPLPPDLIAQKTAEELQRQQIEKQAQETARELTGEKRKQDEVGE
QIKDIITDVVRGLDRQKGQHERFQLPDEPENRLRNEAVQKVIADNQQQDRLQQIERDMVRDLTREKTLGG
D

  Protein domains


Predicted by InterproScan.

TrwC relaxase (TrwC)

(10-284)

DNA helicase TraI (TraI_C)

(1432-1554)

AAA domain (AAA_30)

(970-1156)

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

(634-713)

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

(576-627)


  Protein structure



No available structure.




Auxiliary protein

ID   6578 GenBank   WP_047063078
Name   WP_047063078_pC91664_1_140k insolico UniProt ID   _
Length   128 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 128 a.a.        Molecular weight: 14741.75 Da        Isoelectric Point: 4.6362

>WP_047063078.1 MULTISPECIES: conjugal transfer relaxosome DNA-binding protein TraM [Enterobacteriaceae]
MARVQAYPSDEVVDKINAIVEKRRAEGAKEKDISFSSVATMLLELGLRVYEAQMERKESGFNQAEFNKVL
LENVMKTQFTISKVLAMDSLSPHIKGDDRFDFKSMVMNIRDDAREVVERFFPSQDEEE

  Protein domains


Predicted by InterproScan.

TraM protein, DNA-binding (Tra_M)

(1-125)


  Protein structure



No available structure.




T4CP

ID   13372 GenBank   WP_320886614
Name   traD_SM907_RS24955_pC91664_1_140k insolico UniProt ID   _
Length   735 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 735 a.a.        Molecular weight: 82657.47 Da        Isoelectric Point: 5.5131

>WP_320886614.1 type IV conjugative transfer system coupling protein TraD [Klebsiella aerogenes]
MSFNAKDMTQGGQIASMRFRMFGQIANIILYVLFLFFWVLCGLILMYRLSWQTFVNGAVYWWCTTLGPMR
DIIRSQPVYTINYYGQQLQYTSEQILKDKYTIWCGEQLWTGFVFAGTVSLIICIVAFFVASWVLGHQGKQ
QSEDEVTGGRQLSEKPKEVARKMKRDGMASDIKIGDLPILLNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSIDKILNPLDSRCAAWDLWKECLTLPDFDNVSNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRSVREDQPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKGIA
EFAAGEIGEKELKKASENYSYGADPVRDGVSTGKEQKRETIVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRQLNQAIDDKLAAVLAAREAEGQSARILFMPDPVETVPVEKTDEKPASPVAAVPTP
QEEKAKVPPVTASNTFHKPASAAAAAASASASPAGGVEQELHEKPEEQLPLPPGVNEDGEIEDMNAWDEW
QSSSDVLRDMHRREEININHSHHVDRDDIDLGSNF

  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: 88609..115716

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
SM907_RS24955 (SM907_24955) 88609..90816 - 2208 WP_320886614 type IV conjugative transfer system coupling protein TraD virb4
SM907_RS24960 (SM907_24960) 91001..91732 - 732 WP_320886615 conjugal transfer complement resistance protein TraT -
SM907_RS24965 (SM907_24965) 91868..92458 - 591 WP_320886616 hypothetical protein -
SM907_RS24970 (SM907_24970) 92474..95296 - 2823 WP_320886617 conjugal transfer mating-pair stabilization protein TraG traG
SM907_RS24975 (SM907_24975) 95296..96711 - 1416 WP_320886618 conjugal transfer pilus assembly protein TraH traH
SM907_RS24980 (SM907_24980) 97113..97658 - 546 WP_320886619 hypothetical protein -
SM907_RS24985 (SM907_24985) 97655..98182 - 528 WP_320886705 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
SM907_RS24990 (SM907_24990) 98202..98435 - 234 WP_001568081 type-F conjugative transfer system pilin chaperone TraQ -
SM907_RS24995 (SM907_24995) 98446..99195 - 750 WP_320886620 type-F conjugative transfer system pilin assembly protein TraF traF
SM907_RS25000 (SM907_25000) 99211..99543 - 333 WP_320886621 hypothetical protein -
SM907_RS25005 (SM907_25005) 99540..99800 - 261 WP_320886622 conjugal transfer protein TrbE -
SM907_RS25010 (SM907_25010) 99814..101706 - 1893 WP_320886623 type-F conjugative transfer system mating-pair stabilization protein TraN traN
SM907_RS25015 (SM907_25015) 101703..102329 - 627 WP_320886624 type-F conjugative transfer system pilin assembly protein TrbC trbC
SM907_RS25020 (SM907_25020) 102342..103325 - 984 WP_162270604 conjugal transfer pilus assembly protein TraU traU
SM907_RS25025 (SM907_25025) 103345..103974 - 630 WP_320886625 type-F conjugative transfer system protein TraW traW
SM907_RS25030 (SM907_25030) 103971..104348 - 378 WP_320886626 type-F conjugative transfer system protein TrbI -
SM907_RS25035 (SM907_25035) 104348..106987 - 2640 WP_320886627 type IV secretion system protein TraC virb4
SM907_RS25040 (SM907_25040) 107180..107479 - 300 WP_320886628 hypothetical protein -
SM907_RS25045 (SM907_25045) 107476..107868 - 393 WP_320886629 hypothetical protein -
SM907_RS25050 (SM907_25050) 107873..108286 - 414 WP_320886630 hypothetical protein -
SM907_RS25055 (SM907_25055) 108403..108972 - 570 WP_320886631 type IV conjugative transfer system lipoprotein TraV traV
SM907_RS25060 (SM907_25060) 108991..109227 - 237 WP_320886632 DNA/RNA helicase domain-containing protein virb4
SM907_RS25065 (SM907_25065) 109220..110632 - 1413 WP_320886633 F-type conjugal transfer pilus assembly protein TraB traB
SM907_RS25070 (SM907_25070) 110632..111372 - 741 WP_001568101 type-F conjugative transfer system secretin TraK traK
SM907_RS25075 (SM907_25075) 111359..111925 - 567 WP_001568102 type IV conjugative transfer system protein TraE traE
SM907_RS25080 (SM907_25080) 111944..112249 - 306 WP_024191986 type IV conjugative transfer system protein TraL traL
SM907_RS25085 (SM907_25085) 112263..112631 - 369 WP_279925732 type IV conjugative transfer system pilin TraA -
SM907_RS25090 (SM907_25090) 112711..113079 - 369 WP_320886634 type IV conjugative transfer system pilin TraA -
SM907_RS25095 (SM907_25095) 113158..113322 - 165 WP_071594636 TraY domain-containing protein -
SM907_RS25100 (SM907_25100) 113497..114186 - 690 WP_320886635 helix-turn-helix domain-containing protein -
SM907_RS25105 (SM907_25105) 114410..114796 - 387 WP_047063078 conjugal transfer relaxosome DNA-binding protein TraM -
SM907_RS25110 (SM907_25110) 115231..115716 + 486 WP_047063096 transglycosylase SLT domain-containing protein virB1
SM907_RS25115 (SM907_25115) 115749..116057 - 309 WP_320886636 DUF5983 family protein -
SM907_RS25120 (SM907_25120) 116123..116944 - 822 WP_320886637 DUF932 domain-containing protein -
SM907_RS25125 (SM907_25125) 117341..117472 + 132 WP_320886638 hypothetical protein -
SM907_RS25130 (SM907_25130) 117833..118660 - 828 WP_063135963 N-6 DNA methylase -
SM907_RS25135 (SM907_25135) 118709..118855 - 147 WP_047063287 hypothetical protein -
SM907_RS25140 (SM907_25140) 118949..119296 - 348 WP_320886639 hypothetical protein -
SM907_RS25145 (SM907_25145) 119360..119755 - 396 WP_047047640 hypothetical protein -
SM907_RS25150 (SM907_25150) 120095..120226 + 132 WP_255344245 hypothetical protein -
SM907_RS25155 (SM907_25155) 120381..120530 + 150 WP_320886640 hypothetical protein -

Host bacterium

ID   18474 GenBank   NZ_CP139388
Plasmid name   pC91664_1_140k Incompatibility group   IncFIB
Plasmid size   140664 bp Coordinate of oriT [Strand]   115109..115157 [+]
Host baterium   Klebsiella aerogenes strain C91664

Cargo genes

Drug resistance gene   tet(A), dfrA1, qacE, sul1, blaLAP-2, qnrS1
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -