Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   102979
Name   oriT_pK351 in_silico
Organism   Klebsiella pneumoniae subsp. pneumoniae strain K351
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_KR351290 (41824..41926 [+], 103 nt)
oriT length   103 nt
IRs (inverted repeats)      89..94, 96..101  (AAATAA..TTATTT)
 28..33, 40..45  (GCAAAA..TTTTGC)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 103 nt

>oriT_pK351
CTCACCACCAAAAGTTCCACACCCCACGCAAAATTAAAGTTTTGCTGATTGGGTATTCAAATCATGCAGTTAGTGAAAAAGTAATGTGAAATAATTTATTTTA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2234 GenBank   WP_016479978
Name   traI_HTE96_RS00380_pK351 insolico UniProt ID   A0A0G3B767
Length   1746 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1746 a.a.        Molecular weight: 189285.41 Da        Isoelectric Point: 6.0099

>WP_016479978.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacterales]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMGERWAGKGAEALGLSGGVDQKVFTKVLEGRLPDGSDLSRTQ
DGANKHRPGYDFTFSAPKSVSVMAMLGDDKRLIEAHNRAVETAIKQIEAMASTRVMTEGRSETQLTGNLV
MALFNHDTSRDQEPQLHTHAVVANATQHGDEWRTLSSDKVGKTGFIENIYANQIAFGRLYRAALKDDVAA
MGYETETVGKHGMWELKGVPTEPYSSRSRTISEAVGDDASLKSRDVAALDTRQSKQKVDPEQRMAEWMQT
LKETGFDIKAYREAADLRVVQGNIPATTPEAIDINSSVGQAIAMLSDRRARFTYSELLATTLGQLPARSG
MVEMARDGIDAAIKNEQLIPLDKEKGLFTSNIHVLDELSVSAMTRDLQRTGQADIFPDKSVPRSRSYSDA
VSVLAQDRPPVAIISGQGGAAGQRERVAELTMMAREQGRDVQIIAADRRSRSALMQDERLSGEHITDRRG
LTEGMAFTPGSTLIVDQGEKLTLKETLTLLDGALRHNVQLLIADSGQRTGTGSALTVMKEAGVSTLAWQG
GEKTQVSVISEPDRRQRYDRLAADFARSVRAGEHSVAQVTGPREQAVLAGVVREALKAEKVLGEREVSIT
TLEPVWLDSRHQQVRDHYREGMVMERWNAEERSRERFVIDRVTGRNNSLTLRNAQGETRVTRLSELNSSW
SLYRTGTLQVAEGDRLAVLGQAQGTRLRGGDTVTVKALGEAGLVVSLPGRKADVVLPAGDSPFTAAKVVQ
GWVESPGRSVSDSATVFASLSQRELDNTTLNKLALSGRAVRLYSAQTAQKTTEKLSRQSAWSVVSEQIKD
AAGHDRLDDALAHQKAGLHTPEQQAIHLAIPVLEGNGLAFTKPQLMAAAKEFEQDSLSLQAIEKEADRQV
RSGDLLSVPVSPGNGLQLLVSRQSYNAEKSIIRHVLEGKEAVTPLMDKVPDAQLAGLTDGQRNATRMILE
SPDRFTLVQGYAGVGKTTQFRAVMSAIGTLPEREQPRVIGVAPTHRAVSEMRDAGVPETQTLAAFIHDTQ
QQLRGGERTDFSNVLFLVDESSMVGNADMAKAYSLIAGGGGRAVSSGDTDQLQSIAPGQPFRLLQKRSAI
DVAVMQEIVRQTPELKPAVYSLISRDIGSALTTIESVAPAQVPRRADAWQPDSSVMEFSREREEAIAKAV
AAGDLMPGGQPATLLEAIVKDYTGRTSEAQAQTIVITALNADRRQVNAMIHDARQGAGEVGEKEVTLPVL
TPANIRDGELRRMATWEASRDSLVLLDSTYYSIEALDGEAHLVMLKDAQGNTRSLSPAQAATEGVTLYRQ
DTITVSEGDRMRFSKSDNERGFVANSVWSVSEIKGDSVTLSDGKQTRTLTPSAEQAEQHIDLAYAVTVEG
SQGASEPFSISLQGTDGGRKRMVSFESAYVALSRMKQHAQVYTDNRDKWAAAMEKSQAKSTAHDILEPRG
DRAVANAARLTATAKALGEVPAGRAALRQAGLQPEGSMAKYISPGRKYPQPHVALPAFDRNGRKAGVWLS
ALTSGDGQLKGLAGEGRVMGSGDAAFAGLQASRNGESLLARDMEEGVRLARENPQSGVVVRLEGEARPWN
PGAITGGRVWADGLPDATGTQPAETVPPEVLAQQAREAEVQRELDKRAEEAVREMARSGDRPAGGADVAV
RDVVRDMDRIKETPASPLTLPDAPEERRRDEAVSQVVRESVQRDRLQQMERETVRDLEREKTLGGD

  Protein domains


Predicted by InterproScan.

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

(631-710)

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

(573-625)

TrwC relaxase (TrwC)

(10-283)

DNA helicase TraI (TraI_C)

(1430-1551)

AAA domain (AAA_30)

(967-1150)


  Protein structure



No available structure.




T4CP

ID   1922 GenBank   WP_008324134
Name   traC_HTE96_RS00300_pK351 insolico UniProt ID   _
Length   876 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 876 a.a.        Molecular weight: 98841.51 Da        Isoelectric Point: 5.7676

>WP_008324134.1 MULTISPECIES: type IV secretion system protein TraC [Enterobacterales]
MSNPLDSVTRTVNSLLTALKMPDASSEANDVLGQMRFPQFSRVLPYRDYDAETGLFMNEKTMGFMLEAQP
INGANETIVSSLENLMRTKLPREVPVAVHLVSSHLVGQDIEYGLRELSWTGEKADTFNAITRAYYLRAAE
EGFPLPDHLNLPLTLRNYRVYISCCVPRKRGSKASVMEMENQVKIIRASLQGAQIATRSVDADAFIRIAG
EMINHNPDALYPTERELDPLKDLNYQCVDDTFDLKVKADYMTLGLRGNGRNSTARIMNFQLTKNPELAFL
WNMADNYSNLLNPELSVSCPFILTLVLSVEDQVKAQNEANLKFMDLEKKSKTSYAKFFPGVAQEAKEWGD
LRQRLSSGQSSLVSYFLNVTLFCRDDQETALKVEQDVLNSFRKNGFELISPRFNHMRNFLVNLPFMAGGG
LFKQLRESGVLQRAESFNVANLMPVVADSPLATSGLLAPTYRNQLAFIDLFSRGMGNTNFNMAVCGTSGA
GKTGLIQPLIRSVIDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLKFNPFANVTDDTIDEMAERLRDQL
SVMASPNGNLDEVHEGLLLKAVKATWLTKKNQARIDDVVDYLMMARDSEEYSGSPTIRSRLDEMVVLLTQ
YTRDGVYGSYFNSDEPSLKDEARMVVLELGGLEDRPSLLVAVMFSLILYIENRMYRTPRSLKKLNVIDEG
WRLLDFKNNKVGAFIEKGYRTARRHTGSYITITQNIVDFDSETASSAARAAWGNSSYKIILKQSAKEFAK
YNQLYPDQYSQLQRDMIKGFGSAKDNWFSSFMLSVEHLTSWHRLFVDPLSRAMYSSDGPDFEFLQQRRRE
GLSIHEAVWELAWKKSGPEMAALERWLHEHEGKTIS

  Protein domains


Predicted by InterproScan.

Family of unknown function (DUF5934) (DUF5934)

(289-446)

TraG P-loop domain (P-loop_TraG)

(470-765)

TraC protein (TraC_F_IV)

(38-276)

  Protein structure



No available structure.



ID   1923 GenBank   WP_016479979
Name   traD_HTE96_RS00375_pK351 insolico UniProt ID   _
Length   748 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 748 a.a.        Molecular weight: 83951.64 Da        Isoelectric Point: 5.1609

>WP_016479979.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacterales]
MSFNAKDMTQGGQIASMRIRMFSQIANIIVYCLVILFGIIVAITLSVKLTWQTFVNGMVYYWCQTLAPMR
DIFKSQPVYTIRYYGHELKYNAQQILQDKYIQWCADQVWTAFILAAIIAAVVCVITFFVTTWILGHQGKQ
QSEDEITGGRQLTDDPKAVAKMLRRDGLASDIKIGELPLIKDSEIQNFCLHGTVGAGKSEVIRRLMNYAR
QRGDMVIVYDRSCEFVKSYYDPATDKILNPLDARCAAWDLWRECLTQPDFDNVSNTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDKDRSYSKLVDTLLSIKIEKLRSYLKNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIENNGESFTIRDWMRGVREDGKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVIGIQSYAQLEDIYGQKPAETLFDVLNTRAFFRSPSRNIA
EFAAGEIGEKEILKASEQYSYGVDPVRDGTSVGKDMERVTLVSYSDVQTLPDLSCYVTLPGPYPAVKMAL
KYQQRPKVAPEFIPRTIDGKAEERLNAALAAREHESRSIAMLFEPDADVVAPEGGAENAGQPQQPQQPQQ
PQQPQQPQQPQQPQQPQQPQQPQQPQQLTPAPRAADAASVAGAAGAGGVEPELKTKAEEAEQLPPGISES
GEVVDMAAWEAWQAEQDELSPQERQRREEVNINVHRAPEKDLEPGGYI

  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: 41276..66446

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HTE96_RS00190 36373..36696 + 324 WP_008324183 hypothetical protein -
HTE96_RS00195 36758..37117 + 360 WP_015493069 hypothetical protein -
HTE96_RS00200 37744..38118 + 375 WP_008324180 hypothetical protein -
HTE96_RS00205 38172..38459 + 288 WP_008324178 hypothetical protein -
HTE96_RS00210 38506..38850 + 345 WP_008324177 hypothetical protein -
HTE96_RS00215 38936..39199 + 264 WP_008324174 hypothetical protein -
HTE96_RS00220 39242..40072 + 831 WP_008324171 N-6 DNA methylase -
HTE96_RS00225 40699..41229 + 531 WP_008324170 antirestriction protein -
HTE96_RS00230 41276..41752 - 477 WP_008324168 transglycosylase SLT domain-containing protein -
HTE96_RS00235 42184..42576 + 393 WP_008324167 conjugal transfer relaxosome DNA-binding protein TraM -
HTE96_RS00240 42765..43454 + 690 WP_008324166 hypothetical protein -
HTE96_RS00245 43541..43765 + 225 WP_008324165 TraY domain-containing protein -
HTE96_RS00250 43823..44173 + 351 WP_016247536 type IV conjugative transfer system pilin TraA -
HTE96_RS00255 44324..44629 + 306 WP_008324160 type IV conjugative transfer system protein TraL traL
HTE96_RS00260 44644..45210 + 567 WP_016247535 type IV conjugative transfer system protein TraE traE
HTE96_RS00265 45197..45940 + 744 WP_008324157 type-F conjugative transfer system secretin TraK traK
HTE96_RS00270 45927..47321 + 1395 WP_016479986 F-type conjugal transfer pilus assembly protein TraB traB
HTE96_RS00275 47343..47882 + 540 WP_016247533 type IV conjugative transfer system lipoprotein TraV traV
HTE96_RS00280 48002..48226 + 225 WP_008324141 TraR/DksA C4-type zinc finger protein -
HTE96_RS00285 48230..48415 + 186 WP_008324139 hypothetical protein -
HTE96_RS00290 48399..48800 + 402 WP_016479985 hypothetical protein -
HTE96_RS00295 48790..49356 + 567 WP_008324135 conjugal transfer pilus-stabilizing protein TraP -
HTE96_RS00300 49349..51979 + 2631 WP_008324134 type IV secretion system protein TraC virb4
HTE96_RS00305 51976..52323 + 348 WP_008324133 type-F conjugative transfer system protein TrbI -
HTE96_RS00310 52323..52970 + 648 WP_008324132 type-F conjugative transfer system protein TraW traW
HTE96_RS00315 52973..53959 + 987 WP_099004436 conjugal transfer pilus assembly protein TraU traU
HTE96_RS00320 53976..54605 + 630 WP_008324130 type-F conjugative transfer system pilin assembly protein TrbC trbC
HTE96_RS00325 54602..56455 + 1854 WP_016479983 type-F conjugative transfer system mating-pair stabilization protein TraN traN
HTE96_RS00330 56487..56675 + 189 WP_008324128 conjugal transfer protein TrbE -
HTE96_RS00335 56706..57455 + 750 WP_008324127 type-F conjugative transfer system pilin assembly protein TraF traF
HTE96_RS00340 57472..57720 + 249 WP_016479982 type-F conjugative transfer system pilin chaperone TraQ -
HTE96_RS00345 57710..58264 + 555 WP_008324125 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
HTE96_RS00350 58257..58685 + 429 WP_008324122 hypothetical protein -
HTE96_RS00355 58672..60033 + 1362 Protein_71 conjugal transfer pilus assembly protein TraH -
HTE96_RS00360 60041..62863 + 2823 WP_008324119 conjugal transfer mating-pair stabilization protein TraG traG
HTE96_RS00365 62909..63316 + 408 WP_233406080 entry exclusion protein -
HTE96_RS00605 63391..63729 + 339 WP_032072912 tetratricopeptide repeat protein -
HTE96_RS00610 63737..64066 + 330 WP_223856629 hypothetical protein -
HTE96_RS00375 64200..66446 + 2247 WP_016479979 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   3422 GenBank   NZ_KR351290
Plasmid name   pK351 Incompatibility group   IncFIB
Plasmid size   106844 bp Coordinate of oriT [Strand]   41824..41926 [+]
Host baterium   Klebsiella pneumoniae subsp. pneumoniae strain K351

Cargo genes

Drug resistance gene   sul1, rmtC, blaNDM-1
Virulence gene   htpB
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -