Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   119504
Name   oriT_pEA49-KPC in_silico
Organism   Klebsiella aerogenes
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_KU318419 (77487..77543 [+], 57 nt)
oriT length   57 nt
IRs (inverted repeats)      13..20, 23..30  (GCAAAATT..AATTTTGC)
Location of nic site      39..40
Conserved sequence flanking the
  nic site    		  GGTGTGGAGC
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 57 nt

>oriT_pEA49-KPC
TAAAGTTAATCAGCAAAATTTTAATTTTGCGTGGGGTGTGGAGCTTTTGGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   12320 GenBank   WP_100663238
Name   traI_HTH47_RS00310_pEA49-KPC insolico UniProt ID   _
Length   1746 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1746 a.a.        Molecular weight: 188949.98 Da        Isoelectric Point: 6.1101

>WP_100663238.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacteriaceae]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMGERWAGKGAEALGLSGGVDQKVFTKVLEGRLPDGSDLSRTQ
DGANKHRPGYDFTFSAPKSVSVMAMLGGDKRLIEAHNRAVETAIKQIEAMASTRVMTEGRSETQLTGNLV
MALFNHDTSRDQEPQLHTHAVVANATQHGDEWRTLSSDKVGKTGFIENIYANQIAFGRLYRSALKDDVAA
MGYETETVGRHGMWEFKGVPVAPFSSRSRTIGEAVGDDASLKSRDVAALDTRQSKQKVDPEQRMAEWMQT
LKETGFDIKAYREAADQRVVQGNIPATAPEAIDINSSVGQAIAMLSDRRARFTYSELLATTLGQLPARSG
MVEMARDGIDAAIKNEQLIPLDKEKGLFTSNIHVLDELSVSAMTRDLQRTGQADIFPDKSVPRSRSYSDA
VSVLAQDRPPVAIISGQGGAAGQRERVAELTMMAREQGRDVQIIAADRRSRSALMQDERLSGEHITDRRG
LTEGMTFTPGSTLIVDQGEKLTLKETLTLLDGALRHNVQLLIADSGQRTGTGSALTVMKEAGVSTLAWQG
GEKTQVSVISEPDRRQRYDRLAADFARSVRAGEHSVAQVTGPREQAVLAGAVREALKAEKVLGEREVSIT
TLEPVWLDSRHQQVRDHYREGMVMERWNAEARSRERFVIDRVTGRNNSLTLRNAQGETRVTRLSELNSSW
SLYRTGTLQVAEGDRLAVLGQAQGTRLRGGDTVTVKALGEAGLVVSLPGRKADVVLPAGDSPFTAAKVGQ
GWVESPGRSVSDSATVFASLSQRELDNTTLNKLALSGRAVQLYSAQTAQKTTEKLSRQSAWSVVSEQIKD
AAGHDGLDDALAHQKAGLHTPEQQAIHLAIPVLEGNGLAFTKPQLMAAAKEFEQDSLSLHVIEKEADRQV
RSGALLSVPVSPGNGLQLLVSRQSYNAEKSILRHVLEGKEAVTPLMDKVPDAQLAGLTDGQQNATRMILE
SPDRFTLVQGYAGVGKTTQFRAVMSAIGTLPEREQPRVIGVAPTHRAVSEMRDAGVPETQTLAAFIHDTQ
QQLRGGERPDFSNVLFLVDESSMVGNADMAKAYSLIAGGGGRAVSSGDTDQLQSIAPGQPFRLLQKRSAI
DVAVMQEIVRQTPELKPAVYSLINRDIGSALTTIERVAPAQVPRRADAWQPDSSVMEFSREREEAIAKAV
AAGDLLPGGQPATLLETIVKDYTGRTPEAQAQTIVITALNADRRQVNAMIHDARQDAGEVGEKEVTLPVL
TPANIRDGELRRMTTWEASRDSLVLLDSTYYSIEALDGEAHLVTLKDAQGNTRSLSPAQAATEGVTLYRQ
DTITVSEGDRMRFSKSDNERGFVANSVWSVSEIKGDSVTLSDGKQTRTLTPSAEQAEQHIDLAYAVTVEG
SQGASEPFSISLQGTDGGRKRMVSFESAYVALSRMKQHAQVYTDNRDKWVAAMEKSQAKSTAHDILEPRG
DRAVANAARLTATAKALGEVPAGRAALRQAGLQPEGSMAKFISPGRKYPQPHVALPAFDRNGRQAGVWLS
ALTSGDGQLKGLGGEGRLMGSGDAAFAGLQASRNGESLLARDMEEGVRLARENPQSGVVVRLAGEARPWN
PGAITGGRVWADGLPDSTGTQPAETVPPEVLAQQAREAEVQRELDKRAEEAVREMARSGDGPAGGADVAV
RDVVRDMARIKETPASPLTLPDAPEERRRDEAVSQVVRENVQRDRLQQMERETVRDLEREKTLGGD

  Protein domains


Predicted by InterproScan.

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

(631-710)

TrwC relaxase (TrwC)

(10-283)

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

(573-625)

DNA helicase TraI (TraI_C)

(1430-1551)

AAA domain (AAA_30)

(967-1152)


  Protein structure



No available structure.




T4CP

ID   14467 GenBank   WP_100663239
Name   traD_HTH47_RS00315_pEA49-KPC insolico UniProt ID   _
Length   730 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 730 a.a.        Molecular weight: 81860.36 Da        Isoelectric Point: 5.0430

>WP_100663239.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MSFNAKDMTQGGQIASMRIRMFSQIANIIVYCLVILFGIIVAITLSVKLTWQTFVNGMVYYWCQTLAPMR
DIFKSQPVYTIRYYGHELKYNAQQILQDKYIQWCADQVWTAFILAAIIAAVVCVITFFVTTWILGHQGKQ
QSEDEITGGRQLTDDPKAVAKMLRRDGLASDIKIGELPLIKDSEIQNFCLHGTVGAGKSEVIRRLMNYAR
QRGDMVIVYDRSCEFVKSYYDPATDKILNPLDARCAAWDLWRECLTQPDFDNVSNTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDKDRSYSKLVDTLLSIKIEKLRSYLKNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIENNGESFTIRDWMRGVREDGKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRDRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVIGIQSYAQLEDIYGQKPAETLFDVLNTRAFFRSPSRNIA
EFAAGEIGEKEILKASEQYSYGVDPVRDGTSVGKDMERVTLVSYSDVQTLPDLSCYVTLPGPYPAVKMAL
KYQQRPKVAPEFIPRTIDGKAEERLNAALAAREHESRSIAMLFEPDADVVAPEGGAENAGQPQQPQQPQQ
PQQPQQPQQLTPAPRAADAASVAGAAGAGGVEPELKTKAEEAEQLPPGIDESGEVVDMAAWEAWQAEQDE
LSPQERQRREEVNINVHRAPEKDLEPGGYI

  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.



ID   14468 GenBank   WP_025759816
Name   traC_HTH47_RS00390_pEA49-KPC 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: 98881.62 Da        Isoelectric Point: 5.7676

>WP_025759816.1 MULTISPECIES: type IV secretion system protein TraC [Enterobacterales]
MSNPLDTVTRTVNSLLTALKMPDASSEANDVLGQMRFPQFSRVLPYRDYDAETGLFMNEKTMGFMLEAQP
INGANETIVSSLENLMRTKLPREVPVAVHLVSSHLVGQDIEYGLRELSWTGEKADTFNAITRAYYLRAAE
EGFPLPDHLNLPLTLRNYRVYISCCVPRKRGSKASVMEMENQVKIIRASLQGAQIATRSVDADAFIRIAG
EMINHNPDALYPTERELDPLKDLNYQCVDDTFDLKVKADYMTLGLRGNGRNSTARIMNFQLTKNPELAFL
WNMADNYSNLLNPELSVSCPFILTLVLSVEDQVKAQNEANLKFMDLEKKSKTSYAKFFPGVAQEAKEWGD
LRQRLSSGQSSLVSYFLNVTLFCRDDQETALKVEQDVLNSFRKNGFELISPRFNHMRNFLVNLPFMAGGG
LFKQLRESGVLQRAESFNVANLMPVVADSPLATSGLLAPTYRNQLAFIDLFSRGMGNTNFNMAVCGTSGA
GKTGLIQPLIRSVIDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLKFNPFANVTDDTIDEMAERLRDQL
SVMASPNGNLDEVHEGLLLKAVKATWLTKKNQARIDDVVDYLMMARDSEEYSGSPTIRSRLDEMVVLLTQ
YTRDGVYGSYFNSDEPSLKDEARMVVLELGGLEDRPSLLVAVMFSLILYIENRMYRTPRSLKKLNVIDEG
WRLLDFKNNKVGAFIEKGYRTARRHTGSYITITQNIVDFDSETASSAARAAWGNSSYKIILKQSAKEFAK
YNQLYPDQYSQLQRDMIKGFGSAKDNWFSSFMLSVEHLTSWHRLFVDPLSRAMYSSDGPDFEFLQQRRRE
GLSIHEAVWELAWKKSGPEMAALERWLHEHEGKTIL

  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.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 52453..78091

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HTH47_RS00315 52453..54645 - 2193 WP_100663239 type IV conjugative transfer system coupling protein TraD virb4
HTH47_RS00320 55017..55748 - 732 WP_059514045 conjugal transfer complement resistance protein TraT -
HTH47_RS00325 55823..56254 - 432 WP_059514050 hypothetical protein -
HTH47_RS00330 56271..59134 - 2864 Protein_65 conjugal transfer mating-pair stabilization protein TraG -
HTH47_RS00335 59134..60504 - 1371 WP_059514056 conjugal transfer pilus assembly protein TraH traH
HTH47_RS00340 60491..60919 - 429 WP_129468605 conjugal transfer protein TrbF -
HTH47_RS00345 60912..61466 - 555 WP_025759806 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
HTH47_RS00350 61515..61703 - 189 WP_228717230 hypothetical protein -
HTH47_RS00355 61720..62463 - 744 WP_071667457 type-F conjugative transfer system pilin assembly protein TraF traF
HTH47_RS00360 62500..62688 - 189 WP_100663241 hypothetical protein -
HTH47_RS00365 62720..64574 - 1855 Protein_72 type-F conjugative transfer system mating-pair stabilization protein TraN -
HTH47_RS00370 64571..65200 - 630 WP_100663243 type-F conjugative transfer system pilin assembly protein TrbC trbC
HTH47_RS00375 65216..66153 - 938 Protein_74 conjugal transfer pilus assembly protein TraU -
HTH47_RS00380 66203..66850 - 648 WP_025759814 type-F conjugative transfer system protein TraW traW
HTH47_RS00385 66850..67197 - 348 WP_011201813 type-F conjugative transfer system protein TrbI -
HTH47_RS00390 67194..69824 - 2631 WP_025759816 type IV secretion system protein TraC virb4
HTH47_RS00395 69855..70382 - 528 WP_228717231 conjugal transfer pilus-stabilizing protein TraP -
HTH47_RS00400 70372..70776 - 405 WP_058670650 hypothetical protein -
HTH47_RS00405 70760..70945 - 186 WP_016674194 hypothetical protein -
HTH47_RS00410 70949..71173 - 225 WP_058670649 TraR/DksA C4-type zinc finger protein -
HTH47_RS00415 71293..71832 - 540 WP_025759821 type IV conjugative transfer system lipoprotein TraV traV
HTH47_RS00420 71854..73248 - 1395 WP_058670648 F-type conjugal transfer pilus assembly protein TraB traB
HTH47_RS00425 73235..73978 - 744 WP_100663244 type-F conjugative transfer system secretin TraK traK
HTH47_RS00430 73965..74531 - 567 WP_025759824 type IV conjugative transfer system protein TraE traE
HTH47_RS00435 74546..74851 - 306 WP_008324160 type IV conjugative transfer system protein TraL traL
HTH47_RS00440 75001..75351 - 351 WP_071667438 type IV conjugative transfer system pilin TraA -
HTH47_RS00445 75417..75842 - 426 WP_323829697 TraY domain-containing protein -
HTH47_RS00450 75900..76397 - 498 WP_181368378 hypothetical protein -
HTH47_RS00455 76394..76603 - 210 WP_181368379 hypothetical protein -
HTH47_RS00460 76788..77183 - 396 WP_040218546 conjugal transfer relaxosome DNA-binding protein TraM -
HTH47_RS00465 77615..78091 + 477 WP_008324168 transglycosylase SLT domain-containing protein virB1
HTH47_RS00470 78138..78668 - 531 WP_100663245 antirestriction protein -
HTH47_RS00475 79295..80125 - 831 WP_025760338 N-6 DNA methylase -
HTH47_RS00480 80168..80431 - 264 WP_008324174 hypothetical protein -
HTH47_RS00485 80517..80861 - 345 WP_016582953 hypothetical protein -
HTH47_RS00550 80908..81093 - 186 WP_181368377 hypothetical protein -
HTH47_RS00495 81370..81657 - 288 WP_228717233 hypothetical protein -
HTH47_RS00500 82253..82648 - 396 WP_181368380 hypothetical protein -
HTH47_RS00505 82710..83033 - 324 WP_057069613 hypothetical protein -

Host bacterium

ID   19934 GenBank   NZ_KU318419
Plasmid name   pEA49-KPC Incompatibility group   IncFII
Plasmid size   90351 bp Coordinate of oriT [Strand]   77487..77543 [+]
Host baterium   Klebsiella aerogenes

Cargo genes

Drug resistance gene   mph(E), msr(E), armA, sul1, qacE, ant(3'')-Ia, blaKPC-2
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -