Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   106718
Name   oriT_p070_A-KPC-2 in_silico
Organism   Enterobacter kobei strain 070
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP050075 (61907..61963 [-], 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    		  GGTGTGGTGC
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 57 nt

>oriT_p070_A-KPC-2
TAAAGTTAATCAGCAAAATTTTAATTTTGCGTGGGGTGTGGTGCTTTTGGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   4440 GenBank   WP_060446838
Name   traI_HA514_RS24870_p070_A-KPC-2 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: 189151.36 Da        Isoelectric Point: 6.1286

>WP_060446838.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacterales]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMGERWAGKGAEALGLSGGVDQKVFTKVLEGRLPDGSDLSRTQ
DGANKHRPGYDFTFSAPKSVSVMAMLGGDKRLIEAHNRAVETAIKQIEAMASTRVMTEGRSETQLTGNLV
MALFNHDTSRDQEPQLHTHAVVANATQHGDEWRTLSSDKVGKTGFIENIYANQIAFGRLYRAALKDDVAA
MGYETETVGKHGMWELKGVPTEPYSSRSRTISEAVGDDASLKSRDVAALDTRQSKQKVDPEQRMAEWMQT
LKETGFDIKAYREAADLRVVQGNIPATTPEAIDINSSVGQAIAMLSDRRARFTYSELLATTLGQLPARSG
MVEMARDGIDAAIKNEQLIPLDKEKGLFTSNIHVLDELSVSAMTRDLQRTGQADIFPDKSVPRSRSYSDA
VSVLAQDRPPVAIISGQGGAAGQRERVAELTMMAREQGRDVQIIAADRRSRSALMQDERLSGEHITDRRG
LTEGMAFTPGSTLIVDQGEKLTLKETLTLLDGALRHNVQLLIADSGQRTGTGSALTVMKEAGVSTLAWQG
GEKTRVSVISEPDRRQRYDRLAADFARSVRAGEHSVAQVTGPREQAVLAGVVREALKAEKVLGEREVSIT
TLEPVWLDSRHQQVRDHYREGMVMERWNAEARSRERFVIDRVTGRNNSLTLRNAQGETRVTRLSELNSSW
SLYRTGTLQVAEGDRLAVLGQAQGTRLKGGDTVTVKALGEAGLVVSLPGRKADVVLPAGDSPFTAAKVGQ
GWVESPGRSVSDSATVFASLSQRELDNTTLNKLALSGRAVQLYSAQTAQKTTEKLSRQSAWSVVSEQIKD
AAGHDRLDDALAHQKAGLHTPEQQAIHLAIPVLEGNGLAFTKPQLMAAAKEFEQDSLSLQAIEKEADRQV
RSGALLSVPVSPGNGLLLLVSRQSYNAEKSIIRHVLEGKEAVTPLMDKVPDAQLAGLTDGQRNATRMILE
SPDRFTLVQGYAGVGKTTQFRAVMSAIGTLPEREQPRVIGVAPTHRAVSEMRDAGVPETQTLAAFIHDTQ
QQLRGGERPDFSNVLFLVDESSMVGNADMAKAYSLIAGGGGRAVSSGDTDQLQSIAPGQPFRLLQKRSAI
DVAVMQEIVRQTPELKPAVYSLISRDIGSALTTIESVAPAQVPRRADAWQPDSSVMEFSREREEAIAKAV
AAGDLMPGGQPATLLEAIVKDYTGRTSEAQAQTIVITALNADRRQVNAMIHDARQGAGEVGEKEVTLPVL
TPANIRDGELRRMATWEASRDSLVLLDSTYYSIEALDGEAHLVMLKDAQGNTRSLSPAQAATEGVTLYRQ
DTITVSEGDRMRFSKSDNERGFVANSVWSVSEIKGDSVTLSDGKQTRTLTPSAEQAEQHIDLAYAVTVEG
SQGASEPFSISLQGTDGGRKRMVSFESAYVALSRMKQHAQVYTDNRDKWVAAMEKSQAKSTAHDILEPRG
DRAVANAVRLTATAKALGEVPAGRAALRQAGLQPEGSMAKFISPGRKYPQPHVALPAFDRNGRQAGVWLS
ALTSGDGQLKGLAGEGRVMGSGDAAFAGLQASRNGESLLARDMEEGVRLARENPQSGVVVRLEGEVRPWN
PGAITGGRVWADGLPDGTGTQPAETVPPEVLAQQAREAEVQRELDKRAEEAVREMARSGDRPAGGSDVAV
RDVVRDMDRTKETPASPLTLPDTPEERRRDEAVSQVVRENVQRDRLQQMERETVRDLEREKTLGGD

  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)

AAA domain (AAA_30)

(967-1150)

TrwC relaxase (TrwC)

(10-283)

DNA helicase TraI (TraI_C)

(1430-1551)


  Protein structure



No available structure.




T4CP

ID   4471 GenBank   WP_077138961
Name   traC_HA514_RS24790_p070_A-KPC-2 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: 98782.49 Da        Isoelectric Point: 6.0216

>WP_077138961.1 MULTISPECIES: type IV secretion system protein TraC [Enterobacteriaceae]
MSNPLDSVTRTVNSLLTALKMPDASSEANDVLGQMRFPQFSRVLPYRDYDAETGLFMNEKTMGFMLEAQP
INGANETIVSSLENLMRTKLPREVPVAVHLVSSHLVGQDIEYGLRELSWTGEKADTFNAITRAYYLRAAE
EGFPLPDHLNLPLTLRNYRVYISCCVPRKRGSKASVMEMENQVKIIRASLQGAQIATRSVDADAFIRIAG
EMINHNPDALYPTERELDPLKDLNYQCVDDTFDLKVKADYMTLGLRGNGRNSTARIMNFQLTKNPELAFL
WNMADNYSNLLNPELSVSCPFILTLVLSVEDQVKAQNEANLKFMDLEKKSKTSYAKFFPGVAQEAKEWGD
LRQRLSSGQSSLVSYFLNVTLFCRDDQETALKVEQDVLNSFRKNGFELISPRFNHMRNFLVNLPFMAGGG
LFKQLRESGVLQRAESFNVANLMPVVADSPLATSGLLAPTYRNQLAFIDLFSRGMGNTNFNMAVCGTSGA
GKTGLIQPLIRSVIDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLKFNPFANVTDDTIDEMAERLRDQL
SVMASPNGNLDEVHEGLLLKAVKATWLTKKNQARIDDVVDYLMMARDSEEYSGSPTIRSRLDEMVVLLTQ
YTRNGVYGSYFNSDEPSLKDEARMVVLELGGLEDRPSLLVAVMFSLILYIENRMYRTPRSLKKLNVIDEG
WRLLDFKNNKVGAFIEKGYRTARRHTGSYITITQNIVDFDSETASSAARAAWGNSSYKIILKQSAKEFAK
YNQLYPDQYSQLQRDMIKGFGSAKDNWFSSFMLSVEHLTSWHRLFVDPLSRAMYSSDGPDFEFLQQRRRE
GLSIHEAVWELAWKKSGPEMAALERWLHAHEGKTIS

  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   4472 GenBank   WP_166479515
Name   traD_HA514_RS24865_p070_A-KPC-2 insolico UniProt ID   _
Length   736 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 736 a.a.        Molecular weight: 82566.13 Da        Isoelectric Point: 5.0983

>WP_166479515.1 type IV conjugative transfer system coupling protein TraD [Enterobacter kobei]
MSFNAKDMTQGGQIASMRIRMFSQIANIIVYCLVILFGIIVAITLSVKLTWQTFVNGMVYYWCQTLAPMR
DIFKSQPVYTIRYYGHELKYNAQQILQDKYIQWCADQVWTAFILAAIIAAVVCVITFFVTTWILGHQGKQ
QSEDEITGGRQLTDDPKAVAKMLRRDGLASDIKIGELPLIKDSEIQNFCLHGTVGAGKSEVIRRLMNYAR
QRGDMVIVYDRSCEFVKSYYDPATDKILNPLDARCAAWDLWRECLTQPDFDNVSNTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDKDRSYSKLVDTLLSIKIEKLRSYLKNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIENNGESFTIRDWMRGVREDGKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVIGIQSYAQLEDIYGQKPAETLFDVLNTRAFFRSPSRNIA
EFAAGEIGEKEILKASEQYSYGVDPVRDGTSVGKDMERVTLVSYSDVQTLPDLSCYVTLPGPYPAVKMAL
KYQQRPKVAPEFIPRTIDGKAEERLNAALAAREHESRSIAMLFEPDADVVAPEGGAENAGQPQQPQQPQQ
PQQPQQPQQPQQPQQLTPAPRAADAASVAGAAGAGGVEPELKTKAEEAEQLPPGIDESGEVVDMAAWEAW
QAEQDELSPQERQRREEVNINVHRAPEKDLEPGGYI

  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: 61359..87123

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HA514_RS24680 (HA514_24680) 56456..56779 + 324 WP_008324183 hypothetical protein -
HA514_RS24685 (HA514_24685) 56841..57200 + 360 WP_008324181 hypothetical protein -
HA514_RS24690 (HA514_24690) 57827..58201 + 375 WP_008324180 hypothetical protein -
HA514_RS24695 (HA514_24695) 58255..58542 + 288 WP_008324178 hypothetical protein -
HA514_RS24700 (HA514_24700) 58589..58933 + 345 WP_008324177 hypothetical protein -
HA514_RS24705 (HA514_24705) 59019..59282 + 264 WP_008324174 hypothetical protein -
HA514_RS24710 (HA514_24710) 59325..60155 + 831 WP_008324171 N-6 DNA methylase -
HA514_RS24715 (HA514_24715) 60782..61312 + 531 WP_008324170 antirestriction protein -
HA514_RS24720 (HA514_24720) 61359..61835 - 477 WP_008324168 transglycosylase SLT domain-containing protein virB1
HA514_RS24725 (HA514_24725) 62267..62662 + 396 WP_040218546 conjugal transfer relaxosome DNA-binding protein TraM -
HA514_RS24730 (HA514_24730) 62847..63551 + 705 WP_071667437 hypothetical protein -
HA514_RS24735 (HA514_24735) 63660..64034 + 375 WP_040218544 TraY domain-containing protein -
HA514_RS24740 (HA514_24740) 64100..64450 + 351 WP_071667438 type IV conjugative transfer system pilin TraA -
HA514_RS24745 (HA514_24745) 64601..64906 + 306 WP_071667439 type IV conjugative transfer system protein TraL traL
HA514_RS24750 (HA514_24750) 64921..65487 + 567 WP_077138965 type IV conjugative transfer system protein TraE traE
HA514_RS24755 (HA514_24755) 65474..66217 + 744 WP_077138964 type-F conjugative transfer system secretin TraK traK
HA514_RS24760 (HA514_24760) 66204..67598 + 1395 WP_166479510 F-type conjugal transfer pilus assembly protein TraB traB
HA514_RS24765 (HA514_24765) 67620..68159 + 540 WP_011201809 type IV conjugative transfer system lipoprotein TraV traV
HA514_RS24770 (HA514_24770) 68279..68503 + 225 WP_016674195 TraR/DksA C4-type zinc finger protein -
HA514_RS24775 (HA514_24775) 68507..68692 + 186 WP_016674194 hypothetical protein -
HA514_RS24780 (HA514_24780) 68676..69080 + 405 WP_166479511 hypothetical protein -
HA514_RS25475 69070..69738 + 669 WP_227516824 conjugal transfer protein TraP -
HA514_RS24790 (HA514_24790) 69731..72361 + 2631 WP_077138961 type IV secretion system protein TraC virb4
HA514_RS24795 (HA514_24795) 72358..72705 + 348 WP_011201813 type-F conjugative transfer system protein TrbI -
HA514_RS24800 (HA514_24800) 72705..73352 + 648 WP_166479512 type-F conjugative transfer system protein TraW traW
HA514_RS24805 (HA514_24805) 73355..74341 + 987 WP_166479517 conjugal transfer pilus assembly protein TraU traU
HA514_RS24810 (HA514_24810) 74357..74986 + 630 WP_166479513 type-F conjugative transfer system pilin assembly protein TrbC trbC
HA514_RS24815 (HA514_24815) 74983..76836 + 1854 WP_166479514 type-F conjugative transfer system mating-pair stabilization protein TraN traN
HA514_RS24820 (HA514_24820) 76868..77056 + 189 WP_025759809 conjugal transfer protein TrbE -
HA514_RS24825 (HA514_24825) 77093..77836 + 744 WP_071667457 type-F conjugative transfer system pilin assembly protein TraF traF
HA514_RS24830 (HA514_24830) 77853..78101 + 249 WP_008324126 type-F conjugative transfer system pilin chaperone TraQ -
HA514_RS24835 (HA514_24835) 78091..78645 + 555 WP_071667443 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
HA514_RS24840 (HA514_24840) 78638..79066 + 429 WP_071667444 conjugal transfer protein TrbF -
HA514_RS24845 (HA514_24845) 79053..80423 + 1371 WP_058610062 conjugal transfer pilus assembly protein TraH traH
HA514_RS24850 (HA514_24850) 80423..83287 + 2865 WP_071667445 conjugal transfer mating-pair stabilization protein TraG traG
HA514_RS24855 (HA514_24855) 83304..83735 + 432 WP_059514050 hypothetical protein -
HA514_RS24860 (HA514_24860) 83810..84541 + 732 WP_059514045 conjugal transfer complement resistance protein TraT -
HA514_RS24865 (HA514_24865) 84913..87123 + 2211 WP_166479515 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   7155 GenBank   NZ_CP050075
Plasmid name   p070_A-KPC-2 Incompatibility group   IncFII
Plasmid size   109956 bp Coordinate of oriT [Strand]   61907..61963 [-]
Host baterium   Enterobacter kobei strain 070

Cargo genes

Drug resistance gene   blaKPC-2, blaOXA-9, blaTEM-1A
Virulence gene   -
Metal resistance gene   merE, merD, merA
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -