Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   108485
Name   oriT_p161373_1 in_silico
Organism   Enterobacter asburiae strain 161373-yvys
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP083816 (128925..129027 [-], 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_p161373_1
CTCACCACCAAAAGCTCCACACCCCACGCAAAATTAAAGTTTTGCTGATTGGGTATTCAAATCATGCAGTTAGTGAAAAAGTAATGTGAAATAATTTATTTTA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   5674 GenBank   WP_023307204
Name   traI_LCD39_RS22875_p161373_1 insolico UniProt ID   A0A1Q1PS85
Length   1746 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1746 a.a.        Molecular weight: 189264.44 Da        Isoelectric Point: 6.1121

>WP_023307204.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacterales]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMGERWAGKGAEALGLSGGVDQKVFTKVLEGRLPDGSDLSRTQ
DGANKHRPGYDFTFSAPKSVSVMAMLGGDKRLIEAHNRAVETAIKQIEAMASTRVMTEGRSETQLTGNLV
MALFNHDTSRDQEPQLHTHAVVANATQHGDEWRTLSSDKVGKTGFIENIYANQIAFGRLYRAALKDDVAA
MGYETETVGKHGMWELKGVPTEPYSSRSRTISEAVGDDASLKSRDVAALDTRQSKQKVDPEQRMAEWMHT
LKETGFDIKAYREAADLRVVQGNIPATTPEAIDINSSVGQAIAMLSDRRARFTYSELLATTLGQLPARSG
MVEMARDGIDAAIKNEQLIPLDKEKGLFTSNIHVLDELSVSAMTRDLQRTGQADIFPDKSVPRSRSYSDA
VSVLAQDRPPVAIISGQGGAAGQRERVAELTMMAREQGRDVQIIAADRRSRSALMQDERLSGEHITDRRG
LTEGMAFTPGSTLIVDQGEKLTLKETLTLLDGALRHNVQLLIADSGQRTGTGSALTVMKEAGVSTLAWQG
GEKTQVSVISEPDRRQRYDRLAADFARSVRAGEHSVAQVTGPREQAVLAGVVREALKAEKVLGEREVSIT
TLEPVWLDSRHQQVRDHYREGMVMERWNAEERSRERFVIDRVTGRNNSLTLRNAQGETRVTRLSELNSSW
SLYRTGTLQVAEGDRLAVLGQAQGTRLRGGDTVTVKALGEAGLVVSLPGRKADVVLPAGDSPFTAAKVVQ
GWVESPGRSVSDSATVFASLSQRELDNTTLNKLALSGRAVRLYSAQTAQKTTEKLSRQSAWSVVSEQIKD
AAGHDRLDDALAHQKAGLHTPEQQAIHLAIPVLEGNGLAFTKPQLMAAAKEFEQDSLSLQAIEKEADRQV
RSGDLLSVPVSPGNGLQLLVSRQSYNAEKSIIRHVLEGKEAVTPLMDKVPDAQLAGLTDGQRNATRMILE
SPDRFTLVQGYAGVGKTTQFRAVMSAIGTLPEREQPRVIGVAPTHRAVSEMRDAGVPETQTLAAFIHDTQ
QQLRGGERTDFSNVLFLVDESSMVGNADMAKAYSLIAGGGGRAVSSGDTDQLQSIAPGQPFRLLQKRSAI
DVAVMQEIVRQTPELKPAVYSLISRDIGSALTTIESVAPAQVPRRADAWQPDSSVMEFSREREEAIAKAV
AAGDLMPGGQPATLLEAIVKDYTGRTSEAQAQTIVITALNADRRQVNAMIHDARQGAGEVGEKEVTLPVL
TPANIRDGELRRMATWEASRDSLVLLDSTYYSIEALDGEAHLVMLKDAQGNTRSLSPAQAATEGVTLYRQ
DTITVSEGDRMRFSKSDNERGFVANSVWSVSEIKGDSVTLSDGKQTRTLTPSAEQAEQHIDLAYAVTVEG
SQGASEPFSISLQGTDGGRKRMVSFESAYVALSRMKQHAQVYTDNRDKWVAAMEKSQAKSTAHDILEPRG
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)

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   6053 GenBank   WP_148868889
Name   traD_LCD39_RS22880_p161373_1 insolico UniProt ID   _
Length   724 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 724 a.a.        Molecular weight: 81152.66 Da        Isoelectric Point: 5.1609

>WP_148868889.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MSFNAKDMTQGGQIASMRIRMFSQIANIIVYCLVILFGIIVAITLSVKLTWQTFVNGMVYYWCQTLAPMR
DIFKSQPVYTIRYYGHELKYNAQQILQDKYIQWCADQVWTAFILAAIIAAVVCVITFFVTTWILGHQGKQ
QSEDEITGGRQLTDDPKAVAKMLRRDGLASDIKIGELPLIKDSEIQNFCLHGTVGAGKSEVIRRLMNYAR
QRGDMVIVYDRSCEFVKSYYDPATDKILNPLDARCAAWDLWRECLTQPDFDNVSNTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDKDRSYSKLVDTLLSIKIEKLRSYLKNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIENNGESFTIRDWMRGVREDGKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVIGIQSYAQLEDIYGQKPAETLFDVLNTRAFFRSPSRNIA
EFAAGEIGEKEILKASEQYSYGVDPVRDGTSVGKDMERVTLVSYSDVQTLPDLSCYVTLPGPYPAVKMAL
KYQQRPKVAPEFIPRTIDGKAEERLNAALAAREHESRSIAMLFEPDADVVAPEGGAENVGQPQQPQQPQQ
PQQLTPAPRAADAASVAGAAGAGGVEPELKTKAEEAEQLPPGISESGEVVDMAAWEAWQAEQDELSPQER
QRREEVNINVHRAPEKDLEPGGYI

  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.



ID   6054 GenBank   WP_008324134
Name   traC_LCD39_RS22965_p161373_1 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.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 102122..129575

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
LCD39_RS22880 (LCD39_22920) 102122..104296 - 2175 WP_148868889 type IV conjugative transfer system coupling protein TraD virb4
LCD39_RS22885 (LCD39_22925) 104430..104888 - 459 WP_246948313 tetratricopeptide repeat protein -
LCD39_RS22890 (LCD39_22930) 104942..105922 + 981 WP_197228368 IS5-like element ISKpn26 family transposase -
LCD39_RS22895 (LCD39_22935) 106174..107205 + 1032 WP_001395480 IS630-like element ISEc33 family transposase -
LCD39_RS22900 (LCD39_22940) 107534..107965 - 432 WP_008324118 entry exclusion protein -
LCD39_RS22905 (LCD39_22945) 107987..110809 - 2823 WP_246948322 conjugal transfer mating-pair stabilization protein TraG traG
LCD39_RS22910 (LCD39_22950) 110809..112179 - 1371 WP_016247527 conjugal transfer pilus assembly protein TraH traH
LCD39_RS22915 (LCD39_22955) 112166..112594 - 429 WP_008324122 hypothetical protein -
LCD39_RS22920 (LCD39_22960) 112587..113141 - 555 WP_008324125 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
LCD39_RS22925 (LCD39_22965) 113131..113379 - 249 WP_008324126 type-F conjugative transfer system pilin chaperone TraQ -
LCD39_RS22930 (LCD39_22970) 113396..114145 - 750 WP_008324127 type-F conjugative transfer system pilin assembly protein TraF traF
LCD39_RS22935 (LCD39_22975) 114176..114364 - 189 WP_008324128 conjugal transfer protein TrbE -
LCD39_RS22940 (LCD39_22980) 114396..116249 - 1854 WP_022652255 type-F conjugative transfer system mating-pair stabilization protein TraN traN
LCD39_RS22945 (LCD39_22985) 116246..116875 - 630 WP_008324130 type-F conjugative transfer system pilin assembly protein TrbC trbC
LCD39_RS22950 (LCD39_22990) 116892..117878 - 987 WP_032160671 conjugal transfer pilus assembly protein TraU traU
LCD39_RS22955 (LCD39_22995) 117881..118528 - 648 WP_008324132 type-F conjugative transfer system protein TraW traW
LCD39_RS22960 (LCD39_23000) 118528..118875 - 348 WP_008324133 type-F conjugative transfer system protein TrbI -
LCD39_RS22965 (LCD39_23005) 118872..121502 - 2631 WP_008324134 type IV secretion system protein TraC virb4
LCD39_RS22970 (LCD39_23010) 121495..122061 - 567 WP_008324135 conjugal transfer pilus-stabilizing protein TraP -
LCD39_RS22975 (LCD39_23015) 122051..122452 - 402 WP_008324137 hypothetical protein -
LCD39_RS22980 (LCD39_23020) 122436..122621 - 186 WP_008324139 hypothetical protein -
LCD39_RS22985 (LCD39_23025) 122625..122849 - 225 WP_008324141 TraR/DksA C4-type zinc finger protein -
LCD39_RS22990 (LCD39_23030) 122969..123508 - 540 WP_008324154 type IV conjugative transfer system lipoprotein TraV traV
LCD39_RS22995 (LCD39_23035) 123530..124924 - 1395 WP_008324156 F-type conjugal transfer pilus assembly protein TraB traB
LCD39_RS23000 (LCD39_23040) 124911..125654 - 744 WP_008324157 type-F conjugative transfer system secretin TraK traK
LCD39_RS23005 (LCD39_23045) 125641..126207 - 567 WP_008324158 type IV conjugative transfer system protein TraE traE
LCD39_RS23010 (LCD39_23050) 126222..126527 - 306 WP_008324160 type IV conjugative transfer system protein TraL traL
LCD39_RS23015 (LCD39_23055) 126678..127028 - 351 WP_008324162 type IV conjugative transfer system pilin TraA -
LCD39_RS23020 (LCD39_23060) 127086..127310 - 225 WP_008324165 TraY domain-containing protein -
LCD39_RS23025 (LCD39_23065) 127397..128086 - 690 WP_008324166 hypothetical protein -
LCD39_RS23030 (LCD39_23070) 128275..128667 - 393 WP_008324167 conjugal transfer relaxosome DNA-binding protein TraM -
LCD39_RS23035 (LCD39_23075) 129099..129575 + 477 WP_008324168 transglycosylase SLT domain-containing protein virB1
LCD39_RS23040 (LCD39_23080) 129622..130152 - 531 WP_008324170 antirestriction protein -
LCD39_RS23045 (LCD39_23085) 130779..131609 - 831 WP_008324171 N-6 DNA methylase -
LCD39_RS23050 (LCD39_23090) 131652..131915 - 264 WP_008324174 hypothetical protein -
LCD39_RS23055 (LCD39_23095) 132001..132345 - 345 WP_008324177 hypothetical protein -
LCD39_RS23060 (LCD39_23100) 132392..132679 - 288 WP_008324178 hypothetical protein -
LCD39_RS23065 (LCD39_23105) 132733..133107 - 375 WP_008324180 hypothetical protein -
LCD39_RS23070 (LCD39_23110) 133734..134093 - 360 WP_008324181 hypothetical protein -
LCD39_RS23075 (LCD39_23115) 134155..134478 - 324 WP_008324183 hypothetical protein -

Host bacterium

ID   8920 GenBank   NZ_CP083816
Plasmid name   p161373_1 Incompatibility group   IncFIB
Plasmid size   154756 bp Coordinate of oriT [Strand]   128925..129027 [-]
Host baterium   Enterobacter asburiae strain 161373-yvys

Cargo genes

Drug resistance gene   mcr-10
Virulence gene   -
Metal resistance gene   terE, terD, terC, terB, terA, terZ, terW
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -