Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   116148
Name   oriT_pEn542_IMI-2 in_silico
Organism   Enterobacter mori isolate En542
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_OX147903 (147065..147121 [-], 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_pEn542_IMI-2
TAAAGTTAATCAGCAAAATTTCAATTTTGCGTGGGGTGTGGTGCTTTTGGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   10328 GenBank   WP_261893171
Name   traI_OCW47_RS01055_pEn542_IMI-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: 189209.50 Da        Isoelectric Point: 6.1279

>WP_261893171.1 conjugative transfer relaxase/helicase TraI [Enterobacter mori]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMGERWAGKGAEALGLSGGVDQKVFTKVLEGRLPDGSDLSRTQ
DGANKHRPGYDFTFSAPKSVSVMAMLGGDKRLIEAHNRAVETAIKQIEAMASTRVMTEGRSETQLTGNLV
MALFNHDTSRDQEPQLHTHAVVANATQHGDEWRTLSSDKVGKTGFIENSYANQIAFGRLYRAALKDDVAA
MGYETETVGKHGMWELKGVPTEPYSSRSRTISEAVGDDASLKSRDVAALDTRQSKQKVDPEQRMAEWMQT
LKETGFDIKAYREAADLRVVQGNIPATTPEAIDINSSVGQAIAMLSDRRARFTYSELLATTLGQLPARSG
MVEMARDGIDAAIKNEQLIPLDKEKGLFTSNIHVLDELSVSAMTRDLQRTGQADIFPDKSVPRSRSYSDA
VSVLAQDRPPVAIISGQGGAAGQRERVAELTMMAREQGRDVQIIAADRRSRSALMQDERLSGEHITDRRE
LTEGMTFTPGSTLIVDQGEKLTLKETLTLLDGALRHNVQLLIADSGQRTGTGSALTVMKEAGVSTLAWQG
GEKTQVSVISEPDRRQRYDRLAADFARSVRAGEHSMAQVTGPREQAVLAGVVREALKAEKVLGEREVSIT
TLEPVWLDSRHQQVRDHYREGMVMERWNAEARSRERFVIDRVTGRNNSLTLRNAQGETRVTRLSELNSSW
SLYRTGTLQVAEGDRLAVLGQAQGTRLKGGDTVTVKALGEAGLVVSLPVCKADVVLPAGGSPFTAAKVGQ
GWVESPGRSVSDSATVFASLSQRELDNTTLNKLALSGRAVRLYSAQTAQKTTEKLSRQSAWNVVSEQIKD
AAGHGRLDDALAHQKAGLHTPEQQAIHLAIPVLEGNGLAFTKPQLMAAAKEFEQDSLSLQAIEKEADRQI
RSGALLSVPVSPGNGLQLLVSRQSYNAEKSILRHVLEGKEAVTPLMAGVPDAQLAGLTDGQRNATRMILE
SPDRFTLVQGYAGVGKTTQFRAVMSAIGTLPEREQPRVIGVAPTHRAVSEMRDAGVPETQTLAAFIHDTQ
QQLRGGERPDFSNVLFLVDESSMVGNADMAKAYSLIAGGGGRAVSSGDTDQLQSIAPGQPFRLLQKRSAI
DVAVMQEIVRQTPALKPAVYSLIKRDIGSALTTIESVVPAQVPRRADAWQPDSSVMEFSREREEAIEKAV
AAGDLMPGGQPATLLEAIVKDYTGRTPEAQTQTIVITALNADRRQVNAMIHDARQDAGEVGEKEVTLPVL
TPANIRDGELRRMATWEASRDSLALLDSTYYRIESLDGDAHLVTLKDAQGNTRSLSPAQAATEGVTLYRQ
DTITVSEGDRMRFSKSDNERGFVANSVWSVSEIKGDSVTLSDGKQTRTLTPSAEQAEQHIDLAYAVTVEG
SQGASEPFSISLQGTDGGRKRMVSFESAYVALSRMKQHAQVYTDTRDKWVAAMEKSQAKSTAHDILEPRG
DRAVANAVRLTATAKALGEVPAGRAALRQAGLQPEGSMAKFISPGRKYPQPHVALPAFDRNGRQAGVWLS
ALTSGDGQLKGLAGEGRVMGSGDAAFAGLQASRNGESLLARDMEEGVRLARENPQSGVVVWLEGEVRPWN
PGAITGGRVWADGLPDGTGTQPAETVPPEVLAQQAREAEVQRELDKRAEEAVREMARSGDRPAGGADVAV
RDVVRDMDRIKETPASPLTLPDAPEERRRDEAVSQVVRESVQRDRLQQMERETVRDLEREKTLGGD

  Protein domains


Predicted by InterproScan.

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)

(967-1150)

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

(631-710)


  Protein structure



No available structure.




T4CP

ID   12075 GenBank   WP_242436460
Name   t4cp2_OCW47_RS00130_pEn542_IMI-2 insolico UniProt ID   _
Length   609 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 609 a.a.        Molecular weight: 67347.14 Da        Isoelectric Point: 6.6387

>WP_242436460.1 MULTISPECIES: type IV secretory system conjugative DNA transfer family protein [Enterobacteriaceae]
MIFDKLNHLLSPIANVVLAFIAFLQAHQLALALLSGVMLPFIFSARHSGQEKPTFLQRILILLSMICFVF
GTIAPVAVWFLQRIYGREDIASPPLLTWTMALLFTVAGFILHVILRRLISPEFDKVKRGMVKKTSMERDR
RTDVRWVKEILPVSTEYDPMDYIDLNKGVFIGLSREGEPQYIPLKEWQTQHADIIGTTGAGKGVVTGILL
YQSILADEGVFILDPKNDEWAPHLYKKACADAGKPFVLIDLNKQEYQMNLIDGITADHLEELFVAGFSLA
EKGEAADFYRIDDRKAARTAAQFVKNNPGATVRDIYNGDYVQGIGETIKAFHGKTEELAMLNSINAPGGF
ALKEIFDKGGCCYIIGSMRNSKIITAQRMILVRLFQLAELRDRVAGNIRPIAIFKDEVKYHLSKPALEGL
GAARDKGVHILMAHQSIADLRDCPADLNGDAVVGAVVENCKFKLVYKLQDPDTAEWIARMSGTILVDDES
RKVSTTAVLTEKVDNERMLHQAESYYIDSNMLQNLPKFVSYIFSQNALAFPSLISPLKVNKAPLELFSLP
PVAAATVAEVKPVLDLDFDTSAPAPDIIPVSATATKKTSTANPYSAGAA

  Protein domains


Predicted by InterproScan.

TraM recognition site of TraD and TraG (TraG-D_C)

(402-497)

  Protein structure



No available structure.



ID   12076 GenBank   WP_058654351
Name   traC_OCW47_RS00980_pEn542_IMI-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: 98855.54 Da        Isoelectric Point: 5.7676

>WP_058654351.1 MULTISPECIES: type IV secretion system protein TraC [Enterobacteriaceae]
MSNPLDTVTRTVNSLLTALKMPDASSEANDVLGQMRFPQFSRVLPYRDYDAETGLFMNEKTMGFMLEAQP
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   12077 GenBank   WP_261893169
Name   traD_OCW47_RS01050_pEn542_IMI-2 insolico UniProt ID   _
Length   749 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 749 a.a.        Molecular weight: 83972.65 Da        Isoelectric Point: 5.0983

>WP_261893169.1 type IV conjugative transfer system coupling protein TraD [Enterobacter mori]
MSFNAKDMTQGGQIASMRIRMFSQIANIIVYCLVILFGIIVAITLSVKLTWQTFVNGMVYYWCQTLAPMR
DIFKSQPVYTIRYYGHELKYNAQQILQDKYIQWCADQVWTAFILAAIIAAVVCVITFFVTTWILGHQGKQ
QSEDEITGGRQLTDDPKAVAKMLRRDGLASDIKIGELPLIKDSEIQNFCLHGTVGAGKSEVIRRLMNYAR
QRGDMVIVYDRSCEFVKSYYDPAIDKILNPLDARCAAWDLWRECLTQPDFDNVSNTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDKDRSYSKLVDTLLSIKIEKLRSYLKNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIENNGESFTIRDWMRGVREDGKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVIGIQSYAQLEDIYGQKPAETLFDVLNTRAFFRSPSRNIA
EFAAGEIGEKEILKASEQYSYGVDPVRDGTSVGKDMERVTLVSYSDVQTLPDLSCYVTLPGPYPAVKMAL
KYQQRPKVAPEFIPRTIDGKAEERLNAALAAREHESRSIAMLFEPDADVVAPEGGAENAGQPQQPQQPQQ
PQQPQQPQQPQQPQQPQQPQQPQQLAPALRAADTASASASAAGAAGTGGVEPELKTKAEEAEQLPPGIDE
SGEVVDMAAWEAWQAEQDELSPQERQRREEVNINVHRAPEKDLEPGGYI

  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: 146517..172174

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
OCW47_RS01095 141742..141903 + 162 Protein_174 theronine dehydrogenase -
OCW47_RS00880 (PEN542_00168) 141965..142339 + 375 WP_194401959 hypothetical protein -
OCW47_RS00885 (PEN542_00169) 142985..143359 + 375 WP_194401960 hypothetical protein -
OCW47_RS00890 (PEN542_00170) 143410..143700 + 291 WP_240474975 hypothetical protein -
OCW47_RS00895 (PEN542_00171) 143747..144091 + 345 WP_261893142 hypothetical protein -
OCW47_RS00900 (PEN542_00172) 144177..144440 + 264 WP_008324174 hypothetical protein -
OCW47_RS00905 (PEN542_00173) 144483..145313 + 831 WP_172688912 N-6 DNA methylase -
OCW47_RS00910 (PEN542_00174) 145940..146470 + 531 WP_172688913 antirestriction protein -
OCW47_RS00915 (PEN542_00175) 146517..146993 - 477 WP_058673456 transglycosylase SLT domain-containing protein virB1
OCW47_RS00920 (PEN542_00176) 147424..147819 + 396 WP_040218546 conjugal transfer relaxosome DNA-binding protein TraM -
OCW47_RS00925 (PEN542_00177) 148005..148703 + 699 WP_172688914 hypothetical protein -
OCW47_RS00930 (PEN542_00178) 148715..149185 + 471 WP_261893144 TraY domain-containing protein -
OCW47_RS00935 (PEN542_00179) 149250..149600 + 351 WP_058610053 type IV conjugative transfer system pilin TraA -
OCW47_RS00940 (PEN542_00180) 149751..150056 + 306 WP_261893147 type IV conjugative transfer system protein TraL traL
OCW47_RS00945 (PEN542_00181) 150071..150637 + 567 WP_172688915 type IV conjugative transfer system protein TraE traE
OCW47_RS00950 (PEN542_00182) 150624..151367 + 744 WP_151413346 type-F conjugative transfer system secretin TraK traK
OCW47_RS00955 (PEN542_00183) 151354..152748 + 1395 WP_058670648 F-type conjugal transfer pilus assembly protein TraB traB
OCW47_RS00960 (PEN542_00184) 152770..153309 + 540 WP_151413344 type IV conjugative transfer system lipoprotein TraV traV
OCW47_RS00965 (PEN542_00185) 153429..153653 + 225 WP_045379436 TraR/DksA C4-type zinc finger protein -
OCW47_RS00970 (PEN542_00187) 153823..154119 + 297 WP_151413343 hypothetical protein -
OCW47_RS00975 (PEN542_00188) 154109..154675 + 567 WP_045379430 conjugal transfer pilus-stabilizing protein TraP -
OCW47_RS00980 (PEN542_00189) 154668..157298 + 2631 WP_058654351 type IV secretion system protein TraC virb4
OCW47_RS00985 (PEN542_00190) 157295..157642 + 348 WP_109129281 type-F conjugative transfer system protein TrbI -
OCW47_RS00990 (PEN542_00191) 157642..158289 + 648 WP_025759814 type-F conjugative transfer system protein TraW traW
OCW47_RS00995 (PEN542_00192) 158292..159278 + 987 WP_109129288 conjugal transfer pilus assembly protein TraU traU
OCW47_RS01000 (PEN542_00193) 159295..159924 + 630 WP_261893157 type-F conjugative transfer system pilin assembly protein TrbC trbC
OCW47_RS01005 (PEN542_00194) 159921..161801 + 1881 WP_261893158 type-F conjugative transfer system mating-pair stabilization protein TraN traN
OCW47_RS01010 (PEN542_00195) 161833..162021 + 189 WP_025759809 conjugal transfer protein TrbE -
OCW47_RS01015 (PEN542_00196) 162058..162801 + 744 WP_261893160 type-F conjugative transfer system pilin assembly protein TraF traF
OCW47_RS01020 (PEN542_00197) 162818..163066 + 249 WP_261893162 type-F conjugative transfer system pilin chaperone TraQ -
OCW47_RS01025 (PEN542_00198) 163056..163610 + 555 WP_261893264 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
OCW47_RS01030 (PEN542_00199) 163603..164031 + 429 WP_261893164 conjugal transfer protein TrbF -
OCW47_RS01035 (PEN542_00200) 164018..165388 + 1371 WP_032672666 conjugal transfer pilus assembly protein TraH traH
OCW47_RS01040 (PEN542_00201) 165388..168249 + 2862 WP_261893166 conjugal transfer mating-pair stabilization protein TraG traG
OCW47_RS01045 (PEN542_00203) 168829..169554 + 726 WP_060446836 conjugal transfer complement resistance protein TraT -
OCW47_RS01050 (PEN542_00204) 169925..172174 + 2250 WP_261893169 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   16581 GenBank   NZ_OX147903
Plasmid name   pEn542_IMI-2 Incompatibility group   IncFII
Plasmid size   181051 bp Coordinate of oriT [Strand]   147065..147121 [-]
Host baterium   Enterobacter mori isolate En542

Cargo genes

Drug resistance gene   blaIMI-2
Virulence gene   fimH, fimD
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -