Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   105673
Name   oriT_pEcl2-1 in_silico
Organism   Enterobacter hormaechei strain Eho-2
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP047758 (71677..71779 [+], 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_pEcl2-1
CTCACCACCAAAAGCTCCACACCCCACGCAAAATTAAAGTTTTGCTGATTGGGTATTCAAATCATGCAGTTAGTGAAAAAGTAATGTGAAATAATTTATTTTA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3840 GenBank   WP_032432552
Name   traI_GVI63_RS25010_pEcl2-1 insolico UniProt ID   A0A0N8IRM5
Length   1746 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1746 a.a.        Molecular weight: 189145.31 Da        Isoelectric Point: 6.0696

>WP_032432552.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacteriaceae]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMGERWAGKGAEALGLSGGVDQKVFTKVLEGRLPDGSDLSRTQ
DGANKHRPGYDFTFSAPKSVSVMAMLGGDKRLIEAHNRAVETAIKQIEAMASTRVMTEGRSETQLTGNLV
MALFNHDTSRDQEPQLHTHAVVANATQHGDEWRTLSSDKVGKTGFIENIYANQIAFGRLYRAALKDDVAA
MGYETETVGKHGMWELKGVPTEPYSSRSRTISEAVGDDASLKSRDVAALDTRQSKQKVDPEQRMAEWMQT
LKETGFDIKAYREAADLRVVQGNIPATTPEAIDINSSVGQAIAMLSDRRARFTYSELLATTLGQLPARSG
MVEMARDGIDAAIKNEQLIPLDKEKGLFTSNIHVLDELSVSAMTRDLQRTGQADIFPDKSVPRSRSYSDA
VSVLAQDRPPVAIISGQGGAAGQRERVAELTMMAREQGRDVQIIAADRRSRSALMQDERLSGEHITDRRG
LTEGMAFTPGSTLIVDQGEKLTLKETLTLLDGALRHNVQLLIADSGQRTGTGSALTVMKEAGVSTLAWQG
GEKTQVSVISEPDRRQRYDRLAADFARSVRAGEHSVAQVTGPREQAVLAGVVREALKAEKVLGEREVSIT
TLEPVWLDSRHQQVRDHYREGMVMERSNAEERSRERFVIDRVTGRNNSLTLRNAQGETRVTRLSELNSSW
SLYRTGTLQVAEGDRLAVLGQAQGTRLRGGDTVTVKALGEAGLVVSLPGRKADVVLPAGDSPFTAAKVVQ
GWVESPGRSVSDSATVFASLSQRELDNTTLNKLALSGRAVRLYSAQTAQKTTEKLSRQSAWSVVSEQIKD
AAGHDRLDDALAHQKAGLHTPEQQAIHLAIPVLEGNGLAFTKPQLMAAAKEFEQDSLSLQAIEKEADRQV
RSGDLLSVPVSPGNGLQLLVSRQSYNAEKSIIRHVLEGKEAVTPLMDKVPDAQLAGLTDGQRSATRMILE
SPDRFTLVQGYAGVGKTTQFRAVMSAIGTLPEREQPRVIGVAPTHRAVSEMRDAGVPETQTLAAFIHDTQ
QQLRGGERTDFSNVLFLVDESSMVGNADMAKAYSLIAGGGGRAVSSGDTDQLQSIAPGQPFRLLQKRSAI
DVAVMQEIVRQTPELKPAVYSLISRDIGSALTTIESVAPAQVPRRADAWQPDSSVMEFSREREEAIAKAV
AAGDLMPGGQPATLLEAIVKDYTGRTSEAQAQTIVITALNADRRQVNAMIHDARQGAGEVGEKEVTLPVL
TPANIRDGELRRMATWEASRDSLVLLDSTYYSIEALDGEAHLVMLKDAQGNTRSLSPAQAATEGVTLYRQ
DTITVSEGDRMRFSKSDNERGFVANSVWSVSEIKGDSVTLSDGKQTRTLTPSAEQAEQHIDLAYAVTVEG
SQGASEPFSISLQGTDGGRKRMVSFESAYVALSRMKQHAQVYTDNRDKWVAAMEKSQAKSTAHDILEPRG
DRAVANAARLTATAKALGEVPAGRAALRQAGLQPEGSMAKYISPGRKYPQLHVALPAFDRNGRKAGVWLS
ALTSGDGQLKGLAGEGRVMGSGDAAFAGLQASRNGESLLARDMEEGVRLARENPQSGVVVRLEGEARPWN
PGAITGGRVWADGLPDATGTQPAETVPPEVLAQQAREAEVQRELDKRAEEAVREMARSGDRPAGGADVAV
RDVVRDMDRIKETPASPLTLPDAPEERRRDEAVSQVVRESVQRDRLQQMERETVRDLEREKTLGGD

  Protein domains


Predicted by InterproScan.

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

(573-625)

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

(631-710)

TrwC relaxase (TrwC)

(10-283)

AAA domain (AAA_30)

(967-1150)

DNA helicase TraI (TraI_C)

(1430-1551)


  Protein structure



No available structure.




T4CP

ID   3845 GenBank   WP_008324134
Name   traC_GVI63_RS24930_pEcl2-1 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.



ID   3846 GenBank   WP_155019658
Name   traD_GVI63_RS25005_pEcl2-1 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: 83965.66 Da        Isoelectric Point: 5.1629

>WP_155019658.1 type IV conjugative transfer system coupling protein TraD [Enterobacter hormaechei]
MSFNAKDMTQGGQIASMRIRMFSQIANIIVYCLVILFGIIVAITLSVKLTWQTFVNGMVYYWCQTLAPMR
DIFKSQPVYTIRYYGHELKYNAQQILQDKYIQWCADQVWTAFILAAIIAAVVCVITFFVTTWILGHQGKQ
QSEDEITGGRQLTDDPKAVAKMLRRDGLASDIKIGELPLIKDSEIQNFCLHGTVGAGKSEVIRRLMNYAR
QRGDMVIVYDRSCEFVKSYYDPATDKILNPLDARCAAWDLWRECLTQPDFDNVSNTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDKDRSYSKLVDTLLSIKIEKLRSYLKNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIENNGESFTIRDWMRGVREDGKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVIGIQSYAQLEDIYGQKPAETLFDVLNTRAFFRSPSRNIA
EFAAGEIGEKEILKASEQYSYGVDPVRDGTSVGKDMERVTLVSYSDVQTLPDLSCYVTLPGPYPAVKMAL
KYQQRPKVAPEFIPRTIDGKAEERLNAALAAREHESRSIAMLFEPDAEVVAPEGGAENAGQPQQPQQPQQ
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: 71129..96299

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
GVI63_RS24820 (GVI63_24800) 66226..66549 + 324 WP_008324183 hypothetical protein -
GVI63_RS24825 (GVI63_24805) 66611..66970 + 360 WP_008324181 hypothetical protein -
GVI63_RS24830 (GVI63_24810) 67597..67971 + 375 WP_008324180 hypothetical protein -
GVI63_RS24835 (GVI63_24815) 68025..68312 + 288 WP_008324178 hypothetical protein -
GVI63_RS24840 (GVI63_24820) 68359..68703 + 345 WP_008324177 hypothetical protein -
GVI63_RS24845 (GVI63_24825) 68789..69052 + 264 WP_008324174 hypothetical protein -
GVI63_RS24850 (GVI63_24830) 69095..69925 + 831 WP_008324171 N-6 DNA methylase -
GVI63_RS24855 (GVI63_24835) 70552..71082 + 531 WP_008324170 antirestriction protein -
GVI63_RS24860 (GVI63_24840) 71129..71605 - 477 WP_008324168 transglycosylase SLT domain-containing protein virB1
GVI63_RS24865 (GVI63_24845) 72037..72429 + 393 WP_008324167 conjugal transfer relaxosome DNA-binding protein TraM -
GVI63_RS24870 (GVI63_24850) 72618..73307 + 690 WP_008324166 hypothetical protein -
GVI63_RS24875 (GVI63_24855) 73394..73618 + 225 WP_008324165 TraY domain-containing protein -
GVI63_RS24880 (GVI63_24860) 73676..74026 + 351 WP_016247536 type IV conjugative transfer system pilin TraA -
GVI63_RS24885 (GVI63_24865) 74177..74482 + 306 WP_008324160 type IV conjugative transfer system protein TraL traL
GVI63_RS24890 (GVI63_24870) 74497..75063 + 567 WP_016247535 type IV conjugative transfer system protein TraE traE
GVI63_RS24895 (GVI63_24875) 75050..75793 + 744 WP_008324157 type-F conjugative transfer system secretin TraK traK
GVI63_RS24900 (GVI63_24880) 75780..77174 + 1395 WP_008324156 F-type conjugal transfer pilus assembly protein TraB traB
GVI63_RS24905 (GVI63_24885) 77196..77735 + 540 WP_016247533 type IV conjugative transfer system lipoprotein TraV traV
GVI63_RS24910 (GVI63_24890) 77855..78079 + 225 WP_016247532 TraR/DksA C4-type zinc finger protein -
GVI63_RS24915 (GVI63_24895) 78083..78268 + 186 WP_008324139 hypothetical protein -
GVI63_RS24920 (GVI63_24900) 78252..78653 + 402 WP_008324137 hypothetical protein -
GVI63_RS24925 (GVI63_24905) 78643..79209 + 567 WP_008324135 conjugal transfer pilus-stabilizing protein TraP -
GVI63_RS24930 (GVI63_24910) 79202..81832 + 2631 WP_008324134 type IV secretion system protein TraC virb4
GVI63_RS24935 (GVI63_24915) 81829..82176 + 348 WP_008324133 type-F conjugative transfer system protein TrbI -
GVI63_RS24940 (GVI63_24920) 82176..82823 + 648 WP_057064466 type-F conjugative transfer system protein TraW traW
GVI63_RS24945 (GVI63_24925) 82826..83812 + 987 WP_032160671 conjugal transfer pilus assembly protein TraU traU
GVI63_RS24950 (GVI63_24930) 83829..84458 + 630 WP_045890663 type-F conjugative transfer system pilin assembly protein TrbC trbC
GVI63_RS24955 (GVI63_24935) 84455..86308 + 1854 WP_016247529 type-F conjugative transfer system mating-pair stabilization protein TraN traN
GVI63_RS24960 (GVI63_24940) 86340..86528 + 189 WP_008324128 conjugal transfer protein TrbE -
GVI63_RS24965 (GVI63_24945) 86559..87308 + 750 WP_008324127 type-F conjugative transfer system pilin assembly protein TraF traF
GVI63_RS24970 (GVI63_24950) 87325..87573 + 249 WP_008324126 type-F conjugative transfer system pilin chaperone TraQ -
GVI63_RS24975 (GVI63_24955) 87563..88117 + 555 WP_016247528 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
GVI63_RS24980 (GVI63_24960) 88110..88538 + 429 WP_008324122 hypothetical protein -
GVI63_RS24985 (GVI63_24965) 88525..89895 + 1371 WP_016247527 conjugal transfer pilus assembly protein TraH traH
GVI63_RS24990 (GVI63_24970) 89895..92717 + 2823 WP_197377784 conjugal transfer mating-pair stabilization protein TraG traG
GVI63_RS24995 (GVI63_24975) 92739..93170 + 432 WP_008324118 entry exclusion protein -
GVI63_RS25000 (GVI63_24980) 93245..93919 + 675 WP_016247525 tetratricopeptide repeat protein -
GVI63_RS25005 (GVI63_24985) 94053..96299 + 2247 WP_155019658 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   6110 GenBank   NZ_CP047758
Plasmid name   pEcl2-1 Incompatibility group   IncFII
Plasmid size   105247 bp Coordinate of oriT [Strand]   71677..71779 [+]
Host baterium   Enterobacter hormaechei strain Eho-2

Cargo genes

Drug resistance gene   blaTEM-1B, ant(2'')-Ia
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -