Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   115219
Name   oriT_pB-CRECL423 in_silico
Organism   Enterobacter hormaechei strain CRECL423
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP133338 (83324..83426 [+], 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_pB-CRECL423
CTCACCACCAAAAGTTCCACACCCCACGCAAAATTAAAGTTTTGCTGATTGGGTATTCAAATCATGCAGTTAGTGAAAAAGTAATGTGAAATAATTTATTTTA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   9725 GenBank   WP_016479978
Name   traI_RCR42_RS25240_pB-CRECL423 insolico UniProt ID   A0A0G3B767
Length   1746 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1746 a.a.        Molecular weight: 189285.41 Da        Isoelectric Point: 6.0099

>WP_016479978.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacterales]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMGERWAGKGAEALGLSGGVDQKVFTKVLEGRLPDGSDLSRTQ
DGANKHRPGYDFTFSAPKSVSVMAMLGDDKRLIEAHNRAVETAIKQIEAMASTRVMTEGRSETQLTGNLV
MALFNHDTSRDQEPQLHTHAVVANATQHGDEWRTLSSDKVGKTGFIENIYANQIAFGRLYRAALKDDVAA
MGYETETVGKHGMWELKGVPTEPYSSRSRTISEAVGDDASLKSRDVAALDTRQSKQKVDPEQRMAEWMQT
LKETGFDIKAYREAADLRVVQGNIPATTPEAIDINSSVGQAIAMLSDRRARFTYSELLATTLGQLPARSG
MVEMARDGIDAAIKNEQLIPLDKEKGLFTSNIHVLDELSVSAMTRDLQRTGQADIFPDKSVPRSRSYSDA
VSVLAQDRPPVAIISGQGGAAGQRERVAELTMMAREQGRDVQIIAADRRSRSALMQDERLSGEHITDRRG
LTEGMAFTPGSTLIVDQGEKLTLKETLTLLDGALRHNVQLLIADSGQRTGTGSALTVMKEAGVSTLAWQG
GEKTQVSVISEPDRRQRYDRLAADFARSVRAGEHSVAQVTGPREQAVLAGVVREALKAEKVLGEREVSIT
TLEPVWLDSRHQQVRDHYREGMVMERWNAEERSRERFVIDRVTGRNNSLTLRNAQGETRVTRLSELNSSW
SLYRTGTLQVAEGDRLAVLGQAQGTRLRGGDTVTVKALGEAGLVVSLPGRKADVVLPAGDSPFTAAKVVQ
GWVESPGRSVSDSATVFASLSQRELDNTTLNKLALSGRAVRLYSAQTAQKTTEKLSRQSAWSVVSEQIKD
AAGHDRLDDALAHQKAGLHTPEQQAIHLAIPVLEGNGLAFTKPQLMAAAKEFEQDSLSLQAIEKEADRQV
RSGDLLSVPVSPGNGLQLLVSRQSYNAEKSIIRHVLEGKEAVTPLMDKVPDAQLAGLTDGQRNATRMILE
SPDRFTLVQGYAGVGKTTQFRAVMSAIGTLPEREQPRVIGVAPTHRAVSEMRDAGVPETQTLAAFIHDTQ
QQLRGGERTDFSNVLFLVDESSMVGNADMAKAYSLIAGGGGRAVSSGDTDQLQSIAPGQPFRLLQKRSAI
DVAVMQEIVRQTPELKPAVYSLISRDIGSALTTIESVAPAQVPRRADAWQPDSSVMEFSREREEAIAKAV
AAGDLMPGGQPATLLEAIVKDYTGRTSEAQAQTIVITALNADRRQVNAMIHDARQGAGEVGEKEVTLPVL
TPANIRDGELRRMATWEASRDSLVLLDSTYYSIEALDGEAHLVMLKDAQGNTRSLSPAQAATEGVTLYRQ
DTITVSEGDRMRFSKSDNERGFVANSVWSVSEIKGDSVTLSDGKQTRTLTPSAEQAEQHIDLAYAVTVEG
SQGASEPFSISLQGTDGGRKRMVSFESAYVALSRMKQHAQVYTDNRDKWAAAMEKSQAKSTAHDILEPRG
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)

TrwC relaxase (TrwC)

(10-283)

DNA helicase TraI (TraI_C)

(1430-1551)

AAA domain (AAA_30)

(967-1150)


  Protein structure



No available structure.




T4CP

ID   11341 GenBank   WP_008324134
Name   traC_RCR42_RS25155_pB-CRECL423 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   11342 GenBank   WP_077022305
Name   traD_RCR42_RS25235_pB-CRECL423 insolico UniProt ID   _
Length   742 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 742 a.a.        Molecular weight: 83244.88 Da        Isoelectric Point: 5.1609

>WP_077022305.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MSFNAKDMTQGGQIASMRIRMFSQIANIIVYCLVILFGIIVAITLSVKLTWQTFVNGMVYYWCQTLAPMR
DIFKSQPVYTIRYYGHELKYNAQQILQDKYIQWCADQVWTAFILAAIIAAVVCVITFFVTTWILGHQGKQ
QSEDEITGGRQLTDDPKAVAKMLRRDGLASDIKIGELPLIKDSEIQNFCLHGTVGAGKSEVIRRLMNYAR
QRGDMVIVYDRSCEFVKSYYDPATDKILNPLDARCAAWDLWRECLTQPDFDNVSNTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDKDRSYSKLVDTLLSIKIEKLRSYLKNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIENNGESFTIRDWMRGVREDGKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVIGIQSYAQLEDIYGQKPAETLFDVLNTRAFFRSPSRNIA
EFAAGEIGEKEILKASEQYSYGVDPVRDGTSVGKDMERVTLVSYSDVQTLPDLSCYVTLPGPYPAVKMAL
KYQQRPKVAPEFIPRTIDGKAEERLNAALAAREHESRSIAMLFEPDADVVAPEGGAENAGQPQQPQQPQQ
PQQPQQPQQPQQPQQPQQPQQLTPAPRAADAASVAGAAGAGGVEPELKTKAEEAEQLPPGISESGEVVDM
AAWEAWQAEQDELSPQERQRREEVNINVHRAPEKDLEPGGYI

  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: 82776..107929

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
RCR42_RS25045 (RCR42_25045) 77873..78196 + 324 WP_008324183 hypothetical protein -
RCR42_RS25050 (RCR42_25050) 78258..78617 + 360 WP_015493069 hypothetical protein -
RCR42_RS25055 (RCR42_25055) 79244..79618 + 375 WP_008324180 hypothetical protein -
RCR42_RS25060 (RCR42_25060) 79672..79959 + 288 WP_008324178 hypothetical protein -
RCR42_RS25065 (RCR42_25065) 80006..80350 + 345 WP_008324177 hypothetical protein -
RCR42_RS25070 (RCR42_25070) 80436..80699 + 264 WP_008324174 hypothetical protein -
RCR42_RS25075 (RCR42_25075) 80742..81572 + 831 WP_008324171 N-6 DNA methylase -
RCR42_RS25080 (RCR42_25080) 82199..82729 + 531 WP_008324170 antirestriction protein -
RCR42_RS25085 (RCR42_25085) 82776..83252 - 477 WP_008324168 transglycosylase SLT domain-containing protein virB1
RCR42_RS25090 (RCR42_25090) 83684..84076 + 393 WP_008324167 conjugal transfer relaxosome DNA-binding protein TraM -
RCR42_RS25095 (RCR42_25095) 84265..84954 + 690 WP_008324166 hypothetical protein -
RCR42_RS25100 (RCR42_25100) 85041..85265 + 225 WP_008324165 TraY domain-containing protein -
RCR42_RS25105 (RCR42_25105) 85323..85673 + 351 WP_016247536 type IV conjugative transfer system pilin TraA -
RCR42_RS25110 (RCR42_25110) 85824..86129 + 306 WP_016479987 type IV conjugative transfer system protein TraL traL
RCR42_RS25115 (RCR42_25115) 86144..86710 + 567 WP_016247535 type IV conjugative transfer system protein TraE traE
RCR42_RS25120 (RCR42_25120) 86697..87440 + 744 WP_008324157 type-F conjugative transfer system secretin TraK traK
RCR42_RS25125 (RCR42_25125) 87427..88821 + 1395 WP_016479986 F-type conjugal transfer pilus assembly protein TraB traB
RCR42_RS25130 (RCR42_25130) 88843..89382 + 540 WP_016247533 type IV conjugative transfer system lipoprotein TraV traV
RCR42_RS25135 (RCR42_25135) 89502..89726 + 225 WP_008324141 TraR/DksA C4-type zinc finger protein -
RCR42_RS25140 (RCR42_25140) 89730..89915 + 186 WP_008324139 hypothetical protein -
RCR42_RS25145 (RCR42_25145) 89899..90300 + 402 WP_016479985 hypothetical protein -
RCR42_RS25150 (RCR42_25150) 90290..90856 + 567 WP_008324135 conjugal transfer pilus-stabilizing protein TraP -
RCR42_RS25155 (RCR42_25155) 90849..93479 + 2631 WP_008324134 type IV secretion system protein TraC virb4
RCR42_RS25160 (RCR42_25160) 93476..93823 + 348 WP_008324133 type-F conjugative transfer system protein TrbI -
RCR42_RS25165 (RCR42_25165) 93823..94470 + 648 WP_008324132 type-F conjugative transfer system protein TraW traW
RCR42_RS25170 (RCR42_25170) 94473..95459 + 987 WP_042934586 conjugal transfer pilus assembly protein TraU traU
RCR42_RS25175 (RCR42_25175) 95476..96105 + 630 WP_008324130 type-F conjugative transfer system pilin assembly protein TrbC trbC
RCR42_RS25180 (RCR42_25180) 96102..97955 + 1854 WP_016479983 type-F conjugative transfer system mating-pair stabilization protein TraN traN
RCR42_RS25185 (RCR42_25185) 97987..98175 + 189 WP_008324128 conjugal transfer protein TrbE -
RCR42_RS25190 (RCR42_25190) 98206..98955 + 750 WP_008324127 type-F conjugative transfer system pilin assembly protein TraF traF
RCR42_RS25195 (RCR42_25195) 98972..99220 + 249 WP_016479982 type-F conjugative transfer system pilin chaperone TraQ -
RCR42_RS25200 (RCR42_25200) 99210..99764 + 555 WP_008324125 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
RCR42_RS25205 (RCR42_25205) 99757..100185 + 429 WP_008324122 hypothetical protein -
RCR42_RS25210 (RCR42_25210) 100172..101542 + 1371 WP_016247527 conjugal transfer pilus assembly protein TraH traH
RCR42_RS25215 (RCR42_25215) 101542..104364 + 2823 WP_008324119 conjugal transfer mating-pair stabilization protein TraG traG
RCR42_RS25220 (RCR42_25220) 104386..104817 + 432 WP_008324118 entry exclusion protein -
RCR42_RS25225 (RCR42_25225) 104892..105230 + 339 WP_032072912 tetratricopeptide repeat protein -
RCR42_RS25230 (RCR42_25230) 105238..105567 + 330 WP_223856629 tetratricopeptide repeat protein -
RCR42_RS25235 (RCR42_25235) 105701..107929 + 2229 WP_077022305 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   15654 GenBank   NZ_CP133338
Plasmid name   pB-CRECL423 Incompatibility group   IncFIB
Plasmid size   148248 bp Coordinate of oriT [Strand]   83324..83426 [+]
Host baterium   Enterobacter hormaechei strain CRECL423

Cargo genes

Drug resistance gene   floR, sul1, rmtC, blaNDM-1
Virulence gene   htpB
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -