Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   120452
Name   oriT_MGH105|unnamed2 in_silico
Organism   Citrobacter sp. MGH105
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP073050 (47957..48059 [-], 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_MGH105|unnamed2
CTCACCACCAAAAGCTCCACACCCCACGCAAAATTAAAGTTTTGCTGATTGGGTATTCAAATCATGCAGTTAGTGAAAAAGTAATGTGAAATAATTTATTTTA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   12879 GenBank   WP_032432552
Name   traI_SK35_RS26135_MGH105|unnamed2 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   15127 GenBank   WP_032432554
Name   traD_SK35_RS26140_MGH105|unnamed2 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: 82580.20 Da        Isoelectric Point: 5.1629

>WP_032432554.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MSFNAKDMTQGGQIASMRIRMFSQIANIIVYCLVILFGIIVAITLSVKLTWQTFVNGMVYYWCQTLAPMR
DIFKSQPVYTIRYYGHELKYNAQQILQDKYIQWCADQVWTAFILAAIIAAVVCVITFFVTTWILGHQGKQ
QSEDEITGGRQLTDDPKAVAKMLRRDGLASDIKIGELPLIKDSEIQNFCLHGTVGAGKSEVIRRLMNYAR
QRGDMVIVYDRSCEFVKSYYDPATDKILNPLDARCAAWDLWRECLTQPDFDNVSNTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDKDRSYSKLVDTLLSIKIEKLRSYLKNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIENNGESFTIRDWMRGVREDGKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVIGIQSYAQLEDIYGQKPAETLFDVLNTRAFFRSPSRNIA
EFAVGEIGEKEILKASEQYSYGVDPVRDGTSVGKDMERVTLVSYSDVQTLPDLSCYVTLPGPYPAVKMAL
KYQQRPKVAPEFIPRTIDGKAEERLNAALAAREHESRSIAMLFEPDAEVVAPEGGAENAGQPQQPQQPQQ
PQQPQQPQQPQQPQQLTPAPRAADAASVAGAAGAGGVEPELKTKAEEAEQLPPGISESGEVVDMAAWEAW
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.



ID   15128 GenBank   WP_008324134
Name   traC_SK35_RS26215_MGH105|unnamed2 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: 23473..48607

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
SK35_RS26140 23473..25683 - 2211 WP_032432554 type IV conjugative transfer system coupling protein TraD virb4
SK35_RS26145 25817..26491 - 675 WP_016247525 tetratricopeptide repeat protein -
SK35_RS26150 26566..26997 - 432 WP_008324118 entry exclusion protein -
SK35_RS26155 27019..29841 - 2823 WP_032432555 conjugal transfer mating-pair stabilization protein TraG traG
SK35_RS26160 29841..31211 - 1371 WP_016247527 conjugal transfer pilus assembly protein TraH traH
SK35_RS26165 31198..31626 - 429 WP_032432556 hypothetical protein -
SK35_RS26170 31619..32173 - 555 WP_016247528 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
SK35_RS26175 32163..32411 - 249 WP_008324126 type-F conjugative transfer system pilin chaperone TraQ -
SK35_RS26180 32428..33177 - 750 WP_008324127 type-F conjugative transfer system pilin assembly protein TraF traF
SK35_RS26185 33208..33396 - 189 WP_008324128 conjugal transfer protein TrbE -
SK35_RS26190 33428..35281 - 1854 WP_016247529 type-F conjugative transfer system mating-pair stabilization protein TraN traN
SK35_RS26195 35278..35907 - 630 WP_008324130 type-F conjugative transfer system pilin assembly protein TrbC trbC
SK35_RS26200 35924..36910 - 987 WP_032160671 conjugal transfer pilus assembly protein TraU traU
SK35_RS26205 36913..37560 - 648 WP_008324132 type-F conjugative transfer system protein TraW traW
SK35_RS26210 37560..37907 - 348 WP_008324133 type-F conjugative transfer system protein TrbI -
SK35_RS26215 37904..40534 - 2631 WP_008324134 type IV secretion system protein TraC virb4
SK35_RS26220 40527..41093 - 567 WP_008324135 conjugal transfer pilus-stabilizing protein TraP -
SK35_RS26225 41083..41484 - 402 WP_032432557 hypothetical protein -
SK35_RS26230 41468..41653 - 186 WP_008324139 hypothetical protein -
SK35_RS26235 41657..41881 - 225 WP_016247532 TraR/DksA C4-type zinc finger protein -
SK35_RS26240 42001..42540 - 540 WP_016247533 type IV conjugative transfer system lipoprotein TraV traV
SK35_RS26245 42562..43956 - 1395 WP_032432560 F-type conjugal transfer pilus assembly protein TraB traB
SK35_RS26250 43943..44686 - 744 WP_032432561 type-F conjugative transfer system secretin TraK traK
SK35_RS26255 44673..45239 - 567 WP_016247535 type IV conjugative transfer system protein TraE traE
SK35_RS26260 45254..45559 - 306 WP_008324160 type IV conjugative transfer system protein TraL traL
SK35_RS26265 45710..46060 - 351 WP_016247536 type IV conjugative transfer system pilin TraA -
SK35_RS26270 46118..46342 - 225 WP_008324165 TraY domain-containing protein -
SK35_RS26275 46429..47118 - 690 WP_008324166 hypothetical protein -
SK35_RS26280 47307..47699 - 393 WP_008324167 conjugal transfer relaxosome DNA-binding protein TraM -
SK35_RS26285 48131..48607 + 477 WP_008324168 transglycosylase SLT domain-containing protein virB1
SK35_RS26290 48654..49184 - 531 WP_008324170 antirestriction protein -
SK35_RS26295 49811..50641 - 831 WP_008324171 N-6 DNA methylase -
SK35_RS26300 50684..50947 - 264 WP_008324174 hypothetical protein -
SK35_RS26305 51033..51377 - 345 WP_008324177 hypothetical protein -
SK35_RS26310 51424..51711 - 288 WP_008324178 hypothetical protein -
SK35_RS26315 51765..52139 - 375 WP_008324180 hypothetical protein -
SK35_RS27025 52765..52956 - 192 WP_231371985 hypothetical protein -
SK35_RS27030 52984..53124 - 141 WP_016247538 hypothetical protein -
SK35_RS26325 53186..53509 - 324 WP_008324183 hypothetical protein -

Host bacterium

ID   20881 GenBank   NZ_CP073050
Plasmid name   MGH105|unnamed2 Incompatibility group   IncFII
Plasmid size   113048 bp Coordinate of oriT [Strand]   47957..48059 [-]
Host baterium   Citrobacter sp. MGH105

Cargo genes

Drug resistance gene   blaKPC-3, blaTEM-1A, blaOXA-9, ant(3'')-Ia, aac(6')-Ib
Virulence gene   -
Metal resistance gene   merR, merT, merP, merC, merA, merD, merE
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -