Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   118255
Name   oriT_pSTW0522-60-2 in_silico
Organism   Enterobacter kobei strain STW0522-60
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_AP022448 (53301..53403 [+], 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_pSTW0522-60-2
CTCACCACCAAAAGCTCCACACCCCACGCAAAATTAAAGTTTTGCTGATTGGGTATTCAAATCATGCAGTTAGTGAAAAAGTAATGTGAAATAATTTATTTTA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   11605 GenBank   WP_200923965
Name   traI_JLF31_RS26425_pSTW0522-60-2 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: 189128.38 Da        Isoelectric Point: 6.0522

>WP_200923965.1 conjugative transfer relaxase/helicase TraI [Enterobacter kobei]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMGERWAGKGAEALGLSGGVDQKVFTKVLEGRLPDGSDLSRIQ
DGANKHRPGYDFTFSAPKSVSVMAMLGGDKRLIEAHNRAVDTAIKQIEAMASTRVMTEGRSETQLTGNLV
MALFNHDTSRDQEPQLHTHAVVANATQHGDEWRTLSSDKVGKTGFIENIYANQIAFGRLYRAALKDDVAA
MGYETETVGKHGMWELKGVPTEPYSSRSRTISEAVGDDASLKSRDVAALDTRQSKQKVDPEQRMAEWMQT
LKATGFDIKAYREAADLRVEQGNIPVTAPEAIDINSSVGQAIAMLSDRRARFTYSELLATTLGQLPARPG
MVEMARDGIDAAIKNEQLIPLDKEKGLFTSNILVLDELSVSAMTRDLQRTGQADIFPDKSVPHSRSYSDA
VSVLAQDRPPVAIISGQGGAAGQRERVAELTMMAREQGRDVQIIAADRRSRSALMQDERLSGEHITDRRG
LTEGMAFTPGSTLIVDQGEKLTLKETLTLLDGALRHNVQLLIADSGQRTGTGSALTVMKEAGVSTLAWQG
GEKTQVSVISEPDRRQRYDRLAADFARSVRAGEHSVAQVTGPREQAVLAGVVREALKAEKVLGEREVSIT
TLEPVWLDSRHQQVRDHYREGMVMERWNAEARSRERFVIDRVTGRNNSLTLRNAQGETRVTRLSELNSSW
SLYRTGMLHVAEGDRLAVLGQAQGTRLRGGDTVTVKALGEAGLVVSLPGRKADVVLPVGDSPFTAAKVGQ
GWVESPGRSVSDSATVFASLSQRELDNTTLNKLALSGRAVRLYSAQTAQKTTEKLSRQSAWSVVSEQIKD
AAGHDRLDDALAHQKAGLHTPEQQAIHLAIPVLEGNGLAFTKPQLMAAAKEFEQDSLSLQAIEKEADRQV
RSGDLLSVPVSPGNGLQLLVSRQSYNAEKSIIRHVLEGKEAVTPLMNKVPDAQLAGLTDGQQNATRMILE
SPDRFTLVQGYAGVGKTTQFRAVMSAIGTLPEREQPRVIGVAPTHRAVSEMRDAGVPETQTLAAFIHDTQ
QQLRGGERPDFSNVLFLVDESSMVGNADMAKAYSLIAGGGGRAVSSGDTDQLQSIAPGQPFRLLQKRSAI
DVAVMQEIVRQTPELKPAVYSLINRDIGSALTTIERVAPAQVPRRADAWQPDSSVMEFSREREEAIAKAV
AAGDLMPGGQPATLLEAIVKDYTGRTPEAQAQTIVITALNADRRQVNAMIHDARQDAGEVGEKDVTLPVL
TPANIRDGELRRMTTWEASRDSLVLLDSTYYSIEALDGEAHLVTLKDAQGNTRSLSPAQAATEGVTLYRQ
DTITVSEGDRMRFSKSDNERGFVANSVWSVSEIKGDSVTLSDGKQTRTLTPSAEQAEQHIDLAYAVTVEG
SQGASEPFSISLQGTDGGRKRMVSFESAYVALSRMKQHAQVYTDNRDKWVAAMEKSQAKSTAHDILEPRG
DRAVANAARLTATAKALGEVPAGRAALRQAGLQPEGSMAKFISPGRKYPQPHVALPAFDRNGRQAGVWLS
ALTSGDGQLKGLAGEGRVMGSGDAAFAGLQASRNGESLLARDMEEGVRLARENPQSGVVVRLAGEARPWN
PGAITGGRVWADGLPDGTGTQPAETVPPEVLAQQAREAEVQRELDKRAEEAVREMARSGDGPAGGADVAV
RDVVRDMERIKETPASPLTLPDAPEERRRDEAVSQVVRENVQRDRLQQMERETVRDLEREKTLGGD

  Protein domains


Predicted by InterproScan.

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

(573-625)

AAA domain (AAA_30)

(967-1152)

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

(631-710)

TrwC relaxase (TrwC)

(10-283)

DNA helicase TraI (TraI_C)

(1430-1551)


  Protein structure



No available structure.




T4CP

ID   13588 GenBank   WP_060446846
Name   traC_JLF31_RS26345_pSTW0522-60-2 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: 98834.50 Da        Isoelectric Point: 5.7676

>WP_060446846.1 MULTISPECIES: type IV secretion system protein TraC [Enterobacter cloacae complex]
MSNPLDTVTRTVNSLLTALKMPDASSEANDVLGQMRFPQFSRVLPYRDYDAETGLFMNEKTMGFMLEAQP
INGANETIVSSLENLMRTKLPREVPVAVHLVSSHLVGQDIEYGLRELSWTGEKADTFNAITRAYYLRAAE
EGFPLPDHLNLPLTLRNYRVYISCCVPRKRGSKASVMEMENQVKIIRASLQGAQIATRSVDADAFIRIAG
EMINHNPDALYPTERELDPLKDLNYQCVDDTFDLKVKADYMTLGLRGNGRNSTARIMNFQLTKNPELAFL
WNMADNYSNLLNPELSVSCPFILTLVLSVEDQVKAQNEANLKFMDLEKKSKTSYAKFFPGVAQEAKEWGD
LRQRLSSGQSSLVSYFLNVTLFCRDDQETALKVEQDVLNSFRKNGFELISPRFNHMRNFLVNLPFMAGGG
LFKQLRESGVLQRAESFNVANLMPVVADSPLATSGLLAPTYRNQLAFIDLFSRGMGNTNFNMAVCGTSGA
GKTGLIQPLIRSVIDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLKFNPFANITDDNIDEMAERLRDQL
SVMASPNGNLDEVHEGLLLKAVKATWLTKKNQARIDDVVDYLVMARDSEEYAGSPTIRSRLDEMVVLLTQ
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   13589 GenBank   WP_200923964
Name   traD_JLF31_RS26420_pSTW0522-60-2 insolico UniProt ID   _
Length   747 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 747 a.a.        Molecular weight: 83790.48 Da        Isoelectric Point: 5.0970

>WP_200923964.1 type IV conjugative transfer system coupling protein TraD [Enterobacter kobei]
MSFNAKDMTQGGQIASMRIRMFSQIANIIVYCLVILFGIIVAIKLSVKLTWQTFVNGMVYYWCQTLAPMR
DIFKSQPVYTIRYYGHELKYNAQQILQDKYIQWCADQVWTAFILAAIIAAVVCVITFFVTTWILGHQGKQ
QSEDEITGGRQLTDDPKAVAKMLRRDGLASDIKIGELPLIKDSEIQNFCLHGTVGAGKSEVIRRLMNYAR
QRGDMVIVYDRSCEFVKSYYDPATDKILNPLDARCAAWDLWRECLTQPDFDNVSNTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDKDRSYSKLVDTLLSIKIEKLRSYLKNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIENNGESFTIRDWMRGVREDGKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVIGIQSYAQLEDIYGQKPAETLFDVLNTRAFFRSPSRNIA
EFAAGEIGEKEILKASEQYSYGVDPVRDGTSVGKDMERVTLVSYSDVQTLPDLSCYVTLPGPYPAVKMAL
KYQQRPKVAPEFIPRTIDGKAEERLNAALAAREHESRSIAMLFEPDADVIAPEGGAENAGQPQQPQQPQQ
PQQPQQPQQPQQPQQPQQPQQLQQPAPCAADTASASASVAGAAGTGGVEPELKTKAEEAEQLPPGISESG
EVVDMAAWEAWQAEQDELSPQERQRREEVNINVYRAPEKDLEPGGYI

  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: 52753..78446

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
JLF31_RS26235 (STW0522ENT60_P20480) 47851..48174 + 324 WP_008324183 hypothetical protein -
JLF31_RS26240 (STW0522ENT60_P20490) 48236..48595 + 360 WP_015493069 hypothetical protein -
JLF31_RS26245 (STW0522ENT60_P20500) 49221..49595 + 375 WP_008324180 hypothetical protein -
JLF31_RS26250 (STW0522ENT60_P20510) 49649..49936 + 288 WP_008324178 hypothetical protein -
JLF31_RS26255 (STW0522ENT60_P20520) 49983..50327 + 345 WP_008324177 hypothetical protein -
JLF31_RS26260 (STW0522ENT60_P20530) 50413..50676 + 264 WP_008324174 hypothetical protein -
JLF31_RS26265 (STW0522ENT60_P20540) 50719..51549 + 831 WP_008324171 N-6 DNA methylase -
JLF31_RS26270 (STW0522ENT60_P20550) 52176..52706 + 531 WP_008324170 antirestriction protein -
JLF31_RS26275 (STW0522ENT60_P20560) 52753..53229 - 477 WP_008324168 transglycosylase SLT domain-containing protein virB1
JLF31_RS26280 (STW0522ENT60_P20570) 53661..54053 + 393 WP_008324167 conjugal transfer relaxosome DNA-binding protein TraM -
JLF31_RS26285 (STW0522ENT60_P20580) 54412..55044 + 633 WP_236248948 PAS fold family protein -
JLF31_RS26290 (STW0522ENT60_P20590) 55131..55355 + 225 WP_008324165 TraY domain-containing protein -
JLF31_RS26295 (STW0522ENT60_P20600) 55413..55763 + 351 WP_016247536 type IV conjugative transfer system pilin TraA -
JLF31_RS26300 (STW0522ENT60_P20610) 55914..56219 + 306 WP_008324160 type IV conjugative transfer system protein TraL traL
JLF31_RS26305 (STW0522ENT60_P20620) 56234..56800 + 567 WP_016247535 type IV conjugative transfer system protein TraE traE
JLF31_RS26310 (STW0522ENT60_P20630) 56787..57530 + 744 WP_008324157 type-F conjugative transfer system secretin TraK traK
JLF31_RS26315 (STW0522ENT60_P20640) 57517..58911 + 1395 WP_008324156 F-type conjugal transfer pilus assembly protein TraB traB
JLF31_RS26320 (STW0522ENT60_P20650) 58933..59472 + 540 WP_016247533 type IV conjugative transfer system lipoprotein TraV traV
JLF31_RS26325 (STW0522ENT60_P20660) 59592..59816 + 225 WP_016247532 TraR/DksA C4-type zinc finger protein -
JLF31_RS26330 (STW0522ENT60_P20670) 59820..60005 + 186 WP_008324139 hypothetical protein -
JLF31_RS26335 (STW0522ENT60_P20680) 59989..60393 + 405 WP_200923952 hypothetical protein -
JLF31_RS26340 (STW0522ENT60_P20690) 60383..60946 + 564 WP_200923953 conjugal transfer pilus-stabilizing protein TraP -
JLF31_RS26345 (STW0522ENT60_P20700) 60939..63569 + 2631 WP_060446846 type IV secretion system protein TraC virb4
JLF31_RS26350 (STW0522ENT60_P20710) 63566..63913 + 348 WP_200923954 type-F conjugative transfer system protein TrbI -
JLF31_RS26355 (STW0522ENT60_P20720) 63913..64560 + 648 WP_060446831 type-F conjugative transfer system protein TraW traW
JLF31_RS26360 (STW0522ENT60_P20730) 64563..65549 + 987 WP_060446848 conjugal transfer pilus assembly protein TraU traU
JLF31_RS26365 (STW0522ENT60_P20740) 65566..66195 + 630 WP_200923955 type-F conjugative transfer system pilin assembly protein TrbC trbC
JLF31_RS26370 (STW0522ENT60_P20750) 66192..68087 + 1896 WP_200923956 type-F conjugative transfer system mating-pair stabilization protein TraN traN
JLF31_RS26375 (STW0522ENT60_P20760) 68111..68299 + 189 WP_200923957 conjugal transfer protein TrbE -
JLF31_RS26380 (STW0522ENT60_P20770) 68330..69079 + 750 WP_200923958 type-F conjugative transfer system pilin assembly protein TraF traF
JLF31_RS26385 (STW0522ENT60_P20780) 69096..69344 + 249 WP_200923959 type-F conjugative transfer system pilin chaperone TraQ -
JLF31_RS26390 (STW0522ENT60_P20790) 69334..69888 + 555 WP_059593783 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
JLF31_RS26395 (STW0522ENT60_P20800) 69881..70309 + 429 WP_200923960 conjugal transfer protein TrbF -
JLF31_RS26400 (STW0522ENT60_P20810) 70296..71666 + 1371 WP_059514056 conjugal transfer pilus assembly protein TraH traH
JLF31_RS26405 (STW0522ENT60_P20820) 71666..74527 + 2862 WP_200923961 conjugal transfer mating-pair stabilization protein TraG traG
JLF31_RS26415 (STW0522ENT60_P20840) 75107..75832 + 726 WP_200923963 conjugal transfer complement resistance protein TraT -
JLF31_RS26420 (STW0522ENT60_P20850) 76203..78446 + 2244 WP_200923964 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   18688 GenBank   NZ_AP022448
Plasmid name   pSTW0522-60-2 Incompatibility group   -
Plasmid size   87293 bp Coordinate of oriT [Strand]   53301..53403 [+]
Host baterium   Enterobacter kobei strain STW0522-60

Cargo genes

Drug resistance gene   -
Virulence gene   manB, manC
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -