Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   118264
Name   oriT_pSTN0717-53-3 in_silico
Organism   Enterobacter kobei strain STN0717-53
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_AP022501 (60805..60861 [-], 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_pSTN0717-53-3
TAAAGTTAATCAGCAAAATTTCAATTTTGCGTGGGGTGTGGTGCTTTTGGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   11609 GenBank   WP_200925823
Name   traI_JLH17_RS26280_pSTN0717-53-3 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: 188936.04 Da        Isoelectric Point: 6.1461

>WP_200925823.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacter cloacae complex]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMGERWAGKGAEALGLSGGVDQKVFTKVLEGRLPDGSDLSRTQ
DGANKHRPGYDFTFSAPKSVSVMAMLGGDKRLIEAHNRAVETAIKQIEAMASTRVMTEGRSETQLTGNLV
MALFNHDTSRDQEPQLHTHAVVANATQHGDEWRTLSSDKVGKTGFIENIYANQIAFGRLYRAALKDDVAA
MGYETETVGKHGMWELKGVPTEPYSSRSRTISEAVGDDASLKSRDVAALDTRQSKQKVDPEQRMAEWMQT
LKATGFDIQAYREAADQRVVQGNIPATTPEAIDINSSVGQSIAMLSDRRARFTYSELLATTLGQLPARSG
MVEMARDGIDAAIKNEQLIPLDKEKGLFTSNIHVLDELSVSAMTRDLQRAGQADIFPDKSVPRSRSYSDA
VSVLAQDRPPVAIISGQGGATGQRERVAELTMMAREQGRDVQIIAADRRSRSALMQDERLSGEHITDRRG
LTEGITFTPGSTLIVDQGEKLTLKETLTLLDGALRHNVQLLIADSGQRTGTGSALTVMKEAGVSTLAWQG
GEKTQVSVISEPDRRQRYDRLAADFARSVRAGEHSVAQVSGPREQAVLAGAVREALKAEKVLGEREVSIT
TLEPVWLDSRHQQVRDHYREGMVMERWNAEERSRERFVIDRVTGRNNSLTLRNAQGETRVTRLSELNSSW
SLYRTGTLQVAEGDRLAVLGQAQGTRLRGGDTVTVKALGEAGLVVSLPGRKADVVLPAGDSPFTAAKVGQ
GWVESPGRSVSDSATVFASLSQRELDNTTLNKLALSGRAVQLYSAQTAQKTTEKLSRQSAWSVVTSQVKE
AAGKDALGDALAHQKAGLHTPEQQAIHLAIPVLEGNGLAFTKPQLMAAAKEFEQGSLSLQAIEKEADRQI
RSGALLSVPVSPGNGLQLLVSRQSYNAEKSILRHVLEGKEAVTPLMDKVPDAQLAGLTDGQQNATRMILE
SPDRFTLVQGYAGVGKTTQFRAVMSAIGTLPEREQPRVIGVAPTHRAVSEMRDAGVPETQTLAAFIHDTQ
QQLRGGERPDFSNVLFLVDESSMVGNADMAKAYSLIAGGGGRAVSSGDTDQLQSIAPGQPFRLLQKRSAI
DVAVMQEIVRQTPELKPAVYSLISRDIGSALTTIERVAPAQVPRRADAWQPDSSVMEFSREREEAIAKAV
AAGDLMPGGQPATLLEAIVKDYTGRTSEAQAQTIVITALNADRRQVNAMIHDARQGAGEVGEKEVTLPVL
TPANIRDGELRRMATWEASRDSLVLLDSTYYSIEALDGEAHLVTLKDAQGNTRSLSPAQAATEGVTLYRQ
DTITVSEGDRMRFSKSDNERGFVANSVWSVSEIKGDSVTLSDGKQIRTLTPSAEQAEQHIDLAYAVTVEG
SQGASEPFSISLQGTDGGRKRMVSFESAYVALSRMKQHAQVYTDNRDKWVAAMEKSQAKSTAHDILEPRG
DRAVANAARLTATAKALGEVSAGRAALRQAGLQPEGSMAKFISPGRKYPQPHVALPAFDRNGRQAGVWLS
ALTSGDGQLKGLAGEGRVMGSGDAAFAGLQVSRNGESLLARDMEEGVRLARENPQSGVVVRLEGEVRPWN
PGAITGGRVWADGLPDGTGTQPAETVPPEVLAQQAREAEVQRELDKRAEEAVREMARSGDRPAGGADVAV
RDVVRDMERIKETPASPLTLPDAPEERRRDEAVSQVVRENVQRDRLQQMERETVRDLEREKTLGGD

  Protein domains


Predicted by InterproScan.

AAA domain (AAA_30)

(967-1151)

DNA helicase TraI (TraI_C)

(1430-1551)

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

(631-710)

TrwC relaxase (TrwC)

(10-283)

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

(573-625)


  Protein structure



No available structure.




T4CP

ID   13594 GenBank   WP_200928253
Name   traC_JLH17_RS26200_pSTN0717-53-3 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: 98854.55 Da        Isoelectric Point: 5.7676

>WP_200928253.1 MULTISPECIES: type IV secretion system protein TraC [Enterobacter]
MSNPLDTVTRTVNSLLTALKMPDASSEANDVLGQMRFPQFSRVLPYRDYDAETGLFMNEKTMGFMLEAQP
INGANETIVSSLENLMRTKLPREVPVAVHLVSSHLVGQDIEYGLRELSWTGEKADTFNAITRAYYLRAAE
EGFPLPDHLNLPLTLRNYRVYISCCVPRKRGSKASVMEMENQVKIIRASLQGAQIATRSVDADAFIRIAG
EMINHNPDALYPTERELDPLKDLNYQCVDDTFDLKVKADYMTLGLRGNGRNSTARIMNFQLTKNPELAFL
WNMADNYSNLLNPELSVSCPFILTLVLSVEDQVKAQNEANLKFMDLEKKSKTSYAKFFPGVAQEAKEWGD
LRQRLSSGQSSLVSYFLNVTLFCRDDQETALKVEQDVLNSFRKNGFELISPRFNHMRNFLVNLPFMAGGG
LFKQLRESGVLQRAESFNVANLMPVVADSPLATSGLLAPTYRNQLAFIDLFSRGMGNTNFNMAVCGTSGA
GKTGLIQPLIRSVIDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLKFNPFANVTDDTIDEMAERLRDQL
SVMASPNGNLDEVHEGLLLKAVKATWLTKKNQARIDDVVDYLMMARDSEEYAGSPTIRSRLDEMVVLLTQ
YTRDGVYGSYFNSDEPSLKDEARMVVLELGGLEDRPSLLVAVMFSLILYIENRMYRTPRSLKKLNVIDEG
WRLLDFKNNKVGAFIEKGYRTARRHTGSYITITQNIVDFDSETASSAARAAWGNSSYKIILKQSAKEFAR
YTQLYPDQYSQLQRDMIKGFGSAKDNWFSSFMLSVEHLTSWHRLFVDPLSRAMYSSDGPDFEFLQQRRRE
GLSIHEAVWELAWKKSGPEMAALERWLHEHEGKTIS

  Protein domains


Predicted by InterproScan.

Family of unknown function (DUF5934) (DUF5934)

(289-446)

TraC protein (TraC_F_IV)

(38-276)

TraG P-loop domain (P-loop_TraG)

(470-765)

  Protein structure



No available structure.



ID   13595 GenBank   WP_200928256
Name   traD_JLH17_RS26275_pSTN0717-53-3 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: 83316.94 Da        Isoelectric Point: 5.0983

>WP_200928256.1 type IV conjugative transfer system coupling protein TraD [Enterobacter kobei]
MSFNAKDMTQGGQIASMRIRMFSQIANIIVYCLVILFGIIVAITLSVKLTWQTFVNGMVYYWCQTLAPMR
DIFKSQPVYTIRYYGHELKYNAQQILQDKYIQWCADQVWTAFILAAIIAAVVCVITFFVTTWILGHQGKQ
QSEDEITGGRQLTDDPKAVAKMLRRDGLASDIKIGELPLIKDSEIQNFCLHGTVGAGKSEVIRRLMNYAR
QRGDMVIVYDRSCEFVKSYYDPATDKILNPLDARCAAWDLWRECLTQPDFDNVSNTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDKDRSYSKLVDTLLSIKIEKLRSYLKNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIENNGESFTIRDWMRGVREDGKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVIGIQSYAQLEDIYGQKPAETLFDVLNTRAFFRSPSRNIA
EFAAGEIGEKEILKASEQYSYGVDPVRDGTSVGKDMERVTLVSYSDVQTLPDLSCYVTLPGPYPAVKMAL
KYQQRPKVAPEFIPRTIDGKAEERLNAALAAREHESRSIAMLFEPDADVIAPEGSAENAGQPQQPQQPQQ
PQQPQQPQQPQQPQQPQQPQQLTPAPRAADAASVAGAAGAGGVEPELKTKAEEAEQLPPGIDESGEVVDM
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: 60257..85984

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
JLH17_RS26090 (STN0717ENT53_P30660) 55355..55678 + 324 WP_008324183 hypothetical protein -
JLH17_RS26095 (STN0717ENT53_P30670) 55740..56099 + 360 WP_008324181 hypothetical protein -
JLH17_RS26100 (STN0717ENT53_P30680) 56726..57100 + 375 WP_008324180 hypothetical protein -
JLH17_RS26105 (STN0717ENT53_P30690) 57154..57441 + 288 WP_008324178 hypothetical protein -
JLH17_RS26110 (STN0717ENT53_P30700) 57488..57832 + 345 WP_008324177 hypothetical protein -
JLH17_RS26115 (STN0717ENT53_P30710) 57918..58181 + 264 WP_008324174 hypothetical protein -
JLH17_RS26120 (STN0717ENT53_P30720) 58224..59053 + 830 Protein_75 N-6 DNA methylase -
JLH17_RS26125 (STN0717ENT53_P30730) 59680..60210 + 531 WP_008324170 antirestriction protein -
JLH17_RS26130 (STN0717ENT53_P30740) 60257..60733 - 477 WP_200928251 transglycosylase SLT domain-containing protein virB1
JLH17_RS26135 (STN0717ENT53_P30750) 61165..61560 + 396 WP_125885549 conjugal transfer relaxosome DNA-binding protein TraM -
JLH17_RS26140 (STN0717ENT53_P30760) 61745..62449 + 705 WP_045354209 hypothetical protein -
JLH17_RS26145 (STN0717ENT53_P30770) 62558..62932 + 375 WP_040218544 TraY domain-containing protein -
JLH17_RS26150 (STN0717ENT53_P30780) 62998..63348 + 351 WP_182930703 type IV conjugative transfer system pilin TraA -
JLH17_RS26155 (STN0717ENT53_P30790) 63499..63804 + 306 WP_008324160 type IV conjugative transfer system protein TraL traL
JLH17_RS26160 (STN0717ENT53_P30800) 63819..64385 + 567 WP_008324158 type IV conjugative transfer system protein TraE traE
JLH17_RS26165 (STN0717ENT53_P30810) 64372..65115 + 744 WP_011201807 type-F conjugative transfer system secretin TraK traK
JLH17_RS26170 (STN0717ENT53_P30820) 65102..66496 + 1395 WP_200928252 F-type conjugal transfer pilus assembly protein TraB traB
JLH17_RS26175 (STN0717ENT53_P30830) 66518..67057 + 540 WP_060446828 type IV conjugative transfer system lipoprotein TraV traV
JLH17_RS26180 (STN0717ENT53_P30840) 67177..67401 + 225 WP_060446845 TraR/DksA C4-type zinc finger protein -
JLH17_RS26185 (STN0717ENT53_P30850) 67405..67590 + 186 WP_072271147 hypothetical protein -
JLH17_RS26190 (STN0717ENT53_P30860) 67574..67978 + 405 WP_060446847 hypothetical protein -
JLH17_RS26195 (STN0717ENT53_P30870) 67968..68531 + 564 WP_060446829 conjugal transfer pilus-stabilizing protein TraP -
JLH17_RS26200 (STN0717ENT53_P30880) 68524..71154 + 2631 WP_200928253 type IV secretion system protein TraC virb4
JLH17_RS26205 (STN0717ENT53_P30890) 71151..71498 + 348 WP_200928254 type-F conjugative transfer system protein TrbI -
JLH17_RS26210 (STN0717ENT53_P30900) 71498..72145 + 648 WP_008324132 type-F conjugative transfer system protein TraW traW
JLH17_RS26215 (STN0717ENT53_P30910) 72148..73134 + 987 WP_032637387 conjugal transfer pilus assembly protein TraU traU
JLH17_RS26220 (STN0717ENT53_P30920) 73151..73780 + 630 WP_163310344 type-F conjugative transfer system pilin assembly protein TrbC trbC
JLH17_RS26225 (STN0717ENT53_P30930) 73777..75627 + 1851 WP_200928255 type-F conjugative transfer system mating-pair stabilization protein TraN traN
JLH17_RS26230 (STN0717ENT53_P30940) 75665..75853 + 189 WP_125885541 hypothetical protein -
JLH17_RS26235 (STN0717ENT53_P30950) 75883..76632 + 750 WP_126336472 type-F conjugative transfer system pilin assembly protein TraF traF
JLH17_RS26240 (STN0717ENT53_P30960) 76649..76897 + 249 WP_011901838 type-F conjugative transfer system pilin chaperone TraQ -
JLH17_RS26245 (STN0717ENT53_P30970) 76887..77441 + 555 WP_058610060 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
JLH17_RS26250 (STN0717ENT53_P30980) 77434..77862 + 429 WP_008324122 hypothetical protein -
JLH17_RS26255 (STN0717ENT53_P30990) 77849..79219 + 1371 WP_032672666 conjugal transfer pilus assembly protein TraH traH
JLH17_RS26260 (STN0717ENT53_P31000) 79219..82080 + 2862 WP_126336474 conjugal transfer mating-pair stabilization protein TraG traG
JLH17_RS26270 (STN0717ENT53_P31020) 82660..83385 + 726 WP_060446836 conjugal transfer complement resistance protein TraT -
JLH17_RS26275 (STN0717ENT53_P31030) 83756..85984 + 2229 WP_200928256 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   18697 GenBank   NZ_AP022501
Plasmid name   pSTN0717-53-3 Incompatibility group   -
Plasmid size   97602 bp Coordinate of oriT [Strand]   60805..60861 [-]
Host baterium   Enterobacter kobei strain STN0717-53

Cargo genes

Drug resistance gene   aadA5, qacE, sul1, qnrA1, blaSHV-12
Virulence gene   -
Metal resistance gene   merR
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -