Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   114723
Name   oriT_C3-17|unnamed1 in_silico
Organism   Enterobacter roggenkampii isolate C3-17
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP096188 (79439..79495 [-], 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_C3-17|unnamed1
TAAAGTTAATCAGCAAAATTTTAATTTTGCGTGGGGTGTGGTGCTTTTGGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   9440 GenBank   WP_077138950
Name   traI_M0769_RS23480_C3-17|unnamed1 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: 189412.54 Da        Isoelectric Point: 6.0094

>WP_077138950.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacteriaceae]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMGERWAGKGAEALGLSGGVDQKVFTKVLEGRLPDGSDLSRTQ
DGANKHRPGYDFTFSAPKSVSVMAMLGGDKRLFEAHNRAVETAIKQIEAMASTRVMTEGRSETQLTGNLV
MALFNHDTSRDQEPQLHTHAVVANATQHGDEWRTLSSDKVGKTGFIENIYANQIAFGRLYRAALKDDVAA
MGYETETVGKHGMWELKGVPTEPYSSRSRTISEAVGDDASLKSRDVAALDTRQSKQKVDPEQRMAEWMQT
LKETGFDIKAYREAADLRVVQGNIPATTPEAIDINSSVGQAIAMLSDRRARFTYSELLATTLGQLPARSG
MVEMARDGIDAAIKNEQLIPLDKEKGLFTSNIHVLDELSVSAMTRDLQRTGQADIFPDKSVPRSRSYSDA
VSVLAQDRPPVAIISGQGGAAGQRERVAELTMMAREQGRDVQIIAADRRSRSALMQDERLSGEHITDRRG
LTEGMTFTPGSTLIVDQGETLTLKETLTLLDGALRHNVQLLIADSGQRTGTGSALTVMKEAGVSTLAWQG
GEKTQVSVISEPDRRQRYDRLAADFARSVRAGEHSVAQVTGSREQAVLAGVVREALKAEKVLGEREVTIT
TLEPVWLDSRHQQVRDHYREGMVMERWSAEERSRERFVIDRVTGRNNSLTLRNAQGETRVTRLSELNSSW
SLYRTGTLQVAEGDRLAVLGQAQGTRLKGGDTVTVKALGEAGLVVSLPGRKADVVLPAGDSPFTAAKVGQ
GWVESPGRSVSDSATVFASLSQRELDNTTLNKLALSGRAVQLYSAQDMQKTTEKLSRQSAWSVVSEQIKD
AAGHDRLDDALAHQKAGLHTPEQQAIHLAIPVLEGNGLAFTKPQLMAAAKEFEQDSLSLQAIEKEADRQI
RSGALLSVPVSPGNGLQLLVSRQSYNAEKSILRHVLEGKEAVTPLMDKVPDAQLAGLTDGQQNATRMILE
SPDRFTLVQGYAGVGKTTQFRAVMSAIGTLPEREQPRVIGVAPTHRAVSEMRDAGVPETQTLAAFIHDTQ
QQLRGGERPDFSNVLFLVDESSMVGNADMAKAYSLIAGGGGRAVSSGDTDQLQSIAPGQPFRLLQKRSAI
DVAVMQEIVRQTPELKPAVYSLISRDIGSALTTIERVAPAQVPRRADAWQPDSSVMEFSREREEAIAKAV
AAGDLMPGGQPATLLEAIVKDYTGRTSEAQAQTIVITALNADRRQVNAMIHDARQDAGEVGEKEVTLPVL
TPANIRDGELRRMATWEASRDSLVLLDSTYYSIEALDGEAHLVTLKDAQGNTRSLSPAQAATEGVTLYRQ
DTITVSEGDRMRFSKSDNERGFVANSVWSVSEIKGDSVTLSDGKQTRTLTPSAEQAEQHIDLAYAVTVEG
SQGASEPFSISLQGTDGGRKRMVSFESAYVALSRMKQHAQVYTDNRDKWVAAMEKSQAKSTAHDILEPRG
DRAVANAARLTATAKALGEVPAGRAALRQAGLRPETTLAKFISPGRKYPQPHVALPAFDRNGRQAGVWLS
ALTSGDGQLKGLAGEGRVMGSGDAAFAGLQASRNGASLLARDMEEGVRLARENPQSGVVVRLEGEVRPWN
PGAITGGRVWADRLPDGTGTQPAETVPPEVLAQQAREAEVQRELDKRAEEAVREMARSGDRPAGGADVAV
RDVVRDMERIKETPASPPTLPDAPEERRRDEAVSQVVRENVQRDRLQQMERETVRDLEREKTLGGD

  Protein domains


Predicted by InterproScan.

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

(631-710)

TrwC relaxase (TrwC)

(10-283)

DNA helicase TraI (TraI_C)

(1430-1551)

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

(573-625)

AAA domain (AAA_30)

(967-1151)


  Protein structure



No available structure.




T4CP

ID   10981 GenBank   WP_077138961
Name   traC_M0769_RS23405_C3-17|unnamed1 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: 98782.49 Da        Isoelectric Point: 6.0216

>WP_077138961.1 MULTISPECIES: type IV secretion system protein TraC [Enterobacteriaceae]
MSNPLDSVTRTVNSLLTALKMPDASSEANDVLGQMRFPQFSRVLPYRDYDAETGLFMNEKTMGFMLEAQP
INGANETIVSSLENLMRTKLPREVPVAVHLVSSHLVGQDIEYGLRELSWTGEKADTFNAITRAYYLRAAE
EGFPLPDHLNLPLTLRNYRVYISCCVPRKRGSKASVMEMENQVKIIRASLQGAQIATRSVDADAFIRIAG
EMINHNPDALYPTERELDPLKDLNYQCVDDTFDLKVKADYMTLGLRGNGRNSTARIMNFQLTKNPELAFL
WNMADNYSNLLNPELSVSCPFILTLVLSVEDQVKAQNEANLKFMDLEKKSKTSYAKFFPGVAQEAKEWGD
LRQRLSSGQSSLVSYFLNVTLFCRDDQETALKVEQDVLNSFRKNGFELISPRFNHMRNFLVNLPFMAGGG
LFKQLRESGVLQRAESFNVANLMPVVADSPLATSGLLAPTYRNQLAFIDLFSRGMGNTNFNMAVCGTSGA
GKTGLIQPLIRSVIDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLKFNPFANVTDDTIDEMAERLRDQL
SVMASPNGNLDEVHEGLLLKAVKATWLTKKNQARIDDVVDYLMMARDSEEYSGSPTIRSRLDEMVVLLTQ
YTRNGVYGSYFNSDEPSLKDEARMVVLELGGLEDRPSLLVAVMFSLILYIENRMYRTPRSLKKLNVIDEG
WRLLDFKNNKVGAFIEKGYRTARRHTGSYITITQNIVDFDSETASSAARAAWGNSSYKIILKQSAKEFAK
YNQLYPDQYSQLQRDMIKGFGSAKDNWFSSFMLSVEHLTSWHRLFVDPLSRAMYSSDGPDFEFLQQRRRE
GLSIHEAVWELAWKKSGPEMAALERWLHAHEGKTIS

  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   10982 GenBank   WP_248352127
Name   traD_M0769_RS23475_C3-17|unnamed1 insolico UniProt ID   _
Length   749 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 749 a.a.        Molecular weight: 83928.64 Da        Isoelectric Point: 5.2324

>WP_248352127.1 type IV conjugative transfer system coupling protein TraD [Enterobacter roggenkampii]
MSFNAKDMTQGGQIASMRIRMFSQIANIIVYCLVILFGIIVAITLSVKLTWQTFVNGMVYYWCQTLAPMR
DIFKSQPVYTIRYYGHELKYNAQQILQDKYIQWCADQVWTAFILAAIIAAVVCVITFFVTTWILGHQGKQ
QSEDEITGGRQLTDDPKAVAKMLRRDGLASDIKIGELPLIKDSEIQNFCLHGTVGAGKSEVIRRLMNYAR
QRGDMVIVYDRSCEFVKSYYVPATDKILNPLDARCAAWDLWRECLTQPDFDNVSNTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDKDRSYSKLVDTLLSIKIEKLRSYLKNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIENNGESFTIRDWMRGVREDGKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVIGIQSYAQLEDIYGQKPAETLFDVLNTRAFFRSPSRNIA
EFAAGEIGEKEILKASEQYSYGVDPVRDGTSVGKDMERVTLVSYSDVQTLPDLSCYVTLPGPYPAVKMAL
KYQQRPKVAPEFIPRTIDGKAEERLNAALAAREHESRSIAMLFEPDADVVAPEGGAENAGQPQQPQQPQQ
PQQPQQPQQPQQPQQPQQPQQPQQLAPAPRAADTASASASVAGAAGTGGVEPELKTKAEEAEQLPPGISE
SGEVVDMAAWEAWQAEQDELSPQERQRREEVNINVHRAPEKDLEPGGYI

  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: 78891..103976

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
M0769_RS23300 (M0769_23300) 74662..75078 + 417 WP_145952620 conjugation system SOS inhibitor PsiB family protein -
M0769_RS23305 (M0769_23305) 75501..75896 + 396 WP_077138970 ammonia monooxygenase -
M0769_RS23310 (M0769_23310) 75957..76244 + 288 WP_077138969 hypothetical protein -
M0769_RS23315 (M0769_23315) 76291..76635 + 345 WP_077138968 hypothetical protein -
M0769_RS23320 (M0769_23320) 76721..76984 + 264 WP_008324174 hypothetical protein -
M0769_RS23325 (M0769_23325) 77141..77857 + 717 WP_369702115 N-6 DNA methylase -
M0769_RS23330 (M0769_23330) 78284..78844 + 561 Protein_80 antirestriction protein -
M0769_RS23335 (M0769_23335) 78891..79367 - 477 WP_058673456 transglycosylase SLT domain-containing protein virB1
M0769_RS23340 (M0769_23340) 79799..80194 + 396 WP_040218546 conjugal transfer relaxosome DNA-binding protein TraM -
M0769_RS23345 (M0769_23345) 80379..81083 + 705 WP_071667437 hypothetical protein -
M0769_RS23350 (M0769_23350) 81192..81566 + 375 WP_040218544 TraY domain-containing protein -
M0769_RS23355 (M0769_23355) 81632..81982 + 351 WP_077138966 type IV conjugative transfer system pilin TraA -
M0769_RS23360 (M0769_23360) 82133..82438 + 306 WP_071667439 type IV conjugative transfer system protein TraL traL
M0769_RS23365 (M0769_23365) 82453..83019 + 567 WP_077138965 type IV conjugative transfer system protein TraE traE
M0769_RS23370 (M0769_23370) 83006..83749 + 744 WP_077138964 type-F conjugative transfer system secretin TraK traK
M0769_RS23375 (M0769_23375) 83736..85130 + 1395 WP_248352125 F-type conjugal transfer pilus assembly protein TraB traB
M0769_RS23380 (M0769_23380) 85152..85691 + 540 WP_077138963 type IV conjugative transfer system lipoprotein TraV traV
M0769_RS23385 (M0769_23385) 85811..86035 + 225 WP_016674195 TraR/DksA C4-type zinc finger protein -
M0769_RS23390 (M0769_23390) 86039..86224 + 186 WP_016674194 hypothetical protein -
M0769_RS23395 (M0769_23395) 86442..86612 + 171 WP_227516825 Clp protease -
M0769_RS23400 (M0769_23400) 86602..87270 + 669 WP_227516824 conjugal transfer protein TraP -
M0769_RS23405 (M0769_23405) 87263..89893 + 2631 WP_077138961 type IV secretion system protein TraC virb4
M0769_RS23410 (M0769_23410) 89890..90237 + 348 WP_011201813 type-F conjugative transfer system protein TrbI -
M0769_RS23415 (M0769_23415) 90237..90884 + 648 WP_077138960 type-F conjugative transfer system protein TraW traW
M0769_RS23420 (M0769_23420) 90887..91873 + 987 WP_032637387 conjugal transfer pilus assembly protein TraU traU
M0769_RS23425 (M0769_23425) 91890..92519 + 630 WP_077138959 type-F conjugative transfer system pilin assembly protein TrbC trbC
M0769_RS23430 (M0769_23430) 92516..94396 + 1881 WP_248352126 type-F conjugative transfer system mating-pair stabilization protein TraN traN
M0769_RS23435 (M0769_23435) 94428..94616 + 189 WP_077138957 hypothetical protein -
M0769_RS23440 (M0769_23440) 94659..95396 + 738 WP_077138956 type-F conjugative transfer system pilin assembly protein TraF traF
M0769_RS23445 (M0769_23445) 95413..95661 + 249 WP_008324126 type-F conjugative transfer system pilin chaperone TraQ -
M0769_RS23450 (M0769_23450) 95651..96196 + 546 WP_077138955 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
M0769_RS23455 (M0769_23455) 96235..97569 + 1335 WP_230199841 conjugal transfer pilus assembly protein TraH traH
M0769_RS23460 (M0769_23460) 97569..100391 + 2823 WP_077138954 conjugal transfer mating-pair stabilization protein TraG traG
M0769_RS23465 (M0769_23465) 100413..100844 + 432 WP_077138953 entry exclusion protein -
M0769_RS23470 (M0769_23470) 100919..101593 + 675 WP_077138952 tetratricopeptide repeat protein -
M0769_RS23475 (M0769_23475) 101727..103976 + 2250 WP_248352127 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   15158 GenBank   NZ_CP096188
Plasmid name   C3-17|unnamed1 Incompatibility group   IncFII
Plasmid size   115683 bp Coordinate of oriT [Strand]   79439..79495 [-]
Host baterium   Enterobacter roggenkampii isolate C3-17

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   arsR, arsD, arsA, arsB, arsC
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -