Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   103816
Name   oriT_pUPC1 in_silico
Organism   Enterobacter cancerogenus strain UPC1
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_LR881937 (81346..81458 [-], 113 nt)
oriT length   113 nt
IRs (inverted repeats)      93..99, 103..109  (TAATTTA..TAAATTA)
 29..34, 41..46  (GCAAAA..TTTTGC)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 113 nt

>oriT_pUPC1
TTCTCACCACAAAAGCACCACACCCCACGCAAAACGTACTTTTTGCTGATTGGCTATTCAGTTCAGTAACTTAGCGTTTGAATAATGTGTAATAATTTATTTTAAATTACTAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2832 GenBank   WP_202562368
Name   traI_ENTER_RS22910_pUPC1 insolico UniProt ID   _
Length   1745 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1745 a.a.        Molecular weight: 188888.87 Da        Isoelectric Point: 6.3484

>WP_202562368.1 conjugative transfer relaxase/helicase TraI [Enterobacter cancerogenus]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMGERWAGEGAKALGLSGSVDVKTFTRVLEGKLPDGSDLSRAQ
DGTNKHRPGYDLTFSAPKSISVMAMLGGDTRLIDAHNRAVDTAIKQIEALASTRVMTDGKSETQLTGNLV
MALFNHDTSRDQEPQLHTHAVVANVTQHDGTWRTLSSDKIGKTGFIENVYANQIAFGRLYRAALKDDVTA
MGYETETVGKHGMWELKGVPTEPYSSRTKAIREAVGDDASLKSRDVAALDTRQSKQKVDPEQRMAEWMAT
LKETGFDIQAYREAADQRVREGAVPVTTPESADAPAAVSQSIAILSDRRARFTYSELLATTLGQLPARPG
MVEQAREGIDAAIKNEQLIPLDKEKGLFTSNVHVLDELSVSALSRELQQQGRVDVFPDKSVPRSRAFGDA
VSVLAQDRSPVAIISGQGGAAGQRERVAELAMMAREQGRDVQIMAADRRSAANLARDERLSGELITDRRG
LTEGMTFIPGSTLIVDQGEKLTLKETLTLLDGALRHNVQLLIADSGQRIGTGSALTVMKEAGVSTLAWQG
GEKTRVSVISEADRRERYDRLAADFAKSIRAGEEAVVQISGAREQAALAATVRDALKGEKVLGERDISIT
TLEPAWLDGRHRQVRDHYREGMVMERWNAEERSRERFVIDRVTARNNSLTLRNAQGETQVTRLTELDSSW
SLYRTGTLQVTEGDRLAVLGQTQGARLKGGDSVTVTGIDEKGIHVSLPGRKTQVVLPAGDSPFTAPKIGQ
GWVESPGRSVSDSATVYASLTQREMDNATLNGLARSGAEIRLYSAQTVQKTEEKLSRQSAWTVVTAQVKE
AAGKDSLGEALAHQKAALHTPEQQAIHLAIPSLEGNGLAFTRPQLMAAAKDFAQDKLSLAAIEDEIARQT
RSGALISVPVSQGNGLQQLVSRQSYNAEKSIIRHVLEGKDAVTPLMGKVPDAQLAGLTDGQQNATRMILE
SPDRFTLVQGYAGVGKTTQFRAVMSAIGTLPEEQRPRVIGVAPTHRAVGEMRDAGVPESQTLAAFIHDTQ
QQLRGGERPDFSNVLFLIDESSMVGNADMAKAYSLIAGGGGRAVSSGDTDQLQSIAPGQPFRLLQKRSAI
DTAVMQEIVRQTPALRPAVYSLIERNIGSALTTLESVAPQQVPRRPDAWQPDGSVMEFSREHEKAIADAI
KAGDLAPGGQPATLLEAIVKDYTGRTPQAQTIVITALNADRRQLNAMIHDARREAGELGEKEAIVPVLTP
ANIRDGELRRMDTWQTHASSMVLLDNTYYSIDALDKDAHLVTLKDAQGNTRSLSPAQAATEGVTLYRQDT
IAVSQGDRMRFSKSDNERGFVANSVWTVSDIKGDIVTLTDGRQTSTVNPSAERAEQHIDLAYAVTAHGAQ
GASEPFSISLQGTDGGRKQMVNFESAYVALSRMKQHAQVYTDNREKWVAAMEKSQAKSTAHDIVEPRNDR
AVANAARLTATAKALGEVPAGRAALRQAGLLAESTMAKFISPGRKYPQPHVALPAFDRNGRQAGVWLSTL
TSGDGQLQGLGSEGRVMGSEDAAFAGLQASRNGESLMARDMAEGVRLARENPQSGVVVRIGDAEGRPWNP
GAITGGRIWADGVPDSTGTQHGEKIPPEVLAQQALEAQQRRELEKRAEDAVRELARGSEKAEDAAGAVRE
LARELSEDKTRERAADVTLPESPDVRARNEAVTRVAHENVQRDRLQQMERDTVRVLEREKTMGGD

  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)

DNA helicase TraI (TraI_C)

(1428-1549)

TrwC relaxase (TrwC)

(10-283)

AAA domain (AAA_30)

(967-1153)


  Protein structure



No available structure.




T4CP

ID   2658 GenBank   WP_202562370
Name   traD_ENTER_RS22915_pUPC1 insolico UniProt ID   _
Length   755 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 755 a.a.        Molecular weight: 84886.70 Da        Isoelectric Point: 5.0333

>WP_202562370.1 type IV conjugative transfer system coupling protein TraD [Enterobacter cancerogenus]
MSFNAKDMTQGGQIASMRIRMFSQIANIILYCLVILFGIIVALTLAVKLSWQTFVNGMAWYWCQTLAPMR
DIFRSQPVYTIRYYGKELKYNAQQLLQDKYVIWCADQVWTAFILAAIIAAVVCVIAFFVTTWILGHQGKQ
QSEDEVTGGRQLTDDPREVARMLKRDNLASDIKIGDLPLIKNSEIQNFCLHGTVGAGKSEVIRRLMNYAR
KRGDMVIVYDRSCEFVKSYYDPAIDKILNPMDARCAAWDLWRECLTQPDFDNVSNTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDKDRSYSKLVDTLLSIKIEKLRSYLQNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEHNGEPFTIRDWMRGVREDGRNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVIGIQSYAQLEDIYGQKPAETLFDVLNTRAFFRSPSRNIA
EFAAGEIGEKEILKASEQYSYGVDPVRDGTSVGKDMERVTLVSYSDIQTLPDLSCYVTLPGPYPAVKMAL
KYQERPKVAPEFIQRQIDTQAEQRLNAALAAREAESRSVAMLFEPDTEVVAPVSGPENAGQPQQPQQPQQ
PQQPQQPQQPQQPQQPQQPQQPQQPQPALVITPRPAPVAASTSAAAAAAVAGTGGTESVLETKAEEAEQL
PPGIDESGEVVDMAAWEAWQAEQDELTPQERQRREEVNINVHRTHDDDLEPGGYI

  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: 58227..82000

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
ENTER_RS22915 (ENTER_P0052) 58227..60494 - 2268 WP_202562370 type IV conjugative transfer system coupling protein TraD virb4
ENTER_RS22920 (ENTER_P0054) 60669..61400 - 732 WP_202562372 conjugal transfer complement resistance protein TraT -
ENTER_RS22925 (ENTER_P0055) 61491..61802 + 312 WP_202562298 heavy metal-binding domain-containing protein -
ENTER_RS22930 (ENTER_P0056) 61804..64662 - 2859 WP_202562299 conjugal transfer mating-pair stabilization protein TraG traG
ENTER_RS22935 (ENTER_P0057) 64662..66044 - 1383 WP_202562300 conjugal transfer pilus assembly protein TraH traH
ENTER_RS22940 (ENTER_P0058) 66031..66450 - 420 WP_202562301 conjugal transfer protein TrbF -
ENTER_RS22945 (ENTER_P0059) 66443..66991 - 549 WP_202562302 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
ENTER_RS22950 (ENTER_P0060) 66981..67226 - 246 WP_102750541 type-F conjugative transfer system pilin chaperone TraQ -
ENTER_RS22955 (ENTER_P0061) 67243..67950 - 708 WP_202562381 type-F conjugative transfer system pilin assembly protein TraF traF
ENTER_RS22960 (ENTER_P0062) 68008..69804 - 1797 WP_237658082 type-F conjugative transfer system mating-pair stabilization protein TraN traN
ENTER_RS22965 (ENTER_P0063) 69864..70487 - 624 WP_202562304 type-F conjugative transfer system pilin assembly protein TrbC trbC
ENTER_RS22970 (ENTER_P0064) 70502..71488 - 987 WP_063449758 conjugal transfer pilus assembly protein TraU traU
ENTER_RS22975 (ENTER_P0065) 71485..72132 - 648 WP_202562305 type-F conjugative transfer system protein TraW traW
ENTER_RS22980 (ENTER_P0066) 72132..72479 - 348 WP_046622481 type-F conjugative transfer system protein TrbI -
ENTER_RS22985 (ENTER_P0067) 72476..75106 - 2631 WP_202562306 type IV secretion system protein TraC virb4
ENTER_RS22990 (ENTER_P0069) 75413..75949 - 537 WP_202562307 type IV conjugative transfer system lipoprotein TraV traV
ENTER_RS22995 (ENTER_P0070) 75970..77373 - 1404 WP_202562308 F-type conjugal transfer pilus assembly protein TraB traB
ENTER_RS23000 (ENTER_P0071) 77360..78103 - 744 WP_202562309 type-F conjugative transfer system secretin TraK traK
ENTER_RS23005 (ENTER_P0072) 78090..78656 - 567 WP_202562310 type IV conjugative transfer system protein TraE traE
ENTER_RS23010 (ENTER_P0073) 78671..78976 - 306 WP_202562311 type IV conjugative transfer system protein TraL traL
ENTER_RS23015 (ENTER_P0074) 79114..79464 - 351 WP_202562312 type IV conjugative transfer system pilin TraA -
ENTER_RS23020 (ENTER_P0075) 79511..79735 - 225 WP_046622499 TraY domain-containing protein -
ENTER_RS23025 (ENTER_P0076) 79814..80518 - 705 WP_193037203 LuxR C-terminal-related transcriptional regulator -
ENTER_RS23030 (ENTER_P0077) 80702..81097 - 396 WP_202562313 conjugal transfer relaxosome DNA-binding protein TraM -
ENTER_RS23035 (ENTER_P0079) 81527..82000 + 474 WP_202562314 transglycosylase SLT domain-containing protein virB1
ENTER_RS23040 (ENTER_P0080) 82041..82571 - 531 WP_202562315 antirestriction protein -
ENTER_RS23045 (ENTER_P0081) 83249..84079 - 831 WP_202562316 N-6 DNA methylase -
ENTER_RS23050 (ENTER_P0082) 84125..84388 - 264 WP_046622508 hypothetical protein -
ENTER_RS23055 (ENTER_P0083) 84474..84830 - 357 WP_063449773 hypothetical protein -
ENTER_RS23060 (ENTER_P0084) 84877..85158 - 282 WP_237658073 hypothetical protein -
ENTER_RS23065 (ENTER_P0085) 85220..85609 - 390 WP_202562317 ammonia monooxygenase -
ENTER_RS23070 (ENTER_P0086) 86310..86429 - 120 WP_272929840 type I toxin-antitoxin system Hok family toxin -
ENTER_RS23460 (ENTER_P0087) 86377..86583 - 207 Protein_75 DUF5431 family protein -

Host bacterium

ID   4256 GenBank   NZ_LR881937
Plasmid name   pUPC1 Incompatibility group   IncFIB
Plasmid size   121756 bp Coordinate of oriT [Strand]   81346..81458 [-]
Host baterium   Enterobacter cancerogenus strain UPC1

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -