Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100264
Name   oriT_pMUR050 in_silico
Organism   Escherichia coli
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   NC_007682 (46583..47231 [+], 649 nt)
oriT length   649 nt
IRs (inverted repeats)      IR1: 198..207, 211..220  (ATTAGGTGTT..AATACCTAAT)
 IR2:319..324, 330..335  (AAAAAA..TTTTTT)
  IR3: 393..402, 405..414  (GTATTCATGC..GCATGAATAC)
Location of nic site      301..302
Conserved sequence flanking the
  nic site    		  GGTGT|ATAGC
Note   predicted by the oriTfinder

  oriT sequence  


Download         Length: 649 nt

>oriT_pMUR050
AGCGCCGCAGATAATCTGACCGATTACCTCCTGAAACCAGGTCTATATAGGCCAAAAGTTCATCTGATACTTTTGCGGTTATTATTGGCATTCAGTCCTCACATTGTGCATTTCTTAAACAAAAGATTGGGATCTAACAAGCTGAAATCTTAGTATTACCAAAGTAATAAAGCAAACTCATTATAAAACAATGAGTTATTAGGTGTTTTTAATACCTAATTATTACCGAATATTGACGCTATTTATTTTTTTATTTTTTAAATCAGTGTGATAGCGTGATTTATCGCGCTGCGTTAGGTGTATAGCAGGTTAAGGGATAAAAAATCATCTTTTTTGGTAGGAGCGATCTACGTAGGTTAAGGACTAACTGACTAAAAAGCGTTCAATATTCCGTATTCATGCTTGCATGAATACCAGTACAACACTATTACAACAAAAGTACATCAAAATTACATCAAAAGTACATCACTTGAAGGTTGACAGTACAACAGAATTACATCATTATCTGGTCATGAGGTAGCCAGTACAACAAAAGTACATCAAAAATACATCATAAATACATCAGAAATACATCAAAATTACATCATTCTAAATGAGGGTACTATGAAGCCCAAAAGTATCAGGGCGGCACTTCAGTTGATGTTGCCGG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   335 GenBank   YP_724504
Name   pMUR050_047_pMUR050 insolico UniProt ID   Q9X4G2
Length   1078 a.a. PDB ID   
Note   putative relaxase

  Relaxase protein sequence


Download         Length: 1078 a.a.        Molecular weight: 120179.41 Da        Isoelectric Point: 6.5766

>YP_724504.1 hypothetical protein pMUR050_047 (plasmid) [Escherichia coli]
MLDITTITRQNVTSVVGYYSDAKDDYYSKDSSFTSWQGTGAEALGLSGDVESARFKELLVGEIDTFTHMQ
RHVGDAKKERLGYDLTFSAPKGVSMQALIHGDKTIIEAHEKAVAAAVREAEKLAQARTTRQGKSVTQNTN
NLVVATFRHETSRALDPDLHTHAFVMNMTQREDGQWRALKNDELMRNKMHLGDVYKQELALELTKAGYEL
RYNSKNNTFDMAHFSDEQIRAFSRRSEQIEKGLAAMGLTRETADAQTKSRVSMATREKKTEHSREEIHQE
WASRAKTLGIDFDNREWQGHGKPLEADIARNMAPDFTSPEVKADRAIQFAVKSLSERDASFERQKLIQIA
NKQVLGHATIADVEKAYLKAVQKGAIIEGEARYQSTLKVGASVMAETLTRKEWIDSLTNSGMRADKARFA
VDDGIKNGRLKKTSHRVTTVEGIRLERSILTIESRGRGQMPRQLTAEIAGQLLSGKTLKKEQMRAVTEIV
TSKDRFVAAHGYAGTGKSYMTMAAKELLESQGLKVTALAPYGTQKKALEDDGLPARTVAAFLKAKDKKLD
EKSVVFIDEAGVIPARQMKQLMEVIEKHNARAVFLGDTSQTKAVEAGKPFEQLIKAGMQTSYMKDIQRQK
NEVLLEAVKYAAEGNAARALKNITGVNELKEEAPRLAQLADRYLSLSSEQQDATLIISGTNASRKTLNDY
IRGNLGLAGTGETFTLLDRVDSTQAERRDSRYFSKGQIIIPEQDYKNGMKRGESYQVLDTGPGNKLTVES
ISGEQIAFSPRTHTKLSVYQAVSAELAPGDKVMVTRNDKTLDVANGDRFTVKTVEGEKLTLEDKKGRTVE
LDKKQASYLSYAYATTVHKSQGLTCDRVLFNIDTKSLTTSKDVFYVGISRARHEVEIFTDDKKSLASSVS
RDSPKTTAAEIDRFFGLEARFKDIGRDTSLETRSAEKGLPEATGESMAFNQKPDEHNMTTGTDYQPVSNA
EDAFHLKQNPMDDSVGLRRHEAQQNDAELAHDYAAADDQQWSAQEYADYEHYAEASDYDFDSSIYDDYAM
PQTSQAEQSHTGKEHTHEHEHEEGGHEI

  Protein domains


Predicted by InterproScan.

UvrD-like helicase C-terminal domain (UvrD_C_2)

(851-895)

TrwC relaxase (TrwC)

(16-287)

AAA domain (AAA_30)

(477-653)


  Protein structure


Source ID Structure
PDB 3L57
PDB 3L6T
AlphaFold DB Q9X4G2


T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 29833..46255

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HS356_RS00135 (pMUR050_023) 24850..25554 + 705 WP_001067858 IS6-like element IS26 family transposase -
HS356_RS00140 25604..25678 - 75 Protein_27 IS6 family transposase -
HS356_RS00145 (pMUR050_024) 25808..26623 + 816 WP_000018326 aminoglycoside O-phosphotransferase APH(3')-Ia -
HS356_RS00150 (pMUR050_025) 26736..27440 + 705 WP_001067855 IS6-like element IS26 family transposase -
HS356_RS00155 (pMUR050_026) 27502..27699 - 198 WP_000844102 hypothetical protein -
HS356_RS00160 (pMUR050_027) 27704..28345 - 642 WP_001694850 restriction endonuclease -
HS356_RS00165 (pMUR050_028) 28401..28634 - 234 WP_001191790 hypothetical protein -
HS356_RS00170 (pMUR050_029) 28748..29062 - 315 WP_000734776 TrbM/KikA/MpfK family conjugal transfer protein -
HS356_RS00175 (pMUR050_030) 29025..29402 - 378 WP_000504251 hypothetical protein -
HS356_RS00180 (pMUR050_031) 29418..29789 - 372 WP_011867773 H-NS family nucleoid-associated regulatory protein -
HS356_RS00185 (pMUR050_032) 29833..30567 + 735 WP_000033783 lytic transglycosylase domain-containing protein virB1
HS356_RS00190 (pMUR050_033) 30576..30857 + 282 WP_000440698 transcriptional repressor KorA -
HS356_RS00195 (pMUR050_034) 30867..31160 + 294 WP_000209137 TrbC/VirB2 family protein virB2
HS356_RS00200 (pMUR050_035) 31210..31521 + 312 WP_011407154 VirB3 family type IV secretion system protein virB3
HS356_RS00205 (pMUR050_036) 31526..34126 + 2601 WP_011407155 VirB4 family type IV secretion/conjugal transfer ATPase virb4
HS356_RS00210 (pMUR050_037) 34144..34857 + 714 WP_011407156 type IV secretion system protein virB5
HS356_RS00215 (pMUR050_038) 34865..35092 + 228 WP_000734973 IncN-type entry exclusion lipoprotein EexN -
HS356_RS00220 (pMUR050_039) 35108..36148 + 1041 WP_000886022 type IV secretion system protein virB6
HS356_RS00225 (pMUR050_040) 36219..36377 + 159 WP_012561180 hypothetical protein -
HS356_RS00230 (pMUR050_041) 36367..37065 + 699 WP_000646594 type IV secretion system protein virB8
HS356_RS00235 (pMUR050_042) 37076..37960 + 885 WP_000735067 TrbG/VirB9 family P-type conjugative transfer protein virB9
HS356_RS00240 (pMUR050_043) 37960..39120 + 1161 WP_000101711 type IV secretion system protein VirB10 virB10
HS356_RS00245 (pMUR050_044) 39162..40157 + 996 WP_000128596 ATPase, T2SS/T4P/T4SS family virB11
HS356_RS00250 (pMUR050_045) 40157..40690 + 534 WP_000731968 phospholipase D family protein -
HS356_RS00255 (pMUR050_046) 40864..41490 - 627 WP_000434930 DUF6710 family protein -
HS356_RS00260 (pMUR050_047) 41490..44726 - 3237 WP_011407157 MobF family relaxase -
HS356_RS00265 (pMUR050_048) 44726..46255 - 1530 WP_000342688 type IV secretion system DNA-binding domain-containing protein virb4
HS356_RS00270 (pMUR050_049) 46257..46673 - 417 WP_001532083 hypothetical protein -
HS356_RS00345 (pMUR050_050) 47186..47605 + 420 WP_000802909 plasmid stabilization protein StbA -
HS356_RS00280 (pMUR050_051) 47614..48330 + 717 WP_000861577 StbB family protein -
HS356_RS00285 (pMUR050_052) 48332..48700 + 369 WP_000414913 plasmid stabilization protein StbC -
HS356_RS00290 (pMUR050_053) 48882..49226 + 345 WP_000999874 hypothetical protein -
HS356_RS00295 (pMUR050_054) 49337..49657 - 321 WP_000211833 protein CcgAII -
HS356_RS00300 (pMUR050_055) 49712..49891 - 180 WP_000214483 protein CcgAI -
HS356_RS00305 (pMUR050_056) 50777..51016 - 240 WP_011407158 hypothetical protein -

Host bacterium

ID   726 GenBank   NC_007682
Plasmid name   pMUR050 Incompatibility group   IncN
Plasmid size   56634 bp Coordinate of oriT [Strand]   46583..47231 [+]
Host baterium   Escherichia coli

Cargo genes

Drug resistance gene   aadA2, lnu(F), qacE, sul1, armA, msr(E), mph(E), aph(3')-Ia
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -