Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100284
Name   oriT_pMAK2 in_silico
Organism   Salmonella enterica subsp. enterica serovar Dublin
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   NC_009980 (53538..54186 [+], 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_pMAK2
AGCGCCGCAGATAATCTGACCGATTACCTCCTGAAACCAGGTCTATATAGGCCAAAAGTTCATCTGATACTTTTGCGGTTATTATTGGCATTCAGTCCTCACATTGTGCATTTCTTAAACAAAAGATTGGGATCTAACAAGCTGAAATCTTAGTATTACCAAAGTAATAAAGCAAACTCATTATAAAACAATGAGTTATTAGGTGTTTTTAATACCTAATTATTACCGAATATTGACGCTATTTATTTTTTTATTTTTTAAATCAGTGTGATAGCGTGATTTATCGCGCTGCGTTAGGTGTATAGCAGGTTAAGGGATAAAAAATCATCTTTTTTGGTAGGAGCGATCTACGTAGGTTAAGGACTAACTGACTAAAAAGCGTTCAATATTCCGTATTCATGCTTGCATGAATACCAGTACAACACTATTACAACAAAAGTACATCAAAATTACATCAAAAGTACATCACTTGAAGGTTGACAGTACAACAGAATTACATCATTATCTGGTCATGAGGTAGCCAGTACAACAAAAGTACATCAAAAATACATCATAAATACATCAGAAATACATCAAAATTACATCATTCTAAATGAGGGTACTATGAAGCCCAAAAGTATCAGGGCGGCACTTCAGTTGATGTTGCCGG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   355 GenBank   YP_001551814
Name   TraI_pMAK2 insolico UniProt ID   A8R732
Length   1078 a.a. PDB ID   
Note   putative relaxase

  Relaxase protein sequence


Download         Length: 1078 a.a.        Molecular weight: 120163.41 Da        Isoelectric Point: 6.5766

>YP_001551814.1 TraI protein (plasmid) [Salmonella enterica subsp. enterica serovar Dublin]
MLDITTITRQNVTSVVGYYSDAKDDYYSKDSSFTSWQGTGAEALGLSGDVESARFKELLVGEIDTFTHMQ
RHVGDAKKERLGYDLTFSAPKGVSMQALIHGDKTIIEAHEKAVAAAVREAEKLAQARTTRQGKSVTQNTN
NLVVATFRHETSRALDPDLHTHAFVMNMTQREDGQWRALKNDELMRNKMHLGDVYKQELALELTKAGYEL
RYNSKNNTFDMAHFSDEQIRAFSRRSEQIEKGLAAMGLTRETADAQTKSRVSMATREKKTEHSREEIHQE
WASRAKTLGIDFDNREWQGHGKPLEADIARNMAPDFTSPEVKADRAIQFAVKSLSERDASFERQKLIQIA
NKQVLGHATIADVEKAYLKAVQKGAIIEGEARYQSTLKVGASVMAETLTRKEWIDSLTNSGMRADKARFA
VDDGIKNGRLKKTSHRVTTVEGIRLERSILTIESRGRGQMPRQLTAEIAGQLLAGKTLKKEQMRAVTEIV
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
AlphaFold DB A8R732


T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 25654..35979

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HXC00_RS00095 (MAK2.14) 21234..22094 + 861 WP_000027057 broad-spectrum class A beta-lactamase TEM-1 -
HXC00_RS00100 (MAK2.15) 22458..23261 + 804 WP_001082319 aminoglycoside O-phosphotransferase APH(3'')-Ib -
HXC00_RS00105 (MAK2.16) 23261..24097 + 837 WP_000480968 aminoglycoside O-phosphotransferase APH(6)-Id -
HXC00_RS00110 (MAK2.17c) 24223..24456 - 234 WP_001191790 hypothetical protein -
HXC00_RS00115 (MAK2.18c) 24570..24884 - 315 WP_000734776 TrbM/KikA/MpfK family conjugal transfer protein -
HXC00_RS00120 (MAK2.19c) 24847..25224 - 378 WP_000504251 hypothetical protein -
HXC00_RS00125 (MAK2.20c) 25240..25611 - 372 WP_011867773 H-NS family nucleoid-associated regulatory protein -
HXC00_RS00130 (MAK2.21) 25654..26388 + 735 WP_000033783 lytic transglycosylase domain-containing protein virB1
HXC00_RS00135 (MAK2.22) 26397..26678 + 282 WP_000440698 transcriptional repressor KorA -
HXC00_RS00140 (MAK2.23) 26688..26981 + 294 WP_000209137 TrbC/VirB2 family protein virB2
HXC00_RS00145 (MAK2.24) 27031..27348 + 318 WP_000496058 VirB3 family type IV secretion system protein virB3
HXC00_RS00150 (MAK2.25) 27348..29948 + 2601 WP_001200711 VirB4 family type IV secretion/conjugal transfer ATPase virb4
HXC00_RS00155 (MAK2.26) 29966..30679 + 714 WP_000749362 type IV secretion system protein virB5
HXC00_RS00160 (MAK2.27) 30687..30914 + 228 WP_000734973 IncN-type entry exclusion lipoprotein EexN -
HXC00_RS00165 (MAK2.28) 30930..31970 + 1041 WP_000886022 type IV secretion system protein virB6
HXC00_RS00170 (MAK2.29) 32041..32199 + 159 WP_012561180 hypothetical protein -
HXC00_RS00175 (MAK2.30) 32189..32887 + 699 WP_000646594 type IV secretion system protein virB8
HXC00_RS00180 (MAK2.31) 32898..33782 + 885 WP_000735067 TrbG/VirB9 family P-type conjugative transfer protein virB9
HXC00_RS00185 (MAK2.32) 33782..34942 + 1161 WP_000101711 type IV secretion system protein VirB10 virB10
HXC00_RS00190 (MAK2.33) 34984..35979 + 996 WP_000128596 ATPase, T2SS/T4P/T4SS family virB11
HXC00_RS00195 (MAK2.34) 35979..36512 + 534 WP_000731968 phospholipase D family protein -
HXC00_RS00330 36686..36925 - 240 Protein_39 DUF6710 family protein -
HXC00_RS00205 36971..38722 - 1752 Protein_40 Tn3-like element TnAs1 family transposase -
HXC00_RS00210 38726..39118 + 393 WP_001351729 isochorismatase family cysteine hydrolase -
HXC00_RS00215 (MAK2.35) 39256..40140 + 885 WP_000058717 EamA family transporter -

Host bacterium

ID   746 GenBank   NC_009980
Plasmid name   pMAK2 Incompatibility group   IncN
Plasmid size   61571 bp Coordinate of oriT [Strand]   53538..54186 [+]
Host baterium   Salmonella enterica subsp. enterica serovar Dublin

Cargo genes

Drug resistance gene   aph(3')-IIa, aph(6)-Ic, blaTEM-1B, aph(3'')-Ib, aph(6)-Id, tet(A)
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -