Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100451
Name   oriT_pZS50 in_silico
Organism   Escherichia coli
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   NC_019082 (45060..45688 [+], 629 nt)
oriT length   629 nt
IRs (inverted repeats)      IR1: 198..207, 211..220  (ATTGGGTGTT..AATACCTAAT)
 IR2:320..325, 331..336  (AAAAAA..TTTTTT)
  IR3: 395..404, 407..416  (GTATTCATGC..GCATGAATAC)
Location of nic site      301..302
Conserved sequence flanking the
  nic site    		  GGTGT|ATA
Note   predicted by the oriTfinder

  oriT sequence  


Download         Length: 629 nt

>oriT_pZS50
AGCGCCGCAGATAATCTGACCGATTACCTCCTGAAACCAGGTCTATATAGGCCAAAAGTTCATCTGATACTTTTGCGGTTATTATTGGCATTCAGTCCTCACATTGTGCATTTTTTAAACAAAAAATTGGGATCTAACAAGCTGAAATCTTAGTATTACCAAAGTAATAAAGCAAACTCATTATAAAACAATGAGTTATTGGGTGTTTTTAATACCTAATTATTACCGAATATTGTTGCTATTTATTTTTTTATCTTTTAAATCAGTATGATAGCGTGATTTATCGCGCTGCGTTAGGTGTATAAGCAGGTTAAGGGATAAAAAATCATCTTTTTTGGTAGGGGCGATCTACGTAGGTTAAGGACTAACTGGCTAAAAAGCGTTCAATATTTCCGTATTCATGCTTGCATGAATACCAGTACAACAAAAGTACATCAAAATTACATCAAAATTACATCACTTGAAGGTTGACAGTACAACAAAATTACATCATTCTTTGGTCATGAGGTAGCCAGTACAACAAAAGTACATCAAAAGTACATCAAAATTACATCAAAATTACATCATTCTAAATGAGGGTACTATGAAGCCCAAAAGTATCAGGGCGGCACTTCAGTTGATGTTGCCGG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   522 GenBank   YP_006953648
Name   TraI_pZS50 insolico UniProt ID   _
Length   1080 a.a. PDB ID   
Note   putative relaxase

  Relaxase protein sequence


Download         Length: 1080 a.a.        Molecular weight: 120419.59 Da        Isoelectric Point: 6.5483

>YP_006953648.1 TraI (plasmid) [Escherichia coli]
MLDITTITRQNVTSVVGYYSDAKDDYYSKDSSFTSWQGTGAEALGLSGDVESARFKELLVGEIDTFTHMQ
RHVGDAKKERLGYDLTFSAPKGVSMQALIHGDKTIIEAHEKAVAAAVREAEKLAQARTTRQGKSVTQNTN
NLVVATFRHETSRALDPDLHTHAFVMNMTQREDGQWRALKNDELMRNKMHLGDVYKQELALELTKAGYEL
RYNSKNNTFDMAHFSDEQIRAFSRRSEQIEKGLAAMGLTRETADAQTKSRVSMATREKKTEHSREEIHQE
WASRAKTLGIDFDNREWQGHGKPLEADIARNMAPDFTSPEVKADRAIQFAVKSLSERDASFERQKLIQIA
NKQVLGHATIADVEKAYLKAVQKGAIIEGEARYQSTLKVGASVMAETLTRKEWIDSLTNSGMRADKARFA
VDDGIKNGRLKKTSHRVTTVEGIRLERSILTIESRGRGQMPRQLTAEIAGQLLAGKTLKKEQMRAVTEIV
TSKDRFVAAHGYAGTGKSYMTMAAKELLESQGLKVTALAPYGTQKKALEDDGLPARTVAAFLKAKDKKLD
EKSVVFIDEAGVIPARQMKQLMEVIEKHNARAVFLGDTSQTKAVEAGKPFEQLIKAGMQTSYMKDIQRQK
NEVLLEAVKYAAEGNAARALKNITGVNELKEEAPRLSQLADRYLSLSSEQQDATLIISGTNASRKTLNDY
IRGNLGLAGTGETFTLLDRVDSTQAERRDSRYFSKGQIIIPEQDYKNGMKRGESYQVLDTGPGNKLTVES
SSGEQIAFSPRTHTKLSVYQAVSAELAPGDKVMVTRNDKTLDVANGDRFTVKTVEGEKLTLEDKKGRTVE
LDKKQASYLSYAYATTVHKSQGLTCDRVLFNIDTKSLTTSKDVFYVGISRARHEVEIFTDDKKSLASSVS
RDSPKTTAAEIDRFFGLEARFKDIGRDTSLETRSAEKGLPEATGESMAFNQKPDEHNMTTGTDYQPVSNA
EDAFHLKQNPMDDSVGLRRHEAQQNDAELAHDYAAADDQQWSAQEYADYEHYAEASDYDFDSSIYDDYAM
PQTSQAEQSHTGKEHTHEHEHEHEEGGHEI

  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



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 24876..44732

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HS908_RS00105 20408..20910 + 503 Protein_20 GNAT family N-acetyltransferase -
HS908_RS00110 (D616_p72022) 20967..21959 - 993 WP_003107582 TniB family NTP-binding protein -
HS908_RS00115 (D616_p72003) 21956..22387 - 432 Protein_22 Mu transposase C-terminal domain-containing protein -
HS908_RS00120 (D616_p72034) 22441..23145 - 705 WP_001067855 IS6-like element IS26 family transposase -
HS908_RS00125 23444..23677 - 234 WP_001191790 hypothetical protein -
HS908_RS00130 (D616_p72004) 23791..24105 - 315 WP_001749965 TrbM/KikA/MpfK family conjugal transfer protein -
HS908_RS00135 (D616_p72035) 24102..24446 - 345 WP_001749964 hypothetical protein -
HS908_RS00140 (D616_p72020) 24462..24833 - 372 WP_011867773 H-NS family nucleoid-associated regulatory protein -
HS908_RS00145 (D616_p72019) 24876..25610 + 735 WP_001749963 lytic transglycosylase domain-containing protein virB1
HS908_RS00150 (D616_p72018) 25619..25900 + 282 WP_000440698 transcriptional repressor KorA -
HS908_RS00155 (D616_p72017) 25911..26204 + 294 WP_001749962 hypothetical protein virB2
HS908_RS00160 (D616_p72016) 26254..26571 + 318 WP_000496058 VirB3 family type IV secretion system protein virB3
HS908_RS00165 (D616_p72015) 26571..29171 + 2601 WP_001749961 VirB4 family type IV secretion/conjugal transfer ATPase virb4
HS908_RS00170 (D616_p72014) 29189..29902 + 714 WP_001749960 type IV secretion system protein virB5
HS908_RS00175 29910..30137 + 228 WP_001749959 IncN-type entry exclusion lipoprotein EexN -
HS908_RS00180 (D616_p72013) 30153..31193 + 1041 WP_001749958 type IV secretion system protein virB6
HS908_RS00185 (D616_p72012) 31264..31422 + 159 WP_012561180 hypothetical protein -
HS908_RS00190 (D616_p72011) 31412..32110 + 699 WP_000646594 type IV secretion system protein virB8
HS908_RS00195 (D616_p72010) 32121..33007 + 887 Protein_38 TrbG/VirB9 family P-type conjugative transfer protein -
HS908_RS00200 (D616_p72009) 33007..34167 + 1161 WP_000101710 type IV secretion system protein VirB10 virB10
HS908_RS00205 (D616_p72008) 34210..35205 + 996 WP_000128596 ATPase, T2SS/T4P/T4SS family virB11
HS908_RS00210 (D616_p72007) 35205..35738 + 534 WP_000792636 phospholipase D family protein -
HS908_RS00300 35913..36365 - 453 WP_001749956 DUF6710 family protein -
HS908_RS00220 36639..37292 + 654 Protein_43 EamA family transporter -
HS908_RS00225 (D616_p72006) 37324..38523 - 1200 WP_012579085 tetracycline efflux MFS transporter Tet(A) -
HS908_RS00230 (D616_p72005) 38629..39279 + 651 WP_000164043 tetracycline resistance transcriptional repressor TetR(A) -
HS908_RS00235 (D616_p72036) 39312..39554 - 243 WP_000844627 transposase -
HS908_RS00240 39788..39961 - 174 WP_001749978 hypothetical protein -
HS908_RS00245 (D616_p72037) 39961..43203 - 3243 WP_001749977 MobF family relaxase -
HS908_RS00250 (D616_p72038) 43203..44732 - 1530 WP_001749976 type IV secretion system DNA-binding domain-containing protein virb4
HS908_RS00255 (D616_p72039) 44734..45150 - 417 WP_001749975 hypothetical protein -
HS908_RS00305 45643..46062 + 420 WP_001749974 plasmid stabilization protein StbA -
HS908_RS00265 (D616_p72041) 46071..46787 + 717 WP_001749973 StbB family protein -
HS908_RS00270 (D616_p72042) 46789..47157 + 369 WP_000414913 plasmid stabilization protein StbC -
HS908_RS00275 47339..47683 + 345 WP_000999874 hypothetical protein -
HS908_RS00280 (D616_p72043) 48002..48442 + 441 WP_000861760 translesion error-prone DNA polymerase V autoproteolytic subunit MucA -
HS908_RS00285 (D616_p72044) 48430..49695 + 1266 WP_001749980 translesion error-prone DNA polymerase V subunit MucB -

Host bacterium

ID   912 GenBank   NC_019082
Plasmid name   pZS50 Incompatibility group   IncN
Plasmid size   51556 bp Coordinate of oriT [Strand]   45060..45688 [+]
Host baterium   Escherichia coli

Cargo genes

Drug resistance gene   dfrA12, aadA2, qacE, sul1, qnrA1, blaCARB-2, tet(A)
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -