Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100458
Name   oriT_pHHA45 in_silico
Organism   Escherichia coli
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   NC_019098 (24741..25389 [+], 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_pHHA45
AGCGCCGCAGATAATCTGACCGATTACCTCCTGAAACCAGGTCTATATAGGCCAAAAGTTCATCTGATACTTTTGCGGTTATTATTGGCATTCAGTCCTCACATTGTGCATTTCTTAAACAAAAGATTGGGATCTAACAAGCTGAAATCTTAGTATTACCAAAGTAATAAAGCAAACTCATTATAAAACAATGAGTTATTAGGTGTTTTTAATACCTAATTATTACCGAATATTGACGCTATTTATTTTTTTATTTTTTAAATCAGTGTGATAGCGTGATTTATCGCGCTGCGTTAGGTGTATAGCAGGTTAAGGGATAAAAAATCATCTTTTTTGGTAGGAGCGATCTACGTAGGTTAAGGACTAACTGACTAAAAAGCGTTCAATATTCCGTATTCATGCTTGCATGAATACCAGTACAACACTATTACAACAAAAGTACATCAAAATTACATCAAAAGTACATCACTTGAAGGTTGACAGTACAACAGAATTACATCATTATCTGGTCATGAGGTAGCCAGTACAACAAAAGTACATCAAAAATACATCATAAATACATCAGAAATACATCAAAATTACATCATTCTAAATGAGGGTACTATGAAGCCCAAAAGTATCAGGGCGGCACTTCAGTTGATGTTGCCGG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   529 GenBank   YP_006954500
Name   TraI_pHHA45 insolico UniProt ID   I7EM40
Length   1078 a.a. PDB ID   
Note   putative relaxase

  Relaxase protein sequence


Download         Length: 1078 a.a.        Molecular weight: 120126.36 Da        Isoelectric Point: 6.5223

>YP_006954500.1 TraI (plasmid) [Escherichia coli]
MLDITTITRQNVTSVVGYYSDAKDDYYSKDSSFTSWQGTGAEALGLSGDVESARFKELLVGEIDTFTHMQ
RHVGDAKKERLGYDLTFSAPKGVSMQALIHGDKTIIEAHEKAVAAAVREAEKLAQARTTRQGKSVTQNTN
NLVVATFRHETSRALDPDLHTHAFVMNMTQREDGQWRALKNDELMRNKMHLGDVYKQELALELTKAGYEL
RYNSKNNTFDMAHFSDEQIRAFSRRSEQIEKGLAAMGLTRETADAQTKSRVSMATREKKTEHSREEIHQE
WASRAKTLGIDFDNREWQGHGKPLEADIARNMAPDFTSPEVKADRAIQFAVKSLSERDASFERQKLIQIA
NKQVLGHATIADVEKAYLKAVQKGAIIEGEARYQSTLKVGASVMAETLTRKEWIDSLTNSGMRADKARFA
VDDGIKNGRLKKTSHRVTTVEGIRLERSILTIESRGRGQMPRQLTAEIAGQLLSGKTLKKEQMRAVTEIV
TSKDRFVAAHGYAGTGKSYMTMAAKELLESQGLKVTALAPYGTQKKALEDDGLPARTVAAFLKAKDKKLD
EKSVVFIDEAGVIPARQMKQLMEVIEKHNARAVFLGDTSQTKAVEAGKPFEQLIKAGMQTSYMKDIQRQK
NEVLLEAVKYAAEGNAACALKNITGVNELKEEAPRLAQLADRYLSLSSEQQDATLIISGTNASRKTLNDY
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 I7EM40


T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 7990..24413

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HS959_RS00025 (D616_p79005) 3264..3614 + 351 Protein_4 WbuC family cupin fold metalloprotein -
HS959_RS00030 (D616_p79006) 3661..4536 - 876 WP_013188473 extended-spectrum class A beta-lactamase CTX-M-1 -
HS959_RS00035 (D616_p79007) 4894..5598 + 705 WP_001067855 IS6-like element IS26 family transposase -
HS959_RS00040 (D616_p79008) 5660..5857 - 198 WP_000844102 hypothetical protein -
HS959_RS00045 (D616_p79009) 5862..6503 - 642 WP_001694850 restriction endonuclease -
HS959_RS00050 6559..6792 - 234 WP_001191790 hypothetical protein -
HS959_RS00055 (D616_p79010) 6906..7220 - 315 WP_000734776 TrbM/KikA/MpfK family conjugal transfer protein -
HS959_RS00060 (D616_p79011) 7183..7560 - 378 WP_000504251 hypothetical protein -
HS959_RS00065 (D616_p79012) 7576..7947 - 372 WP_011867773 H-NS family nucleoid-associated regulatory protein -
HS959_RS00070 (D616_p79013) 7990..8724 + 735 WP_000033783 lytic transglycosylase domain-containing protein virB1
HS959_RS00075 (D616_p79014) 8733..9014 + 282 WP_000440698 transcriptional repressor KorA -
HS959_RS00080 (D616_p79015) 9024..9317 + 294 WP_000209137 TrbC/VirB2 family protein virB2
HS959_RS00085 (D616_p79016) 9367..9684 + 318 WP_000496058 VirB3 family type IV secretion system protein virB3
HS959_RS00090 (D616_p79017) 9684..12284 + 2601 WP_001200711 VirB4 family type IV secretion/conjugal transfer ATPase virb4
HS959_RS00095 (D616_p79018) 12302..13015 + 714 WP_000749362 type IV secretion system protein virB5
HS959_RS00100 (D616_p79019) 13023..13250 + 228 WP_000734973 IncN-type entry exclusion lipoprotein EexN -
HS959_RS00105 (D616_p79020) 13266..14306 + 1041 WP_000886022 type IV secretion system protein virB6
HS959_RS00110 14377..14535 + 159 WP_012561180 hypothetical protein -
HS959_RS00115 (D616_p79021) 14525..15223 + 699 WP_000646594 type IV secretion system protein virB8
HS959_RS00120 (D616_p79022) 15234..16118 + 885 WP_000735067 TrbG/VirB9 family P-type conjugative transfer protein virB9
HS959_RS00125 (D616_p79023) 16118..17278 + 1161 WP_000101711 type IV secretion system protein VirB10 virB10
HS959_RS00130 (D616_p79024) 17320..18315 + 996 WP_000128596 ATPase, T2SS/T4P/T4SS family virB11
HS959_RS00135 (D616_p79025) 18315..18848 + 534 WP_000731968 phospholipase D family protein -
HS959_RS00140 (D616_p79026) 19022..19648 - 627 WP_000434930 DUF6710 family protein -
HS959_RS00145 (D616_p79027) 19648..22884 - 3237 WP_015059325 MobF family relaxase -
HS959_RS00150 (D616_p79028) 22884..24413 - 1530 WP_000342688 type IV secretion system DNA-binding domain-containing protein virb4
HS959_RS00155 (D616_p79029) 24415..24831 - 417 WP_001532083 hypothetical protein -
HS959_RS00250 25344..25763 + 420 WP_000802909 plasmid stabilization protein StbA -
HS959_RS00165 (D616_p79031) 25772..26488 + 717 WP_000861577 StbB family protein -
HS959_RS00170 (D616_p79032) 26490..26858 + 369 WP_000414913 plasmid stabilization protein StbC -
HS959_RS00175 (D616_p79033) 27040..27384 + 345 WP_015059326 hypothetical protein -
HS959_RS00180 (D616_p79034) 27495..27815 - 321 WP_000211833 protein CcgAII -
HS959_RS00185 (D616_p79035) 27870..28037 - 168 WP_015059330 hypothetical protein -
HS959_RS00190 (D616_p79036) 28869..29378 - 510 WP_000129958 antirestriction protein ArdA -

Host bacterium

ID   919 GenBank   NC_019098
Plasmid name   pHHA45 Incompatibility group   IncN
Plasmid size   39510 bp Coordinate of oriT [Strand]   24741..25389 [+]
Host baterium   Escherichia coli

Cargo genes

Drug resistance gene   mph(A), blaCTX-M-1
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -