Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   103007
Name   oriT_pIMP-SH1506 in_silico
Organism   Enterobacter cloacae strain CRE1506
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_KT989598 (13790..13890 [-], 101 nt)
oriT length   101 nt
IRs (inverted repeats)      80..85, 91..96  (AAAAAA..TTTTTT)
 20..26, 38..44  (TAAATCA..TGATTTA)
Location of nic site      62..63
Conserved sequence flanking the
  nic site    		  GGTGTATAGC
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 101 nt

>oriT_pIMP-SH1506
TATTTATTTTTTTATCTTTTAAATCAGTATGATAGCGTGATTTATCGCGCTGCGTTAGGTGTATAGCAGGTTAAGGGATAAAAAATCATCTTTTTTGGTAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2256 GenBank   WP_012561166
Name   TrwC_HTG98_RS00110_pIMP-SH1506 insolico UniProt ID   D7RU03
Length   1078 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1078 a.a.        Molecular weight: 120141.30 Da        Isoelectric Point: 6.5229

>WP_012561166.1 MULTISPECIES: MobF family relaxase [Gammaproteobacteria]
MLDITTITRQNVTSVVGYYSDAKDDYYSKDSSFTSWQGTGAEALGLSGDVESARFKELLVGEIDTFTHMQ
RHVGDAKKERLGYDLTFSAPKGVSMQALIHGDKTIIEAHEKAVAAAVREAEKLAQARTTRQGKSVTQNTN
NLVVATFRHETSRALDPDLHTHAFVMNMTQREDGQWRALKNDELMRNKMHLGDVYKQELALELTKAGYEL
RYNSKNNTFDMAHFSDEQIRAFSRRSEQIEKGLAAMGLTRETADAQTKSRVSMATREKKTEHSREEIHQE
WASRAKTLGIDFDNREWQGHGKPLEADIARNMAPDFTSPEVKADRAIQFAVKSLSERDASFERQKLIQIA
NKQVLGHATMADVEKAYLKAVQKGAIIEGEARYQSTLKVGASVMAETLTRKEWIDSLTNSGMRADKARFA
VDDGIKNGRLKKTSHRVTTVEGIRLERSILTIESRGRGQMPRQLTAEIAGQLLAGKTLKNEQMRAVTEIV
TSKDRFVAAHGYAGTGKSYMTMAAKELLESQGLKVTALAPYGTQKKALEDDGLPARTVAAFLKAKDKKLD
EKSVVFIDEAGVIPARQMKQLMEVIEKHNARAVFLGDTSQTKAVEAGKPFEQLIKAGMQTSYMKDIQRQK
NEVLLEAVKYAAEGNAARALKNITGVNELKEEAPRLAQLADRYLSLSSEQQDATLIISGTNASRKTLNDY
IRGNLGLAGTGETFTLLDRVDSTQAERRDSRYFSKGQIIIPEQDYKNGMKRGESYQVLDTGPGNKLTVES
SSGEQIAFSPRTHTKLSVYQAVSAELAPGDKVMVTRNDKTLDVANGDRFTVKTVEGEKLTLEDKKGRTVE
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 D7RU03


Auxiliary protein

ID   919 GenBank   WP_001749975
Name   WP_001749975_pIMP-SH1506 insolico UniProt ID   A0A5C2CVS6
Length   138 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 138 a.a.        Molecular weight: 15332.60 Da        Isoelectric Point: 5.9670

>WP_001749975.1 MULTISPECIES: hypothetical protein [Gammaproteobacteria]
MPIITAKVSDELLAYIDLVSGGNRSDYLRRCIEAGPGDRESGLKIVADRLSDVNRKLDYLFDRASDADFG
PLRDELKAITETLSGVKFPPAGQMMLHESLAIETLILLRSIAEPGKTKAAKAEVERNGYKVWEPKKER

  Protein domains



No domain identified.



  Protein structure


Source ID Structure
AlphaFold DB A0A5C2CVS6


T4CP

ID   1945 GenBank   WP_000342688
Name   t4cp2_HTG98_RS00105_pIMP-SH1506 insolico UniProt ID   _
Length   509 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 509 a.a.        Molecular weight: 57762.87 Da        Isoelectric Point: 9.6551

>WP_000342688.1 MULTISPECIES: type IV secretion system DNA-binding domain-containing protein [Enterobacterales]
MDDRERGLAFLFAITLPPVMVWFLVAKFTYGIDPSTAKYLIPYLVKNTFSLWPLWSALIAGWFIGVGGLI
AFIIYDKSRVFKGERFKKIYRGTELVRARTLADKTRERGVNQLTVANIPIPTYAENLHFSIAGTTGTGKT
TIFNELLFKSIIRGGKNIALDPNGGFLKNFYRPGDVILNAYDKRTEGWVFFNEIRRSYDYERLVNSIVQE
SPDMATEEWFGYGRLIFSEVSKKLHSLYSTVTMEEVIHWACNVDQKKLKEFLMGTPAEAIFSGSEKAVGS
ARFVLSKNLAPHLKMPEGNFSLRDWLDDGKPGTLFITWQEEMKRSLNPLISCWLDSIFSIVLGMGEKESR
INVFIDELESLQFLPNLNDALTKGRKSGLCVYAGYQTYSQLVKVYGRDMAQTILANMRSNIVLGGSRLGD
ETLDQMSRSLGEIEGEVERKESDPQKPWIVRKRRDVKVVRAVTPTEISMLPNLTGYLALPGDMPVAKFKA
KHVKYHRKNPVPGIELREI

  Protein domains


Predicted by InterproScan.

Type IV secretion-system coupling protein DNA-binding domain (TrwB_AAD_bind)

(113-489)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 30943..41268

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HTG98_RS00160 25964..26668 + 705 WP_001067855 IS6-like element IS26 family transposase -
HTG98_RS00165 26720..26959 - 240 Protein_32 IS6 family transposase -
HTG98_RS00170 27126..28517 - 1392 WP_014839878 ISKra4-like element ISKpn19 family transposase -
HTG98_RS00175 28554..29126 - 573 WP_001493762 recombinase family protein -
HTG98_RS00180 29263..29808 - 546 WP_001493763 plasmid pRiA4b ORF-3 family protein -
HTG98_RS00370 29949..30236 + 288 Protein_36 DUF6710 family protein -
HTG98_RS00190 30410..30943 - 534 WP_000792636 phospholipase D family protein -
HTG98_RS00195 30943..31938 - 996 WP_000128596 ATPase, T2SS/T4P/T4SS family virB11
HTG98_RS00200 31980..33140 - 1161 WP_000101710 type IV secretion system protein VirB10 virB10
HTG98_RS00205 33140..34024 - 885 WP_000735066 TrbG/VirB9 family P-type conjugative transfer protein virB9
HTG98_RS00210 34035..34733 - 699 WP_000646594 type IV secretion system protein virB8
HTG98_RS00215 34723..34881 - 159 WP_012561180 hypothetical protein -
HTG98_RS00220 34952..35992 - 1041 WP_001749958 type IV secretion system protein virB6
HTG98_RS00225 36008..36235 - 228 WP_001749959 IncN-type entry exclusion lipoprotein EexN -
HTG98_RS00230 36243..37007 - 765 WP_013149461 type IV secretion system protein virB5
HTG98_RS00235 36974..39574 - 2601 WP_001749961 VirB4 family type IV secretion/conjugal transfer ATPase virb4
HTG98_RS00240 39574..39891 - 318 WP_000496058 VirB3 family type IV secretion system protein virB3
HTG98_RS00245 39941..40234 - 294 WP_001749962 hypothetical protein virB2
HTG98_RS00250 40244..40525 - 282 WP_000440698 transcriptional repressor KorA -
HTG98_RS00255 40534..41268 - 735 WP_001749963 lytic transglycosylase domain-containing protein virB1
HTG98_RS00260 41311..41682 + 372 WP_011867773 H-NS family nucleoid-associated regulatory protein -
HTG98_RS00265 41698..42042 + 345 WP_001749964 hypothetical protein -
HTG98_RS00270 42039..42353 + 315 WP_001749965 TrbM/KikA/MpfK family conjugal transfer protein -
HTG98_RS00275 42467..42700 + 234 WP_001191790 hypothetical protein -
HTG98_RS00280 42750..43397 + 648 WP_015344958 restriction endonuclease -
HTG98_RS00285 43402..43608 + 207 WP_001749967 hypothetical protein -
HTG98_RS00290 43619..43891 - 273 Protein_57 IS1 family transposase -
HTG98_RS00295 43990..45423 + 1434 WP_001288432 DNA cytosine methyltransferase -

Host bacterium

ID   3450 GenBank   NZ_KT989598
Plasmid name   pIMP-SH1506 Incompatibility group   IncN
Plasmid size   54669 bp Coordinate of oriT [Strand]   13790..13890 [-]
Host baterium   Enterobacter cloacae strain CRE1506

Cargo genes

Drug resistance gene   qnrS1, blaIMP-4
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -