Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   108529
Name   oriT_pTBY01 in_silico
Organism   Trabulsiella odontotermitis strain TBY01
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP125782 (35994..36094 [+], 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_pTBY01
TATTTATTTTTTTATCTTTTAAATCAGTATGATAGCGTGATTTATCGCGCTGCGTTAGGTGTATAGCAGGTTAAGGGATAAAAAATCATCTTTTTTGGTAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   5698 GenBank   WP_012561166
Name   mobF_QMG90_RS22285_pTBY01 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   2739 GenBank   WP_001749975
Name   WP_001749975_pTBY01 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   6079 GenBank   WP_000342688
Name   t4cp2_QMG90_RS22290_pTBY01 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: 9136..17280

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
QMG90_RS22115 (QMG90_22115) 4975..6408 - 1434 WP_001288432 DNA cytosine methyltransferase -
QMG90_RS22120 (QMG90_22120) 6507..6779 + 273 Protein_9 IS1 family transposase -
QMG90_RS22125 (QMG90_22125) 6790..6996 - 207 WP_001749967 hypothetical protein -
QMG90_RS22130 (QMG90_22130) 7001..7648 - 648 WP_283284032 restriction endonuclease -
QMG90_RS22135 (QMG90_22135) 7698..8009 - 312 WP_001452736 hypothetical protein -
QMG90_RS22140 (QMG90_22140) 8045..8359 - 315 WP_001749965 TrbM/KikA/MpfK family conjugal transfer protein -
QMG90_RS22145 (QMG90_22145) 8460..8702 - 243 WP_283284033 hypothetical protein -
QMG90_RS22150 (QMG90_22150) 8718..8876 - 159 WP_315969388 H-NS family nucleoid-associated regulatory protein -
QMG90_RS22155 (QMG90_22155) 9136..9870 + 735 WP_001749963 lytic transglycosylase domain-containing protein virB1
QMG90_RS22160 (QMG90_22160) 9879..10160 + 282 WP_000440698 transcriptional repressor KorA -
QMG90_RS22165 (QMG90_22165) 10170..10463 + 294 WP_001749962 hypothetical protein virB2
QMG90_RS22170 (QMG90_22170) 10513..10830 + 318 WP_000496058 VirB3 family type IV secretion system protein virB3
QMG90_RS22175 (QMG90_22175) 10830..12467 + 1638 WP_283284034 hypothetical protein virb4
QMG90_RS22180 (QMG90_22180) 12409..13440 + 1032 WP_283284035 AAA family ATPase virb4
QMG90_RS22185 (QMG90_22185) 13458..14054 + 597 WP_283284036 type IV secretion system protein virB5
QMG90_RS22190 (QMG90_22190) 14184..14411 + 228 WP_001749959 IncN-type entry exclusion lipoprotein EexN -
QMG90_RS22195 (QMG90_22195) 14427..15467 + 1041 WP_001749958 type IV secretion system protein virB6
QMG90_RS22485 15569..15697 + 129 WP_071882546 conjugal transfer protein TraN -
QMG90_RS22200 (QMG90_22200) 15687..16385 + 699 WP_000646594 type IV secretion system protein virB8
QMG90_RS22205 (QMG90_22205) 16396..17280 + 885 WP_000735066 TrbG/VirB9 family P-type conjugative transfer protein virB9
QMG90_RS22210 (QMG90_22210) 17280..18439 + 1160 Protein_28 type IV secretion system protein VirB10 -
QMG90_RS22215 (QMG90_22215) 18488..19478 + 991 Protein_29 ATPase, T2SS/T4P/T4SS family -
QMG90_RS22220 (QMG90_22220) 19478..20011 + 534 WP_000792636 phospholipase D family protein -
QMG90_RS22490 20185..20472 - 288 Protein_31 DUF6710 family protein -
QMG90_RS22230 (QMG90_22230) 20739..20918 + 180 Protein_32 helix-turn-helix domain-containing protein -
QMG90_RS22235 (QMG90_22235) 20983..21687 + 705 WP_001067855 IS6-like element IS26 family transposase -

Host bacterium

ID   8964 GenBank   NZ_CP125782
Plasmid name   pTBY01 Incompatibility group   IncN
Plasmid size   51539 bp Coordinate of oriT [Strand]   35994..36094 [+]
Host baterium   Trabulsiella odontotermitis strain TBY01

Cargo genes

Drug resistance gene   qnrS1
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -