Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   104852
Name   oriT_pS178-2.1 in_silico
Organism   Proteus penneri strain S178-2
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP059691 (24603..24703 [+], 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_pS178-2.1
TATTTATTTTTTTATTTTTTAAATCAGTGTGATAGCGTGATTTATCGCGCTGCGTTAGGTGTATAGCAGGTTAAGGGATAAAAAATCATCTTTTTTGGTAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3437 GenBank   WP_011407157
Name   mobF_H1225_RS18165_pS178-2.1 insolico UniProt ID   A0A740S2B6
Length   1078 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1078 a.a.        Molecular weight: 120179.41 Da        Isoelectric Point: 6.5766

>WP_011407157.1 MULTISPECIES: MobF family relaxase [Enterobacterales]
MLDITTITRQNVTSVVGYYSDAKDDYYSKDSSFTSWQGTGAEALGLSGDVESARFKELLVGEIDTFTHMQ
RHVGDAKKERLGYDLTFSAPKGVSMQALIHGDKTIIEAHEKAVAAAVREAEKLAQARTTRQGKSVTQNTN
NLVVATFRHETSRALDPDLHTHAFVMNMTQREDGQWRALKNDELMRNKMHLGDVYKQELALELTKAGYEL
RYNSKNNTFDMAHFSDEQIRAFSRRSEQIEKGLAAMGLTRETADAQTKSRVSMATREKKTEHSREEIHQE
WASRAKTLGIDFDNREWQGHGKPLEADIARNMAPDFTSPEVKADRAIQFAVKSLSERDASFERQKLIQIA
NKQVLGHATIADVEKAYLKAVQKGAIIEGEARYQSTLKVGASVMAETLTRKEWIDSLTNSGMRADKARFA
VDDGIKNGRLKKTSHRVTTVEGIRLERSILTIESRGRGQMPRQLTAEIAGQLLSGKTLKKEQMRAVTEIV
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 A0A740S2B6


Auxiliary protein

ID   1526 GenBank   WP_001532083
Name   WP_001532083_pS178-2.1 insolico UniProt ID   A8R734
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_001532083.1 MULTISPECIES: hypothetical protein [Enterobacterales]
MPIITAKVSDELLAYIDLVSGGNRSDYLRRCLEAGPGDRESGLKIVADRLSDVNRKLDYLFDRASDADFG
PLRDELKAITETLSGVKFPPAGQMMLHESLAIETLILLRSIAEPGKTKAAKAEVERNGYKVWEPKKER

  Protein domains



No domain identified.



  Protein structure


Source ID Structure
AlphaFold DB A8R734


T4CP

ID   3379 GenBank   WP_000342688
Name   t4cp2_H1225_RS18170_pS178-2.1 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: 7613..24036

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
H1225_RS18055 3482..4039 + 558 WP_001235713 recombinase family protein -
H1225_RS18060 4222..5082 + 861 WP_000027057 broad-spectrum class A beta-lactamase TEM-1 -
H1225_RS18065 5283..5480 - 198 WP_000844102 hypothetical protein -
H1225_RS18070 5485..5994 - 510 WP_000893479 restriction endonuclease -
H1225_RS18075 6182..6493 - 312 WP_001452736 hypothetical protein -
H1225_RS18080 6529..6843 - 315 WP_000734776 TrbM/KikA/MpfK family conjugal transfer protein -
H1225_RS18085 6806..7183 - 378 WP_000504251 hypothetical protein -
H1225_RS18090 7199..7549 - 351 WP_024129965 H-NS family nucleoid-associated regulatory protein -
H1225_RS18095 7613..8347 + 735 WP_000033783 lytic transglycosylase domain-containing protein virB1
H1225_RS18100 8356..8637 + 282 WP_000440698 transcriptional repressor KorA -
H1225_RS18105 8647..8940 + 294 WP_000209137 TrbC/VirB2 family protein virB2
H1225_RS18110 8990..9307 + 318 WP_000496058 VirB3 family type IV secretion system protein virB3
H1225_RS18115 9307..11907 + 2601 WP_001200711 VirB4 family type IV secretion/conjugal transfer ATPase virb4
H1225_RS18120 11925..12638 + 714 WP_000749362 type IV secretion system protein virB5
H1225_RS18125 12646..12873 + 228 WP_000734973 IncN-type entry exclusion lipoprotein EexN -
H1225_RS18130 12889..13929 + 1041 WP_000886022 type IV secretion system protein virB6
H1225_RS18360 14030..14158 + 129 WP_071882546 conjugal transfer protein TraN -
H1225_RS18135 14148..14846 + 699 WP_000646594 type IV secretion system protein virB8
H1225_RS18140 14857..15741 + 885 WP_000735067 TrbG/VirB9 family P-type conjugative transfer protein virB9
H1225_RS18145 15741..16901 + 1161 WP_000101711 type IV secretion system protein VirB10 virB10
H1225_RS18150 16943..17938 + 996 WP_000128596 ATPase, T2SS/T4P/T4SS family virB11
H1225_RS18155 17938..18471 + 534 WP_000731968 phospholipase D family protein -
H1225_RS18160 18645..19271 - 627 WP_000434930 DUF6710 family protein -
H1225_RS18165 19271..22507 - 3237 WP_011407157 MobF family relaxase -
H1225_RS18170 22507..24036 - 1530 WP_000342688 type IV secretion system DNA-binding domain-containing protein virb4
H1225_RS18175 24038..24454 - 417 WP_001532083 hypothetical protein -
H1225_RS18180 24967..25386 + 420 WP_000802909 plasmid stabilization protein StbA -
H1225_RS18185 25395..26111 + 717 WP_000861577 StbB family protein -
H1225_RS18190 26113..26481 + 369 WP_000414913 plasmid stabilization protein StbC -
H1225_RS18195 26663..27007 + 345 WP_015059326 hypothetical protein -
H1225_RS18200 27118..27438 - 321 WP_000211833 protein CcgAII -
H1225_RS18205 27493..27672 - 180 WP_000214483 protein CcgAI -
H1225_RS18210 28504..29013 - 510 WP_000129958 antirestriction protein ArdA -

Host bacterium

ID   5290 GenBank   NZ_CP059691
Plasmid name   pS178-2.1 Incompatibility group   IncN
Plasmid size   44070 bp Coordinate of oriT [Strand]   24603..24703 [+]
Host baterium   Proteus penneri strain S178-2

Cargo genes

Drug resistance gene   blaTEM-1B, qepA1
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -