Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   102465
Name   oriT_S8_VPH_Chula|unnamed2 in_silico
Organism   Salmonella enterica strain S8_VPH_Chula
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_JARVXA010000004 (31201..31301 [+], 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_S8_VPH_Chula|unnamed2
TATTTATTTTTTTATTTTTTAAATCAGTGTGATAGCGTGATTTATCGCGCTGCGTTAGGTGTATAGCAGGTTAAGGGATAAAAAATCATCTTTTTTGGTAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1839 GenBank   WP_011407157
Name   mobF_QAT84_RS25525_S8_VPH_Chula|unnamed2 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   757 GenBank   WP_000706094
Name   WP_000706094_S8_VPH_Chula|unnamed2 insolico UniProt ID   B6UZ32
Length   96 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 96 a.a.        Molecular weight: 10829.54 Da        Isoelectric Point: 8.5040

>WP_000706094.1 MULTISPECIES: hypothetical protein [Enterobacterales]
MKIVADRLSDVNRKLDYLFDRASDADFGPLRDELKAITETLSGVKFPPAGQMMLHESLAIETLILLRSIA
EPGKTKAAKAEVERNGYKVWEPKKER

  Protein domains



No domain identified.



  Protein structure


Source ID Structure
AlphaFold DB B6UZ32


T4CP

ID   1428 GenBank   WP_000342688
Name   t4cp2_QAT84_RS25530_S8_VPH_Chula|unnamed2 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: 14211..30634

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
QAT84_RS25415 (QAT84_25415) 10080..10637 + 558 WP_001235713 recombinase family protein -
QAT84_RS25420 (QAT84_25420) 10820..11680 + 861 WP_000027057 broad-spectrum class A beta-lactamase TEM-1 -
QAT84_RS25425 (QAT84_25425) 11881..12078 - 198 WP_000844102 hypothetical protein -
QAT84_RS25430 (QAT84_25430) 12083..12592 - 510 WP_000893479 restriction endonuclease -
QAT84_RS25435 (QAT84_25435) 12780..13091 - 312 WP_001452736 hypothetical protein -
QAT84_RS25440 (QAT84_25440) 13127..13441 - 315 WP_000734776 TrbM/KikA/MpfK family conjugal transfer protein -
QAT84_RS25445 (QAT84_25445) 13404..13781 - 378 WP_000504251 hypothetical protein -
QAT84_RS25450 (QAT84_25450) 13797..14168 - 372 WP_011867773 H-NS family nucleoid-associated regulatory protein -
QAT84_RS25455 (QAT84_25455) 14211..14945 + 735 WP_000033783 lytic transglycosylase domain-containing protein virB1
QAT84_RS25460 (QAT84_25460) 14954..15235 + 282 WP_000440698 transcriptional repressor KorA -
QAT84_RS25465 (QAT84_25465) 15245..15538 + 294 WP_000209137 TrbC/VirB2 family protein virB2
QAT84_RS25470 (QAT84_25470) 15588..15905 + 318 WP_000496058 VirB3 family type IV secretion system protein virB3
QAT84_RS25475 (QAT84_25475) 15905..18505 + 2601 WP_001200711 VirB4 family type IV secretion/conjugal transfer ATPase virb4
QAT84_RS25480 (QAT84_25480) 18523..19236 + 714 WP_000749362 type IV secretion system protein virB5
QAT84_RS25485 (QAT84_25485) 19244..19471 + 228 WP_000734973 IncN-type entry exclusion lipoprotein EexN -
QAT84_RS25490 (QAT84_25490) 19487..20527 + 1041 WP_000886022 type IV secretion system protein virB6
QAT84_RS25780 20628..20756 + 129 WP_071882546 conjugal transfer protein TraN -
QAT84_RS25495 (QAT84_25495) 20746..21444 + 699 WP_000646594 type IV secretion system protein virB8
QAT84_RS25500 (QAT84_25500) 21455..22339 + 885 WP_000735067 TrbG/VirB9 family P-type conjugative transfer protein virB9
QAT84_RS25505 (QAT84_25505) 22339..23499 + 1161 WP_000101711 type IV secretion system protein VirB10 virB10
QAT84_RS25510 (QAT84_25510) 23541..24536 + 996 WP_000128596 ATPase, T2SS/T4P/T4SS family virB11
QAT84_RS25515 (QAT84_25515) 24536..25069 + 534 WP_000731968 phospholipase D family protein -
QAT84_RS25520 (QAT84_25520) 25243..25869 - 627 WP_000434930 DUF6710 family protein -
QAT84_RS25525 (QAT84_25525) 25869..29105 - 3237 WP_011407157 MobF family relaxase -
QAT84_RS25530 (QAT84_25530) 29105..30634 - 1530 WP_000342688 type IV secretion system DNA-binding domain-containing protein virb4
QAT84_RS25535 (QAT84_25535) 30636..30926 - 291 WP_000706094 hypothetical protein -
QAT84_RS25540 (QAT84_25540) 31565..31984 + 420 WP_000802909 plasmid stabilization protein StbA -
QAT84_RS25545 (QAT84_25545) 31993..32709 + 717 WP_000861577 StbB family protein -
QAT84_RS25550 (QAT84_25550) 32711..33079 + 369 WP_000414913 plasmid stabilization protein StbC -
QAT84_RS25555 (QAT84_25555) 33261..33605 + 345 WP_015059326 hypothetical protein -
QAT84_RS25560 (QAT84_25560) 33716..34036 - 321 WP_000211833 protein CcgAII -
QAT84_RS25565 (QAT84_25565) 34091..34270 - 180 WP_000214483 protein CcgAI -
QAT84_RS25570 (QAT84_25570) 35155..35394 - 240 WP_015059329 hypothetical protein -

Host bacterium

ID   2909 GenBank   NZ_JARVXA010000004
Plasmid name   S8_VPH_Chula|unnamed2 Incompatibility group   IncN
Plasmid size   40254 bp Coordinate of oriT [Strand]   31201..31301 [+]
Host baterium   Salmonella enterica strain S8_VPH_Chula

Cargo genes

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