Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101392
Name   oriT_pCFS1932-2 in_silico
Organism   Yersinia enterocolitica subsp. palearctica strain CFS1932
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_SJZK02000012 (45398..45498 [+], 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_pCFS1932-2
TATTTATTTTTTTATTTTTTAAATCAGTATGATAGCGTGATTTATCGCGCTGCGTTAGGTGTATAGCAGGTTAAGGGATAAAAAATCATCTTTTTTGGTAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1275 GenBank   WP_000884351
Name   mobF_E0Z05_RS21340_pCFS1932-2 insolico UniProt ID   D7RVP6
Length   1076 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1076 a.a.        Molecular weight: 119897.16 Da        Isoelectric Point: 6.6071

>WP_000884351.1 MULTISPECIES: MobF family relaxase [Enterobacterales]
MLDITTITRQNVTSVVGYYSDAKDDYYSKDSSFTSWQGTGAEALGLSGDVESARFKELLVGEIDTFTHMQ
RHVGDAKKERLGYDLTFSAPKGVSMQALIHGDKTIIEAHEKAVAAAVREAEKLAQARTTRQGKSVTQNTN
NLVVATFRHETSRALDPDLHTHAFVMNMTQREDGQWRALKNDELMRNKMHLGDVYKQELALELTKAGYEL
RYNSKNNTFDMAHFSDEQIRAFSRRSEQIEKGLAAMGLTRETADAQTKSRVSMATREKKTEHSREEIHQE
WASRAKTLGIDFDNREWQGHGKPLEADIARNMAPDFTSPEVKADRAIQFAVKSLSERDASFERQKLIQIA
NKQVLGHATIADVEKAYLKAVQKGAIIEGEARYQSTLKVGASVMAETLTRKEWIDSLTNSGMRADKARFA
VDDGIKNGRLKKTSHRVTTVEGIRLERSILTIESRGRGQMPRQLTAEIAGQLLAGKTLKKEQMRAVTEIV
TSKDRFVAAHGYAGTGKSYMTMAAKELLESQGLKVTALAPYGTQKKALEDDGLPARTVAAFLKAKDKKLD
EKSVVFIDEAGVIPARQMKQLMEVIEKHNARAVFLGDTSQTKAVEAGKPFEQLIKAGMQTSYMKDIQRQK
NEVLLEAVKYAAEGNAARALKNITGVNELKEEAPRLAQLADRYLSLSSEQQDATLIISGTNASRKTLNDY
IRGNLGLAGTGETFTLLDRVDSTQAERRDSRYFSKGQIIIPEQDYKNGMKRGESYQVLDTGPGNKLTVES
ISGEQIAFSPRTHTKLSVYQAVSAELAPGDKVMVTRNDKTLDVANGDRFTVKTVEGEKLTLEDKKGRTVE
LDKKQASYLSYAYATTVHKSQGLTCDRVLFNIDTKSLTTSKDVFYVGISRARHEVEIFTDDKKSLASSVS
RDSPKTTAAEIDRFFGLEARFKDIGRDTSLETRSAEKGLPEATGESMAFNQKPDEHNMTTGTDYQPVSNA
EDAFHLKQNPMDDSVGLRRHEAQQNDAELAHDYAAADDQQWSAQEYADYEHYAEASDYDFDSSIYDDYAM
PQTSQAEQSHTGKEHTHEHEEGGHEI

  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 D7RVP6


Auxiliary protein

ID   454 GenBank   WP_001532083
Name   WP_001532083_pCFS1932-2 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   888 GenBank   WP_000342688
Name   t4cp2_E0Z05_RS21345_pCFS1932-2 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: 23614..44831

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
E0Z05_RS21205 (E0Z05_021200) 19743..20627 - 885 WP_000058717 EamA family transporter -
E0Z05_RS21210 (E0Z05_021205) 20765..21157 - 393 WP_001351729 isochorismatase family cysteine hydrolase -
E0Z05_RS21215 (E0Z05_021210) 21161..22912 + 1752 Protein_23 Tn3-like element TnAs1 family transposase -
E0Z05_RS21220 (E0Z05_021215) 23081..23614 - 534 WP_000731968 phospholipase D family protein -
E0Z05_RS21225 (E0Z05_021220) 23614..24609 - 996 WP_000128596 ATPase, T2SS/T4P/T4SS family virB11
E0Z05_RS21230 (E0Z05_021225) 24651..25811 - 1161 WP_000101712 type IV secretion system protein VirB10 virB10
E0Z05_RS21235 (E0Z05_021230) 25811..26695 - 885 WP_000735067 TrbG/VirB9 family P-type conjugative transfer protein virB9
E0Z05_RS21240 (E0Z05_021235) 26706..27404 - 699 WP_000646594 type IV secretion system protein virB8
E0Z05_RS21795 27394..27552 - 159 WP_012561180 hypothetical protein -
E0Z05_RS21245 (E0Z05_021240) 27623..28663 - 1041 WP_000886022 type IV secretion system protein virB6
E0Z05_RS21250 (E0Z05_021245) 28679..28906 - 228 WP_000734973 IncN-type entry exclusion lipoprotein EexN -
E0Z05_RS21255 (E0Z05_021250) 28914..29627 - 714 WP_000749362 type IV secretion system protein virB5
E0Z05_RS21260 (E0Z05_021255) 29645..32245 - 2601 WP_001200711 VirB4 family type IV secretion/conjugal transfer ATPase virb4
E0Z05_RS21265 (E0Z05_021260) 32245..32562 - 318 WP_000496058 VirB3 family type IV secretion system protein virB3
E0Z05_RS21270 (E0Z05_021265) 32612..32905 - 294 WP_000209137 TrbC/VirB2 family protein virB2
E0Z05_RS21275 (E0Z05_021270) 32915..33196 - 282 WP_000440698 transcriptional repressor KorA -
E0Z05_RS21280 (E0Z05_021275) 33205..33939 - 735 WP_000033783 lytic transglycosylase domain-containing protein virB1
E0Z05_RS21285 (E0Z05_021280) 33982..34353 + 372 WP_011867773 H-NS family nucleoid-associated regulatory protein -
E0Z05_RS21290 (E0Z05_021285) 34369..34746 + 378 WP_000504250 hypothetical protein -
E0Z05_RS21295 (E0Z05_021290) 34709..35023 + 315 WP_001749965 TrbM/KikA/MpfK family conjugal transfer protein -
E0Z05_RS21300 (E0Z05_021295) 35059..35370 + 312 WP_001452736 hypothetical protein -
E0Z05_RS21305 (E0Z05_021300) 35420..36067 + 648 WP_001532074 restriction endonuclease -
E0Z05_RS21310 (E0Z05_021305) 36072..36269 + 198 WP_013188474 hypothetical protein -
E0Z05_RS21315 (E0Z05_021310) 36289..36560 - 272 Protein_44 IS1 family transposase -
E0Z05_RS21320 (E0Z05_021315) 36654..38087 + 1434 WP_001288433 DNA cytosine methyltransferase -
E0Z05_RS21325 (E0Z05_021320) 38121..38987 - 867 Protein_46 type II site-specific deoxyribonuclease -
E0Z05_RS21330 (E0Z05_021325) 39042..39746 - 705 WP_001067855 IS6-like element IS26 family transposase -
E0Z05_RS21335 (E0Z05_021330) 39758..40072 - 315 WP_167710388 FipA -
E0Z05_RS21340 (E0Z05_021335) 40072..43302 - 3231 WP_000884351 MobF family relaxase -
E0Z05_RS21345 (E0Z05_021340) 43302..44831 - 1530 WP_000342688 type IV secretion system DNA-binding domain-containing protein virb4
E0Z05_RS21350 (E0Z05_021345) 44833..45249 - 417 WP_001532083 hypothetical protein -
E0Z05_RS21720 45751..46170 + 420 WP_000802909 plasmid stabilization protein StbA -
E0Z05_RS21360 (E0Z05_021355) 46179..46895 + 717 WP_000861577 StbB family protein -
E0Z05_RS21365 (E0Z05_021360) 46897..47265 + 369 WP_000414913 plasmid stabilization protein StbC -
E0Z05_RS21370 (E0Z05_021365) 47447..47791 + 345 WP_000999874 hypothetical protein -
E0Z05_RS21375 (E0Z05_021370) 47902..48222 - 321 WP_000211832 protein CcgAII -
E0Z05_RS21380 (E0Z05_021375) 48277..48456 - 180 WP_000214483 protein CcgAI -
E0Z05_RS21385 (E0Z05_021380) 49288..49797 - 510 WP_000129958 antirestriction protein ArdA -

Host bacterium

ID   1836 GenBank   NZ_SJZK02000012
Plasmid name   pCFS1932-2 Incompatibility group   IncN
Plasmid size   56991 bp Coordinate of oriT [Strand]   45398..45498 [+]
Host baterium   Yersinia enterocolitica subsp. palearctica strain CFS1932

Cargo genes

Drug resistance gene   sul2, aadA5, tet(A)
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -