Detailed information of oriT

oriT


The information of the oriT region


oriTDB ID   100818
Name   oriT_p931IncI1 in_silico
Organism   Salmonella enterica subsp. enterica serovar Typhimurium strain ST931R
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   NZ_CP016387 (78855..78964 [+], 110 nt)
oriT length   110 nt
IRs (inverted repeats)      IR1: 24..31, 35..42  (GTCGGGGC..GCCCTGAC)
 IR2: 49..65, 72..88  (GTAATTGTAATAGCGTC..GACGGTATTACAATTAC)
Location of nic site      96..97
Conserved sequence flanking the
  nic site  
 
 CATCCTG|T
Note   predicted by the oriTfinder

  oriT sequence  


Download         Length: 110 nt

>oriT_p931IncI1
TCACTTCAGGCTCCTTACGGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTGTCCCGTTTTTCAGG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase


ID   890 GenBank   WP_039005629
Name   NikB_p931IncI1 insolico UniProt ID   _
Length   899 a.a. PDB ID   
Note   putative relaxase

  Relaxase protein sequence


Download         Length: 899 a.a.        Molecular weight: 103950.51 Da        Isoelectric Point: 7.4195

>WP_039005629.1 MULTISPECIES: IncI1-type relaxase NikB [Enterobacteriaceae]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELDLSSSSQAEQPHRNRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIAQQAHYAKDNTDPVFHYILSWQAHESPRPEQIYDSVR
HTLKSLGLGEHQYVSAVHTDTDNLHVHVAVNRVHPVTGYLNCLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFHEYVAQTAVAGLRSEPVHDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNRKGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPENRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDKSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGELVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFKRDPRMGFEPEGNDGQFNQVFAEMVAW
YNVTGFSEHGNYVITRPDVDQHREVSERGYRNYMDSNTYRDGAQPVQDSENRWEPPTPV

  Protein domains


Predicted by InterproScan.

(62-314)


  Protein structure



No available structure.




T4SS


T4SS were predicted by using oriTfinder2.

Region 1: 32312..67919

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
BBC45_RS26765 27374..28441 + 1068 WP_001360287 type IV pilus biogenesis lipoprotein PilL -
BBC45_RS23690 (BBC45_00575) 28441..28878 + 438 WP_000539807 type IV pilus biogenesis protein PilM -
BBC45_RS23695 (BBC45_00580) 28892..30574 + 1683 WP_000748143 PilN family type IVB pilus formation outer membrane protein -
BBC45_RS23700 (BBC45_00585) 30567..31862 + 1296 WP_000752780 type 4b pilus protein PilO2 -
BBC45_RS23705 (BBC45_00590) 31849..32301 + 453 WP_001247337 type IV pilus biogenesis protein PilP -
BBC45_RS23710 (BBC45_00595) 32312..33865 + 1554 WP_000362206 ATPase, T2SS/T4P/T4SS family virB11
BBC45_RS23715 (BBC45_00600) 33878..34963 + 1086 WP_001208802 type II secretion system F family protein -
BBC45_RS23720 (BBC45_00605) 34980..35594 + 615 WP_000908226 type 4 pilus major pilin -
BBC45_RS23725 (BBC45_00610) 35604..36164 + 561 WP_000014005 lytic transglycosylase domain-containing protein virB1
BBC45_RS23730 (BBC45_00615) 36149..36805 + 657 WP_001193549 A24 family peptidase -
BBC45_RS23735 (BBC45_00620) 36805..38097 + 1293 WP_001350014 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
BBC45_RS27545 38154..38279 - 126 Protein_49 transposase -
BBC45_RS23740 (BBC45_00625) 38487..39311 + 825 WP_069601577 conjugal transfer protein TraE traE
BBC45_RS23745 (BBC45_00630) 39397..40599 + 1203 WP_000976348 conjugal transfer protein TraF -
BBC45_RS23750 (BBC45_00635) 40659..41243 + 585 WP_000977522 histidine phosphatase family protein -
BBC45_RS23755 (BBC45_00640) 41638..42096 + 459 WP_022630640 IncI1-type conjugal transfer lipoprotein TraH -
BBC45_RS23760 (BBC45_00645) 42093..42911 + 819 WP_000866663 IncI1-type conjugal transfer lipoprotein TraI traI
BBC45_RS23765 (BBC45_00650) 42908..44056 + 1149 WP_001024972 plasmid transfer ATPase TraJ virB11
BBC45_RS26770 44053..44343 + 291 WP_001299214 hypothetical protein traK
BBC45_RS23770 (BBC45_00655) 44358..44909 + 552 WP_022630639 phospholipase D family protein -
BBC45_RS23775 (BBC45_00660) 44999..48766 + 3768 WP_022630638 LPD7 domain-containing protein -
BBC45_RS23780 (BBC45_00665) 48784..49131 + 348 WP_001055900 conjugal transfer protein traL
BBC45_RS23785 (BBC45_00670) 49128..49820 + 693 WP_000138552 DotI/IcmL family type IV secretion protein traM
BBC45_RS23790 (BBC45_00675) 49831..50814 + 984 WP_022630637 IncI1-type conjugal transfer protein TraN traN
BBC45_RS23795 (BBC45_00680) 50817..52106 + 1290 WP_001271994 conjugal transfer protein TraO traO
BBC45_RS23800 (BBC45_00685) 52106..52810 + 705 WP_000801920 IncI1-type conjugal transfer protein TraP traP
BBC45_RS23805 (BBC45_00690) 52810..53337 + 528 WP_001055569 conjugal transfer protein TraQ traQ
BBC45_RS23810 (BBC45_00695) 53388..53792 + 405 WP_001422824 IncI1-type conjugal transfer protein TraR traR
BBC45_RS23815 (BBC45_00700) 53856..54044 + 189 WP_001277253 putative conjugal transfer protein TraS -
BBC45_RS23820 (BBC45_00705) 54028..54828 + 801 WP_022630636 IncI1-type conjugal transfer protein TraT traT
BBC45_RS23825 (BBC45_00710) 54918..57962 + 3045 WP_022630635 IncI1-type conjugal transfer protein TraU traU
BBC45_RS26775 57962..58576 + 615 WP_000337399 IncI1-type conjugal transfer protein TraV traV
BBC45_RS23830 (BBC45_00715) 58543..59745 + 1203 WP_001189156 IncI1-type conjugal transfer protein TraW traW
BBC45_RS23835 (BBC45_00720) 59774..60358 + 585 WP_001037987 IncI1-type conjugal transfer protein TraX -
BBC45_RS23840 (BBC45_00725) 60455..62623 + 2169 WP_000698357 DotA/TraY family protein traY
BBC45_RS23845 (BBC45_00730) 62697..63347 + 651 WP_001178506 plasmid IncI1-type surface exclusion protein ExcA -
BBC45_RS23850 (BBC45_00735) 63419..63628 - 210 WP_000062603 HEAT repeat domain-containing protein -
BBC45_RS28045 64020..64196 + 177 WP_001054897 hypothetical protein -
BBC45_RS28535 64261..64356 - 96 WP_001303310 DinQ-like type I toxin DqlB -
BBC45_RS23855 (BBC45_00740) 64855..65106 + 252 WP_001291964 hypothetical protein -
BBC45_RS23860 (BBC45_00745) 65178..65330 - 153 WP_001331364 Hok/Gef family protein -
BBC45_RS23865 (BBC45_00750) 65622..66830 + 1209 WP_016245570 IncI1-type conjugal transfer protein TrbA trbA
BBC45_RS23870 (BBC45_00755) 66849..67919 + 1071 WP_000151583 IncI1-type conjugal transfer protein TrbB trbB
BBC45_RS23875 (BBC45_00760) 67912..70203 + 2292 WP_024178322 F-type conjugative transfer protein TrbC -
BBC45_RS28385 71261..71623 + 363 WP_085004988 CPBP family intramembrane glutamic endopeptidase -


Host bacterium


ID   1278 GenBank   NZ_CP016387
Plasmid name   p931IncI1 Incompatibility group   IncI1
Plasmid size   93202 bp Coordinate of oriT [Strand]   78855..78964 [+]
Host baterium   Salmonella enterica subsp. enterica serovar Typhimurium strain ST931R

Cargo genes


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