Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   103433
Name   oriT_Sa42-TC5-92k in_silico
Organism   Salmonella enterica subsp. enterica serovar Meleagridis strain Sa42
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_MW881232 (38434..38522 [-], 89 nt)
oriT length   89 nt
IRs (inverted repeats)     _
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 89 nt

>oriT_Sa42-TC5-92k
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGCAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTGCACATCCTGTCCCGTTTTTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2559 GenBank   WP_001306778
Name   nikB_KHU49_RS00265_Sa42-TC5-92k insolico UniProt ID   Q79VV7
Length   899 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 899 a.a.        Molecular weight: 104010.41 Da        Isoelectric Point: 7.4265

>WP_001306778.1 MULTISPECIES: IncI1-type relaxase NikB [Enterobacteriaceae]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELNLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIARQAHYAKDDTDPVFHYILSWQSHESPRPEQIYDSVR
HTLKSLGLADHQYVSAVHTDTDNLHVHVAVNRVHPETGYLNRLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVNDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDRSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(62-314)


  Protein structure


Source ID Structure
AlphaFold DB Q79VV7


Auxiliary protein

ID   1105 GenBank   WP_001283947
Name   WP_001283947_Sa42-TC5-92k insolico UniProt ID   A0A142CMC2
Length   110 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 110 a.a.        Molecular weight: 12613.57 Da        Isoelectric Point: 10.7463

>WP_001283947.1 MULTISPECIES: IncI1-type relaxosome accessory protein NikA [Enterobacteriaceae]
MSDSAVRKKSEVRQKTVVRTLRFSPVEDETIRKKAEDSGLTVSAYIRNAALNKRINSRTDDAFLKELMRL
GRMQKHLFVQGKRTGDKEYAEVLVAITELTNTLRKQLMEG

  Protein domains



No domain identified.



  Protein structure


Source ID Structure
AlphaFold DB A0A142CMC2


T4CP

ID   2350 GenBank   WP_021497839
Name   trbC_KHU49_RS00270_Sa42-TC5-92k insolico UniProt ID   _
Length   763 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 763 a.a.        Molecular weight: 86967.19 Da        Isoelectric Point: 7.0662

>WP_021497839.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Enterobacteriaceae]
MSEHRVNPELLHRTAWGNPVWNALQSLNIYGFCLVASLVASFIWPLALPACLLFTLITMLVFSLQRWRCP
LRMPMTLKCADPSQDRMIKRSLFSFWPTLFQYEVILESPANGIFYVGYQRVRDIGRELWLSMDDLTRHIM
FFATTGGGKTETIFAWAINPLCWARGFTLVDGKAQNDTARTIWYLARRFGREDDVEVINFMNGGKSRSEI
ILSGEKTRPQSNTWNPFCYSTEAFTAETMQSMLPQNVQGGEWQSRAIAMNKALVFGTKFWCVREGKTMSL
QMLREHMTLEGMAKLYCRGLDDQWPEEAIAPLRNYLQDVPGFDLSLVRTPSAWTEEPRKQHAYLSGQFSE
TFSTFTEAFGDIFAEDSGDIDIRDSIHSDRILMVMIPALDTSAHTTSALGRMFITQKSMILARDLGYRLE
GTDSDALEVKKYKGRFPYLCFLDEVGAYYTDRIAVEATQVRSLDFALILMAQDQERIEGQTTATNTATLM
QNTGTKFAGRIVSEGSTARTLKSAAGEEARARMNNLQRQDGIFGESWIDSPQISILMESKINVQELIELH
PGEFFSIFRGETVPSASFFIPDDEKSCSSDPVVINRYISVDAPRLDRLRRLVPRTTQRRIPSPENVSAII
GVLTAKPSRKRRKIRTEPHTIVDTFQQRIAGRQAAMAMLEEYDTDINARESALWETAVNTLKTTTREERR
IRYITLNRPELPETKEENQISVRAERAGINLLTLPQDNNHPTGRPVNGFHHKKTNRPDWDGMY

  Protein domains



No domain identified.


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 43900..82779

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
KHU49_RS00270 (AOIMBMGF_00050) 41616..43907 - 2292 WP_021497839 F-type conjugative transfer protein TrbC -
KHU49_RS00275 (AOIMBMGF_00051) 43900..44970 - 1071 WP_000151583 IncI1-type conjugal transfer protein TrbB trbB
KHU49_RS00280 (AOIMBMGF_00052) 44989..46197 - 1209 WP_000121273 IncI1-type conjugal transfer protein TrbA trbA
KHU49_RS00285 (AOIMBMGF_00053) 46489..46641 + 153 WP_001387489 Hok/Gef family protein -
KHU49_RS00290 (AOIMBMGF_00054) 46713..46964 - 252 WP_001291964 hypothetical protein -
KHU49_RS00545 47463..47558 + 96 WP_001303310 DinQ-like type I toxin DqlB -
KHU49_RS00295 47623..47907 - 285 WP_014640317 hypothetical protein -
KHU49_RS00300 (AOIMBMGF_00056) 48131..48340 + 210 WP_000062602 HEAT repeat domain-containing protein -
KHU49_RS00305 (AOIMBMGF_00057) 48412..49074 - 663 WP_000644792 plasmid IncI1-type surface exclusion protein ExcA -
KHU49_RS00310 (AOIMBMGF_00058) 49139..51307 - 2169 WP_077250315 DotA/TraY family protein traY
KHU49_RS00315 (AOIMBMGF_00059) 51404..51907 - 504 Protein_63 IncI1-type conjugal transfer protein TraX -
KHU49_RS00320 (AOIMBMGF_00060) 51883..53064 - 1182 WP_212634698 IncI1-type conjugal transfer protein TraW traW
KHU49_RS00325 (AOIMBMGF_00061) 53031..53645 - 615 WP_000337399 IncI1-type conjugal transfer protein TraV traV
KHU49_RS00330 (AOIMBMGF_00062) 53645..56689 - 3045 WP_001024776 IncI1-type conjugal transfer protein TraU traU
KHU49_RS00335 (AOIMBMGF_00063) 56779..57579 - 801 WP_001164792 IncI1-type conjugal transfer protein TraT traT
KHU49_RS00340 (AOIMBMGF_00064) 57563..57751 - 189 WP_001277255 putative conjugal transfer protein TraS -
KHU49_RS00345 (AOIMBMGF_00065) 57815..58219 - 405 WP_000086960 IncI1-type conjugal transfer protein TraR traR
KHU49_RS00350 (AOIMBMGF_00066) 58270..58797 - 528 WP_001055569 conjugal transfer protein TraQ traQ
KHU49_RS00355 (AOIMBMGF_00067) 58797..59501 - 705 WP_023155244 IncI1-type conjugal transfer protein TraP traP
KHU49_RS00360 (AOIMBMGF_00068) 59501..60790 - 1290 WP_001271994 conjugal transfer protein TraO traO
KHU49_RS00365 (AOIMBMGF_00069) 60793..61776 - 984 WP_021513963 IncI1-type conjugal transfer protein TraN traN
KHU49_RS00370 (AOIMBMGF_00070) 61787..62479 - 693 WP_000138552 DotI/IcmL family type IV secretion protein traM
KHU49_RS00375 (AOIMBMGF_00071) 62476..62823 - 348 WP_001055900 conjugal transfer protein traL
KHU49_RS00380 (AOIMBMGF_00072) 62841..66608 - 3768 WP_006855639 LPD7 domain-containing protein -
KHU49_RS00385 (AOIMBMGF_00073) 66698..67249 - 552 WP_000014584 phospholipase D family protein -
KHU49_RS00390 (AOIMBMGF_00074) 67264..67554 - 291 WP_001299214 hypothetical protein traK
KHU49_RS00395 (AOIMBMGF_00075) 67551..68432 - 882 Protein_79 plasmid transfer ATPase TraJ -
KHU49_RS00400 (AOIMBMGF_00076) 68485..69189 - 705 WP_001067858 IS6-like element IS26 family transposase -
KHU49_RS00405 (AOIMBMGF_00077) 69255..69527 - 273 Protein_81 plasmid transfer ATPase TraJ -
KHU49_RS00410 (AOIMBMGF_00078) 69524..70342 - 819 WP_000646097 IncI1-type conjugal transfer lipoprotein TraI traI
KHU49_RS00415 (AOIMBMGF_00079) 70339..70797 - 459 WP_001079808 IncI1-type conjugal transfer lipoprotein TraH -
KHU49_RS00420 (AOIMBMGF_00080) 71192..71776 - 585 WP_124770274 histidine phosphatase family protein -
KHU49_RS00425 (AOIMBMGF_00081) 71836..73038 - 1203 WP_000976357 conjugal transfer protein TraF -
KHU49_RS00430 (AOIMBMGF_00082) 73124..73948 - 825 WP_015058912 conjugal transfer protein TraE traE
KHU49_RS00435 (AOIMBMGF_00083) 74099..75253 - 1155 WP_001139955 site-specific integrase -
KHU49_RS00540 75559..75795 - 237 Protein_88 hypothetical protein -
KHU49_RS00440 75871..76089 + 219 WP_245394391 shufflon protein D' -
KHU49_RS00445 76388..76564 - 177 WP_096040819 shufflon protein C' -
KHU49_RS00450 (AOIMBMGF_00087) 76994..78286 - 1293 WP_039719938 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
KHU49_RS00455 (AOIMBMGF_00088) 78286..78942 - 657 WP_001193551 A24 family peptidase -
KHU49_RS00460 (AOIMBMGF_00089) 78927..79487 - 561 WP_000014005 lytic transglycosylase domain-containing protein virB1
KHU49_RS00465 (AOIMBMGF_00090) 79497..80111 - 615 WP_000908228 type 4 pilus major pilin -
KHU49_RS00470 (AOIMBMGF_00091) 80128..81213 - 1086 WP_001208803 type II secretion system F family protein -
KHU49_RS00475 (AOIMBMGF_00092) 81226..82779 - 1554 WP_000362204 ATPase, T2SS/T4P/T4SS family virB11
KHU49_RS00480 (AOIMBMGF_00093) 82790..83242 - 453 WP_001247333 type IV pilus biogenesis protein PilP -
KHU49_RS00485 (AOIMBMGF_00094) 83229..84524 - 1296 WP_000752776 type 4b pilus protein PilO2 -
KHU49_RS00490 (AOIMBMGF_00095) 84517..86199 - 1683 WP_000748143 PilN family type IVB pilus formation outer membrane protein -
KHU49_RS00495 (AOIMBMGF_00096) 86213..86650 - 438 WP_000539811 type IV pilus biogenesis protein PilM -
KHU49_RS00500 (AOIMBMGF_00097) 86650..87717 - 1068 WP_021513968 type IV pilus biogenesis lipoprotein PilL -

Host bacterium

ID   3876 GenBank   NZ_MW881232
Plasmid name   Sa42-TC5-92k Incompatibility group   IncI1
Plasmid size   91784 bp Coordinate of oriT [Strand]   38434..38522 [-]
Host baterium   Salmonella enterica subsp. enterica serovar Meleagridis strain Sa42

Cargo genes

Drug resistance gene   blaCTX-M-24
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -