Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   103348
Name   oriT_pSTY-blaCTX-M-65 in_silico
Organism   Salmonella enterica subsp. enterica serovar Typhi strain SAL-18-0989 isolate B
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_MH579767 (25224..25312 [-], 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_pSTY-blaCTX-M-65
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGCAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTGCACATCCTGTCCCGTTTTTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2506 GenBank   WP_006855641
Name   nikB_H5B51_RS00190_pSTY-blaCTX-M-65 insolico UniProt ID   A0A620WL05
Length   899 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 899 a.a.        Molecular weight: 104006.42 Da        Isoelectric Point: 7.3526

>WP_006855641.1 MULTISPECIES: IncI1-type relaxase NikB [Enterobacteriaceae]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELDLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIARQAHYAKDDTDPVFHYILSWQSHESPRPEQIYDSVR
HTLKSLGLADHQYVSAVHTDTDNLHVHVAVNRVHPETGYLNRLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVHDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDKSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(62-314)


  Protein structure


Source ID Structure
AlphaFold DB A0A620WL05


Auxiliary protein

ID   1073 GenBank   WP_001283947
Name   WP_001283947_pSTY-blaCTX-M-65 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   2280 GenBank   WP_001289275
Name   trbC_H5B51_RS00195_pSTY-blaCTX-M-65 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: 86957.15 Da        Isoelectric Point: 6.7713

>WP_001289275.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Enterobacteriaceae]
MSEHRVNPELLHRTAWGNPVWNALQSLNIYGFCLVASLVASFIWPLALPACLLFTLITMLVFSLQRWRCP
LRMPMTLECADPSQDRMIKRSLFSFWPTLFQYEVILESPASGIFYVGYQRVRDIGRELWLSMDDLTRHIM
FFATTGGGKTETIFAWAINPLCWARGFTLVDGKAQNDTARTIWYLARRFGREDDVEVINFMNGGKSRSEI
ILSGEKTRPQSNTWNPFCYSTEAFTAETMQSMLPQNVQGGEWQSRAIAMNKALVFGTKFWCVREGKTMSL
QMLREHMTLEGMAKLYCRGLDDQWPEEAIAPLRNYLQDVPGFDLSLVRTPSAWTEEPRKQHAYLSGQFSE
TFSTFTEAFGDIFAEDSGDIDIRDSIHSDRILMVMIPALDTSAHTTSALGRMFITQKSMILARDLGYRLE
GTDSDALEVKKYKGRFPYLCFLDEVGAYYTDRIAVEATQVRSLDFALILMAQDQERIEGQTTATNTATLM
QNTGTKFAGRIVSEGSTARTLKSAAGEEARARMNNLQRQDGIFGESWIDSPQISILMESKINVQELIELH
PGEFFSIFRGETVPSASFFIPDDEKSCSSDPVVINRYISVDAPRLDRLRRLVPRTTQRRIPSPENVSAII
GVLTAKPSRKRRKIRTEPHTIVDTFQQRIAGRQAAMAMLEEYDTDINARESALWETAVNTLKTTTREERR
IRYITLNRPELPETKEENQISVRAERAGINLLTLPQDNNHLTGRPVNGFHHKKTNRPDWDGMY

  Protein domains



No domain identified.


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 30690..69579

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
H5B51_RS00195 28406..30697 - 2292 WP_001289275 F-type conjugative transfer protein TrbC -
H5B51_RS00200 30690..31760 - 1071 WP_000151583 IncI1-type conjugal transfer protein TrbB trbB
H5B51_RS00205 31779..32987 - 1209 WP_001383960 IncI1-type conjugal transfer protein TrbA trbA
H5B51_RS00210 33294..34073 - 780 WP_275450201 protein FinQ -
H5B51_RS00215 34700..34852 + 153 WP_001387489 Hok/Gef family protein -
H5B51_RS00220 34924..35175 - 252 WP_001291964 hypothetical protein -
H5B51_RS00755 35676..35771 + 96 WP_000609148 DinQ-like type I toxin DqlB -
H5B51_RS00230 35836..36012 - 177 WP_001054897 hypothetical protein -
H5B51_RS00235 36404..36613 + 210 WP_000062603 HEAT repeat domain-containing protein -
H5B51_RS00240 36685..37347 - 663 WP_000644796 plasmid IncI1-type surface exclusion protein ExcA -
H5B51_RS00245 37418..39586 - 2169 WP_058649949 DotA/TraY family protein traY
H5B51_RS00250 39683..40267 - 585 WP_001037996 IncI1-type conjugal transfer protein TraX -
H5B51_RS00255 40296..41498 - 1203 WP_001189156 IncI1-type conjugal transfer protein TraW traW
H5B51_RS00260 41465..42079 - 615 WP_000337399 IncI1-type conjugal transfer protein TraV traV
H5B51_RS00265 42079..45123 - 3045 WP_001024776 IncI1-type conjugal transfer protein TraU traU
H5B51_RS00270 45213..46013 - 801 WP_001164792 IncI1-type conjugal transfer protein TraT traT
H5B51_RS00275 45997..46185 - 189 WP_001277255 putative conjugal transfer protein TraS -
H5B51_RS00280 46249..46653 - 405 WP_000086960 IncI1-type conjugal transfer protein TraR traR
H5B51_RS00285 46704..47231 - 528 WP_001055569 conjugal transfer protein TraQ traQ
H5B51_RS00290 47231..47935 - 705 WP_023155244 IncI1-type conjugal transfer protein TraP traP
H5B51_RS00295 47935..49224 - 1290 WP_001271994 conjugal transfer protein TraO traO
H5B51_RS00300 49227..50210 - 984 WP_021513963 IncI1-type conjugal transfer protein TraN traN
H5B51_RS00305 50221..50913 - 693 WP_000138552 DotI/IcmL family type IV secretion protein traM
H5B51_RS00310 50910..51257 - 348 WP_001055900 conjugal transfer protein traL
H5B51_RS00315 51275..55042 - 3768 WP_058649948 LPD7 domain-containing protein -
H5B51_RS00320 55132..55683 - 552 WP_000014584 phospholipase D family protein -
H5B51_RS00325 55698..55988 - 291 WP_001299214 hypothetical protein traK
H5B51_RS00330 55985..57133 - 1149 WP_001024976 plasmid transfer ATPase TraJ virB11
H5B51_RS00335 57130..57948 - 819 WP_000646097 IncI1-type conjugal transfer lipoprotein TraI traI
H5B51_RS00340 57945..58403 - 459 WP_001079808 IncI1-type conjugal transfer lipoprotein TraH -
H5B51_RS00345 58798..59382 - 585 WP_000977520 histidine phosphatase family protein -
H5B51_RS00350 59442..60644 - 1203 WP_000976353 conjugal transfer protein TraF -
H5B51_RS00355 60730..61554 - 825 WP_058649947 conjugal transfer protein TraE traE
H5B51_RS00360 61705..62859 - 1155 WP_001139955 site-specific integrase -
H5B51_RS00765 63441..63665 + 225 Protein_72 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
H5B51_RS00370 63662..65098 - 1437 WP_015058913 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
H5B51_RS00375 65086..65742 - 657 WP_001193551 A24 family peptidase -
H5B51_RS00380 65727..66287 - 561 WP_000014005 lytic transglycosylase domain-containing protein virB1
H5B51_RS00385 66297..66911 - 615 WP_000908228 type 4 pilus major pilin -
H5B51_RS00390 66928..68013 - 1086 WP_001208803 type II secretion system F family protein -
H5B51_RS00395 68026..69579 - 1554 WP_000362204 ATPase, T2SS/T4P/T4SS family virB11
H5B51_RS00400 69590..70042 - 453 WP_058649963 type IV pilus biogenesis protein PilP -
H5B51_RS00405 70029..71324 - 1296 WP_058649964 type 4b pilus protein PilO2 -
H5B51_RS00410 71317..72999 - 1683 WP_000748143 PilN family type IVB pilus formation outer membrane protein -
H5B51_RS00415 73013..73450 - 438 WP_000539811 type IV pilus biogenesis protein PilM -
H5B51_RS00420 73450..74517 - 1068 WP_021513968 type IV pilus biogenesis lipoprotein PilL -

Host bacterium

ID   3791 GenBank   NZ_MH579767
Plasmid name   pSTY-blaCTX-M-65 Incompatibility group   IncI
Plasmid size   120037 bp Coordinate of oriT [Strand]   25224..25312 [-]
Host baterium   Salmonella enterica subsp. enterica serovar Typhi strain SAL-18-0989 isolate B

Cargo genes

Drug resistance gene   blaTEM-1B, aph(4)-Ia, aac(3)-IVa, blaCTX-M-65
Virulence gene   -
Metal resistance gene   arsH, arsA
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrVA2, AcrIF11