Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   119103
Name   oriT_p201908234-4 in_silico
Organism   Shigella sonnei strain 201908234
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_OP038281 (30798..30886 [-], 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_p201908234-4
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTGTCCCGTTTTTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   12064 GenBank   WP_011264053
Name   nikB_OVP44_RS00225_p201908234-4 insolico UniProt ID   A0A767TAZ8
Length   899 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 899 a.a.        Molecular weight: 103882.34 Da        Isoelectric Point: 7.4198

>WP_011264053.1 MULTISPECIES: IncI1-type relaxase NikB [Enterobacteriaceae]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELNLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIAQQAHYAKDNTDPVFHYILSWQAHESPRPEQIYDSVR
HTLKSLGLGEHQYVSAVHTDTDNLHVHVAVNRVHPVTGYLNCLSWSQEKLSRACRELELKHGFAPDNGCW
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 A0A767TAZ8


Auxiliary protein

ID   6898 GenBank   WP_063119516
Name   WP_063119516_p201908234-4 insolico UniProt ID   _
Length   110 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 110 a.a.        Molecular weight: 12585.55 Da        Isoelectric Point: 10.6897

>WP_063119516.1 MULTISPECIES: IncI1-type relaxosome accessory protein NikA [Enterobacteriaceae]
MSDSAVKKKSEVRQKTVVRTLRFSPVEDETIRKKAEDSGLTVSAYIRNAALNKRINSRTDDAFLKELMRL
GRMQKHLFVQGKRTGDKEYAEVLVAITELTNTLRKQLMEG

  Protein domains



No domain identified.



  Protein structure



No available structure.




T4CP

ID   14127 GenBank   WP_011264051
Name   trbC_OVP44_RS00230_p201908234-4 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: 86954.10 Da        Isoelectric Point: 6.7713

>WP_011264051.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Enterobacteriaceae]
MSEHRVNPELLHRTAWGNPVWNALQSLNIYGFCLVASLVASFIWPLALPACLLFTLITMLVFSLQRWRCP
LRMPMTLECADPSQDRMIKRSLFSFWPTLFQYEVILESPASGIFYVGYQRVRDIGRELWLSMDDLTRHIM
FFATTGGGKTETIFAWAINPLCWARGFTLVDGKAQNDTARTIWYLARRFGREDDVEVINFMNGGKSRSEI
ILSGEKTRPQSNTWNPFCYSTEAFTAETMQSMLPQNVQGGEWQSRAIAMNKALVFGTKFWCVREGKTMSL
QMLREHMTLEGMAKLYCRGLDDQWPEEAIAPLRNYLQDVPGFDLSLVRTPSAWTEEPRKQHAYLSGQFSE
TFSTFTEAFGDIFAEDSGDIDIRDSIHSDRILMVMIPALDTSAHTTSALGRMFITQKSMILARDLGYRLE
GTDSDALEVKKYKGRFPYLCFLDEVGAYYTDRIAVEATQVRSLDFALILMAQDQERIEGQTTATNTATLM
QNTGTKFAGRIVSEGSTARTLKSAAGEEARARMNNLQRQDGIFGESWIDSPQISILMESKINVQELIELH
PGEFFSIFRGETVPSASFFIPDDEKSCSSDPVVINRYISVDAPRLDRLRRLVPRTTQRRIPSPENVSAII
GVLTAKPSRKRRKIRTEPHTIVDTFQQRIAGRQAAMAMLEEYDTDINARESALWETAVNTLKTTTREERR
IRYITLNRPELPETKEENQISVRAERAGINLLTLPQDNNHPTGRPVNGFHHKKNNRPDWDGMY

  Protein domains



No domain identified.


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 36264..75931

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
OVP44_RS00230 (p201908234-4__00045) 33980..36271 - 2292 WP_011264051 F-type conjugative transfer protein TrbC -
OVP44_RS00235 (p201908234-4__00046) 36264..37334 - 1071 WP_000151590 IncI1-type conjugal transfer protein TrbB trbB
OVP44_RS00240 (p201908234-4__00047) 37353..38561 - 1209 WP_107372241 IncI1-type conjugal transfer protein TrbA trbA
OVP44_RS00245 (p201908234-4__00048) 38868..39647 - 780 WP_275450201 protein FinQ -
OVP44_RS00250 (p201908234-4__00049) 40274..40426 + 153 WP_001387489 Hok/Gef family protein -
OVP44_RS00255 (p201908234-4__00050) 40498..40749 - 252 WP_001291964 hypothetical protein -
OVP44_RS00500 41250..41345 + 96 WP_000609148 DinQ-like type I toxin DqlB -
OVP44_RS00265 (p201908234-4__00052) 41410..41586 - 177 WP_001054898 hypothetical protein -
OVP44_RS00270 (p201908234-4__00053) 41952..42161 + 210 WP_000062603 HEAT repeat domain-containing protein -
OVP44_RS00275 (p201908234-4__00054) 42233..42907 - 675 WP_223866377 plasmid IncI1-type surface exclusion protein ExcA -
OVP44_RS00280 (p201908234-4__00055) 42957..45125 - 2169 WP_001774191 DotA/TraY family protein traY
OVP44_RS00285 (p201908234-4__00056) 45222..45806 - 585 WP_001037987 IncI1-type conjugal transfer protein TraX -
OVP44_RS00290 (p201908234-4__00057) 45835..47037 - 1203 WP_107372242 IncI1-type conjugal transfer protein TraW traW
OVP44_RS00295 (p201908234-4__00058) 47004..47618 - 615 WP_000337395 IncI1-type conjugal transfer protein TraV traV
OVP44_RS00300 (p201908234-4__00059) 47618..50662 - 3045 WP_107372243 IncI1-type conjugal transfer protein TraU traU
OVP44_RS00305 (p201908234-4__00060) 50752..51552 - 801 WP_107372244 IncI1-type conjugal transfer protein TraT traT
OVP44_RS00310 (p201908234-4__00061) 51536..51724 - 189 WP_001277253 putative conjugal transfer protein TraS -
OVP44_RS00315 (p201908234-4__00062) 51788..52192 - 405 WP_000086965 IncI1-type conjugal transfer protein TraR traR
OVP44_RS00320 (p201908234-4__00063) 52243..52770 - 528 WP_001055569 conjugal transfer protein TraQ traQ
OVP44_RS00325 (p201908234-4__00064) 52770..53474 - 705 WP_000801920 IncI1-type conjugal transfer protein TraP traP
OVP44_RS00330 (p201908234-4__00065) 53474..54763 - 1290 WP_001271994 conjugal transfer protein TraO traO
OVP44_RS00335 (p201908234-4__00066) 54766..55749 - 984 WP_001191879 IncI1-type conjugal transfer protein TraN traN
OVP44_RS00340 (p201908234-4__00067) 55760..56452 - 693 WP_000138552 DotI/IcmL family type IV secretion protein traM
OVP44_RS00345 (p201908234-4__00068) 56449..56796 - 348 WP_001055900 conjugal transfer protein traL
OVP44_RS00350 (p201908234-4__00069) 56814..60578 - 3765 WP_001141540 LPD7 domain-containing protein -
OVP44_RS00355 (p201908234-4__00070) 60668..61219 - 552 WP_000014586 phospholipase D family protein -
OVP44_RS00360 (p201908234-4__00071) 61234..61524 - 291 WP_001314267 hypothetical protein traK
OVP44_RS00365 (p201908234-4__00072) 61521..62669 - 1149 WP_001024972 plasmid transfer ATPase TraJ virB11
OVP44_RS00370 (p201908234-4__00073) 62666..63484 - 819 WP_097763371 IncI1-type conjugal transfer lipoprotein TraI traI
OVP44_RS00375 (p201908234-4__00074) 63481..63939 - 459 WP_001079808 IncI1-type conjugal transfer lipoprotein TraH -
OVP44_RS00380 (p201908234-4__00075) 64334..64918 - 585 WP_000977522 histidine phosphatase family protein -
OVP44_RS00385 (p201908234-4__00076) 64978..66180 - 1203 WP_267191420 conjugal transfer protein TraF -
OVP44_RS00390 (p201908234-4__00077) 66266..67090 - 825 WP_001545755 conjugal transfer protein TraE traE
OVP44_RS00395 (p201908234-4__00078) 67241..68395 - 1155 WP_001139958 tyrosine-type recombinase/integrase -
OVP44_RS00400 68891..69280 + 390 WP_223873413 shufflon protein D' -
OVP44_RS00405 69385..69540 + 156 WP_001302705 hypothetical protein -
OVP44_RS00505 69805..70012 + 208 Protein_81 hypothetical protein -
OVP44_RS00410 70009..70158 - 150 WP_001302708 hypothetical protein -
OVP44_RS00415 (p201908234-4__00080) 70251..71438 - 1188 Protein_83 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
OVP44_RS00420 (p201908234-4__00081) 71438..72094 - 657 WP_001193549 A24 family peptidase -
OVP44_RS00425 (p201908234-4__00082) 72079..72639 - 561 WP_000014005 lytic transglycosylase domain-containing protein virB1
OVP44_RS00430 (p201908234-4__00083) 72649..73263 - 615 WP_000908227 type 4 pilus major pilin -
OVP44_RS00435 (p201908234-4__00084) 73280..74365 - 1086 WP_001208802 type II secretion system F family protein -
OVP44_RS00440 (p201908234-4__00085) 74378..75931 - 1554 WP_001545756 GspE/PulE family protein virB11
OVP44_RS00445 (p201908234-4__00086) 75942..76394 - 453 WP_001247333 type IV pilus biogenesis protein PilP -
OVP44_RS00450 (p201908234-4__00087) 76381..77676 - 1296 WP_016245572 type 4b pilus protein PilO2 -
OVP44_RS00455 (p201908234-4__00088) 77669..79351 - 1683 WP_000748143 PilN family type IVB pilus formation outer membrane protein -
OVP44_RS00460 (p201908234-4__00089) 79365..79802 - 438 WP_001545758 type IV pilus biogenesis protein PilM -
OVP44_RS00465 (p201908234-4__00090) 79802..80869 - 1068 WP_001545759 type IV pilus biogenesis lipoprotein PilL -

Host bacterium

ID   19535 GenBank   NZ_OP038281
Plasmid name   p201908234-4 Incompatibility group   IncI1
Plasmid size   86101 bp Coordinate of oriT [Strand]   30798..30886 [-]
Host baterium   Shigella sonnei strain 201908234

Cargo genes

Drug resistance gene   blaCTX-M-3
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrVA2