Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   119104
Name   oriT_p202102843-3 in_silico
Organism   Shigella sonnei strain 202102843
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_OP038292 (35105..35193 [-], 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_p202102843-3
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTGTCCCGTTTTTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   12065 GenBank   WP_001387486
Name   nikB_OVP99_RS00245_p202102843-3 insolico UniProt ID   D9Z503
Length   899 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 899 a.a.        Molecular weight: 103861.32 Da        Isoelectric Point: 7.4288

>WP_001387486.1 MULTISPECIES: IncI1-type relaxase NikB [Enterobacteriaceae]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELDLSSSSQAEQPHRNRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIAQQAHYAKDNTDPVFHYILSWQAHESPRPEQIYDSVR
HTLKSLGLGEHQYVSAVHTDTDNLHVHVAVNRVHPVTGYLNCLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVHDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNRGGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
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 D9Z503


Auxiliary protein

ID   6899 GenBank   WP_001283947
Name   WP_001283947_p202102843-3 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   14128 GenBank   WP_001289278
Name   trbC_OVP99_RS00250_p202102843-3 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: 86924.02 Da        Isoelectric Point: 6.7713

>WP_001289278.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Enterobacteriaceae]
MSEHRVNPELLHRTAWGNPVWNALQSLNIYGFCLVASLVASFIWPLALPACLLFTLITMLVFSLQRWRCP
LRMPMTLECADPSQDRMIKRSLFSFWPTLFQYEVILESPASGIFYVGYQRVRDIGRELWLSMDDLTRHIM
FFATTGGGKTETIFAWAINPLCWARGFTLVDGKAQNDTARTIWYLARRFGREDDVEVINFMNGGKSRSEI
ILSGEKTRPQSNTWNPFCYSTEAFTAETMQSMLPQNVQGGEWQSRAIAMNKALVFGTKFWCVREGKTMSL
QMLREHMTLEGMAKLYCRGLDDQWPEEAIAPLRNYLQDVPGFDLSLVRTPSAWTEEPRKQHAYLSGQFSE
TFSTFTEAFGDIFAEDSGDIDIRDSIHSDRILMVMIPALDTSAHTTSALGRMFITQKSMILARDLGYRLE
GTDSDALEVKKYKGRFPYLCFLDEVGAYYTDRIAVEATQVRSLDFALILTAQDQERIEGQTTATNTATLM
QNTGTKFAGRIVSEGSTARTLKSAAGEEARARMNNLQRQDGIFGESWIDSPQISILMESKINVQELIELH
PGEFFSIFRGETVPSASFFIPDDEKSCSSDPVVINRYISVDAPRLDRLRRLVPRTTQRRIPSPENVSAII
GVLTAKPSRKRRKIRTEPHTIVDTFQQRIAGRQAAMAMLEEYDTDINARESALWETAVNTLKTTTREERR
IRYITLNRPELPETKEENQISVRAERAGINLLTLPQDNNHPTGRPVNGFHHKKNNRPDWDGMY

  Protein domains



No domain identified.


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 40571..80062

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
OVP99_RS00250 (p202102843-3__00051) 38287..40578 - 2292 WP_001289278 F-type conjugative transfer protein TrbC -
OVP99_RS00255 (p202102843-3__00052) 40571..41641 - 1071 WP_000151588 IncI1-type conjugal transfer protein TrbB trbB
OVP99_RS00260 (p202102843-3__00053) 41660..42868 - 1209 WP_000121263 IncI1-type conjugal transfer protein TrbA trbA
OVP99_RS00265 (p202102843-3__00054) 43175..43954 - 780 WP_323748291 protein FinQ -
OVP99_RS00270 (p202102843-3__00055) 44581..44733 + 153 WP_001387489 Hok/Gef family protein -
OVP99_RS00275 (p202102843-3__00056) 44805..45056 - 252 WP_001291964 hypothetical protein -
OVP99_RS00520 45557..45652 + 96 WP_000609148 DinQ-like type I toxin DqlB -
OVP99_RS00285 (p202102843-3__00058) 45717..45893 - 177 WP_001054898 hypothetical protein -
OVP99_RS00290 (p202102843-3__00059) 46076..46285 - 210 WP_001140543 hemolysin expression modulator Hha -
OVP99_RS00295 (p202102843-3__00060) 46383..46997 - 615 WP_000578648 plasmid IncI1-type surface exclusion protein ExcA -
OVP99_RS00300 (p202102843-3__00061) 47073..49241 - 2169 WP_000698360 IncI1-type conjugal transfer membrane protein TraY traY
OVP99_RS00305 (p202102843-3__00062) 49338..49922 - 585 WP_001037983 IncI1-type conjugal transfer protein TraX -
OVP99_RS00310 (p202102843-3__00063) 49951..51153 - 1203 WP_001387490 IncI1-type conjugal transfer protein TraW traW
OVP99_RS00315 (p202102843-3__00064) 51120..51734 - 615 WP_000337395 IncI1-type conjugal transfer protein TraV traV
OVP99_RS00320 (p202102843-3__00065) 51734..54778 - 3045 WP_001024789 IncI1-type conjugal transfer protein TraU traU
OVP99_RS00325 (p202102843-3__00066) 54868..55668 - 801 WP_001164783 IncI1-type conjugal transfer protein TraT traT
OVP99_RS00330 (p202102843-3__00067) 55652..55840 - 189 WP_001277253 putative conjugal transfer protein TraS -
OVP99_RS00335 (p202102843-3__00068) 55904..56308 - 405 WP_000086965 IncI1-type conjugal transfer protein TraR traR
OVP99_RS00340 (p202102843-3__00069) 56359..56886 - 528 WP_001055569 conjugal transfer protein TraQ traQ
OVP99_RS00345 (p202102843-3__00070) 56886..57590 - 705 WP_000801920 IncI1-type conjugal transfer protein TraP traP
OVP99_RS00350 (p202102843-3__00071) 57590..58879 - 1290 WP_001271994 conjugal transfer protein TraO traO
OVP99_RS00355 (p202102843-3__00072) 58882..59865 - 984 WP_001191879 IncI1-type conjugal transfer protein TraN traN
OVP99_RS00360 (p202102843-3__00073) 59876..60568 - 693 WP_000138552 DotI/IcmL family type IV secretion protein traM
OVP99_RS00365 (p202102843-3__00074) 60565..60912 - 348 WP_001055900 conjugal transfer protein traL
OVP99_RS00370 (p202102843-3__00075) 60930..64694 - 3765 WP_001141540 LPD7 domain-containing protein -
OVP99_RS00375 (p202102843-3__00076) 64784..65335 - 552 WP_000014586 phospholipase D family protein -
OVP99_RS00380 (p202102843-3__00077) 65350..65640 - 291 WP_001314267 hypothetical protein traK
OVP99_RS00385 (p202102843-3__00078) 65637..66785 - 1149 WP_001024972 plasmid transfer ATPase TraJ virB11
OVP99_RS00390 (p202102843-3__00079) 66782..67600 - 819 WP_000646098 IncI1-type conjugal transfer lipoprotein TraI traI
OVP99_RS00395 (p202102843-3__00080) 67597..68055 - 459 WP_001079808 IncI1-type conjugal transfer lipoprotein TraH -
OVP99_RS00400 (p202102843-3__00081) 68450..69034 - 585 WP_000977522 histidine phosphatase family protein -
OVP99_RS00405 (p202102843-3__00082) 69094..70296 - 1203 WP_000976357 conjugal transfer protein TraF -
OVP99_RS00410 (p202102843-3__00083) 70382..71206 - 825 WP_001238932 conjugal transfer protein TraE traE
OVP99_RS00415 (p202102843-3__00084) 71357..72511 - 1155 WP_001139956 tyrosine-type recombinase/integrase -
OVP99_RS00420 (p202102843-3__00085) 72986..73138 - 153 WP_214292692 hypothetical protein -
OVP99_RS00425 73301..73498 + 198 WP_071779819 pilus assembly protein PilV -
OVP99_RS00430 73501..73656 + 156 WP_001302705 hypothetical protein -
OVP99_RS00435 74032..74280 + 249 WP_001349157 hypothetical protein -
OVP99_RS00440 (p202102843-3__00087) 74277..75569 - 1293 WP_001390622 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
OVP99_RS00445 (p202102843-3__00088) 75569..76225 - 657 WP_001193549 A24 family peptidase -
OVP99_RS00450 (p202102843-3__00089) 76210..76770 - 561 WP_000014005 lytic transglycosylase domain-containing protein virB1
OVP99_RS00455 (p202102843-3__00090) 76780..77394 - 615 WP_000908227 type 4 pilus major pilin -
OVP99_RS00460 (p202102843-3__00091) 77411..78496 - 1086 WP_001208802 type II secretion system F family protein -
OVP99_RS00465 (p202102843-3__00092) 78509..80062 - 1554 WP_000362206 GspE/PulE family protein virB11
OVP99_RS00470 (p202102843-3__00093) 80073..80525 - 453 WP_001247337 type IV pilus biogenesis protein PilP -
OVP99_RS00475 (p202102843-3__00094) 80512..81807 - 1296 WP_000752782 type 4b pilus protein PilO2 -
OVP99_RS00480 (p202102843-3__00095) 81800..83482 - 1683 WP_000748144 PilN family type IVB pilus formation outer membrane protein -
OVP99_RS00485 (p202102843-3__00096) 83496..83933 - 438 WP_000539806 type IV pilus biogenesis protein PilM -
OVP99_RS00490 (p202102843-3__00097) 83933..85000 - 1068 WP_001360287 type IV pilus biogenesis lipoprotein PilL -

Host bacterium

ID   19536 GenBank   NZ_OP038292
Plasmid name   p202102843-3 Incompatibility group   IncI1
Plasmid size   89779 bp Coordinate of oriT [Strand]   35105..35193 [-]
Host baterium   Shigella sonnei strain 202102843

Cargo genes

Drug resistance gene   qnrS1, blaCTX-M-15
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrVA2