Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   103390
Name   oriT_pST1030-1B in_silico
Organism   Salmonella enterica subsp. enterica serovar Typhimurium
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_MT507880 (73111..73199 [-], 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_pST1030-1B
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTGTCCCGTTTTTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2531 GenBank   WP_001405892
Name   nikB_JYH31_RS00490_pST1030-1B insolico UniProt ID   A0A3V4WX06
Length   899 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 899 a.a.        Molecular weight: 103883.32 Da        Isoelectric Point: 7.3373

>WP_001405892.1 MULTISPECIES: IncI1-type relaxase NikB [Enterobacteriaceae]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELDLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
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 A0A3V4WX06


Auxiliary protein

ID   1093 GenBank   WP_001283947
Name   WP_001283947_pST1030-1B 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   2306 GenBank   WP_001289282
Name   trbC_JYH31_RS00495_pST1030-1B 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: 86969.12 Da        Isoelectric Point: 6.7713

>WP_001289282.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Enterobacteriaceae]
MSEHRVNPELLHRTAWGNPVWNALQSLNIYGFCLVASLVASFIWPLALPACLLFTLITMLVFSLQRWRCP
LRMPMTLECADPSQDRMIKRSLFSFWPTLFQYEVILESPASGIFYVGYQRVRDIGRELWLSMDDLTRHIM
FFATTGGGKTETIFAWAINPLCWARGFTLVDGKAQNDTARTIWYLARRFGREDDVEVINFMNGGKSRSEI
ILSGEKTRPQSNTWNPFCYSTEAFTAETMQSMLPQNVQGGEWQSRAIAMNKALVFGTKFWCVREGKTMSL
QMLREHMTLEGMARLYCRGLDDQWPEEAIAPLRNYLQDVPGFDLSLVRTPSAWTEEPRKQHAYLSGQFSE
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: 78577..116828

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
JYH31_RS00495 (ELPBMBEK_00078) 76293..78584 - 2292 WP_001289282 F-type conjugative transfer protein TrbC -
JYH31_RS00500 (ELPBMBEK_00079) 78577..79647 - 1071 WP_000151582 IncI1-type conjugal transfer protein TrbB trbB
JYH31_RS00505 (ELPBMBEK_00080) 79666..80874 - 1209 WP_000121273 IncI1-type conjugal transfer protein TrbA trbA
JYH31_RS00510 (ELPBMBEK_00081) 81166..81318 + 153 WP_001303307 Hok/Gef family protein -
JYH31_RS00515 81390..81623 - 234 WP_072148106 hypothetical protein -
JYH31_RS00760 (ELPBMBEK_00082) 82090..82185 + 96 WP_001303310 DinQ-like type I toxin DqlB -
JYH31_RS00520 (ELPBMBEK_00083) 82250..82426 - 177 WP_001054897 hypothetical protein -
JYH31_RS00525 (ELPBMBEK_00084) 82818..83027 + 210 WP_000062603 HEAT repeat domain-containing protein -
JYH31_RS00530 (ELPBMBEK_00085) 83099..83773 - 675 WP_223866377 plasmid IncI1-type surface exclusion protein ExcA -
JYH31_RS00535 (ELPBMBEK_00086) 83823..85991 - 2169 WP_000698358 DotA/TraY family protein traY
JYH31_RS00540 (ELPBMBEK_00087) 86088..86672 - 585 WP_001037986 IncI1-type conjugal transfer protein TraX -
JYH31_RS00545 (ELPBMBEK_00088) 86701..87903 - 1203 WP_001189159 IncI1-type conjugal transfer protein TraW traW
JYH31_RS00550 (ELPBMBEK_00089) 87870..88484 - 615 WP_000337394 IncI1-type conjugal transfer protein TraV traV
JYH31_RS00555 (ELPBMBEK_00090) 88484..91528 - 3045 WP_001024752 IncI1-type conjugal transfer protein TraU traU
JYH31_RS00560 (ELPBMBEK_00091) 91618..92418 - 801 WP_001164788 IncI1-type conjugal transfer protein TraT traT
JYH31_RS00565 (ELPBMBEK_00092) 92402..92590 - 189 WP_001277255 putative conjugal transfer protein TraS -
JYH31_RS00570 (ELPBMBEK_00093) 92654..93058 - 405 WP_000086959 IncI1-type conjugal transfer protein TraR traR
JYH31_RS00575 (ELPBMBEK_00094) 93109..93636 - 528 WP_001055569 conjugal transfer protein TraQ traQ
JYH31_RS00580 (ELPBMBEK_00095) 93636..94340 - 705 WP_000801919 IncI1-type conjugal transfer protein TraP traP
JYH31_RS00585 (ELPBMBEK_00096) 94340..95629 - 1290 WP_001272000 conjugal transfer protein TraO traO
JYH31_RS00590 (ELPBMBEK_00097) 95632..96615 - 984 WP_001191879 IncI1-type conjugal transfer protein TraN traN
JYH31_RS00595 (ELPBMBEK_00098) 96626..97318 - 693 WP_000138551 DotI/IcmL family type IV secretion protein traM
JYH31_RS00600 (ELPBMBEK_00099) 97315..97662 - 348 WP_001055900 conjugal transfer protein traL
JYH31_RS00605 (ELPBMBEK_00100) 97680..101447 - 3768 WP_204884849 LPD7 domain-containing protein -
JYH31_RS00610 (ELPBMBEK_00101) 101537..102088 - 552 WP_000014584 phospholipase D family protein -
JYH31_RS00615 (ELPBMBEK_00102) 102103..102393 - 291 WP_001299214 hypothetical protein traK
JYH31_RS00620 (ELPBMBEK_00103) 102390..103538 - 1149 WP_001024972 plasmid transfer ATPase TraJ virB11
JYH31_RS00625 (ELPBMBEK_00104) 103535..104353 - 819 WP_000646097 IncI1-type conjugal transfer lipoprotein TraI traI
JYH31_RS00630 (ELPBMBEK_00105) 104350..104808 - 459 WP_001079808 IncI1-type conjugal transfer lipoprotein TraH -
JYH31_RS00635 (ELPBMBEK_00106) 105203..105787 - 585 WP_000977522 histidine phosphatase family protein -
JYH31_RS00640 (ELPBMBEK_00107) 105847..107049 - 1203 WP_000976353 conjugal transfer protein TraF -
JYH31_RS00645 (ELPBMBEK_00108) 107135..107959 - 825 WP_001238929 conjugal transfer protein TraE traE
JYH31_RS00650 (ELPBMBEK_00109) 108110..109264 - 1155 WP_001139958 site-specific integrase -
JYH31_RS00655 110785..111033 + 249 WP_001349157 hypothetical protein -
JYH31_RS00660 (ELPBMBEK_00110) 111030..112322 - 1293 WP_001417545 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
JYH31_RS00665 (ELPBMBEK_00111) 112322..112978 - 657 WP_001193553 prepilin peptidase -
JYH31_RS00670 (ELPBMBEK_00112) 112963..113523 - 561 WP_000014116 lytic transglycosylase domain-containing protein virB1
JYH31_RS00675 (ELPBMBEK_00113) 113533..114147 - 615 WP_000959786 type 4 pilus major pilin -
JYH31_RS00680 (ELPBMBEK_00114) 114165..115262 - 1098 WP_001208805 type II secretion system F family protein -
JYH31_RS00685 (ELPBMBEK_00115) 115275..116828 - 1554 WP_000362202 ATPase, T2SS/T4P/T4SS family virB11
JYH31_RS00690 (ELPBMBEK_00116) 116839..117291 - 453 WP_001247334 type IV pilus biogenesis protein PilP -
JYH31_RS00695 (ELPBMBEK_00117) 117278..118573 - 1296 WP_000752772 type 4b pilus protein PilO2 -
JYH31_RS00700 (ELPBMBEK_00118) 118566..120248 - 1683 WP_000748143 PilN family type IVB pilus formation outer membrane protein -
JYH31_RS00705 (ELPBMBEK_00119) 120262..120699 - 438 WP_000539807 type IV pilus biogenesis protein PilM -
JYH31_RS00710 (ELPBMBEK_00120) 120699..121766 - 1068 WP_001302629 type IV pilus biogenesis lipoprotein PilL -

Host bacterium

ID   3833 GenBank   NZ_MT507880
Plasmid name   pST1030-1B Incompatibility group   IncI1
Plasmid size   126900 bp Coordinate of oriT [Strand]   73111..73199 [-]
Host baterium   Salmonella enterica subsp. enterica serovar Typhimurium

Cargo genes

Drug resistance gene   tet(B), sul3, ant(3'')-Ia, cmlA1, aadA2, dfrA12
Virulence gene   -
Metal resistance gene   merR, merT, merP, merA, merD, merE
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -