Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   104772
Name   oriT_pPIR00534 in_silico
Organism   Salmonella enterica subsp. enterica serovar Hadar strain NCTC 9877
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CM010229 (20951..21039 [+], 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_pPIR00534
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGCAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTGCACATCCTGTCCCGTTTTTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3394 GenBank   WP_059277931
Name   nikB_C0V84_RS00090_pPIR00534 insolico UniProt ID   _
Length   900 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 900 a.a.        Molecular weight: 104220.79 Da        Isoelectric Point: 7.5238

>WP_059277931.1 MULTISPECIES: IncI1-type relaxase NikB [Enterobacteriaceae]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELDLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIARQAHYAKDDTDPVFHYILSWQSHESPRPEQIYDSVR
HTLKSLGLADHQYVSAVHTDTDNLHVHVAVNRVHPETGYLNRLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVHDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPKMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDRSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKLWEPPSPMR

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(62-314)


  Protein structure



No available structure.




Auxiliary protein

ID   1510 GenBank   WP_001283947
Name   WP_001283947_pPIR00534 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   3332 GenBank   WP_024168876
Name   trbC_C0V84_RS00080_pPIR00534 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: 86927.04 Da        Isoelectric Point: 6.6402

>WP_024168876.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Enterobacteriaceae]
MSEHRVNPELLHRTAWGNPVWNALQSLNIYGFCLVASLVASFIWPLALPACLLFTLITMLVFSLQRWRCP
LRMPMTLECADPSQDRMIKRSLFSFWPTLFQYEVILESPASGIFYVGYQRVRDIGRELWLSMDDLTRHIM
FFATTGGGKTETIFAWAINPLCWARGFTLVDGKAQNDTARTIWYLARRFGREDDVEVINFMNGGKSRSEI
ILSGEKTRPQSNTWNPFCYSTEAFTAETMQSMLPQNVQGGEWQSRAIAMNKALVFGTKFWCVREGKTMSL
QMLREHMTLEGMAKLYCRGLDDQWPEEAIAPLRNYLQDVPGFDLSLVRTPSAWTEEPRKQHAYLSGQFSE
TFSTFTEAFGDIFAEDSGDIDIRDSIHSDRILMVMIPALDTSAHTTSALGRMFITQKSMILARDLGYRLE
GTDSDALEVKKYKGRFPYLCFLDEVGAYYTDRIAVEATQVRSLDFALILMAQDQERIEGQTTATNTATLM
QNTGTKFAGRIVSEGSTARTLKSAAGEEARARMNNLQRQDGIFGESWIDSPQISILMESKINVQELIELH
PGEFFSIFRGETVPSASFFIPDDEKSCSSDPVVINRYISVDAPRLDRLRRLVPRTAQRRIPSPENVSAII
GVLTAKPSRKRRKIRTEPHTIVDTFQQRIAGRQAAMAMLEEYDTDINARESALWETAVNTLKTTTREERR
IRYITLNRPELPETNEENQISVRAERASINLLTLPQDNNHPTGRPVNGFHHKKTNRPDWDGMY

  Protein domains



No domain identified.


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 53..14593

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
C0V84_RS00010 (C0V84_00010) 53..457 + 405 WP_000086958 IncI1-type conjugal transfer protein TraR traR
C0V84_RS00015 (C0V84_00015) 521..709 + 189 WP_001277255 putative conjugal transfer protein TraS -
C0V84_RS00020 (C0V84_00020) 693..1493 + 801 WP_001164788 IncI1-type conjugal transfer protein TraT traT
C0V84_RS00025 (C0V84_00025) 1583..4627 + 3045 WP_001024780 IncI1-type conjugal transfer protein TraU traU
C0V84_RS00030 (C0V84_00030) 4627..5241 + 615 WP_000337399 IncI1-type conjugal transfer protein TraV traV
C0V84_RS00035 (C0V84_00035) 5208..6410 + 1203 WP_001385654 IncI1-type conjugal transfer protein TraW traW
C0V84_RS00040 (C0V84_00040) 6439..7023 + 585 WP_001037987 IncI1-type conjugal transfer protein TraX -
C0V84_RS00045 (C0V84_00045) 7120..9288 + 2169 WP_000698354 DotA/TraY family protein traY
C0V84_RS00050 (C0V84_00050) 9359..10021 + 663 WP_000644796 plasmid IncI1-type surface exclusion protein ExcA -
C0V84_RS00055 (C0V84_00055) 10093..10302 - 210 WP_000062603 HEAT repeat domain-containing protein -
C0V84_RS24835 10694..10870 + 177 WP_001054897 hypothetical protein -
C0V84_RS25320 10935..11030 - 96 WP_001303310 DinQ-like type I toxin DqlB -
C0V84_RS00060 (C0V84_00060) 11529..11780 + 252 WP_001291965 hypothetical protein -
C0V84_RS00065 (C0V84_00065) 11852..12004 - 153 WP_001303307 Hok/Gef family protein -
C0V84_RS00070 (C0V84_00070) 12296..13504 + 1209 WP_000121273 IncI1-type conjugal transfer protein TrbA trbA
C0V84_RS00075 (C0V84_00075) 13523..14593 + 1071 WP_059277929 IncI1-type conjugal transfer protein TrbB trbB
C0V84_RS00080 (C0V84_00080) 14586..16877 + 2292 WP_024168876 F-type conjugative transfer protein TrbC -
C0V84_RS00085 (C0V84_00085) 16950..17768 - 819 WP_059277930 DUF2971 domain-containing protein -

Region 2: 80481..103640

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
C0V84_RS00540 (C0V84_00540) 75543..76610 + 1068 WP_000742600 type IV pilus biogenesis lipoprotein PilL -
C0V84_RS00545 (C0V84_00545) 76610..77047 + 438 WP_000539807 type IV pilus biogenesis protein PilM -
C0V84_RS00550 (C0V84_00550) 77061..78743 + 1683 WP_000748143 PilN family type IVB pilus formation outer membrane protein -
C0V84_RS00555 (C0V84_00555) 78736..80031 + 1296 WP_000752774 type 4b pilus protein PilO2 -
C0V84_RS00560 (C0V84_00560) 80018..80470 + 453 WP_001247336 type IV pilus biogenesis protein PilP -
C0V84_RS00565 (C0V84_00565) 80481..82034 + 1554 WP_000362202 ATPase, T2SS/T4P/T4SS family virB11
C0V84_RS00570 (C0V84_00570) 82047..83144 + 1098 WP_112298089 type II secretion system F family protein -
C0V84_RS00575 (C0V84_00575) 83162..83776 + 615 WP_000959785 type 4 pilus major pilin -
C0V84_RS00580 (C0V84_00580) 83786..84346 + 561 WP_000014116 lytic transglycosylase domain-containing protein virB1
C0V84_RS00585 (C0V84_00585) 84331..84987 + 657 WP_001193553 prepilin peptidase -
C0V84_RS00590 (C0V84_00590) 84987..86409 + 1423 Protein_101 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
C0V84_RS00630 (C0V84_00630) 88013..89167 + 1155 WP_001139957 site-specific integrase -
C0V84_RS00635 (C0V84_00635) 89318..90142 + 825 WP_001238939 conjugal transfer protein TraE traE
C0V84_RS00640 (C0V84_00640) 90227..91429 + 1203 WP_000976351 conjugal transfer protein TraF -
C0V84_RS00645 (C0V84_00645) 91489..92073 + 585 WP_000977522 histidine phosphatase family protein -
C0V84_RS00650 (C0V84_00650) 92468..92926 + 459 WP_001079808 IncI1-type conjugal transfer lipoprotein TraH -
C0V84_RS00655 (C0V84_00655) 92923..93741 + 819 WP_000646098 IncI1-type conjugal transfer lipoprotein TraI traI
C0V84_RS00660 (C0V84_00660) 93738..94886 + 1149 WP_001024972 plasmid transfer ATPase TraJ virB11
C0V84_RS00665 (C0V84_00665) 94883..95173 + 291 WP_001299214 hypothetical protein traK
C0V84_RS00670 (C0V84_00670) 95188..95739 + 552 WP_000014583 phospholipase D family protein -
C0V84_RS00675 (C0V84_00675) 95829..99596 + 3768 WP_001141527 LPD7 domain-containing protein -
C0V84_RS00680 (C0V84_00680) 99614..99961 + 348 WP_001055900 conjugal transfer protein traL
C0V84_RS00685 (C0V84_00685) 99958..100650 + 693 WP_000138550 DotI/IcmL family type IV secretion protein traM
C0V84_RS00690 (C0V84_00690) 100661..101644 + 984 WP_001191877 IncI1-type conjugal transfer protein TraN traN
C0V84_RS00695 (C0V84_00695) 101647..102936 + 1290 WP_001272003 conjugal transfer protein TraO traO
C0V84_RS00700 (C0V84_00700) 102936..103640 + 705 WP_000801920 IncI1-type conjugal transfer protein TraP traP

Host bacterium

ID   5211 GenBank   NZ_CM010229
Plasmid name   pPIR00534 Incompatibility group   IncI1
Plasmid size   104165 bp Coordinate of oriT [Strand]   20951..21039 [+]
Host baterium   Salmonella enterica subsp. enterica serovar Hadar strain NCTC 9877

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -