Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   103023
Name   oriT_pEC16I_2 in_silico
Organism   Escherichia coli
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_KU932033 (67062..67150 [-], 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_pEC16I_2
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGCAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTGCACATCCTGTCCCGTTTTTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2261 GenBank   WP_024143648
Name   nikB_HTI80_RS00400_pEC16I_2 insolico UniProt ID   A0A023JAU0
Length   899 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 899 a.a.        Molecular weight: 104010.41 Da        Isoelectric Point: 7.4265

>WP_024143648.1 MULTISPECIES: IncI1-type relaxase NikB [Enterobacteriaceae]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELDLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIARQAHYAKDDTDPVFHYILSWQSHESPRPEQIYDSVR
HTLKSLGLADHQYVSAVHTDTDNLHVHVAVNRVHPETGYLNRLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVNDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDRSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNNDASLPPPEQDKRWEPPSPG

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(62-314)


  Protein structure


Source ID Structure
AlphaFold DB A0A023JAU0


Auxiliary protein

ID   923 GenBank   WP_001283947
Name   WP_001283947_pEC16I_2 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   1954 GenBank   WP_001289276
Name   trbC_HTI80_RS00405_pEC16I_2 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: 86941.11 Da        Isoelectric Point: 6.7713

>WP_001289276.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Enterobacteriaceae]
MSEHRVNPELLHRTAWGNPVWNALQSLNIYGFCLVASLVASFIWPLALPACLLFTLITMLVFSLQRWRCP
LRMPMTLECADPSQDRMIKRSLFSFWPTLFQYEVILESPASGIFYVGYQRVRDIGRELWLSMDDLTRHIM
FFATTGGGKTETIFAWAINPLCWARGFTLVDGKAQNDTARTIWYLARRFGREDDVEVINFMNGGKSRSEI
ILSGEKTRPQSNTWNPFCYSTEAFTAETMQSMLPQNVQGGEWQSRAIAMNKALVFGTKFWCVREGKTMSL
QMLREHMTLEGMAKLYCRGLDDQWPEEAIAPLRNYLQDVPGFDLSLVRTPSAWTEEPRKQHAYLSGQFSE
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: 721..15111

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HTI80_RS00010 157..706 - 550 Protein_1 phospholipase D family protein -
HTI80_RS00015 721..1011 - 291 WP_001299214 hypothetical protein traK
HTI80_RS00020 1008..2156 - 1149 WP_001024972 plasmid transfer ATPase TraJ virB11
HTI80_RS00025 2153..2971 - 819 WP_000646098 IncI1-type conjugal transfer lipoprotein TraI traI
HTI80_RS00030 2968..3426 - 459 WP_001079808 IncI1-type conjugal transfer lipoprotein TraH -
HTI80_RS00035 3821..4405 - 585 WP_000977522 histidine phosphatase family protein -
HTI80_RS00040 4465..5667 - 1203 WP_181365838 conjugal transfer protein TraF -
HTI80_RS00045 5752..6576 - 825 WP_001238939 conjugal transfer protein TraE traE
HTI80_RS00050 6727..7881 - 1155 WP_001139957 site-specific integrase -
HTI80_RS00525 8199..8458 - 260 Protein_10 Shufflon protein B -
HTI80_RS00055 8726..8881 - 156 WP_001302705 hypothetical protein -
HTI80_RS00530 9105..9184 + 80 Protein_12 prepilin -
HTI80_RS00060 9517..10605 - 1089 Protein_13 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
HTI80_RS00065 10605..11261 - 657 WP_001193553 prepilin peptidase -
HTI80_RS00070 11246..11806 - 561 WP_000014116 lytic transglycosylase domain-containing protein virB1
HTI80_RS00075 11816..12430 - 615 WP_000959785 type 4 pilus major pilin -
HTI80_RS00080 12448..13545 - 1098 WP_001208805 type II secretion system F family protein -
HTI80_RS00085 13558..15111 - 1554 WP_000362202 ATPase, T2SS/T4P/T4SS family virB11
HTI80_RS00090 15122..15574 - 453 WP_001247334 type IV pilus biogenesis protein PilP -
HTI80_RS00095 15561..16856 - 1296 WP_000752772 type 4b pilus protein PilO2 -
HTI80_RS00100 16849..18531 - 1683 WP_000748143 PilN family type IVB pilus formation outer membrane protein -
HTI80_RS00105 18545..18982 - 438 WP_000539807 type IV pilus biogenesis protein PilM -
HTI80_RS00110 18982..20049 - 1068 WP_001302629 type IV pilus biogenesis lipoprotein PilL -

Region 2: 72528..91663

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HTI80_RS00405 70244..72535 - 2292 WP_001289276 F-type conjugative transfer protein TrbC -
HTI80_RS00410 72528..73598 - 1071 WP_000151583 IncI1-type conjugal transfer protein TrbB trbB
HTI80_RS00415 73617..74825 - 1209 WP_000121273 IncI1-type conjugal transfer protein TrbA trbA
HTI80_RS00420 75117..75269 + 153 WP_001331364 Hok/Gef family protein -
HTI80_RS00425 75341..75592 - 252 WP_001291964 hypothetical protein -
HTI80_RS00520 76091..76186 + 96 WP_001303310 DinQ-like type I toxin DqlB -
HTI80_RS00430 76251..76535 - 285 WP_031942457 hypothetical protein -
HTI80_RS00435 76819..77028 + 210 WP_000062603 HEAT repeat domain-containing protein -
HTI80_RS00440 77100..77774 - 675 WP_223866377 plasmid IncI1-type surface exclusion protein ExcA -
HTI80_RS00445 77824..79992 - 2169 WP_021537350 DotA/TraY family protein traY
HTI80_RS00450 80089..80673 - 585 WP_001037987 IncI1-type conjugal transfer protein TraX -
HTI80_RS00455 80702..81904 - 1203 WP_001189160 IncI1-type conjugal transfer protein TraW traW
HTI80_RS00460 81871..82485 - 615 WP_000337398 IncI1-type conjugal transfer protein TraV traV
HTI80_RS00465 82485..85529 - 3045 WP_021265678 IncI1-type conjugal transfer protein TraU traU
HTI80_RS00470 85619..86419 - 801 WP_001164788 IncI1-type conjugal transfer protein TraT traT
HTI80_RS00475 86403..86591 - 189 WP_001277255 putative conjugal transfer protein TraS -
HTI80_RS00480 86655..87059 - 405 WP_000086958 IncI1-type conjugal transfer protein TraR traR
HTI80_RS00485 87110..87637 - 528 WP_001055569 conjugal transfer protein TraQ traQ
HTI80_RS00490 87637..88341 - 705 WP_000801920 IncI1-type conjugal transfer protein TraP traP
HTI80_RS00495 88341..89630 - 1290 WP_001272003 conjugal transfer protein TraO traO
HTI80_RS00500 89633..90616 - 984 WP_001191877 IncI1-type conjugal transfer protein TraN traN
HTI80_RS00505 90627..91319 - 693 WP_000138550 DotI/IcmL family type IV secretion protein traM
HTI80_RS00510 91316..91663 - 348 WP_001055900 conjugal transfer protein traL

Host bacterium

ID   3466 GenBank   NZ_KU932033
Plasmid name   pEC16I_2 Incompatibility group   IncI1
Plasmid size   95380 bp Coordinate of oriT [Strand]   67062..67150 [-]
Host baterium   Escherichia coli

Cargo genes

Drug resistance gene   blaSHV-12
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -