Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   102865
Name   oriT_pICBEC72Hctx in_silico
Organism   Escherichia coli strain ICBEC72H
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_KX443694 (33414..33502 [-], 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_pICBEC72Hctx
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTGTCCCGTTTTTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2140 GenBank   WP_016231887
Name   nikB_ICBEC72H_RS00535_pICBEC72Hctx insolico UniProt ID   A0A078BC53
Length   899 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 899 a.a.        Molecular weight: 103902.42 Da        Isoelectric Point: 7.5153

>WP_016231887.1 MULTISPECIES: IncI1-type relaxase NikB [Enterobacteriaceae]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELDLSSSSQAEQPHRNRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIAQQAHYAKDNTDPVFHYILSWQAHESPRPEQIYDSVR
HTLKSLGLGEHQYVSAVHTDTDNLHVHVAVNRVHPVTGYLNCLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVHDWLSLHRRLAEDGLYLSQMNGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVVIQAAQGDRAAVSQLRGWDYRDRRKDRSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(62-314)


  Protein structure


Source ID Structure
AlphaFold DB A0A078BC53


Auxiliary protein

ID   859 GenBank   WP_001283947
Name   WP_001283947_pICBEC72Hctx 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   1805 GenBank   WP_016231889
Name   trbC_ICBEC72H_RS00560_pICBEC72Hctx 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: 86985.10 Da        Isoelectric Point: 6.7713

>WP_016231889.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Enterobacteriaceae]
MSEHRVNPELLHRTAWGNPVWNAFQSLNIYGFCLVASLVASFIWPLALPACLLFTLITMLVFSLQRWRCP
LRMPMTLECADPSQDRMIKRSLFSFWPTLFQYEVILESPASGIFYVGYQRVRDIGRELWLSMDDLTRHIM
FFATTGGGKTETIFAWAINPLCWARGFTLVDGKAQNDTARTIWYLARRFGREDDVEVINFMNGGKSRSEI
ILSGEKTRPQSNTWNPFCYSTEAFTAETMQSMLPQNVQGGEWQSRAIAMNKALVFGTKFWCVREGKTMSL
QMLREHMTLEGMARLYCRGLDDQWPEEAIAPLRNYLQDVPGFDLSLVRTPSAWTEEPRKQHAYLSGQFSE
TFSTFTEAFGDIFAEDSGDIDIRDSIHSDRILMVMIPALDTSAHTTSALGRMFITQKSMILARDLGYRLE
GTDSDALEVKKYKGRFPYLCFLDEVGAYYTDRIAVEATQVRSLDFALILTAQDQERIEGQTTATNTATLM
QNTGTKFAGRIVSEGSTARTLKSAAGEEARARMNNLQRQDGIFGESWIDSPQISILMESKINVQELIELH
PGEFFSIFRGETVPSASFFIPDDEKSCSSDPVVINRYISVDAPRLDRLRRLVPRIAQRRIPSPENVSAII
GVLTAKPSRKRRKIRTEPHTIVDTFQQRIAGRQAAMAMLEEYDTDINARESALWETAVNTLKTTTREERR
IRYITLNRPELPETKEENQISVRTERAGINLLTLPQDNNHPTGRPVNGFHHKKTNRPDWDGMY

  Protein domains



No domain identified.


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 42585..81978

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
ICBEC72H_RS00545 (ICBEC72H_p0095) 37953..38330 - 378 WP_001559792 RidA family protein -
ICBEC72H_RS00550 (ICBEC72H_p0096) 38352..39311 - 960 WP_016231888 sugar phosphate isomerase/epimerase family protein -
ICBEC72H_RS00555 (ICBEC72H_p0097) 39497..40159 + 663 WP_000835776 PAS domain-containing protein -
ICBEC72H_RS00560 (ICBEC72H_p0098) 40301..42592 - 2292 WP_016231889 F-type conjugative transfer protein TrbC -
ICBEC72H_RS00565 (ICBEC72H_p0099) 42585..43655 - 1071 WP_016231890 IncI1-type conjugal transfer protein TrbB trbB
ICBEC72H_RS00570 (ICBEC72H_p0100) 43674..44882 - 1209 WP_052978849 IncI1-type conjugal transfer protein TrbA trbA
ICBEC72H_RS00575 (ICBEC72H_p0101) 45100..46086 - 987 WP_024194699 hypothetical protein -
ICBEC72H_RS00580 (ICBEC72H_p0102) 46655..46807 + 153 WP_001387489 Hok/Gef family protein -
ICBEC72H_RS00585 (ICBEC72H_p0103) 46879..47130 - 252 WP_001291965 hypothetical protein -
ICBEC72H_RS26635 47629..47724 + 96 WP_001303310 DinQ-like type I toxin DqlB -
ICBEC72H_RS25965 (ICBEC72H_p0104) 47789..47965 - 177 WP_001054901 hypothetical protein -
ICBEC72H_RS00590 (ICBEC72H_p0105) 48297..48506 + 210 WP_000062603 HEAT repeat domain-containing protein -
ICBEC72H_RS00595 (ICBEC72H_p0106) 48578..49228 - 651 WP_001178506 plasmid IncI1-type surface exclusion protein ExcA -
ICBEC72H_RS00600 (ICBEC72H_p0107) 49302..51470 - 2169 WP_016231892 DotA/TraY family protein traY
ICBEC72H_RS00605 (ICBEC72H_p0108) 51567..52151 - 585 WP_016231893 IncI1-type conjugal transfer protein TraX -
ICBEC72H_RS00610 (ICBEC72H_p0109) 52180..53382 - 1203 WP_001189160 IncI1-type conjugal transfer protein TraW traW
ICBEC72H_RS00615 (ICBEC72H_p0110) 53349..53963 - 615 WP_000337398 IncI1-type conjugal transfer protein TraV traV
ICBEC72H_RS00620 (ICBEC72H_p0111) 53963..57007 - 3045 WP_016231894 IncI1-type conjugal transfer protein TraU traU
ICBEC72H_RS00625 (ICBEC72H_p0112) 57097..57897 - 801 WP_001164788 IncI1-type conjugal transfer protein TraT traT
ICBEC72H_RS00630 (ICBEC72H_p0113) 57881..58069 - 189 WP_001277255 putative conjugal transfer protein TraS -
ICBEC72H_RS00635 (ICBEC72H_p0114) 58133..58537 - 405 WP_016231895 IncI1-type conjugal transfer protein TraR traR
ICBEC72H_RS00640 (ICBEC72H_p0115) 58588..59115 - 528 WP_001055569 conjugal transfer protein TraQ traQ
ICBEC72H_RS00645 (ICBEC72H_p0116) 59115..59819 - 705 WP_000801920 IncI1-type conjugal transfer protein TraP traP
ICBEC72H_RS00650 (ICBEC72H_p0117) 59819..61108 - 1290 WP_016231896 conjugal transfer protein TraO traO
ICBEC72H_RS00655 (ICBEC72H_p0118) 61111..62094 - 984 WP_001191877 IncI1-type conjugal transfer protein TraN traN
ICBEC72H_RS00660 (ICBEC72H_p0119) 62105..62797 - 693 WP_000138551 DotI/IcmL family type IV secretion protein traM
ICBEC72H_RS00665 (ICBEC72H_p0120) 62794..63141 - 348 WP_001055900 conjugal transfer protein traL
ICBEC72H_RS00670 (ICBEC72H_p0121) 63159..66926 - 3768 WP_001141534 LPD7 domain-containing protein -
ICBEC72H_RS00675 (ICBEC72H_p0122) 67016..67567 - 552 WP_000014584 phospholipase D family protein -
ICBEC72H_RS00680 (ICBEC72H_p0123) 67582..67872 - 291 WP_001299214 hypothetical protein traK
ICBEC72H_RS00685 (ICBEC72H_p0124) 67869..69017 - 1149 WP_001024972 plasmid transfer ATPase TraJ virB11
ICBEC72H_RS00690 (ICBEC72H_p0125) 69014..69832 - 819 WP_000646097 IncI1-type conjugal transfer lipoprotein TraI traI
ICBEC72H_RS00695 (ICBEC72H_p0126) 69829..70287 - 459 WP_001079808 IncI1-type conjugal transfer lipoprotein TraH -
ICBEC72H_RS00700 (ICBEC72H_p0127) 70682..71266 - 585 WP_000977522 histidine phosphatase family protein -
ICBEC72H_RS00705 (ICBEC72H_p0128) 71326..72528 - 1203 WP_000976353 conjugal transfer protein TraF -
ICBEC72H_RS00710 (ICBEC72H_p0129) 72614..73438 - 825 WP_082210287 conjugal transfer protein TraE traE
ICBEC72H_RS00715 (ICBEC72H_p0130) 73589..74743 - 1155 WP_001139958 site-specific integrase -
ICBEC72H_RS00735 (ICBEC72H_p0135) 75935..76183 + 249 WP_001349157 hypothetical protein -
ICBEC72H_RS00740 (ICBEC72H_p0136) 76180..77472 - 1293 WP_001417545 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
ICBEC72H_RS00745 (ICBEC72H_p0137) 77472..78128 - 657 WP_001193554 prepilin peptidase -
ICBEC72H_RS00750 (ICBEC72H_p0138) 78113..78673 - 561 WP_000014116 lytic transglycosylase domain-containing protein virB1
ICBEC72H_RS00755 (ICBEC72H_p0139) 78683..79297 - 615 WP_000959785 type 4 pilus major pilin -
ICBEC72H_RS00760 (ICBEC72H_p0140) 79315..80412 - 1098 WP_044502562 type II secretion system F family protein -
ICBEC72H_RS00765 (ICBEC72H_p0141) 80425..81978 - 1554 WP_044502561 ATPase, T2SS/T4P/T4SS family virB11
ICBEC72H_RS00770 (ICBEC72H_p0142) 81989..82441 - 453 WP_044502560 type IV pilus biogenesis protein PilP -
ICBEC72H_RS00775 (ICBEC72H_p0143) 82428..83723 - 1296 WP_044502559 type 4b pilus protein PilO2 -
ICBEC72H_RS00780 (ICBEC72H_p0144) 83716..85398 - 1683 WP_000748143 PilN family type IVB pilus formation outer membrane protein -
ICBEC72H_RS00785 (ICBEC72H_p0145) 85412..85849 - 438 WP_000539806 type IV pilus biogenesis protein PilM -
ICBEC72H_RS00790 (ICBEC72H_p0146) 85849..86916 - 1068 WP_001360287 type IV pilus biogenesis lipoprotein PilL -

Host bacterium

ID   3308 GenBank   NZ_KX443694
Plasmid name   pICBEC72Hctx Incompatibility group   IncI1
Plasmid size   92070 bp Coordinate of oriT [Strand]   33414..33502 [-]
Host baterium   Escherichia coli strain ICBEC72H

Cargo genes

Drug resistance gene   blaCTX-M-8
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -