Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   103024
Name   oriT_pEC16I_1 in_silico
Organism   Escherichia coli
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_KU932032 (66007..66095 [-], 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_1
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGCAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTGCACATCCTGTCCCGTTTTTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2262 GenBank   WP_024143648
Name   nikB_HTI27_RS00395_pEC16I_1 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   924 GenBank   WP_001283947
Name   WP_001283947_pEC16I_1 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   1955 GenBank   WP_001289276
Name   trbC_HTI27_RS00400_pEC16I_1 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..14056

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HTI27_RS00010 157..706 - 550 Protein_1 phospholipase D family protein -
HTI27_RS00015 721..1011 - 291 WP_001299214 hypothetical protein traK
HTI27_RS00020 1008..2156 - 1149 WP_001024972 plasmid transfer ATPase TraJ virB11
HTI27_RS00025 2153..2971 - 819 WP_000646098 IncI1-type conjugal transfer lipoprotein TraI traI
HTI27_RS00030 2968..3426 - 459 WP_001079808 IncI1-type conjugal transfer lipoprotein TraH -
HTI27_RS00035 3821..4405 - 585 WP_000977522 histidine phosphatase family protein -
HTI27_RS00040 4465..5667 - 1203 WP_181365838 conjugal transfer protein TraF -
HTI27_RS00045 5752..6576 - 825 WP_001238939 conjugal transfer protein TraE traE
HTI27_RS00050 6727..7881 - 1155 WP_001139957 site-specific integrase -
HTI27_RS00055 8474..9550 - 1077 Protein_10 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
HTI27_RS00060 9550..10206 - 657 WP_001193553 prepilin peptidase -
HTI27_RS00065 10191..10751 - 561 WP_000014116 lytic transglycosylase domain-containing protein virB1
HTI27_RS00070 10761..11375 - 615 WP_000959785 type 4 pilus major pilin -
HTI27_RS00075 11393..12490 - 1098 WP_001208805 type II secretion system F family protein -
HTI27_RS00080 12503..14056 - 1554 WP_000362202 ATPase, T2SS/T4P/T4SS family virB11
HTI27_RS00085 14067..14519 - 453 WP_001247334 type IV pilus biogenesis protein PilP -
HTI27_RS00090 14506..15801 - 1296 WP_000752772 type 4b pilus protein PilO2 -
HTI27_RS00095 15794..17476 - 1683 WP_000748143 PilN family type IVB pilus formation outer membrane protein -
HTI27_RS00100 17490..17927 - 438 WP_000539807 type IV pilus biogenesis protein PilM -
HTI27_RS00105 17927..18994 - 1068 WP_001302629 type IV pilus biogenesis lipoprotein PilL -

Region 2: 71473..90608

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HTI27_RS00400 69189..71480 - 2292 WP_001289276 F-type conjugative transfer protein TrbC -
HTI27_RS00405 71473..72543 - 1071 WP_000151583 IncI1-type conjugal transfer protein TrbB trbB
HTI27_RS00410 72562..73770 - 1209 WP_000121273 IncI1-type conjugal transfer protein TrbA trbA
HTI27_RS00415 74062..74214 + 153 WP_001331364 Hok/Gef family protein -
HTI27_RS00420 74286..74537 - 252 WP_001291964 hypothetical protein -
HTI27_RS00515 75036..75131 + 96 WP_001303310 DinQ-like type I toxin DqlB -
HTI27_RS00425 75196..75480 - 285 WP_031942457 hypothetical protein -
HTI27_RS00430 75764..75973 + 210 WP_000062603 HEAT repeat domain-containing protein -
HTI27_RS00435 76045..76719 - 675 WP_223866377 plasmid IncI1-type surface exclusion protein ExcA -
HTI27_RS00440 76769..78937 - 2169 WP_021537350 DotA/TraY family protein traY
HTI27_RS00445 79034..79618 - 585 WP_001037987 IncI1-type conjugal transfer protein TraX -
HTI27_RS00450 79647..80849 - 1203 WP_001189160 IncI1-type conjugal transfer protein TraW traW
HTI27_RS00455 80816..81430 - 615 WP_000337398 IncI1-type conjugal transfer protein TraV traV
HTI27_RS00460 81430..84474 - 3045 WP_021265678 IncI1-type conjugal transfer protein TraU traU
HTI27_RS00465 84564..85364 - 801 WP_001164788 IncI1-type conjugal transfer protein TraT traT
HTI27_RS00470 85348..85536 - 189 WP_001277255 putative conjugal transfer protein TraS -
HTI27_RS00475 85600..86004 - 405 WP_000086958 IncI1-type conjugal transfer protein TraR traR
HTI27_RS00480 86055..86582 - 528 WP_001055569 conjugal transfer protein TraQ traQ
HTI27_RS00485 86582..87286 - 705 WP_000801920 IncI1-type conjugal transfer protein TraP traP
HTI27_RS00490 87286..88575 - 1290 WP_001272003 conjugal transfer protein TraO traO
HTI27_RS00495 88578..89561 - 984 WP_001191877 IncI1-type conjugal transfer protein TraN traN
HTI27_RS00500 89572..90264 - 693 WP_000138550 DotI/IcmL family type IV secretion protein traM
HTI27_RS00505 90261..90608 - 348 WP_001055900 conjugal transfer protein traL

Host bacterium

ID   3467 GenBank   NZ_KU932032
Plasmid name   pEC16I_1 Incompatibility group   IncI1
Plasmid size   94325 bp Coordinate of oriT [Strand]   66007..66095 [-]
Host baterium   Escherichia coli

Cargo genes

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