Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   103230
Name   oriT_pEC008 in_silico
Organism   Escherichia coli strain EC008
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_KY748190 (69091..69179 [-], 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_pEC008
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTGTCCCGTTTTTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2415 GenBank   WP_001493820
Name   nikB_HTR49_RS00425_pEC008 insolico UniProt ID   A0A229B7S1
Length   900 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 900 a.a.        Molecular weight: 104037.65 Da        Isoelectric Point: 7.3321

>WP_001493820.1 MULTISPECIES: IncI1-type relaxase NikB [Enterobacteriaceae]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELNLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVDFYGVTCFHNCTSLETAAADMEYIAQQAHYAKDNTDPVFHYILSWQAHESPRPEQIYDSVR
HTLKSLGLGEHQYVSAVHTDTDNLHVHVAVNRVHPVTGYLNCLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVHDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVDAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHCTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLNGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDKSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRIVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
YNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKLWEPPSPMR

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(62-314)


  Protein structure


Source ID Structure
AlphaFold DB A0A229B7S1


Auxiliary protein

ID   1032 GenBank   WP_001283947
Name   WP_001283947_pEC008 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   2181 GenBank   WP_172692757
Name   trbC_HTR49_RS00435_pEC008 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: 86950.12 Da        Isoelectric Point: 6.6402

>WP_172692757.1 F-type conjugative transfer protein TrbC [Escherichia coli]
MSEHRVNPELLHRTAWGNPVWNALQSLNIYGFCLVASLVASFIWPLALPACLLFTLITMLVFSLQRWRCP
LRMPMTLECADPSQDRMIKRSLFSFWPTLFQYEVILESPASGIFYVGYQRVRDIGRELWLSMDDLTRHIM
FFATTGGGKTETIFAWAINPLCWARGFTLVDGKAQNDTARTIWYLARRFGREDDVEVINFMNGGKSRSEI
ILSGEKTRPQSNTWNPFCYSTEAFTAETMQSMLPQNVQGGEWQSRAIAMNKALVFGTKFWCVREGKTMSL
QMLREHMTLEGMAKLYCRGLDDQWPEEAIAPLRNYLQDVPGFDLSLVRTPLAWTEEPRKQHAYLSGQFSE
TFSTFTEAFGDIFAEDSGDIDIRDSIHSDRILMVMIPALDTSAHTTSALGRMFITQKSMILARDLGYRLE
GTDSDALEVKKYKGRFPYLCFLDEVGAYYTDRIAVEATQVRSLDFALILMAQDQERIEGQTTATNTATLM
QNTGTKFAGRIVSEGSTARTLKSAAGEEARARMNNLQRQDGIFGESWIDSPQISILMESKINVQELIELH
PGEFFSIFRGETVPSASFFIPDDEKSCSSDPIVINRYISVDAPRLDRLRRLVPRTAQRRIPSPENVSAII
GVLTAKPSRKRRKIRTEPHTIVDTFQQRIAGRQAAMAMLEEYDTDINARESALWETAVNTLKTTTREERR
IRYITLNRPELPETNEENQISVRAERAGINLLTLPQDNNHPTGRPVNGFHHKKNNRPDWDGMY

  Protein domains



No domain identified.


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 75537..112614

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HTR49_RS00430 (pEC008_00080) 72362..73180 + 819 WP_000106196 DUF2971 domain-containing protein -
HTR49_RS00435 (pEC008_00081) 73253..75544 - 2292 WP_172692757 F-type conjugative transfer protein TrbC -
HTR49_RS00440 (pEC008_00082) 75537..76607 - 1071 WP_001535705 IncI1-type conjugal transfer protein TrbB trbB
HTR49_RS00445 (pEC008_00083) 76626..77834 - 1209 WP_001535704 IncI1-type conjugal transfer protein TrbA trbA
HTR49_RS00450 (pEC008_00084) 78126..78278 + 153 WP_001331364 Hok/Gef family protein -
HTR49_RS00455 (pEC008_00085) 78350..78601 - 252 WP_001535703 hypothetical protein -
HTR49_RS00720 79102..79197 + 96 WP_000609148 DinQ-like type I toxin DqlB -
HTR49_RS00465 (pEC008_00087) 79262..79546 - 285 WP_024129996 hypothetical protein -
HTR49_RS00470 (pEC008_00088) 79647..79856 - 210 WP_001140545 hemolysin expression modulator Hha -
HTR49_RS00475 (pEC008_00089) 79954..80568 - 615 WP_000578649 plasmid IncI1-type surface exclusion protein ExcA -
HTR49_RS00480 (pEC008_00090) 80644..82812 - 2169 WP_000698360 IncI1-type conjugal transfer membrane protein TraY traY
HTR49_RS00485 (pEC008_00091) 82909..83493 - 585 WP_172692758 IncI1-type conjugal transfer protein TraX -
HTR49_RS00490 (pEC008_00092) 83522..84724 - 1203 WP_001189156 IncI1-type conjugal transfer protein TraW traW
HTR49_RS00495 (pEC008_00093) 84691..85305 - 615 WP_000337400 IncI1-type conjugal transfer protein TraV traV
HTR49_RS00500 (pEC008_00094) 85305..88349 - 3045 WP_001024780 IncI1-type conjugal transfer protein TraU traU
HTR49_RS00505 (pEC008_00095) 88439..89239 - 801 WP_001164788 IncI1-type conjugal transfer protein TraT traT
HTR49_RS00510 (pEC008_00096) 89223..89411 - 189 WP_001277255 putative conjugal transfer protein TraS -
HTR49_RS00515 (pEC008_00097) 89475..89879 - 405 WP_000086960 IncI1-type conjugal transfer protein TraR traR
HTR49_RS00520 (pEC008_00098) 89930..90457 - 528 WP_001055569 conjugal transfer protein TraQ traQ
HTR49_RS00525 (pEC008_00099) 90457..91161 - 705 WP_000801920 IncI1-type conjugal transfer protein TraP traP
HTR49_RS00530 (pEC008_00100) 91161..92450 - 1290 WP_001535701 conjugal transfer protein TraO traO
HTR49_RS00535 (pEC008_00101) 92453..93436 - 984 WP_001191878 IncI1-type conjugal transfer protein TraN traN
HTR49_RS00540 (pEC008_00102) 93447..94139 - 693 WP_000138552 DotI/IcmL family type IV secretion protein traM
HTR49_RS00545 (pEC008_00103) 94136..94483 - 348 WP_001055900 conjugal transfer protein traL
HTR49_RS00550 (pEC008_00104) 94501..98268 - 3768 WP_001141542 LPD7 domain-containing protein -
HTR49_RS00555 (pEC008_00105) 98358..98909 - 552 WP_000014584 phospholipase D family protein -
HTR49_RS00560 (pEC008_00106) 98924..99214 - 291 WP_001372180 hypothetical protein traK
HTR49_RS00565 (pEC008_00107) 99211..100359 - 1149 WP_001024972 plasmid transfer ATPase TraJ virB11
HTR49_RS00570 (pEC008_00108) 100356..101174 - 819 WP_000646098 IncI1-type conjugal transfer lipoprotein TraI traI
HTR49_RS00575 (pEC008_00109) 101171..101629 - 459 WP_001079808 IncI1-type conjugal transfer lipoprotein TraH -
HTR49_RS00580 (pEC008_00110) 102024..102608 - 585 WP_000977522 histidine phosphatase family protein -
HTR49_RS00585 (pEC008_00111) 102668..103870 - 1203 WP_000976351 conjugal transfer protein TraF -
HTR49_RS00590 (pEC008_00112) 103955..104779 - 825 WP_001238939 conjugal transfer protein TraE traE
HTR49_RS00595 (pEC008_00113) 104930..106084 - 1155 WP_001139957 site-specific integrase -
HTR49_RS00715 106083..106436 + 354 WP_001393368 hypothetical protein -
HTR49_RS00730 106466..106687 + 222 Protein_118 prepilin -
HTR49_RS00615 (pEC008_00115) 106684..108108 - 1425 WP_001389385 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
HTR49_RS00620 (pEC008_00116) 108108..108764 - 657 WP_172692759 prepilin peptidase -
HTR49_RS00625 (pEC008_00117) 108749..109309 - 561 WP_000014116 lytic transglycosylase domain-containing protein virB1
HTR49_RS00630 (pEC008_00118) 109319..109933 - 615 WP_000959785 type 4 pilus major pilin -
HTR49_RS00635 (pEC008_00119) 109951..111048 - 1098 WP_001208805 type II secretion system F family protein -
HTR49_RS00640 (pEC008_00120) 111061..112614 - 1554 WP_000362202 ATPase, T2SS/T4P/T4SS family virB11
HTR49_RS00645 (pEC008_00121) 112625..113077 - 453 WP_001247336 type IV pilus biogenesis protein PilP -
HTR49_RS00650 (pEC008_00122) 113064..114359 - 1296 WP_000752774 type 4b pilus protein PilO2 -
HTR49_RS00655 (pEC008_00123) 114352..116034 - 1683 WP_000748143 PilN family type IVB pilus formation outer membrane protein -
HTR49_RS00660 (pEC008_00124) 116048..116485 - 438 WP_000539807 type IV pilus biogenesis protein PilM -
HTR49_RS00665 (pEC008_00125) 116485..117552 - 1068 WP_000742600 type IV pilus biogenesis lipoprotein PilL -

Host bacterium

ID   3673 GenBank   NZ_KY748190
Plasmid name   pEC008 Incompatibility group   IncI1
Plasmid size   122022 bp Coordinate of oriT [Strand]   69091..69179 [-]
Host baterium   Escherichia coli strain EC008

Cargo genes

Drug resistance gene   sul2, aph(3'')-Ib, aph(6)-Id, tet(A), floR, aac(3)-IId, blaTEM-1B, rmtB, sul1, qacE, aadA2, dfrA12
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -