Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   102420
Name   oriT_SMG004F8|unnamed1 in_silico
Organism   Escherichia coli strain SMG004F8
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_JAKVSX010000022 (48287..48375 [-], 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_SMG004F8|unnamed1
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTGTCCCGTTTTTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1812 GenBank   WP_024236743
Name   nikB_ML391_RS19715_SMG004F8|unnamed1 insolico UniProt ID   _
Length   898 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 898 a.a.        Molecular weight: 103815.28 Da        Isoelectric Point: 7.5153

>WP_024236743.1 MULTISPECIES: IncI1-type relaxase NikB [Enterobacteriaceae]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELNLSSSQAEQPHRSRFSRLVDYATRLRNESFVALVDV
MKDGCEWVNFYGVTCFHNCTSLETAAADMEYIAQQAHYAKDNTDPVFHYILSWQAHESPRPEQIYDSVRH
TLKSLGLGEHQYVSAVHTDTDNLHVHVAVNRVHPVTGYLNCLSWSQEKLSRACRELELKHGFAPDNGCWV
HAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVHDWLSLHRRLAEDGLYLSQKDGKF
LVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETES
LQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLTL
DNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGYS
ISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEPQ
AGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRKP
DLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYPP
SYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDRSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGSV
RFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAWH
NVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(61-313)


  Protein structure



No available structure.




Auxiliary protein

ID   732 GenBank   WP_001283947
Name   WP_001283947_SMG004F8|unnamed1 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   1397 GenBank   WP_011264051
Name   trbC_ML391_RS19720_SMG004F8|unnamed1 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: 86954.10 Da        Isoelectric Point: 6.7713

>WP_011264051.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Enterobacteriaceae]
MSEHRVNPELLHRTAWGNPVWNALQSLNIYGFCLVASLVASFIWPLALPACLLFTLITMLVFSLQRWRCP
LRMPMTLECADPSQDRMIKRSLFSFWPTLFQYEVILESPASGIFYVGYQRVRDIGRELWLSMDDLTRHIM
FFATTGGGKTETIFAWAINPLCWARGFTLVDGKAQNDTARTIWYLARRFGREDDVEVINFMNGGKSRSEI
ILSGEKTRPQSNTWNPFCYSTEAFTAETMQSMLPQNVQGGEWQSRAIAMNKALVFGTKFWCVREGKTMSL
QMLREHMTLEGMAKLYCRGLDDQWPEEAIAPLRNYLQDVPGFDLSLVRTPSAWTEEPRKQHAYLSGQFSE
TFSTFTEAFGDIFAEDSGDIDIRDSIHSDRILMVMIPALDTSAHTTSALGRMFITQKSMILARDLGYRLE
GTDSDALEVKKYKGRFPYLCFLDEVGAYYTDRIAVEATQVRSLDFALILMAQDQERIEGQTTATNTATLM
QNTGTKFAGRIVSEGSTARTLKSAAGEEARARMNNLQRQDGIFGESWIDSPQISILMESKINVQELIELH
PGEFFSIFRGETVPSASFFIPDDEKSCSSDPVVINRYISVDAPRLDRLRRLVPRTTQRRIPSPENVSAII
GVLTAKPSRKRRKIRTEPHTIVDTFQQRIAGRQAAMAMLEEYDTDINARESALWETAVNTLKTTTREERR
IRYITLNRPELPETKEENQISVRAERAGINLLTLPQDNNHPTGRPVNGFHHKKNNRPDWDGMY

  Protein domains



No domain identified.


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 53750..83183

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
ML391_RS19720 (ML391_19720) 51466..53757 - 2292 WP_011264051 F-type conjugative transfer protein TrbC -
ML391_RS19725 (ML391_19725) 53750..54820 - 1071 WP_024236742 IncI1-type conjugal transfer protein TrbB trbB
ML391_RS19730 (ML391_19730) 54839..56047 - 1209 WP_000121273 IncI1-type conjugal transfer protein TrbA trbA
ML391_RS19735 (ML391_19735) 56339..56491 + 153 WP_001387489 Hok/Gef family protein -
ML391_RS19740 (ML391_19740) 56563..56814 - 252 WP_001291964 hypothetical protein -
ML391_RS27690 57315..57410 + 96 WP_001303310 DinQ-like type I toxin DqlB -
ML391_RS19750 (ML391_19750) 57475..57651 - 177 WP_001054897 hypothetical protein -
ML391_RS19755 (ML391_19755) 58043..58252 + 210 WP_000062603 HEAT repeat domain-containing protein -
ML391_RS19760 (ML391_19760) 58324..58974 - 651 WP_021520375 plasmid IncI1-type surface exclusion protein ExcA -
ML391_RS19765 (ML391_19765) 59048..61216 - 2169 WP_000698357 DotA/TraY family protein traY
ML391_RS19770 (ML391_19770) 61313..61897 - 585 WP_001037987 IncI1-type conjugal transfer protein TraX -
ML391_RS19775 (ML391_19775) 61926..63128 - 1203 WP_001189160 IncI1-type conjugal transfer protein TraW traW
ML391_RS19780 (ML391_19780) 63095..63709 - 615 WP_000337398 IncI1-type conjugal transfer protein TraV traV
ML391_RS19785 (ML391_19785) 63709..66753 - 3045 WP_001024783 IncI1-type conjugal transfer protein TraU traU
ML391_RS19790 (ML391_19790) 66843..67643 - 801 WP_001164788 IncI1-type conjugal transfer protein TraT traT
ML391_RS19795 (ML391_19795) 67627..67815 - 189 WP_001277255 putative conjugal transfer protein TraS -
ML391_RS19800 (ML391_19800) 67879..68283 - 405 WP_000086959 IncI1-type conjugal transfer protein TraR traR
ML391_RS19805 (ML391_19805) 68334..68861 - 528 WP_001055569 conjugal transfer protein TraQ traQ
ML391_RS19810 (ML391_19810) 68861..69565 - 705 WP_000801919 IncI1-type conjugal transfer protein TraP traP
ML391_RS19815 (ML391_19815) 69565..70854 - 1290 WP_001272000 conjugal transfer protein TraO traO
ML391_RS19820 (ML391_19820) 70857..71840 - 984 WP_001191879 IncI1-type conjugal transfer protein TraN traN
ML391_RS19825 (ML391_19825) 71851..72543 - 693 WP_000138550 DotI/IcmL family type IV secretion protein traM
ML391_RS19830 (ML391_19830) 72540..72887 - 348 WP_001055900 conjugal transfer protein traL
ML391_RS19835 (ML391_19835) 72905..76672 - 3768 WP_021520378 LPD7 domain-containing protein -
ML391_RS19840 (ML391_19840) 76762..77313 - 552 WP_000014583 phospholipase D family protein -
ML391_RS19845 (ML391_19845) 77328..77618 - 291 WP_001299214 hypothetical protein traK
ML391_RS19850 (ML391_19850) 77615..78763 - 1149 WP_001024972 plasmid transfer ATPase TraJ virB11
ML391_RS19855 (ML391_19855) 78760..79578 - 819 WP_000646098 IncI1-type conjugal transfer lipoprotein TraI traI
ML391_RS19860 (ML391_19860) 79575..80033 - 459 WP_001079808 IncI1-type conjugal transfer lipoprotein TraH -
ML391_RS19865 (ML391_19865) 80428..81012 - 585 WP_000977522 histidine phosphatase family protein -
ML391_RS19870 (ML391_19870) 81072..82274 - 1203 WP_000976351 conjugal transfer protein TraF -
ML391_RS19875 (ML391_19875) 82359..83183 - 825 WP_001238939 conjugal transfer protein TraE traE
ML391_RS19880 (ML391_19880) 83334..84488 - 1155 WP_001139957 site-specific integrase -
ML391_RS27800 84487..84665 + 179 Protein_97 shufflon protein D' -

Host bacterium

ID   2864 GenBank   NZ_JAKVSX010000022
Plasmid name   SMG004F8|unnamed1 Incompatibility group   IncI1
Plasmid size   84665 bp Coordinate of oriT [Strand]   48287..48375 [-]
Host baterium   Escherichia coli strain SMG004F8

Cargo genes

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