Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   118390
Name   oriT_p3RM9976 in_silico
Organism   Escherichia albertii strain RM9976
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP043263 (83377..83465 [+], 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_p3RM9976
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTGTCCCGTTTTTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   11678 GenBank   WP_108943928
Name   nikB_FYK19_RS24990_p3RM9976 insolico UniProt ID   _
Length   899 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 899 a.a.        Molecular weight: 103933.43 Da        Isoelectric Point: 7.4288

>WP_108943928.1 MULTISPECIES: IncI1-type relaxase NikB [Escherichia]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELNLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIAQQAHYAKDNTDPVFHYILSWQAHESPRPEQIYDSVR
HTLKSLGLGEHQYVSAVHTDTDNLHVHVAVNRVHPVTGYLNCLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVHDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEVPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDRSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(62-314)


  Protein structure



No available structure.




Auxiliary protein

ID   6740 GenBank   WP_001283947
Name   WP_001283947_p3RM9976 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   13674 GenBank   WP_137489556
Name   trbC_FYK19_RS24985_p3RM9976 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: 86982.12 Da        Isoelectric Point: 6.7713

>WP_137489556.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Enterobacteriaceae]
MSEHRVNPELLHRTAWGNPVWNALQSLNIYGFCLVASLVASFIWPLALPACLLFTLITMLVFSLQRWRCP
LRMPMTLECADPSQDRMIKRSLFSFWPTLFQYEVILESPASGIFYVGYQRVRDIGRELWLSMDDLTRHIM
FFATTGGGKTETIFAWAINPLCWARGFTLVDGKAQNDTARTIWYLARRFGREDDVEVINFMNGGKSRSEI
ILSGEKTRPQSNTWNPFCYSTEAFTAETMQSMLPQNVQGGEWQSRAIAMNKALVFGTKFWCVREGKTMSL
QMLREHMTLEGMARLYCRGLDDQWPEEAIAPLRNYLQDVPGFDLSLVRTPSAWTEEPRKQHAYLSGQFSE
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: 39332..77999

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
FYK19_RS24770 (FYK19_25110) 34394..35461 + 1068 WP_042012078 type IV pilus biogenesis lipoprotein PilL -
FYK19_RS24775 (FYK19_25115) 35461..35898 + 438 WP_265463355 type IV pilus biogenesis protein PilM -
FYK19_RS24780 (FYK19_25120) 35912..37594 + 1683 WP_000748143 PilN family type IVB pilus formation outer membrane protein -
FYK19_RS24785 (FYK19_25125) 37587..38882 + 1296 WP_001545757 type 4b pilus protein PilO2 -
FYK19_RS24790 (FYK19_25130) 38869..39321 + 453 WP_033548829 type IV pilus biogenesis protein PilP -
FYK19_RS24795 (FYK19_25135) 39332..40885 + 1554 WP_001545756 GspE/PulE family protein virB11
FYK19_RS24800 (FYK19_25140) 40898..41983 + 1086 WP_001208803 type II secretion system F family protein -
FYK19_RS24805 (FYK19_25145) 42000..42614 + 615 WP_001685259 type 4 pilus major pilin -
FYK19_RS24810 (FYK19_25150) 42624..43184 + 561 WP_000014005 lytic transglycosylase domain-containing protein virB1
FYK19_RS24815 (FYK19_25155) 43169..43825 + 657 WP_265463307 prepilin peptidase -
FYK19_RS24820 (FYK19_25160) 43825..45117 + 1293 WP_096978853 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
FYK19_RS24825 (FYK19_25165) 45114..45362 - 249 WP_001349157 hypothetical protein -
FYK19_RS24830 46600..46884 - 285 WP_244595835 pilus assembly protein PilV -
FYK19_RS24835 (FYK19_25200) 46883..48037 + 1155 WP_001139955 tyrosine-type recombinase/integrase -
FYK19_RS24840 (FYK19_25205) 48188..49012 + 825 WP_015058912 conjugal transfer protein TraE traE
FYK19_RS24845 (FYK19_25210) 49098..50300 + 1203 WP_000976357 conjugal transfer protein TraF -
FYK19_RS24850 (FYK19_25215) 50360..50944 + 585 WP_000977522 histidine phosphatase family protein -
FYK19_RS24855 (FYK19_25220) 51339..51797 + 459 WP_001079808 IncI1-type conjugal transfer lipoprotein TraH -
FYK19_RS24860 (FYK19_25225) 51794..52612 + 819 WP_000646097 IncI1-type conjugal transfer lipoprotein TraI traI
FYK19_RS24865 (FYK19_25230) 52609..53757 + 1149 WP_001024975 plasmid transfer ATPase TraJ virB11
FYK19_RS24870 (FYK19_25235) 53754..54044 + 291 WP_001299214 hypothetical protein traK
FYK19_RS24875 (FYK19_25240) 54059..54610 + 552 WP_000014584 phospholipase D family protein -
FYK19_RS24880 (FYK19_25245) 54700..58467 + 3768 WP_265463313 LPD7 domain-containing protein -
FYK19_RS24885 (FYK19_25250) 58485..58832 + 348 WP_001055900 conjugal transfer protein traL
FYK19_RS24890 (FYK19_25255) 58829..59521 + 693 WP_000138552 DotI/IcmL family type IV secretion protein traM
FYK19_RS24895 (FYK19_25260) 59532..60515 + 984 WP_137489553 IncI1-type conjugal transfer protein TraN traN
FYK19_RS24900 (FYK19_25265) 60518..61807 + 1290 WP_001271991 conjugal transfer protein TraO traO
FYK19_RS24905 (FYK19_25270) 61807..62511 + 705 WP_000801920 IncI1-type conjugal transfer protein TraP traP
FYK19_RS24910 (FYK19_25275) 62511..63038 + 528 WP_001055569 conjugal transfer protein TraQ traQ
FYK19_RS24915 (FYK19_25280) 63089..63493 + 405 WP_000086960 IncI1-type conjugal transfer protein TraR traR
FYK19_RS24920 (FYK19_25285) 63557..63745 + 189 WP_001277255 putative conjugal transfer protein TraS -
FYK19_RS24925 (FYK19_25290) 63729..64529 + 801 WP_001164788 IncI1-type conjugal transfer protein TraT traT
FYK19_RS24930 (FYK19_25295) 64619..67663 + 3045 WP_265463316 IncI1-type conjugal transfer protein TraU traU
FYK19_RS24935 (FYK19_25300) 67663..68277 + 615 WP_000337399 IncI1-type conjugal transfer protein TraV traV
FYK19_RS24940 (FYK19_25305) 68244..69446 + 1203 WP_021013263 IncI1-type conjugal transfer protein TraW traW
FYK19_RS24945 (FYK19_25310) 69475..70059 + 585 WP_001037988 IncI1-type conjugal transfer protein TraX -
FYK19_RS24950 (FYK19_25315) 70156..72324 + 2169 WP_137467595 DotA/TraY family protein traY
FYK19_RS24955 (FYK19_25320) 72398..73048 + 651 WP_265463320 plasmid IncI1-type surface exclusion protein ExcA -
FYK19_RS24960 (FYK19_25325) 73146..73355 + 210 WP_001140544 hemolysin expression modulator Hha -
FYK19_RS24965 73564..73740 + 177 WP_001054904 hypothetical protein -
FYK19_RS26760 73805..73900 - 96 WP_001303310 DinQ-like type I toxin DqlB -
FYK19_RS24970 (FYK19_25330) 74532..75440 + 909 WP_265463323 hypothetical protein -
FYK19_RS24975 (FYK19_25335) 75702..76910 + 1209 WP_000121273 IncI1-type conjugal transfer protein TrbA trbA
FYK19_RS24980 (FYK19_25340) 76929..77999 + 1071 WP_137489555 IncI1-type conjugal transfer protein TrbB trbB
FYK19_RS24985 (FYK19_25345) 77992..80283 + 2292 WP_137489556 F-type conjugative transfer protein TrbC -

Host bacterium

ID   18823 GenBank   NZ_CP043263
Plasmid name   p3RM9976 Incompatibility group   IncI1
Plasmid size   84014 bp Coordinate of oriT [Strand]   83377..83465 [+]
Host baterium   Escherichia albertii strain RM9976

Cargo genes

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