Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   121821
Name   oriT_RHB02-C15|unnamed in_silico
Organism   Escherichia fergusonii strain RHB02-C15
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP055862 (37502..37588 [+], 87 nt)
oriT length   87 nt
IRs (inverted repeats)     _
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 87 nt

>oriT_RHB02-C15|unnamed
GGGGTGTCGGGGCGAAGCCCTGACCAGGAGGCAATTGTATAATCGCGCGTGCGCGGTTATACAATTGCACATCCTGTCCCGTTTTTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   13776 GenBank   WP_001354015
Name   nikB_HVV51_RS23330_RHB02-C15|unnamed insolico UniProt ID   E8XLT1
Length   899 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 899 a.a.        Molecular weight: 104018.47 Da        Isoelectric Point: 7.3526

>WP_001354015.1 MULTISPECIES: IncI1-type relaxase NikB [Enterobacteriaceae]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELDLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIARQAHYAKDDTDPVFHYILSWQSHESPRPEQIYDSVR
HTLKSLGLADHQYVSAVHTDTDNLHVHVAVNRVHPETGYLNRLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVHDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCLAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPENRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDKSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(62-314)


  Protein structure


Source ID Structure
AlphaFold DB E8XLT1


Auxiliary protein

ID   7610 GenBank   WP_001281051
Name   WP_001281051_RHB02-C15|unnamed insolico UniProt ID   A0A3U8I0C6
Length   110 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 110 a.a.        Molecular weight: 12646.44 Da        Isoelectric Point: 10.4030

>WP_001281051.1 MULTISPECIES: plasmid mobilization protein MobA [Enterobacteriaceae]
MSDKRQRSGSERRQKTILRAVRFSPDEDETICKNAEDSGLTVSAYIRNAALNKRINSRTDDAFLKELMRL
GRMQKHLFVQGKRTGDKEYAEVLVAITELTNTLRKQLMEG

  Protein domains



No domain identified.



  Protein structure


Source ID Structure
AlphaFold DB A0A3U8I0C6


T4CP

ID   16105 GenBank   WP_001289276
Name   trbC_HVV51_RS23325_RHB02-C15|unnamed 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: 1357..32123

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HVV51_RS23160 (HVV51_23175) 52..1206 + 1155 WP_001139957 tyrosine-type recombinase/integrase -
HVV51_RS23165 (HVV51_23180) 1357..2181 + 825 WP_001238939 conjugal transfer protein TraE traE
HVV51_RS23170 (HVV51_23185) 2266..3468 + 1203 WP_000976351 conjugal transfer protein TraF -
HVV51_RS24170 (HVV51_23190) 3528..3803 + 276 Protein_3 histidine phosphatase family protein -
HVV51_RS23180 (HVV51_23200) 5035..5448 + 414 WP_274827260 lipopolysaccharide core heptose(II)-phosphate phosphatase -
HVV51_RS23185 (HVV51_23205) 5843..6301 + 459 WP_001079808 IncI1-type conjugal transfer lipoprotein TraH -
HVV51_RS23190 (HVV51_23210) 6298..7116 + 819 WP_000646098 IncI1-type conjugal transfer lipoprotein TraI traI
HVV51_RS23195 (HVV51_23215) 7113..8261 + 1149 WP_001024972 plasmid transfer ATPase TraJ virB11
HVV51_RS23200 (HVV51_23220) 8258..8548 + 291 WP_001299214 hypothetical protein traK
HVV51_RS23205 (HVV51_23225) 8563..9114 + 552 WP_000014583 phospholipase D family protein -
HVV51_RS23210 (HVV51_23230) 9204..12971 + 3768 WP_001141529 LPD7 domain-containing protein -
HVV51_RS23215 (HVV51_23235) 12989..13336 + 348 WP_001055900 conjugal transfer protein traL
HVV51_RS23220 (HVV51_23240) 13333..14025 + 693 WP_000138548 DotI/IcmL family type IV secretion protein traM
HVV51_RS23225 (HVV51_23245) 14036..15019 + 984 WP_001191877 IncI1-type conjugal transfer protein TraN traN
HVV51_RS23230 (HVV51_23250) 15022..16311 + 1290 WP_001272005 conjugal transfer protein TraO traO
HVV51_RS23235 (HVV51_23255) 16311..17015 + 705 WP_000801920 IncI1-type conjugal transfer protein TraP traP
HVV51_RS23240 (HVV51_23260) 17015..17542 + 528 WP_001055569 conjugal transfer protein TraQ traQ
HVV51_RS23245 (HVV51_23265) 17593..17997 + 405 WP_000086957 IncI1-type conjugal transfer protein TraR traR
HVV51_RS23250 (HVV51_23270) 18061..18249 + 189 WP_001277255 putative conjugal transfer protein TraS -
HVV51_RS23255 (HVV51_23275) 18233..19033 + 801 WP_001164788 IncI1-type conjugal transfer protein TraT traT
HVV51_RS23260 (HVV51_23280) 19123..22167 + 3045 WP_001024780 IncI1-type conjugal transfer protein TraU traU
HVV51_RS23265 (HVV51_23285) 22167..22781 + 615 WP_000337398 IncI1-type conjugal transfer protein TraV traV
HVV51_RS23270 (HVV51_23290) 22748..23950 + 1203 WP_001189160 IncI1-type conjugal transfer protein TraW traW
HVV51_RS23275 (HVV51_23295) 23979..24563 + 585 WP_001037987 IncI1-type conjugal transfer protein TraX -
HVV51_RS23280 (HVV51_23300) 24660..26822 + 2163 WP_000698351 DotA/TraY family protein traY
HVV51_RS23285 (HVV51_23305) 26887..27549 + 663 WP_000653334 plasmid IncI1-type surface exclusion protein ExcA -
HVV51_RS23290 (HVV51_23310) 27621..27830 - 210 WP_000062603 HEAT repeat domain-containing protein -
HVV51_RS23295 (HVV51_23315) 28222..28398 + 177 WP_001054904 hypothetical protein -
HVV51_RS24245 28463..28558 - 96 WP_000609148 DinQ-like type I toxin DqlB -
HVV51_RS23305 (HVV51_23325) 29059..29310 + 252 WP_001291965 hypothetical protein -
HVV51_RS23310 (HVV51_23330) 29382..29534 - 153 WP_001331364 Hok/Gef family protein -
HVV51_RS23315 (HVV51_23335) 29826..31034 + 1209 WP_181465534 IncI1-type conjugal transfer protein TrbA trbA
HVV51_RS23320 (HVV51_23340) 31053..32123 + 1071 WP_000151583 IncI1-type conjugal transfer protein TrbB trbB
HVV51_RS23325 (HVV51_23345) 32116..34407 + 2292 WP_001289276 F-type conjugative transfer protein TrbC -

Host bacterium

ID   22248 GenBank   NZ_CP055862
Plasmid name   RHB02-C15|unnamed Incompatibility group   -
Plasmid size   89189 bp Coordinate of oriT [Strand]   37502..37588 [+]
Host baterium   Escherichia fergusonii strain RHB02-C15

Cargo genes

Drug resistance gene   sul3, ant(3'')-Ia, cmlA1, aadA2
Virulence gene   -
Metal resistance gene   merE, merD, merA, merP, merT, merR1
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -