Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   106630
Name   oriT_RHB02-E1-C03|unnamed1 in_silico
Organism   Escherichia fergusonii strain RHB02-E1-C03
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP099359 (61594..61680 [-], 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-E1-C03|unnamed1
GGGGTGTCGGGGCGAAGCCCTGACCAGGAGGCAATTGTATAATCGCGCGTGCGCGGTTATACAATTGCACATCCTGTCCCGTTTTTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   4393 GenBank   WP_001354015
Name   nikB_NFJ18_RS23215_RHB02-E1-C03|unnamed1 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   1956 GenBank   WP_001281051
Name   WP_001281051_RHB02-E1-C03|unnamed1 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   4425 GenBank   WP_001289276
Name   trbC_NFJ18_RS23220_RHB02-E1-C03|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: 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: 67059..106206

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
NFJ18_RS23220 (NFJ18_23180) 64775..67066 - 2292 WP_001289276 F-type conjugative transfer protein TrbC -
NFJ18_RS23225 (NFJ18_23185) 67059..68129 - 1071 WP_000151583 IncI1-type conjugal transfer protein TrbB trbB
NFJ18_RS23230 (NFJ18_23190) 68148..69356 - 1209 WP_181465534 IncI1-type conjugal transfer protein TrbA trbA
NFJ18_RS23235 (NFJ18_23195) 69648..69800 + 153 WP_001331364 Hok/Gef family protein -
NFJ18_RS23240 (NFJ18_23200) 69872..70123 - 252 WP_001291965 hypothetical protein -
NFJ18_RS23245 70624..70719 + 96 WP_000609148 DinQ-like type I toxin DqlB -
NFJ18_RS23250 (NFJ18_23210) 70784..70960 - 177 WP_001054904 hypothetical protein -
NFJ18_RS23255 (NFJ18_23215) 71352..71561 + 210 WP_000062603 HEAT repeat domain-containing protein -
NFJ18_RS23260 (NFJ18_23220) 71633..72295 - 663 WP_000653334 plasmid IncI1-type surface exclusion protein ExcA -
NFJ18_RS23265 (NFJ18_23225) 72360..74522 - 2163 WP_000698351 DotA/TraY family protein traY
NFJ18_RS23270 (NFJ18_23230) 74619..75203 - 585 WP_001037987 IncI1-type conjugal transfer protein TraX -
NFJ18_RS23275 (NFJ18_23235) 75232..76434 - 1203 WP_001189160 IncI1-type conjugal transfer protein TraW traW
NFJ18_RS23280 (NFJ18_23240) 76401..77015 - 615 WP_000337398 IncI1-type conjugal transfer protein TraV traV
NFJ18_RS23285 (NFJ18_23245) 77015..80059 - 3045 WP_001024780 IncI1-type conjugal transfer protein TraU traU
NFJ18_RS23290 (NFJ18_23250) 80149..80949 - 801 WP_001164788 IncI1-type conjugal transfer protein TraT traT
NFJ18_RS23295 (NFJ18_23255) 80933..81121 - 189 WP_001277255 putative conjugal transfer protein TraS -
NFJ18_RS23300 (NFJ18_23260) 81185..81589 - 405 WP_000086957 IncI1-type conjugal transfer protein TraR traR
NFJ18_RS23305 (NFJ18_23265) 81640..82167 - 528 WP_001055569 conjugal transfer protein TraQ traQ
NFJ18_RS23310 (NFJ18_23270) 82167..82871 - 705 WP_000801920 IncI1-type conjugal transfer protein TraP traP
NFJ18_RS23315 (NFJ18_23275) 82871..84160 - 1290 WP_001272005 conjugal transfer protein TraO traO
NFJ18_RS23320 (NFJ18_23280) 84163..85146 - 984 WP_001191877 IncI1-type conjugal transfer protein TraN traN
NFJ18_RS23325 (NFJ18_23285) 85157..85849 - 693 WP_000138548 DotI/IcmL family type IV secretion protein traM
NFJ18_RS23330 (NFJ18_23290) 85846..86193 - 348 WP_001055900 conjugal transfer protein traL
NFJ18_RS23335 (NFJ18_23295) 86211..89978 - 3768 WP_001141529 LPD7 domain-containing protein -
NFJ18_RS23340 (NFJ18_23300) 90068..90619 - 552 WP_000014583 phospholipase D family protein -
NFJ18_RS23345 (NFJ18_23305) 90634..90924 - 291 WP_001299214 hypothetical protein traK
NFJ18_RS23350 (NFJ18_23310) 90921..92069 - 1149 WP_001024972 plasmid transfer ATPase TraJ virB11
NFJ18_RS23355 (NFJ18_23315) 92066..92884 - 819 WP_000646098 IncI1-type conjugal transfer lipoprotein TraI traI
NFJ18_RS23360 (NFJ18_23320) 92881..93339 - 459 WP_001079808 IncI1-type conjugal transfer lipoprotein TraH -
NFJ18_RS23365 (NFJ18_23325) 93734..94066 - 333 Protein_111 lipopolysaccharide core heptose(II)-phosphate phosphatase -
NFJ18_RS23370 (NFJ18_23330) 94158..95386 + 1229 WP_164473239 IS3-like element IS2 family transposase -
NFJ18_RS23375 (NFJ18_23335) 95379..95654 - 276 Protein_113 histidine phosphatase family protein -
NFJ18_RS23380 (NFJ18_23340) 95714..96916 - 1203 WP_000976351 conjugal transfer protein TraF -
NFJ18_RS23385 (NFJ18_23345) 97001..97825 - 825 WP_001238939 conjugal transfer protein TraE traE
NFJ18_RS23390 (NFJ18_23350) 97976..99130 - 1155 WP_001139957 site-specific integrase -
NFJ18_RS23395 (NFJ18_23355) 99217..99423 + 207 WP_000008649 hypothetical protein -
NFJ18_RS24065 100217..100438 + 222 Protein_118 prepilin -
NFJ18_RS23400 (NFJ18_23360) 100435..101859 - 1425 WP_001389385 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
NFJ18_RS23405 (NFJ18_23365) 101859..102515 - 657 WP_001193553 prepilin peptidase -
NFJ18_RS23410 (NFJ18_23370) 102500..103060 - 561 WP_000014116 lytic transglycosylase domain-containing protein virB1
NFJ18_RS23415 (NFJ18_23375) 103070..103684 - 615 WP_000959785 type 4 pilus major pilin -
NFJ18_RS23420 (NFJ18_23380) 103702..104799 - 1098 WP_001208805 type II secretion system F family protein -
NFJ18_RS23425 (NFJ18_23385) 104812..106365 - 1554 WP_000362202 ATPase, T2SS/T4P/T4SS family -
NFJ18_RS23430 (NFJ18_23390) 106376..106828 - 453 WP_001247336 type IV pilus biogenesis protein PilP -
NFJ18_RS23435 (NFJ18_23395) 106815..108110 - 1296 WP_000752774 type 4b pilus protein PilO2 -
NFJ18_RS23440 (NFJ18_23400) 108103..109785 - 1683 WP_000748143 PilN family type IVB pilus formation outer membrane protein -
NFJ18_RS23445 (NFJ18_23405) 109799..110236 - 438 WP_000539807 type IV pilus biogenesis protein PilM -

Host bacterium

ID   7067 GenBank   NZ_CP099359
Plasmid name   RHB02-E1-C03|unnamed1 Incompatibility group   IncI1
Plasmid size   116881 bp Coordinate of oriT [Strand]   61594..61680 [-]
Host baterium   Escherichia fergusonii strain RHB02-E1-C03

Cargo genes

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