Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   105305
Name   oriT_pRHB23-C02_2 in_silico
Organism   Escherichia fergusonii strain RHB23-C02
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP057562 (68347..68435 [-], 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_pRHB23-C02_2
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTGTCCCGTTTTTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3625 GenBank   WP_021565547
Name   nikB_HVX92_RS22125_pRHB23-C02_2 insolico UniProt ID   A0A097SRB3
Length   899 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 899 a.a.        Molecular weight: 104057.54 Da        Isoelectric Point: 7.2601

>WP_021565547.1 MULTISPECIES: IncI1-type relaxase NikB [Escherichia]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELDLSSSSQAEQPHRNRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIAQQAHYAKDNTDPVFHYILSWQAHESPRPEQIYDSVR
HTLKSLGLGEHQYVSAVHTDTDNLHVHVAVNRVHPVTGYLNCLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVHDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPENRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDKSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLYLIAPVLFERDPRMGFEPEGNDGQFNQVFAEMVAW
HNVTGFSEHGNYVITRPDVDQHREVSERGYRNYMDSNTYRDGTQPVQDSENRWEPPTPV

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(62-314)


  Protein structure


Source ID Structure
AlphaFold DB A0A097SRB3


Auxiliary protein

ID   1629 GenBank   WP_001283947
Name   WP_001283947_pRHB23-C02_2 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   3592 GenBank   WP_001289267
Name   trbC_HVX92_RS22150_pRHB23-C02_2 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: 87057.18 Da        Isoelectric Point: 6.3909

>WP_001289267.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Enterobacteriaceae]
MSEHRVNPELLHRTAWGNPVWNALQSLNIYGFCLVASLVASFIWPLALPACLLFTLITMLVFSLQRWRCP
LRMPMTLECADPSQDRMIKRSLFSFWPTLFQYEVILESPASGIFYVGYQRVRDIGRELWLSMDDLTRHIM
FFATTGGGKTETIFAWAINPLCWARGFTLVDGKAQNDTARTIWYLARRFGREDDVEVINFMNGGKSRSEI
ILSGEKTRPQSNTWNPFCYSTEAFTAETMQSMLPQNVQGGEWQSRAIAMNKALVFGTKFWCVREGKTMSL
QMLREHMTLEGMAKLYCHGLDDQWPEEAIAPLRNYLQDVPGFDLSLVRTPSAWTEEPRKQHAYLSGQFSE
TFSTFTEAFGDIFAEDSGDIDIRDSIHSDRILMVMIPALDTSAHTTSALGRMFITQKSMILARDLGYRLE
GTDSDALEVKKYKGRFPYLCFLDEVGAYYTDRIAVEATQVRSLDFALILMAQDQERIEGQTTATNTATLM
QNTGTKFAGRIVSEGSTARTLKSAAGEEARARMNNLQRQDGIFGESWIDSPQISILMESKIDVQELIELH
PGEFFSIFRGETVPSASFFIPDDEKSCSSDPVVINRYISVDAPRLDRLRRLVPRTAQRRIPSPENVSAII
GVLTAKPSRKRRKIRTEPHTIVDTFQQRIAGRQAAMAMLEEYDTDINARESALWETAVNTLKTTTLEERR
IRYITLNRPEPPETKEENQISVRAEKANINLLTLPQDNNHPTGRPVNWFHQKKNNRSDWNEMY

  Protein domains



No domain identified.


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 79389..114808

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HVX92_RS23625 (HVX92_22115) 75685..76320 - 636 WP_000999379 CPBP family intramembrane glutamic endopeptidase -
HVX92_RS22150 (HVX92_22120) 77105..79396 - 2292 WP_001289267 F-type conjugative transfer protein TrbC -
HVX92_RS22155 (HVX92_22125) 79389..80459 - 1071 WP_047088495 IncI1-type conjugal transfer protein TrbB trbB
HVX92_RS22160 (HVX92_22130) 80478..81686 - 1209 WP_000121273 IncI1-type conjugal transfer protein TrbA trbA
HVX92_RS22165 (HVX92_22135) 81978..82130 + 153 WP_001303307 Hok/Gef family protein -
HVX92_RS22170 (HVX92_22140) 82202..82453 - 252 WP_001291965 hypothetical protein -
HVX92_RS23585 82952..83047 + 96 WP_001303310 DinQ-like type I toxin DqlB -
HVX92_RS22175 (HVX92_22145) 83112..83288 - 177 WP_001054904 hypothetical protein -
HVX92_RS22180 (HVX92_22150) 83497..83706 - 210 WP_001140545 hemolysin expression modulator Hha -
HVX92_RS22185 (HVX92_22155) 83804..84418 - 615 WP_000578649 plasmid IncI1-type surface exclusion protein ExcA -
HVX92_RS22190 (HVX92_22160) 84494..86662 - 2169 WP_181812593 IncI1-type conjugal transfer membrane protein TraY traY
HVX92_RS22195 (HVX92_22165) 86759..87343 - 585 WP_001037987 IncI1-type conjugal transfer protein TraX -
HVX92_RS22200 (HVX92_22170) 87372..88574 - 1203 WP_001189156 IncI1-type conjugal transfer protein TraW traW
HVX92_RS22205 (HVX92_22175) 88541..89155 - 615 WP_000337400 IncI1-type conjugal transfer protein TraV traV
HVX92_RS22210 (HVX92_22180) 89155..92199 - 3045 WP_021265678 IncI1-type conjugal transfer protein TraU traU
HVX92_RS22215 (HVX92_22185) 92289..93089 - 801 WP_001164788 IncI1-type conjugal transfer protein TraT traT
HVX92_RS22220 (HVX92_22190) 93073..93261 - 189 WP_001277255 putative conjugal transfer protein TraS -
HVX92_RS22225 (HVX92_22195) 93325..93729 - 405 WP_000086960 IncI1-type conjugal transfer protein TraR traR
HVX92_RS22230 (HVX92_22200) 93780..94307 - 528 WP_001055569 conjugal transfer protein TraQ traQ
HVX92_RS22235 (HVX92_22205) 94307..95014 - 708 WP_089520083 IncI1-type conjugal transfer protein TraP traP
HVX92_RS22240 (HVX92_22210) 95014..96303 - 1290 WP_001271997 conjugal transfer protein TraO traO
HVX92_RS22245 (HVX92_22215) 96306..97289 - 984 WP_001191878 IncI1-type conjugal transfer protein TraN traN
HVX92_RS22250 (HVX92_22220) 97300..97992 - 693 WP_000138552 DotI/IcmL family type IV secretion protein traM
HVX92_RS22255 (HVX92_22225) 97989..98336 - 348 WP_001055900 conjugal transfer protein traL
HVX92_RS22260 (HVX92_22230) 98354..102121 - 3768 WP_181812594 LPD7 domain-containing protein -
HVX92_RS22265 (HVX92_22235) 102211..102762 - 552 WP_000014584 phospholipase D family protein -
HVX92_RS22270 (HVX92_22240) 102777..103067 - 291 WP_001299214 hypothetical protein traK
HVX92_RS22275 (HVX92_22245) 103064..104212 - 1149 WP_001024972 plasmid transfer ATPase TraJ virB11
HVX92_RS22280 (HVX92_22250) 104209..105027 - 819 WP_181812595 IncI1-type conjugal transfer lipoprotein TraI traI
HVX92_RS22285 (HVX92_22255) 105024..105482 - 459 WP_001079808 IncI1-type conjugal transfer lipoprotein TraH -
HVX92_RS22290 (HVX92_22260) 105877..106461 - 585 WP_000977526 histidine phosphatase family protein -
HVX92_RS22295 (HVX92_22265) 106521..107723 - 1203 WP_181812596 conjugal transfer protein TraF -
HVX92_RS22300 (HVX92_22270) 107809..108633 - 825 WP_001238943 conjugal transfer protein TraE traE
HVX92_RS22305 (HVX92_22275) 108841..108966 + 126 Protein_120 transposase -
HVX92_RS22310 (HVX92_22280) 109023..110315 - 1293 WP_001350014 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
HVX92_RS22315 (HVX92_22285) 110315..110971 - 657 WP_001193549 A24 family peptidase -
HVX92_RS22320 (HVX92_22290) 110956..111516 - 561 WP_000014005 lytic transglycosylase domain-containing protein virB1
HVX92_RS22325 (HVX92_22295) 111526..112140 - 615 WP_062858101 type 4 pilus major pilin -
HVX92_RS22330 (HVX92_22300) 112157..113242 - 1086 WP_001208802 type II secretion system F family protein -
HVX92_RS22335 (HVX92_22305) 113255..114808 - 1554 WP_000362206 ATPase, T2SS/T4P/T4SS family virB11
HVX92_RS22340 (HVX92_22310) 114819..115271 - 453 WP_001247337 type IV pilus biogenesis protein PilP -
HVX92_RS22345 (HVX92_22315) 115258..116553 - 1296 WP_000752780 type 4b pilus protein PilO2 -
HVX92_RS22350 (HVX92_22320) 116546..118228 - 1683 WP_000748143 PilN family type IVB pilus formation outer membrane protein -
HVX92_RS22355 (HVX92_22325) 118242..118679 - 438 WP_000539807 type IV pilus biogenesis protein PilM -
HVX92_RS22360 (HVX92_22330) 118679..119746 - 1068 WP_042012078 type IV pilus biogenesis lipoprotein PilL -

Host bacterium

ID   5743 GenBank   NZ_CP057562
Plasmid name   pRHB23-C02_2 Incompatibility group   IncI1
Plasmid size   124527 bp Coordinate of oriT [Strand]   68347..68435 [-]
Host baterium   Escherichia fergusonii strain RHB23-C02

Cargo genes

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