Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   105296
Name   oriT_pRHB18-C03_2 in_silico
Organism   Escherichia fergusonii strain RHB18-C03
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP055697 (65960..66048 [-], 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_pRHB18-C03_2
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGCAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTGCACATCCTGTCCCGTTTTTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3621 GenBank   WP_096221534
Name   nikB_HVX34_RS22505_pRHB18-C03_2 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: 103983.38 Da        Isoelectric Point: 7.3426

>WP_096221534.1 MULTISPECIES: IncI1-type relaxase NikB [Enterobacteriaceae]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELDLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIARQAHYAKDDTDPVFHYILSWQSHESPRPEQIYDSVR
HTLKSLGLADHQYVSAVHTDTDNLHVHVAVNRVHPETGYLNRLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVNDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDKSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(62-314)


  Protein structure



No available structure.




Auxiliary protein

ID   1625 GenBank   WP_001283947
Name   WP_001283947_pRHB18-C03_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   3587 GenBank   WP_112868651
Name   trbC_HVX34_RS22510_pRHB18-C03_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: 86869.08 Da        Isoelectric Point: 6.7712

>WP_112868651.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Enterobacteriaceae]
MSEHRVNPELLHRTAWGNPVWNALQSLNIYGFCLVASLVASFIWPLALPACLLFTLITMLVFSLQRWRCP
LRMPMTLECADPSQDRMIKRSLFSFWPTLFQYEVILESPASGIFYVGYQRVRDIGRELWLSMDDLTRHIM
FFATTGGGKTETIFAWAINPLCWARGFTLVDGKAQNDTARTIWYLARRFGREDDVEVINFMNGGKSRSEI
ILSGEKTRPQSNTWNPFCYSTEAFTAETMQSMLPQNVQGGEWQSRAIAMNKALVFGTKFWCVREGKTMSL
QMLREHMTLEGMAKLYCRGLDDQWPEEAIAPLRNYLQDVPGFDLSLVRTPSAWTEEPRKQHAYLSGQFSE
TFSTFTEAFGDIFAEDSGDIDIRDSIHSDRILMVMIPALDTSAHTTSALGRMFITQKSMILARDLGYRLE
GTDSDALEVKKYKGRFPYLCFLDEVGAYYTDRIAVEATQVRSLDFALILMAQDQERIEGQTTATNTATLM
QNTGTKFAGRIVSEGSTAKTLKSAAGEEARARMNNLQRQDGIFGESWIDSPQISILMESKIDVQELIELH
PGEFFSIFRGETVPSASFFIPDNEKSCSSDPVVINRYISVDAPRLDRLRRLVPRTAQRRIPSPENVSAII
GVLTAKPSRKRRKIRTEPHTIVDTFQQRIAGRQAAMAMLEEYDTDINARESALWETAVNTLKTATREERR
IRYITLNRPELPETKEENQISVRAERAGINLLTLPQDNNHLTGRPVNGFHHKKTNRPDWDGMY

  Protein domains



No domain identified.


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 71426..106793

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HVX34_RS22510 (HVX34_22500) 69142..71433 - 2292 WP_112868651 F-type conjugative transfer protein TrbC -
HVX34_RS22515 (HVX34_22505) 71426..72496 - 1071 WP_181464523 IncI1-type conjugal transfer protein TrbB trbB
HVX34_RS22520 (HVX34_22510) 72515..73723 - 1209 WP_000121273 IncI1-type conjugal transfer protein TrbA trbA
HVX34_RS22525 (HVX34_22515) 74015..74167 + 153 WP_001303307 Hok/Gef family protein -
HVX34_RS22530 (HVX34_22520) 74239..74490 - 252 WP_001291965 hypothetical protein -
HVX34_RS22535 (HVX34_22525) 75414..75590 - 177 WP_001054900 hypothetical protein -
HVX34_RS22540 (HVX34_22530) 75982..76191 + 210 WP_000062603 HEAT repeat domain-containing protein -
HVX34_RS22545 (HVX34_22535) 76263..76925 - 663 WP_000644794 plasmid IncI1-type surface exclusion protein ExcA -
HVX34_RS22550 (HVX34_22540) 76996..79164 - 2169 WP_000698368 DotA/TraY family protein traY
HVX34_RS22555 (HVX34_22545) 79261..79845 - 585 WP_001037985 IncI1-type conjugal transfer protein TraX -
HVX34_RS22560 (HVX34_22550) 79874..81076 - 1203 WP_001697941 IncI1-type conjugal transfer protein TraW traW
HVX34_RS22565 (HVX34_22555) 81043..81657 - 615 WP_001542516 IncI1-type conjugal transfer protein TraV traV
HVX34_RS22570 (HVX34_22560) 81657..84701 - 3045 WP_181464524 IncI1-type conjugal transfer protein TraU traU
HVX34_RS22575 (HVX34_22565) 84791..85591 - 801 WP_181464525 IncI1-type conjugal transfer protein TraT traT
HVX34_RS22580 (HVX34_22570) 85575..85763 - 189 WP_001277255 putative conjugal transfer protein TraS -
HVX34_RS22585 (HVX34_22575) 85827..86231 - 405 WP_077137006 IncI1-type conjugal transfer protein TraR traR
HVX34_RS22590 (HVX34_22580) 86282..86809 - 528 WP_001055569 conjugal transfer protein TraQ traQ
HVX34_RS22595 (HVX34_22585) 86809..87513 - 705 WP_000801919 IncI1-type conjugal transfer protein TraP traP
HVX34_RS22600 (HVX34_22590) 87513..88802 - 1290 WP_181464526 conjugal transfer protein TraO traO
HVX34_RS22605 (HVX34_22595) 88805..89788 - 984 WP_181464527 IncI1-type conjugal transfer protein TraN traN
HVX34_RS22610 (HVX34_22600) 89799..90491 - 693 WP_080242525 DotI/IcmL family type IV secretion protein traM
HVX34_RS22615 (HVX34_22605) 90488..90835 - 348 WP_001055900 conjugal transfer protein traL
HVX34_RS22620 (HVX34_22610) 90853..94620 - 3768 WP_080242524 LPD7 domain-containing protein -
HVX34_RS22625 (HVX34_22615) 94710..95261 - 552 WP_000014584 phospholipase D family protein -
HVX34_RS22630 (HVX34_22620) 95276..95566 - 291 WP_001299214 hypothetical protein traK
HVX34_RS22635 (HVX34_22625) 95563..96711 - 1149 WP_181464528 plasmid transfer ATPase TraJ virB11
HVX34_RS22640 (HVX34_22630) 96708..97526 - 819 WP_181464529 IncI1-type conjugal transfer lipoprotein TraI traI
HVX34_RS22645 (HVX34_22635) 97523..97981 - 459 WP_181464530 IncI1-type conjugal transfer lipoprotein TraH -
HVX34_RS22650 (HVX34_22640) 98496..99698 - 1203 WP_181464531 conjugal transfer protein TraF -
HVX34_RS22655 (HVX34_22645) 99784..100607 - 824 Protein_104 conjugal transfer protein TraE -
HVX34_RS23120 100766..100837 - 72 Protein_105 shufflon-specific DNA recombinase -
HVX34_RS22660 (HVX34_22650) 100972..102300 - 1329 WP_181464532 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
HVX34_RS22665 (HVX34_22655) 102300..102956 - 657 WP_001193549 A24 family peptidase -
HVX34_RS22670 (HVX34_22660) 102941..103501 - 561 WP_172692750 lytic transglycosylase domain-containing protein virB1
HVX34_RS22675 (HVX34_22665) 103511..104125 - 615 WP_000908227 type 4 pilus major pilin -
HVX34_RS22680 (HVX34_22670) 104142..105227 - 1086 WP_001208802 type II secretion system F family protein -
HVX34_RS22685 (HVX34_22675) 105240..106793 - 1554 WP_001545756 ATPase, T2SS/T4P/T4SS family virB11
HVX34_RS22690 (HVX34_22680) 106804..107256 - 453 WP_001247333 type IV pilus biogenesis protein PilP -
HVX34_RS22695 (HVX34_22685) 107243..108538 - 1296 WP_181464533 type 4b pilus protein PilO2 -
HVX34_RS22700 (HVX34_22690) 108531..110213 - 1683 WP_181464534 PilN family type IVB pilus formation outer membrane protein -
HVX34_RS22705 (HVX34_22695) 110227..110664 - 438 WP_181464535 type IV pilus biogenesis protein PilM -
HVX34_RS22710 (HVX34_22700) 110664..111731 - 1068 WP_181464536 type IV pilus biogenesis lipoprotein PilL -

Host bacterium

ID   5734 GenBank   NZ_CP055697
Plasmid name   pRHB18-C03_2 Incompatibility group   IncI1
Plasmid size   117379 bp Coordinate of oriT [Strand]   65960..66048 [-]
Host baterium   Escherichia fergusonii strain RHB18-C03

Cargo genes

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