Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   104384
Name   oriT_pRHB42-C01_2 in_silico
Organism   Escherichia fergusonii strain RHB42-C01
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP056952 (63754..63842 [-], 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_pRHB42-C01_2
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTGTCCCGTTTTTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3205 GenBank   WP_181576135
Name   nikB_HV015_RS22410_pRHB42-C01_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: 104089.61 Da        Isoelectric Point: 7.3473

>WP_181576135.1 IncI1-type relaxase NikB [Escherichia fergusonii]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELDLSSSSQAEQPHRNRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIAQQAHYAKDNTDPVFHYILSWQAHESPRPEQIYDSVR
HTLKSLGLGEHQYVSAVHTDTDNLHVHVAVNRVHPVTGYLNCLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVHDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPENRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDKSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNVLADKLDLIAPVLFWRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(62-314)


  Protein structure



No available structure.




Auxiliary protein

ID   1404 GenBank   WP_001283947
Name   WP_001283947_pRHB42-C01_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   3119 GenBank   WP_001289276
Name   trbC_HV015_RS22415_pRHB42-C01_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: 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: 69220..105261

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HV015_RS22415 (HV015_22425) 66936..69227 - 2292 WP_001289276 F-type conjugative transfer protein TrbC -
HV015_RS22420 (HV015_22430) 69220..70290 - 1071 WP_001542508 IncI1-type conjugal transfer protein TrbB trbB
HV015_RS22425 (HV015_22435) 70309..71517 - 1209 WP_175237471 IncI1-type conjugal transfer protein TrbA trbA
HV015_RS22430 (HV015_22440) 71809..71961 + 153 WP_024179514 Hok/Gef family protein -
HV015_RS22435 (HV015_22445) 72033..72284 - 252 WP_001291965 hypothetical protein -
HV015_RS22935 73409..73507 + 99 WP_022630883 DinQ-like type I toxin DqlB -
HV015_RS22440 (HV015_22450) 73954..74163 - 210 WP_015059315 hemolysin expression modulator Hha -
HV015_RS22445 (HV015_22455) 74261..74875 - 615 WP_015059316 plasmid IncI1-type surface exclusion protein ExcA -
HV015_RS22450 (HV015_22460) 74951..77119 - 2169 WP_181576136 IncI1-type conjugal transfer membrane protein TraY traY
HV015_RS22455 (HV015_22465) 77216..77800 - 585 WP_003566808 IncI1-type conjugal transfer protein TraX -
HV015_RS22460 (HV015_22470) 77829..79031 - 1203 WP_001189156 IncI1-type conjugal transfer protein TraW traW
HV015_RS22465 (HV015_22475) 78998..79612 - 615 WP_000337400 IncI1-type conjugal transfer protein TraV traV
HV015_RS22470 (HV015_22480) 79612..82656 - 3045 WP_001024780 IncI1-type conjugal transfer protein TraU traU
HV015_RS22475 (HV015_22485) 82746..83546 - 801 WP_001164788 IncI1-type conjugal transfer protein TraT traT
HV015_RS22480 (HV015_22490) 83530..83718 - 189 WP_001277255 putative conjugal transfer protein TraS -
HV015_RS22485 (HV015_22495) 83782..84186 - 405 WP_000086957 IncI1-type conjugal transfer protein TraR traR
HV015_RS22490 (HV015_22500) 84237..84764 - 528 WP_001055569 conjugal transfer protein TraQ traQ
HV015_RS22495 (HV015_22505) 84764..85468 - 705 WP_000801920 IncI1-type conjugal transfer protein TraP traP
HV015_RS22500 (HV015_22510) 85468..86757 - 1290 WP_001271992 conjugal transfer protein TraO traO
HV015_RS22505 (HV015_22515) 86760..87743 - 984 WP_001191879 IncI1-type conjugal transfer protein TraN traN
HV015_RS22510 (HV015_22520) 87754..88446 - 693 WP_181576137 DotI/IcmL family type IV secretion protein traM
HV015_RS22515 (HV015_22525) 88443..88790 - 348 WP_001055900 conjugal transfer protein traL
HV015_RS22520 (HV015_22530) 88808..92575 - 3768 WP_181576138 LPD7 domain-containing protein -
HV015_RS22525 (HV015_22535) 92665..93216 - 552 WP_000014584 phospholipase D family protein -
HV015_RS22530 (HV015_22540) 93231..93521 - 291 WP_001299214 hypothetical protein traK
HV015_RS22535 (HV015_22545) 93518..94666 - 1149 WP_001024972 plasmid transfer ATPase TraJ virB11
HV015_RS22540 (HV015_22550) 94663..95481 - 819 WP_000646097 IncI1-type conjugal transfer lipoprotein TraI traI
HV015_RS22545 (HV015_22555) 95478..95936 - 459 WP_001079808 IncI1-type conjugal transfer lipoprotein TraH -
HV015_RS22550 (HV015_22560) 96331..96915 - 585 WP_181576139 histidine phosphatase family protein -
HV015_RS22555 (HV015_22565) 96975..98177 - 1203 WP_000976350 conjugal transfer protein TraF -
HV015_RS22560 (HV015_22570) 98263..99086 - 824 Protein_111 conjugal transfer protein TraE -
HV015_RS22565 (HV015_22575) 99294..99419 + 126 Protein_112 transposase -
HV015_RS22570 (HV015_22580) 99476..100768 - 1293 WP_181576140 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
HV015_RS22575 (HV015_22585) 100768..101424 - 657 WP_001193549 A24 family peptidase -
HV015_RS22580 (HV015_22590) 101409..101969 - 561 WP_000014005 lytic transglycosylase domain-containing protein virB1
HV015_RS22585 (HV015_22595) 101979..102593 - 615 WP_062858101 type 4 pilus major pilin -
HV015_RS22590 (HV015_22600) 102610..103695 - 1086 WP_001208802 type II secretion system F family protein -
HV015_RS22595 (HV015_22605) 103708..105261 - 1554 WP_000362206 ATPase, T2SS/T4P/T4SS family virB11
HV015_RS22600 (HV015_22610) 105272..105724 - 453 WP_001247337 type IV pilus biogenesis protein PilP -
HV015_RS22605 (HV015_22615) 105711..107006 - 1296 WP_000752780 type 4b pilus protein PilO2 -
HV015_RS22610 (HV015_22620) 106999..108681 - 1683 WP_000748143 PilN family type IVB pilus formation outer membrane protein -
HV015_RS22615 (HV015_22625) 108695..109132 - 438 WP_000539807 type IV pilus biogenesis protein PilM -
HV015_RS22620 (HV015_22630) 109132..110199 - 1068 WP_042012078 type IV pilus biogenesis lipoprotein PilL -

Host bacterium

ID   4823 GenBank   NZ_CP056952
Plasmid name   pRHB42-C01_2 Incompatibility group   IncI1
Plasmid size   114980 bp Coordinate of oriT [Strand]   63754..63842 [-]
Host baterium   Escherichia fergusonii strain RHB42-C01

Cargo genes

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