Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   105141
Name   oriT_pRHB24-C12_2 in_silico
Organism   Escherichia marmotae strain RHB24-C12
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP058210 (64865..64951 [-], 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_pRHB24-C12_2
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGCAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTGCACATCCTGTCCCGTTTT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3559 GenBank   WP_001360283
Name   nikB_HVY12_RS23290_pRHB24-C12_2 insolico UniProt ID   A0A637A499
Length   899 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 899 a.a.        Molecular weight: 104011.40 Da        Isoelectric Point: 7.3426

>WP_001360283.1 MULTISPECIES: IncI1-type relaxase NikB [Enterobacteriaceae]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELDLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIARQAHYAKDDTDPVFHYILSWQSHESPRPEQIYDSVR
HTLKSLGLADHQYVSAVHTDTDNLHVHVAVNRVHPETGYLNRLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVNDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDRSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(62-314)


  Protein structure


Source ID Structure
AlphaFold DB A0A637A499


Auxiliary protein

ID   1589 GenBank   WP_001283947
Name   WP_001283947_pRHB24-C12_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   3524 GenBank   WP_181238237
Name   trbC_HVY12_RS23295_pRHB24-C12_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: 86895.08 Da        Isoelectric Point: 6.7713

>WP_181238237.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Escherichia]
MSEHRVNPELLHRTAWGNPVWNALQSLNIYGFCLVASLVASFIWPLALPACLLFTLITMLVFSLQRWRCP
LRMPMTLECADPSQDRMIKRSLFSFWPTLFQYEVILESPASGIFYVGYQRVRDIGRELWLSMDDLTRHIM
FFATTGGGKTETIFAWAINPLCWARGFTLVDGKAQNDTARTIWYLARRFGREDDVEVINFMNGGKSRSEI
ILSGEKTRPQSNTWNPFCYSTEAFTAETMQSMLPQNVQGGEWQSRAIAMNKALVFGTKFWCVREGKTMSL
QMLREHMTLEGMAKLYCRGLDDQWPEEAIAPLRNYLQDVPGFDLSLVRTPSAWTEEPRKQHAYLSGQFSE
TFSTFTEAFGDIFAEDSGDIDIRDSIHSDRILMVMIPALDTSAHTTSALGRMFITQKSMILARDLGYRLE
GTDSDALEVKKYKGRFPYLCFLDEVGAYYTDRIAVEATQVRSLDFALILMAQDQERIEGQTTATNTATLM
QNTGTKFAGRIVSEGSTARTLKSAAGEEARARMNNLQRQDGIFGESWIDSPQISILMESKINVQELIELH
PGEFFSIFRGETVPSASFFIPDDEKSCSSDPVVINRYISVDAPRLDRLRRLVPRTTQRRIPAPENVSAII
GVLTAKPSRKRRKIRTEPHTIVDTFQQRIAGRQAAMAMLEEYDTDINARESALWETAVNALKTTTREERR
IRYITLNRPELPETKEENQISVRAERAGINLLTLPQDNNHPTGRPVNGFHHKKTNRPDWDGMY

  Protein domains



No domain identified.


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 70329..109707

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HVY12_RS23295 (HVY12_23335) 68045..70336 - 2292 WP_181238237 F-type conjugative transfer protein TrbC -
HVY12_RS23300 (HVY12_23340) 70329..71399 - 1071 WP_181238238 IncI1-type conjugal transfer protein TrbB trbB
HVY12_RS23305 (HVY12_23345) 71418..72626 - 1209 WP_000121273 IncI1-type conjugal transfer protein TrbA trbA
HVY12_RS23310 (HVY12_23350) 72918..73070 + 153 WP_001331364 Hok/Gef family protein -
HVY12_RS23315 (HVY12_23355) 73142..73393 - 252 WP_160529436 hypothetical protein -
HVY12_RS24555 73892..73987 + 96 WP_001303310 DinQ-like type I toxin DqlB -
HVY12_RS23320 (HVY12_23360) 74052..74228 - 177 WP_001054897 hypothetical protein -
HVY12_RS23325 (HVY12_23365) 74437..74646 - 210 WP_000416064 hemolysin expression modulator Hha -
HVY12_RS23330 (HVY12_23370) 74744..75358 - 615 WP_000578646 plasmid IncI1-type surface exclusion protein ExcA -
HVY12_RS23335 (HVY12_23375) 75434..77602 - 2169 WP_181238239 IncI1-type conjugal transfer membrane protein TraY traY
HVY12_RS23340 (HVY12_23380) 77699..78283 - 585 WP_181238240 IncI1-type conjugal transfer protein TraX -
HVY12_RS23345 (HVY12_23385) 78312..79514 - 1203 WP_001604511 IncI1-type conjugal transfer protein TraW traW
HVY12_RS23350 (HVY12_23390) 79481..80095 - 615 WP_000337394 IncI1-type conjugal transfer protein TraV traV
HVY12_RS23355 (HVY12_23395) 80095..83139 - 3045 WP_012783939 IncI1-type conjugal transfer protein TraU traU
HVY12_RS23360 (HVY12_23400) 83229..84029 - 801 WP_064198685 IncI1-type conjugal transfer protein TraT traT
HVY12_RS23365 (HVY12_23405) 84013..84201 - 189 WP_001277255 putative conjugal transfer protein TraS -
HVY12_RS23370 (HVY12_23410) 84265..84669 - 405 WP_181238241 DUF6750 family protein traR
HVY12_RS23375 (HVY12_23415) 84719..85246 - 528 WP_022630880 conjugal transfer protein TraQ traQ
HVY12_RS23380 (HVY12_23420) 85246..85950 - 705 WP_001493811 IncI1-type conjugal transfer protein TraP traP
HVY12_RS23385 (HVY12_23425) 85950..87239 - 1290 WP_001271991 conjugal transfer protein TraO traO
HVY12_RS23390 (HVY12_23430) 87242..87838 - 597 Protein_105 IncI1-type conjugal transfer protein TraN -
HVY12_RS23395 (HVY12_23435) 88073..89608 + 1536 WP_000447015 IS21 family transposase -
HVY12_RS23400 (HVY12_23440) 89625..90380 + 756 WP_001282653 IS21-like element ISSso4 family helper ATPase IstB -
HVY12_RS23410 (HVY12_23450) 90479..90871 - 393 Protein_108 IncI1-type conjugal transfer protein TraN -
HVY12_RS23415 (HVY12_23455) 90882..91574 - 693 WP_000138551 DotI/IcmL family type IV secretion protein traM
HVY12_RS23420 (HVY12_23460) 91571..91918 - 348 WP_001055900 conjugal transfer protein traL
HVY12_RS23425 (HVY12_23465) 91936..95703 - 3768 WP_181238242 LPD7 domain-containing protein -
HVY12_RS23430 (HVY12_23470) 95793..96344 - 552 WP_000014586 phospholipase D family protein -
HVY12_RS23435 (HVY12_23475) 96359..96649 - 291 WP_001314267 hypothetical protein traK
HVY12_RS23440 (HVY12_23480) 96646..97794 - 1149 WP_001024972 plasmid transfer ATPase TraJ virB11
HVY12_RS23445 (HVY12_23485) 97791..98609 - 819 WP_181238243 IncI1-type conjugal transfer lipoprotein TraI traI
HVY12_RS23450 (HVY12_23490) 98606..99064 - 459 WP_001079808 IncI1-type conjugal transfer lipoprotein TraH -
HVY12_RS23455 (HVY12_23495) 99458..100042 - 585 WP_181238244 histidine phosphatase family protein -
HVY12_RS23460 (HVY12_23500) 100102..101304 - 1203 WP_181238245 conjugal transfer protein TraF -
HVY12_RS23465 (HVY12_23505) 101390..102214 - 825 WP_001238932 conjugal transfer protein TraE traE
HVY12_RS23470 (HVY12_23510) 102365..103519 - 1155 WP_001139955 site-specific integrase -
HVY12_RS24385 103518..103925 + 408 WP_003552681 hypothetical protein -
HVY12_RS23480 (HVY12_23520) 103922..105214 - 1293 WP_181238246 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
HVY12_RS23485 (HVY12_23525) 105214..105870 - 657 WP_181238247 A24 family peptidase -
HVY12_RS23490 (HVY12_23530) 105855..106415 - 561 WP_181238248 lytic transglycosylase domain-containing protein virB1
HVY12_RS23495 (HVY12_23535) 106425..107039 - 615 WP_181238249 type 4 pilus major pilin -
HVY12_RS23500 (HVY12_23540) 107056..108141 - 1086 WP_063082675 type II secretion system F family protein -
HVY12_RS23505 (HVY12_23545) 108154..109707 - 1554 WP_001697923 ATPase, T2SS/T4P/T4SS family virB11
HVY12_RS23510 (HVY12_23550) 109718..110170 - 453 WP_001247333 type IV pilus biogenesis protein PilP -
HVY12_RS23515 (HVY12_23555) 110157..111452 - 1296 WP_001545757 type 4b pilus protein PilO2 -
HVY12_RS23520 (HVY12_23560) 111445..113127 - 1683 WP_000748143 PilN family type IVB pilus formation outer membrane protein -
HVY12_RS23525 (HVY12_23565) 113141..113578 - 438 WP_077128011 type IV pilus biogenesis protein PilM -
HVY12_RS23530 (HVY12_23570) 113578..114645 - 1068 WP_001685263 type IV pilus biogenesis lipoprotein PilL -

Host bacterium

ID   5579 GenBank   NZ_CP058210
Plasmid name   pRHB24-C12_2 Incompatibility group   IncI1
Plasmid size   119877 bp Coordinate of oriT [Strand]   64865..64951 [-]
Host baterium   Escherichia marmotae strain RHB24-C12

Cargo genes

Drug resistance gene   -
Virulence gene   faeC, faeD, faeE, faeF, faeH, faeI, faeJ, paa
Metal resistance gene   kpnO
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -