Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   109984
Name   oriT_pHL21B in_silico
Organism   Salmonella enterica subsp. enterica strain HL21
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP126327 (49446..49532 [-], 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_pHL21B
GGGGTGTCGGGGCGAAGCCCTGACCAGGAGGCAATTGTATAATCGCGCGTGCGCGGTTATACAATTGCACATCCTGTCCCGTTTTTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   6592 GenBank   WP_086260604
Name   nikB_QN088_RS24240_pHL21B 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: 104037.48 Da        Isoelectric Point: 7.3426

>WP_086260604.1 MULTISPECIES: IncI1-type relaxase NikB [Enterobacteriaceae]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELDLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIARQAHYAKDDTDPVFHYILSWQSHESPRPEQIYDSVR
HTLKSLGLADHQYVSAVHTDTDNLHVHVAVNRVHPETGYLNRLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVNDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDRLRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(62-314)


  Protein structure



No available structure.




Auxiliary protein

ID   3544 GenBank   WP_001281051
Name   WP_001281051_pHL21B 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   7280 GenBank   WP_001289276
Name   trbC_QN088_RS24245_pHL21B 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: 54911..84345

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
QN088_RS24245 (QN088_24245) 52627..54918 - 2292 WP_001289276 F-type conjugative transfer protein TrbC -
QN088_RS24250 (QN088_24250) 54911..55981 - 1071 WP_000151583 IncI1-type conjugal transfer protein TrbB trbB
QN088_RS24255 (QN088_24255) 56000..57208 - 1209 WP_039005623 IncI1-type conjugal transfer protein TrbA trbA
QN088_RS24260 (QN088_24260) 57500..57652 + 153 WP_001387489 Hok/Gef family protein -
QN088_RS24265 (QN088_24265) 57724..57975 - 252 WP_001291964 hypothetical protein -
QN088_RS24270 (QN088_24270) 58476..58571 + 96 WP_000609148 DinQ-like type I toxin DqlB -
QN088_RS24275 (QN088_24275) 58636..58812 - 177 WP_001054904 hypothetical protein -
QN088_RS24280 (QN088_24280) 59204..59413 + 210 WP_000062603 HEAT repeat domain-containing protein -
QN088_RS24285 (QN088_24285) 59485..60135 - 651 WP_001178506 plasmid IncI1-type surface exclusion protein ExcA -
QN088_RS24290 (QN088_24290) 60209..62377 - 2169 WP_000698357 DotA/TraY family protein traY
QN088_RS24295 (QN088_24295) 62474..63058 - 585 WP_001037987 IncI1-type conjugal transfer protein TraX -
QN088_RS24300 (QN088_24300) 63087..64289 - 1203 WP_001189160 IncI1-type conjugal transfer protein TraW traW
QN088_RS24305 (QN088_24305) 64256..64870 - 615 WP_000337398 IncI1-type conjugal transfer protein TraV traV
QN088_RS24310 (QN088_24310) 64870..67914 - 3045 WP_086260602 IncI1-type conjugal transfer protein TraU traU
QN088_RS24315 (QN088_24315) 68004..68804 - 801 WP_001164788 IncI1-type conjugal transfer protein TraT traT
QN088_RS24320 (QN088_24320) 68788..68976 - 189 WP_001277255 putative conjugal transfer protein TraS -
QN088_RS24325 (QN088_24325) 69040..69444 - 405 WP_001422824 IncI1-type conjugal transfer protein TraR traR
QN088_RS24330 (QN088_24330) 69495..70022 - 528 WP_022630880 conjugal transfer protein TraQ traQ
QN088_RS24335 (QN088_24335) 70022..70726 - 705 WP_001493811 IncI1-type conjugal transfer protein TraP traP
QN088_RS24340 (QN088_24340) 70726..72015 - 1290 WP_001271991 conjugal transfer protein TraO traO
QN088_RS24345 (QN088_24345) 72018..73001 - 984 WP_001191880 IncI1-type conjugal transfer protein TraN traN
QN088_RS24350 (QN088_24350) 73012..73704 - 693 WP_000138551 DotI/IcmL family type IV secretion protein traM
QN088_RS24355 (QN088_24355) 73701..74048 - 348 WP_001055900 conjugal transfer protein traL
QN088_RS24360 (QN088_24360) 74066..77833 - 3768 WP_024227037 LPD7 domain-containing protein -
QN088_RS24365 (QN088_24365) 77924..78475 - 552 WP_284546344 phospholipase D family protein -
QN088_RS24370 (QN088_24370) 78490..78780 - 291 WP_071791905 conjugal transfer protein traK
QN088_RS24375 (QN088_24375) 78777..79925 - 1149 WP_001024971 plasmid transfer ATPase TraJ virB11
QN088_RS24380 (QN088_24380) 79922..80740 - 819 WP_000646097 IncI1-type conjugal transfer lipoprotein TraI traI
QN088_RS24385 (QN088_24385) 80737..81195 - 459 WP_001079808 IncI1-type conjugal transfer lipoprotein TraH -
QN088_RS24390 (QN088_24390) 81589..82173 - 585 WP_000977522 histidine phosphatase family protein -
QN088_RS24395 (QN088_24395) 82233..83435 - 1203 WP_000976353 conjugal transfer protein TraF -
QN088_RS24400 (QN088_24400) 83521..84345 - 825 WP_001238932 conjugal transfer protein TraE traE
QN088_RS24405 (QN088_24405) 84496..85650 - 1155 WP_001139955 site-specific integrase -

Host bacterium

ID   10419 GenBank   NZ_CP126327
Plasmid name   pHL21B Incompatibility group   IncI1
Plasmid size   85700 bp Coordinate of oriT [Strand]   49446..49532 [-]
Host baterium   Salmonella enterica subsp. enterica strain HL21

Cargo genes

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