Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101955
Name   oriT_SI01|unnamed2 in_silico
Organism   Salmonella enterica subsp. enterica serovar Infantis strain SI01
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_MATB01000028 (55854..55942 [-], 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_SI01|unnamed2
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGCAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTGCACATCCTGTCCCGTTTTTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1578 GenBank   WP_001306778
Name   nikB_BBC47_RS10000_SI01|unnamed2 insolico UniProt ID   Q79VV7
Length   899 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 899 a.a.        Molecular weight: 104010.41 Da        Isoelectric Point: 7.4265

>WP_001306778.1 MULTISPECIES: IncI1-type relaxase NikB [Enterobacteriaceae]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELNLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
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 Q79VV7


Auxiliary protein

ID   642 GenBank   WP_001283947
Name   WP_001283947_SI01|unnamed2 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   1244 GenBank   WP_001289276
Name   trbC_BBC47_RS10005_SI01|unnamed2 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: 61320..92247

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
BBC47_RS10005 (BBC47_11190) 59036..61327 - 2292 WP_001289276 F-type conjugative transfer protein TrbC -
BBC47_RS10010 (BBC47_11195) 61320..62390 - 1071 WP_000151582 IncI1-type conjugal transfer protein TrbB trbB
BBC47_RS10015 (BBC47_11200) 62409..63617 - 1209 WP_000121273 IncI1-type conjugal transfer protein TrbA trbA
BBC47_RS10020 (BBC47_11205) 63924..64703 - 780 WP_275450201 protein FinQ -
BBC47_RS10025 (BBC47_11210) 65330..65482 + 153 WP_001303307 Hok/Gef family protein -
BBC47_RS10030 (BBC47_11215) 65554..65805 - 252 WP_001291965 hypothetical protein -
BBC47_RS25735 66729..66905 - 177 WP_001054900 hypothetical protein -
BBC47_RS10035 (BBC47_11220) 67114..67323 - 210 WP_001140545 hemolysin expression modulator Hha -
BBC47_RS10040 (BBC47_11225) 67421..68035 - 615 WP_000578649 plasmid IncI1-type surface exclusion protein ExcA -
BBC47_RS10045 (BBC47_11230) 68111..70279 - 2169 WP_000698360 IncI1-type conjugal transfer membrane protein TraY traY
BBC47_RS10050 (BBC47_11235) 70376..70960 - 585 WP_001037987 IncI1-type conjugal transfer protein TraX -
BBC47_RS10055 (BBC47_11240) 70989..72191 - 1203 WP_001189159 IncI1-type conjugal transfer protein TraW traW
BBC47_RS23995 72158..72772 - 615 WP_000337394 IncI1-type conjugal transfer protein TraV traV
BBC47_RS10060 (BBC47_11245) 72772..75816 - 3045 WP_001024752 IncI1-type conjugal transfer protein TraU traU
BBC47_RS10065 (BBC47_11250) 75906..76706 - 801 WP_001164788 IncI1-type conjugal transfer protein TraT traT
BBC47_RS10070 (BBC47_11255) 76690..76878 - 189 WP_001277255 putative conjugal transfer protein TraS -
BBC47_RS10075 (BBC47_11260) 76942..77346 - 405 WP_000086960 IncI1-type conjugal transfer protein TraR traR
BBC47_RS10080 (BBC47_11265) 77397..77924 - 528 WP_001055569 conjugal transfer protein TraQ traQ
BBC47_RS10085 (BBC47_11270) 77924..78628 - 705 WP_000801920 IncI1-type conjugal transfer protein TraP traP
BBC47_RS10090 (BBC47_11275) 78628..79917 - 1290 WP_001271997 conjugal transfer protein TraO traO
BBC47_RS10095 (BBC47_11280) 79920..80903 - 984 WP_001191878 IncI1-type conjugal transfer protein TraN traN
BBC47_RS10100 (BBC47_11285) 80914..81606 - 693 WP_000138552 DotI/IcmL family type IV secretion protein traM
BBC47_RS10105 (BBC47_11290) 81603..81950 - 348 WP_001055900 conjugal transfer protein traL
BBC47_RS10110 (BBC47_11295) 81968..85735 - 3768 WP_001141534 LPD7 domain-containing protein -
BBC47_RS10115 (BBC47_11300) 85825..86376 - 552 WP_000014584 phospholipase D family protein -
BBC47_RS24000 86391..86681 - 291 WP_001299214 hypothetical protein traK
BBC47_RS10120 (BBC47_11305) 86678..87826 - 1149 WP_001024972 plasmid transfer ATPase TraJ virB11
BBC47_RS10125 (BBC47_11310) 87823..88641 - 819 WP_000646097 IncI1-type conjugal transfer lipoprotein TraI traI
BBC47_RS10130 (BBC47_11315) 88638..89096 - 459 WP_001079808 IncI1-type conjugal transfer lipoprotein TraH -
BBC47_RS10135 (BBC47_11320) 89491..90075 - 585 WP_000977522 histidine phosphatase family protein -
BBC47_RS10140 (BBC47_11325) 90135..91337 - 1203 WP_000976353 conjugal transfer protein TraF -
BBC47_RS10145 (BBC47_11330) 91423..92247 - 825 WP_001238927 conjugal transfer protein TraE traE
BBC47_RS10150 (BBC47_11335) 92398..93552 - 1155 WP_001139958 site-specific integrase -
BBC47_RS25865 93870..94128 - 259 WP_206779189 hypothetical protein -

Host bacterium

ID   2399 GenBank   NZ_MATB01000028
Plasmid name   SI01|unnamed2 Incompatibility group   IncI1
Plasmid size   94128 bp Coordinate of oriT [Strand]   55854..55942 [-]
Host baterium   Salmonella enterica subsp. enterica serovar Infantis strain SI01

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrVA2