Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   113974
Name   oriT_pSa44-CRO in_silico
Organism   Salmonella enterica subsp. enterica serovar London strain 3-5
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_MH430883 (36122..36210 [+], 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_pSa44-CRO
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGCAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTGCACATCCTGTCCCGTTTTTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   8974 GenBank   WP_001306778
Name   nikB_HTU21_RS00165_pSa44-CRO 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   5240 GenBank   WP_001283947
Name   WP_001283947_pSa44-CRO 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   10412 GenBank   WP_021497839
Name   trbC_HTU21_RS00160_pSa44-CRO 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: 86967.19 Da        Isoelectric Point: 7.0662

>WP_021497839.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Enterobacteriaceae]
MSEHRVNPELLHRTAWGNPVWNALQSLNIYGFCLVASLVASFIWPLALPACLLFTLITMLVFSLQRWRCP
LRMPMTLKCADPSQDRMIKRSLFSFWPTLFQYEVILESPANGIFYVGYQRVRDIGRELWLSMDDLTRHIM
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: 1369..30744

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HTU21_RS00005 (KADIGFNM_00407) 64..1218 + 1155 WP_001139955 tyrosine-type recombinase/integrase -
HTU21_RS00010 (KADIGFNM_00408) 1369..2193 + 825 WP_015058912 conjugal transfer protein TraE traE
HTU21_RS00015 (KADIGFNM_00409) 2279..3481 + 1203 WP_000976357 conjugal transfer protein TraF -
HTU21_RS00020 (KADIGFNM_00410) 3541..4125 + 585 WP_124770274 histidine phosphatase family protein -
HTU21_RS00025 (KADIGFNM_00411) 4520..4978 + 459 WP_001079808 IncI1-type conjugal transfer lipoprotein TraH -
HTU21_RS00030 (KADIGFNM_00412) 4975..5793 + 819 WP_000646097 IncI1-type conjugal transfer lipoprotein TraI traI
HTU21_RS00035 (KADIGFNM_00413) 5790..6938 + 1149 WP_001024976 plasmid transfer ATPase TraJ virB11
HTU21_RS00040 (KADIGFNM_00414) 6935..7225 + 291 WP_001299214 hypothetical protein traK
HTU21_RS00045 (KADIGFNM_00415) 7240..7791 + 552 WP_000014584 phospholipase D family protein -
HTU21_RS00050 (KADIGFNM_00416) 7881..11648 + 3768 WP_006855639 LPD7 domain-containing protein -
HTU21_RS00055 (KADIGFNM_00417) 11666..12013 + 348 WP_001055900 conjugal transfer protein traL
HTU21_RS00060 (KADIGFNM_00418) 12010..12702 + 693 WP_000138552 DotI/IcmL family type IV secretion protein traM
HTU21_RS00065 (KADIGFNM_00419) 12713..13696 + 984 WP_021513963 IncI1-type conjugal transfer protein TraN traN
HTU21_RS00070 (KADIGFNM_00420) 13699..14988 + 1290 WP_001271994 conjugal transfer protein TraO traO
HTU21_RS00075 (KADIGFNM_00421) 14988..15692 + 705 WP_023155244 IncI1-type conjugal transfer protein TraP traP
HTU21_RS00080 (KADIGFNM_00422) 15692..16219 + 528 WP_001055569 conjugal transfer protein TraQ traQ
HTU21_RS00085 (KADIGFNM_00423) 16270..16674 + 405 WP_000086960 IncI1-type conjugal transfer protein TraR traR
HTU21_RS00090 (KADIGFNM_00424) 16738..16926 + 189 WP_001277255 putative conjugal transfer protein TraS -
HTU21_RS00095 (KADIGFNM_00425) 16910..17710 + 801 WP_001164792 IncI1-type conjugal transfer protein TraT traT
HTU21_RS00100 (KADIGFNM_00426) 17800..20844 + 3045 WP_001024776 IncI1-type conjugal transfer protein TraU traU
HTU21_RS00105 (KADIGFNM_00427) 20844..21458 + 615 WP_000337399 IncI1-type conjugal transfer protein TraV traV
HTU21_RS00110 (KADIGFNM_00428) 21425..22627 + 1203 WP_001189156 IncI1-type conjugal transfer protein TraW traW
HTU21_RS00115 (KADIGFNM_00429) 22656..23240 + 585 WP_001037996 IncI1-type conjugal transfer protein TraX -
HTU21_RS00120 (KADIGFNM_00430) 23337..25505 + 2169 WP_077250315 DotA/TraY family protein traY
HTU21_RS00125 (KADIGFNM_00431) 25570..26232 + 663 WP_000644792 plasmid IncI1-type surface exclusion protein ExcA -
HTU21_RS00130 (KADIGFNM_00432) 26304..26513 - 210 WP_000062602 HEAT repeat domain-containing protein -
HTU21_RS00135 26737..27021 + 285 WP_014640317 hypothetical protein -
HTU21_RS00535 27086..27181 - 96 WP_001303310 DinQ-like type I toxin DqlB -
HTU21_RS00140 (KADIGFNM_00434) 27680..27931 + 252 WP_001291964 hypothetical protein -
HTU21_RS00145 (KADIGFNM_00435) 28003..28155 - 153 WP_001387489 Hok/Gef family protein -
HTU21_RS00150 (KADIGFNM_00436) 28447..29655 + 1209 WP_000121273 IncI1-type conjugal transfer protein TrbA trbA
HTU21_RS00155 (KADIGFNM_00437) 29674..30744 + 1071 WP_000151583 IncI1-type conjugal transfer protein TrbB trbB
HTU21_RS00160 (KADIGFNM_00438) 30737..33028 + 2292 WP_021497839 F-type conjugative transfer protein TrbC -

Host bacterium

ID   14409 GenBank   NZ_MH430883
Plasmid name   pSa44-CRO Incompatibility group   IncI1
Plasmid size   91411 bp Coordinate of oriT [Strand]   36122..36210 [+]
Host baterium   Salmonella enterica subsp. enterica serovar London strain 3-5

Cargo genes

Drug resistance gene   blaCTX-M-24
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -