Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   105392
Name   oriT_p35153 in_silico
Organism   Salmonella enterica subsp. enterica serovar London strain CVM 35153
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP051314 (16764..16852 [+], 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_p35153
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTGTCCCGTTTTTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3679 GenBank   WP_001474686
Name   nikB_HFU13_RS22580_p35153 insolico UniProt ID   A0A2J0RB70
Length   899 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 899 a.a.        Molecular weight: 103834.33 Da        Isoelectric Point: 7.3473

>WP_001474686.1 MULTISPECIES: IncI1-type relaxase NikB [Enterobacteriaceae]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELNLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIAQQAHYAKDNTDPVFHYILSWQAHESPRPEQIYDSVR
HTLKSLGLGEHQYVSAVHTDTDNLHVHVAVNRVHPVTGYLNCLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVHDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFLQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDKSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(62-314)


  Protein structure


Source ID Structure
AlphaFold DB A0A2J0RB70


Auxiliary protein

ID   1663 GenBank   WP_001283947
Name   WP_001283947_p35153 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   3658 GenBank   WP_001289271
Name   trbC_HFU13_RS22575_p35153 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: 86927.12 Da        Isoelectric Point: 6.7713

>WP_001289271.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Enterobacteriaceae]
MSEHRVNPELLHRTAWGNPVWNALQSLNIYGFCLVASLVASFIWPLALPACLLFTLITMLVFSLQRWRCP
LRMPMTLECADPSQDRMIKRSLFSFWPTLFQYEVILESPASGIFYVGYQRVRDIGRELWLSMDDLTRHIM
FFATTGGGKTETIFAWAINPLCWARGFTLVDGKAQNDTARTIWYLARRFGREDDVEVINFMNGGKSRSEI
ILSGEKTRPQSNTWNPFCYSTEAFTAETMQSMLPQNVQGGEWQSRAIAMNKALVFGTKFWCVREGKTMSL
QMLREHMTLEGMAKLYCRGLDDQWPEEAIAPLRNYLQDVPGFDLSLVRTPSAWTEEPRKQHAYLSGQFSE
TFSTFTEAFGDIFAEDSGDIDIRDSIHSDRILMVMIPALDTSAHTTSALGRMFITQKSMILARDLGYRLE
GTDSDALEVKKYKGRFPYLCFLDEVGAYYTDRIAVEATQVRSLDFALILMAQDQERIEGQTTATNTATLM
QNTGTKFAGRIVSEGSTARTLKSAAGEEARARMNNLQRQDGIFGESWIDSPQISILMESKIDVQELIELH
PGEFFSIFRGETVPSASFFIPDNEKSCSSDPVVINRYISVDAPRLDRLRRLVPRTAQRRIPSPENVSAII
GVLTAKPSRKRRKIRTEPHTIVDTFQQRIAGRQAAMAMLEEYDTDINARESALWETAVNTLKTTTREERR
IRYITLNRPELPETKEENQISVRAERAGINLLTLPQDNNHLTGRPVNGFHHKKTNRPDWDGMY

  Protein domains



No domain identified.


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 72368..101664

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HFU13_RS22925 (HFU13_22935) 67430..68497 + 1068 WP_000742600 type IV pilus biogenesis lipoprotein PilL -
HFU13_RS22930 (HFU13_22940) 68497..68934 + 438 WP_000539807 type IV pilus biogenesis protein PilM -
HFU13_RS22935 (HFU13_22945) 68948..70630 + 1683 WP_000748143 PilN family type IVB pilus formation outer membrane protein -
HFU13_RS22940 (HFU13_22950) 70623..71918 + 1296 WP_000752774 type 4b pilus protein PilO2 -
HFU13_RS22945 (HFU13_22955) 71905..72357 + 453 WP_001247336 type IV pilus biogenesis protein PilP -
HFU13_RS22950 (HFU13_22960) 72368..73921 + 1554 WP_000362202 ATPase, T2SS/T4P/T4SS family virB11
HFU13_RS22955 (HFU13_22965) 73934..75031 + 1098 WP_001208805 type II secretion system F family protein -
HFU13_RS22960 (HFU13_22970) 75049..75663 + 615 WP_000959785 type 4 pilus major pilin -
HFU13_RS22965 (HFU13_22975) 75673..76233 + 561 WP_000014116 lytic transglycosylase domain-containing protein virB1
HFU13_RS22970 (HFU13_22980) 76218..76874 + 657 WP_001193553 prepilin peptidase -
HFU13_RS22975 (HFU13_22985) 76874..78166 + 1293 WP_032274560 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
HFU13_RS22980 (HFU13_22990) 78163..78411 - 249 WP_001349157 hypothetical protein -
HFU13_RS22985 (HFU13_22995) 79102..80256 + 1155 WP_001139958 site-specific integrase -
HFU13_RS22990 (HFU13_23000) 80407..81230 + 824 Protein_96 conjugal transfer protein TraE -
HFU13_RS22995 (HFU13_23005) 81316..82518 + 1203 WP_000976353 conjugal transfer protein TraF -
HFU13_RS23000 (HFU13_23010) 82578..83162 + 585 WP_000977517 histidine phosphatase family protein -
HFU13_RS23005 (HFU13_23015) 83557..84015 + 459 WP_001079808 IncI1-type conjugal transfer lipoprotein TraH -
HFU13_RS23010 (HFU13_23020) 84012..84830 + 819 WP_000646097 IncI1-type conjugal transfer lipoprotein TraI traI
HFU13_RS23015 (HFU13_23025) 84827..85975 + 1149 WP_001024972 plasmid transfer ATPase TraJ virB11
HFU13_RS23020 (HFU13_23030) 85972..86262 + 291 WP_001299214 hypothetical protein traK
HFU13_RS23025 (HFU13_23035) 86277..86828 + 552 WP_000014584 phospholipase D family protein -
HFU13_RS23030 (HFU13_23040) 86918..90685 + 3768 WP_001141535 LPD7 domain-containing protein -
HFU13_RS23035 (HFU13_23045) 90703..91050 + 348 WP_001055900 conjugal transfer protein traL
HFU13_RS23040 (HFU13_23050) 91047..91739 + 693 WP_000138552 DotI/IcmL family type IV secretion protein traM
HFU13_RS23045 (HFU13_23055) 91750..92733 + 984 WP_001191878 IncI1-type conjugal transfer protein TraN traN
HFU13_RS23050 (HFU13_23060) 92736..94025 + 1290 WP_001271997 conjugal transfer protein TraO traO
HFU13_RS23055 (HFU13_23065) 94025..94729 + 705 WP_000801920 IncI1-type conjugal transfer protein TraP traP
HFU13_RS23060 (HFU13_23070) 94729..95256 + 528 WP_001055569 conjugal transfer protein TraQ traQ
HFU13_RS23065 (HFU13_23075) 95307..95711 + 405 WP_000086960 IncI1-type conjugal transfer protein TraR traR
HFU13_RS23070 (HFU13_23080) 95775..95963 + 189 WP_001277255 putative conjugal transfer protein TraS -
HFU13_RS23075 (HFU13_23085) 95947..96747 + 801 WP_001164788 IncI1-type conjugal transfer protein TraT traT
HFU13_RS23080 (HFU13_23090) 96837..99881 + 3045 WP_001024751 IncI1-type conjugal transfer protein TraU traU
HFU13_RS23085 (HFU13_23095) 99881..100495 + 615 WP_000337394 IncI1-type conjugal transfer protein TraV traV
HFU13_RS23090 (HFU13_23100) 100462..101664 + 1203 WP_001189158 IncI1-type conjugal transfer protein TraW traW
HFU13_RS23095 (HFU13_23105) 101693..102277 + 585 WP_001037998 conjugal transfer protein TraX -

Host bacterium

ID   5830 GenBank   NZ_CP051314
Plasmid name   p35153 Incompatibility group   IncI1
Plasmid size   102373 bp Coordinate of oriT [Strand]   16764..16852 [+]
Host baterium   Salmonella enterica subsp. enterica serovar London strain CVM 35153

Cargo genes

Drug resistance gene   blaCMY-2
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -