Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   114267
Name   oriT_pSa42-TC4 in_silico
Organism   Salmonella enterica subsp. enterica serovar Meleagridis strain Sa42-T4
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_MW567498 (42191..42279 [-], 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_pSa42-TC4
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGCAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTGCACATCCTGTCCCGTTTTTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   9157 GenBank   WP_001306778
Name   nikB_KV196_RS00285_pSa42-TC4 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   5349 GenBank   WP_001283947
Name   WP_001283947_pSa42-TC4 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   10605 GenBank   WP_021497839
Name   trbC_KV196_RS00290_pSa42-TC4 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: 47657..85713

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
KV196_RS00290 (HGCJJGJJ_00055) 45373..47664 - 2292 WP_021497839 F-type conjugative transfer protein TrbC -
KV196_RS00295 (HGCJJGJJ_00056) 47657..48727 - 1071 WP_000151583 IncI1-type conjugal transfer protein TrbB trbB
KV196_RS00300 (HGCJJGJJ_00057) 48746..49954 - 1209 WP_000121273 IncI1-type conjugal transfer protein TrbA trbA
KV196_RS00305 (HGCJJGJJ_00058) 50246..50398 + 153 WP_001387489 Hok/Gef family protein -
KV196_RS00310 (HGCJJGJJ_00059) 50470..50721 - 252 WP_001291964 hypothetical protein -
KV196_RS00545 51220..51315 + 96 WP_001303310 DinQ-like type I toxin DqlB -
KV196_RS00315 51380..51664 - 285 WP_014640317 hypothetical protein -
KV196_RS00320 (HGCJJGJJ_00061) 51888..52097 + 210 WP_000062602 HEAT repeat domain-containing protein -
KV196_RS00325 (HGCJJGJJ_00062) 52169..52831 - 663 WP_000644792 plasmid IncI1-type surface exclusion protein ExcA -
KV196_RS00330 (HGCJJGJJ_00063) 52896..55064 - 2169 WP_077250315 DotA/TraY family protein traY
KV196_RS00335 (HGCJJGJJ_00064) 55161..55745 - 585 WP_001037996 IncI1-type conjugal transfer protein TraX -
KV196_RS00340 (HGCJJGJJ_00065) 55774..56976 - 1203 WP_001189156 IncI1-type conjugal transfer protein TraW traW
KV196_RS00345 (HGCJJGJJ_00066) 56943..57557 - 615 WP_000337399 IncI1-type conjugal transfer protein TraV traV
KV196_RS00350 (HGCJJGJJ_00067) 57557..60601 - 3045 WP_001024776 IncI1-type conjugal transfer protein TraU traU
KV196_RS00355 (HGCJJGJJ_00068) 60691..61491 - 801 WP_001164792 IncI1-type conjugal transfer protein TraT traT
KV196_RS00360 (HGCJJGJJ_00069) 61475..61663 - 189 WP_001277255 putative conjugal transfer protein TraS -
KV196_RS00365 (HGCJJGJJ_00070) 61727..62131 - 405 WP_000086960 IncI1-type conjugal transfer protein TraR traR
KV196_RS00370 (HGCJJGJJ_00071) 62182..62709 - 528 WP_001055569 conjugal transfer protein TraQ traQ
KV196_RS00375 (HGCJJGJJ_00072) 62709..63413 - 705 WP_023155244 IncI1-type conjugal transfer protein TraP traP
KV196_RS00380 (HGCJJGJJ_00073) 63413..64702 - 1290 WP_001271994 conjugal transfer protein TraO traO
KV196_RS00385 (HGCJJGJJ_00074) 64705..65688 - 984 WP_021513963 IncI1-type conjugal transfer protein TraN traN
KV196_RS00390 (HGCJJGJJ_00075) 65699..66391 - 693 WP_000138552 DotI/IcmL family type IV secretion protein traM
KV196_RS00395 (HGCJJGJJ_00076) 66388..66735 - 348 WP_001055900 conjugal transfer protein traL
KV196_RS00400 (HGCJJGJJ_00077) 66753..70373 - 3621 WP_217706920 LPD7 domain-containing protein -
KV196_RS00405 (HGCJJGJJ_00078) 70463..71014 - 552 WP_000014584 phospholipase D family protein -
KV196_RS00410 (HGCJJGJJ_00079) 71029..71319 - 291 WP_001299214 hypothetical protein traK
KV196_RS00415 (HGCJJGJJ_00080) 71316..72464 - 1149 WP_001024976 plasmid transfer ATPase TraJ virB11
KV196_RS00420 (HGCJJGJJ_00081) 72461..73279 - 819 WP_000646097 IncI1-type conjugal transfer lipoprotein TraI traI
KV196_RS00425 (HGCJJGJJ_00082) 73276..73734 - 459 WP_001079808 IncI1-type conjugal transfer lipoprotein TraH -
KV196_RS00430 (HGCJJGJJ_00083) 74129..74713 - 585 WP_124770274 histidine phosphatase family protein -
KV196_RS00435 (HGCJJGJJ_00084) 74773..75975 - 1203 WP_000976357 conjugal transfer protein TraF -
KV196_RS00440 (HGCJJGJJ_00085) 76061..76885 - 825 WP_015058912 conjugal transfer protein TraE traE
KV196_RS00445 (HGCJJGJJ_00086) 77036..78190 - 1155 WP_001139955 tyrosine-type recombinase/integrase -
KV196_RS00450 78317..78472 + 156 WP_001302705 hypothetical protein -
KV196_RS00455 79281..79538 - 258 WP_001302706 hypothetical protein -
KV196_RS00550 79588..79859 + 272 Protein_92 hypothetical protein -
KV196_RS00460 (HGCJJGJJ_00090) 79793..81232 - 1440 WP_217706918 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
KV196_RS00465 (HGCJJGJJ_00091) 81220..81876 - 657 WP_001193551 A24 family peptidase -
KV196_RS00470 (HGCJJGJJ_00092) 81861..82421 - 561 WP_000014005 lytic transglycosylase domain-containing protein virB1
KV196_RS00475 (HGCJJGJJ_00093) 82431..83045 - 615 WP_000908228 type 4 pilus major pilin -
KV196_RS00480 (HGCJJGJJ_00094) 83062..84147 - 1086 WP_001208803 type II secretion system F family protein -
KV196_RS00485 (HGCJJGJJ_00095) 84160..85713 - 1554 WP_000362204 GspE/PulE family protein virB11
KV196_RS00490 (HGCJJGJJ_00096) 85724..86176 - 453 WP_001247333 type IV pilus biogenesis protein PilP -
KV196_RS00495 (HGCJJGJJ_00097) 86163..87458 - 1296 WP_000752776 type 4b pilus protein PilO2 -
KV196_RS00500 (HGCJJGJJ_00098) 87451..89133 - 1683 WP_000748143 PilN family type IVB pilus formation outer membrane protein -
KV196_RS00505 (HGCJJGJJ_00099) 89147..89584 - 438 WP_000539811 type IV pilus biogenesis protein PilM -
KV196_RS00510 (HGCJJGJJ_00100) 89584..90651 - 1068 WP_021513968 type IV pilus biogenesis lipoprotein PilL -

Host bacterium

ID   14702 GenBank   NZ_MW567498
Plasmid name   pSa42-TC4 Incompatibility group   IncI1
Plasmid size   94860 bp Coordinate of oriT [Strand]   42191..42279 [-]
Host baterium   Salmonella enterica subsp. enterica serovar Meleagridis strain Sa42-T4

Cargo genes

Drug resistance gene   blaCTX-M-24, blaTEM-116, aph(3')-III
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -