Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   103346
Name   oriT_pSa4-CIP in_silico
Organism   Salmonella sp. strain Sa4
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_MG874042 (65717..66001 [-], 285 nt)
oriT length   285 nt
IRs (inverted repeats)      184..189, 191..196  (AAAAGT..ACTTTT)
Location of nic site      109..110
Conserved sequence flanking the
  nic site    		  TTTGGTTAAA
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 285 nt

>oriT_pSa4-CIP
GGTTATTGCTACTTAATGCCGATAACGACTCAGGCTTTGAGGTTTTTTTATACGGTTCACATTTCGTTAGCAAGGCCAGGGTTTTTTGATAAAATTCTGGTTAGTTTGGTTAAAAAGTGTTACAAGTAAGGGTAATGGCTGAAAGGTTAGTTTTAAGGTTCAAAGCGGCAGTATTAAAATTCCAAAAGTTACTTTTCATCCTTCAGAATCCAGACCTTAATTTCATGTAGAAGATTCGTACAATTGTATTGGCGCAAGGACAATCCGCACATGTCAGAATCAGAT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2504 GenBank   WP_038989148
Name   TraI_2_HXI46_RS00330_pSa4-CIP insolico UniProt ID   A0A7T0P871
Length   1011 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1011 a.a.        Molecular weight: 113008.03 Da        Isoelectric Point: 4.5108

>WP_038989148.1 MULTISPECIES: MobH family relaxase [Enterobacteriaceae]
MNFRALFLSMQRVFGIFSRRENDVSELMMKDAANFSPFAQIIGEQKYTVPDHPNPEVLKFIEYPTRPAGI
QTFNEQSILSLYRDKLHSISMMLAISDGDIREDAYTFTNLVLKPLIEYIRWIHLLPASENHHHNGIGGLL
SHSLEVAMISLKNANHSELRPIGYQDEEVVRRKVYLYAAFICGLVHDAGKVYDLDIVSLNLSETLTWAPS
SQSLLDWARENNVVEYEIHWRKRIHNQHNIWSSVFLERILDPVCMSFLDRVKKERVYAKMVTALNVYNDG
NDFLSKCVRTSDYYSTGTDLNVLRDPIMGLRSNDAAARAIGTIKHNFTSININNYKTKPMHIIIVNGEVY
LNENAFLDFVLSDFAAHKFNFPQGDAGKTVLVESLVLRGYVEPYDDERVVHYFIPGTYSENEIASIFRNG
IGKLEFYNLLKLRWIGLIFDSYKIPDSVPGLFSVNANKDFIYIDEQKTVTEYRRPVPGRESVTRVTDTVN
DAIENTPQYGLQLVNGPDADSNNIISSENTESITDSLEESGADISNEIFETQVVTAIDTAETVNADEPEQ
VEEHDDRSQIHLVEQLHEMLLSAPLPHHAVINIDSVPYLDLDAAIALIPGIDEAAFCNGPFFQLTYRDGS
LDGMWIVRDVNNLRLIQLGDNCAGMQVSTSEPRNTSSLKSLFDTSMYQPLDIPEAPSVNEAASPPQTPLE
LPQPRLNAPVAEEASSVAEQTNAHSEPDSVIATEYEQYGHLLEETLDSDGEAYSDLIASDSTEAEYPATD
PQSSDFAQLPRETALSVAPGDLDYSEGAIKPPAPDATGKETILTSPEPAEDVRETVAAVEKASHLSPALA
RLFAVSTHAEKKHEKTQEPSPVKEVKNPTSSTTVKAPISIEPPGAEEKEAVEEFTLLNDGEVTELEYVEI
ATMLHQILTKLSGSFKRKRKNRFMVLTQNTFYLTQSCIEKYGTQLNAPELFNQLPQYQVTSGAVVNTKCI
AFNIPTLVAASDRAKVDIELIINKLKEVGNL

  Protein domains


Predicted by InterproScan.

Putative helicase (TraI_2)

(106-301)


  Protein structure


Source ID Structure
AlphaFold DB A0A7T0P871


T4CP

ID   2277 GenBank   WP_000167418
Name   traD_HXI46_RS00335_pSa4-CIP insolico UniProt ID   _
Length   694 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 694 a.a.        Molecular weight: 77969.74 Da        Isoelectric Point: 8.7275

>WP_000167418.1 MULTISPECIES: conjugative transfer system coupling protein TraD [Enterobacterales]
MTKSKRTNLHAQENFYRPILEYRSASVLLICAVIMLVMGFRSDGVNIAPIILYTAVFLLLVCLYRCKTAH
PYLMAHWRVFQRQIMFISLKSLRTINKSNFFSNERKYRQLVQEYKKNNRPVPDRKTYFCNGFEWGPEHAD
RAYQIANLSSDKREIALPFVLSPIARHFETMARSMGGNNAIFAVDRRAPIFVTEDNWFGHTLITGNVGTG
KTVLQRLLSISMLHLGHVIVVIDPKNDAEWRQSLMDEASELGLPFYKFHPAQPSSSVCIDVCNAYTNVSD
LTSRLLSLVSVPGEVNPFVQYAEALVSTVITGLSYTDKKPSIYLIHKNMKSHMSVVNLTIKVMECCFARH
YGPDVWMEKVKYASNDTLQVRFKRLTEWFNAHFLNYEGAEPIEWIDTVGRLVDYSMSDPEHMSKMTAGIM
PLFSRLTEQPLNELLSPSPNTLTSREIVTSDGMFSTGGVLYISLDGLSNPESARAISQLIMSDLTSCAGS
RYNADDGDMSSHSRISIFVDEAHSAINNSMINLLAQGRAAQIALFICTQTISDFIAAANAETANRITGLC
NNYISLRVNDTPTQTLVVENFGKSPISTNMVTYTTGSETTLPHNNFSGSISERKQTTLEESIPKELLGQV
PKFHIVARLQDGRKVVGQIPIAVSEKAMKPNTTLLEMFLKPAGKVTLRQNVGLSYLNKYLRKLH

  Protein domains


Predicted by InterproScan.

AAA-like domain (AAA_10)

(199-245)

Type IV secretion-system coupling protein DNA-binding domain (TrwB_AAD_bind)

(410-638)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 126811..135979

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HXI46_RS00675 122348..122548 - 201 WP_000357613 hypothetical protein -
HXI46_RS00680 122566..123642 - 1077 WP_001015069 hypothetical protein -
HXI46_RS00685 124177..125052 + 876 WP_001282731 RepB family plasmid replication initiator protein -
HXI46_RS00695 126406..126759 + 354 WP_038988950 hypothetical protein -
HXI46_RS00700 126811..127128 + 318 WP_000203871 type IV conjugative transfer system protein TraL traL
HXI46_RS00705 127128..127925 + 798 WP_011011069 TraE/TraK family type IV conjugative transfer system protein traE
HXI46_RS00710 127928..129160 + 1233 WP_000202110 type-F conjugative transfer system secretin TraK traK
HXI46_RS00715 129162..129602 + 441 WP_001224093 plasmid transfer protein HtdO -
HXI46_RS00720 129592..130950 + 1359 WP_000351840 IncHI-type conjugal transfer protein TrhB traB
HXI46_RS00725 130959..131471 + 513 WP_000429933 hypothetical protein -
HXI46_RS00730 131577..132329 + 753 WP_010892304 protein-disulfide isomerase HtdT -
HXI46_RS00735 132339..133289 + 951 WP_001022266 TraV family lipoprotein traV
HXI46_RS00740 133298..135979 + 2682 WP_001255540 IncHI-type conjugal transfer ATPase TrhC virb4
HXI46_RS00745 136681..137079 + 399 WP_071925125 hypothetical protein -
HXI46_RS00750 138068..138250 + 183 WP_071925124 hypothetical protein -
HXI46_RS01275 138259..138522 - 264 WP_061104262 hypothetical protein -
HXI46_RS01380 138492..138626 - 135 WP_257792903 hypothetical protein -
HXI46_RS01385 138648..138782 - 135 WP_257792904 hypothetical protein -
HXI46_RS00760 139272..140525 + 1254 WP_001048869 ParA family protein -

Host bacterium

ID   3789 GenBank   NZ_MG874042
Plasmid name   pSa4-CIP Incompatibility group   IncHI1B
Plasmid size   237130 bp Coordinate of oriT [Strand]   65717..66001 [-]
Host baterium   Salmonella sp. strain Sa4

Cargo genes

Drug resistance gene   qnrS1, dfrA12, aadA2, cmlA1, ant(3'')-Ia, sul3, blaTEM-1B, floR, sul2
Virulence gene   -
Metal resistance gene   silE, silS, silR, silC, silF, silB, silA, silP, pcoA, pcoB, pcoC, pcoE
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -