Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   103441
Name   oriT_pSZ6R-tetX4 in_silico
Organism   Citrobacter sp. strain SZ6R
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_MW940627 (113755..114039 [-], 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_pSZ6R-tetX4
GGTTATTGCTACTTAATGCCGATAACGACTCAGGCTTTGAGGTTTTTTTATACGGTTCACATTTCGTTAGCAAGGTCAGGGTTTTTTGATAAAATTCTGGTTAGTTTGGTTAAAAAGTGTTACAAGTAAGGGTAATGGCTGAAAGGTTAGTTTTAAGGTTCAAAGCGGCAGTATTAAAATTCCAAAAGTTACTTTTCATCCTTCAGAATCCAGACCTTAATTTCATGTAGAAGATTCGTACAATTGTATTGGCGCAAGGACAATCCGCACATGTCAGAATCAGAT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2566 GenBank   WP_039026431
Name   TraI_2_KR473_RS00605_pSZ6R-tetX4 insolico UniProt ID   A0A8E6NZY6
Length   1011 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1011 a.a.        Molecular weight: 112997.99 Da        Isoelectric Point: 4.5108

>WP_039026431.1 MULTISPECIES: MobH family relaxase [Enterobacterales]
MNFRALFLSMQRVFGIFSRRENDVSELMMKDAANFSPFAQIIGEQKYTVPDHPNPEVLKFIEYPTRPAGI
QTFNEQSILSLYRDKLHSISMMLAISDGDIREDAYTFTNLVLKPLIEYIRWIHLLPASENHHHNGIGGLL
SHSLEVAMISLKNANHSELRPIGYQDEEVVRRKVYLYAAFICGLVHDAGKVYDLDIVSLNLSETLTWAPS
SQSLLDWARENNVVEYEIHWRKRIHNQHNIWSSVFLERILDPVCMSFLDRVKKERVYAKMVTALNVYNDG
NDFLSKCVRTSDYYSTGTDLNVLRDPIMGLRSNDAAARAIGTIKHNFTSININNYKTKPMHIIIVNGEVY
LNENAFLDFVLSDFAAHKFNFPQGDAGKTVLVESLVLRGYVEPYDDERVVHYFIPGTYSENEIASIFRNG
IGKLEFYNLLKLRWIGLIFDSYKIPDSVPGLFSVNANKDFIYIDEQKTVTEYRRPVPGRESVTRVTDTVN
DAIENTPQYGLQLVNGPDADSNNIISSENTESITDSLEESGADISNEIFETQVVTAIDTAETVNADEPEQ
VEEHDDRSQIHLVEQLHEMLLSAPLPHHAVINIDSVPYLDLDAAIALIPGIDEAAFCNGPFFQLTYRDGS
LDGMWIVRDVNNLRLIQLGDNCAGMQVSTSEPRNTSSLKSLFDTSMYQPLDIPEAPSVNEAASPPQTPLE
LPQPRLNAPVAEEASSVAEQTNAHSEPDSVIATEYEQYGHLLEETLDSDGEAYSDLIASDSTEAEYSATD
PQSSDFAQLPRETALSVAPGDLDYSEGAIKPPAPDATGKETILTSPEPAEDVRETVAAVEKASHLSPALA
RLFAVSTHAEKKHEKTQEPSPVKEVKNPTSSTTVKAPISIEPPGAEEKEAVEEFTLLNDGEVTELEYVEI
ATMLHQILTKLSGSFKRKRKNRFMVLTQNTFYLTQSCIEKYGTQLNAPELFNQLPQYQVTSGAVVNTKCI
AFNIPTLVAASDRAKVDIELIINKLKEVGNL

  Protein domains


Predicted by InterproScan.

Putative helicase (TraI_2)

(106-301)


  Protein structure



No available structure.




T4CP

ID   2362 GenBank   WP_000167418
Name   traD_KR473_RS00610_pSZ6R-tetX4 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: 177679..186847

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
KR473_RS00960 (EGMGBFOI_00206) 173216..173416 - 201 WP_000357614 hypothetical protein -
KR473_RS00965 (EGMGBFOI_00207) 173434..174510 - 1077 WP_001015069 hypothetical protein -
KR473_RS00970 (EGMGBFOI_00208) 175045..175920 + 876 WP_001282731 RepB family plasmid replication initiator protein -
KR473_RS00975 (EGMGBFOI_00209) 176367..176792 - 426 WP_154166887 hypothetical protein -
KR473_RS00980 (EGMGBFOI_00210) 177274..177627 + 354 WP_000424120 pili assembly chaperone -
KR473_RS00985 (EGMGBFOI_00211) 177679..177996 + 318 WP_000203871 type IV conjugative transfer system protein TraL traL
KR473_RS00990 (EGMGBFOI_00212) 177996..178793 + 798 WP_011011069 TraE/TraK family type IV conjugative transfer system protein traE
KR473_RS00995 (EGMGBFOI_00213) 178838..180028 + 1191 WP_225374337 type-F conjugative transfer system secretin TraK traK
KR473_RS01000 (EGMGBFOI_00214) 180030..180470 + 441 WP_001224094 plasmid transfer protein HtdO -
KR473_RS01005 (EGMGBFOI_00215) 180460..181818 + 1359 WP_000351840 IncHI-type conjugal transfer protein TrhB traB
KR473_RS01010 (EGMGBFOI_00216) 181827..182339 + 513 WP_000429933 hypothetical protein -
KR473_RS01015 (EGMGBFOI_00217) 182445..183197 + 753 WP_010892304 protein-disulfide isomerase HtdT -
KR473_RS01020 (EGMGBFOI_00218) 183207..184157 + 951 WP_001022266 TraV family lipoprotein traV
KR473_RS01025 (EGMGBFOI_00219) 184166..186847 + 2682 WP_001255540 IncHI-type conjugal transfer ATPase TrhC virb4
KR473_RS01030 187544..187942 + 399 WP_071925125 hypothetical protein -
KR473_RS01035 188931..189113 + 183 WP_071925124 hypothetical protein -
KR473_RS01040 189144..189377 + 234 WP_032489575 hypothetical protein -

Host bacterium

ID   3884 GenBank   NZ_MW940627
Plasmid name   pSZ6R-tetX4 Incompatibility group   IncFIA
Plasmid size   191434 bp Coordinate of oriT [Strand]   113755..114039 [-]
Host baterium   Citrobacter sp. strain SZ6R

Cargo genes

Drug resistance gene   tet(X4), floR, qnrS1, blaTEM-1B, ant(3'')-Ia, lnu(G)
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -