Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101487
Name   oriT_pMRVIM1012 in_silico
Organism   Citrobacter freundii strain MRSN 12115
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_JYFZ02000005 (30665..30769 [+], 105 nt)
oriT length   105 nt
IRs (inverted repeats)      32..37, 40..45  (GCCGGC..GCCGGC)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 105 nt

>oriT_pMRVIM1012
AGTACGGGACAAGATGTGTTTTTGGTACACCGCCGGCACGCCGGCAGTGACGCAAAAACGTCTTGGTCAGGGCAAGCCCCGACACCCCCTAACGAGGTTAGCTAT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1329 GenBank   WP_004206924
Name   traI_TO64_RS27425_pMRVIM1012 insolico UniProt ID   A0A2V4FJ40
Length   659 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 659 a.a.        Molecular weight: 75087.84 Da        Isoelectric Point: 10.0285

>WP_004206924.1 MULTISPECIES: TraI/MobA(P) family conjugative relaxase [Enterobacterales]
MVIPKIIEGRRDKKSSFGQLIKYMADKPSQELTDTVQPTPETALAVKSDMFEGLNNYLTRKQKVISTPVD
VEPGVQRVVVGDVTCQYNTFSLDGAAQEMNSVSQQSTRCKDPVMHYVLSWPDYEKPNDDQVFDSVKFTLA
SMGMSDHQYVAAIHRDTDNLHVHVAVNRINPQTYKAASSSFTKDTLHQACRLLELKNGWSHSNGAYVVND
RQQIVRNPHSKKERGNWRSLDRINKMENKEGVETLYRYIVGDEQVGGSRQNLIHVSAGLREAKSWDDVHK
TFAGIGLRVEKAQGKKGYVITHEHQNQKTAVKASLVFNKAQYTLKSMEERFGEYQPSHIEPAKVSVFKTA
YTPGAYRRDANKRLQRKIERAEERMLLKGRYRAYRNNLPIYSPDKDRIADEYRKIAQHTRLVKNNVRHSV
SDPHTRKLMYNLAEFKRLQAVANLRLSLREERNGFRAANPRLSYREWVEQEALKGDKAALSQMRGFAYSS
RKKEKYKQQLVEQIGFNRTFNAITSHDRDDVAVMASARHGVKPRLLKDGTVIFERDGKPVAADRGHIVLT
ESNGIDKEKTADLAIALTIAGKAKSVRVDGDGEFKELCCNRIVDAAVNHNHPVAQGITFTDAAQQAYAQN
EKHRLIREQNNSKNEMQLRSESDDKFNPK

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(86-334)


  Protein structure


Source ID Structure
AlphaFold DB A0A2V4FJ40


T4CP

ID   950 GenBank   WP_004206885
Name   t4cp2_TO64_RS27175_pMRVIM1012 insolico UniProt ID   _
Length   695 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 695 a.a.        Molecular weight: 79538.91 Da        Isoelectric Point: 4.8317

>WP_004206885.1 MULTISPECIES: conjugal transfer protein TrbC [Enterobacterales]
MQQESVDSKKVLRPDGSFMEWFLTPNVQFGLLAILTVLGLFLPFTMLLSILILPPLMVAFTDRKFRPPLR
MPKDCEMFDDTLTTETQAEYRLGPIRIPHKVRERKKAKGILYVGYERGRLFGRELWLNMTDLLRHMVFFG
TTGSGKTETFYGFIVNFLLWCRGYCLSDGKADNKLAFATWSLARRFGREDDYYVLNLLTGSIDRFVNLVK
QESIPAQSNSVNLFSVAPPTFIIQLMESMLPQVGGDSAQWQDTAKAMMSALINALCYKRARGELLLSQRT
IQKNMSLPAMAALYVEAKKNGWHSEGYAALESYLENTPGFLLANAEYPETWEARAFEQHNYMSRQFLKTL
SLFNETYGHVFPEDSGDIRMDDIFHNDRILIVMIPSLELSRGEAATLGRLYVTLQRMTISKDLGYQLEGK
KEEVLLTHALNNQAPYGLIYDELGQYFTSGMDTLSAQMRSLEKMGVFSSQDHPSLARGANGEVDSLIANT
RVKYFESIEDRKTFEILRETVGQDYYSELSGQEAEHGTFSKTVREGDLYQIREKDRVNIRELRKQTEGQG
VISFQDALVRSAAFYIPDNEKFSSELPMRINRFIEVLPPSPATLYSIYPERKDDELAETNPDAMRFPPIK
LFGYDKAANSLLEKIEVFYELQCGAISPEEMSVCLFELFAEWLDGTETDDVLYHQEDDLFPMIEM

  Protein domains



No domain identified.


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 33567..49880

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
TO64_RS27405 (TO64_25750) 28651..28962 + 312 WP_004187333 hypothetical protein -
TO64_RS27410 (TO64_25755) 29095..29631 + 537 WP_004206920 hypothetical protein -
TO64_RS27415 (TO64_25760) 30132..30497 - 366 WP_004206922 hypothetical protein -
TO64_RS27420 (TO64_25765) 30773..31090 + 318 WP_004206923 plasmid mobilization protein MobA -
TO64_RS27425 (TO64_25770) 31077..33056 + 1980 WP_004206924 TraI/MobA(P) family conjugative relaxase -
TO64_RS27430 (TO64_25775) 33070..33570 + 501 WP_004206925 DotD/TraH family lipoprotein -
TO64_RS27435 (TO64_25780) 33567..34346 + 780 WP_004187315 type IV secretory system conjugative DNA transfer family protein traI
TO64_RS27440 (TO64_25785) 34357..35520 + 1164 WP_004206926 plasmid transfer ATPase TraJ virB11
TO64_RS27445 (TO64_25790) 35510..35770 + 261 WP_004187310 IcmT/TraK family protein traK
TO64_RS31640 35795..39100 + 3306 WP_219818010 LPD7 domain-containing protein -
TO64_RS28815 39066..39578 + 513 WP_011091071 hypothetical protein traL
TO64_RS27460 (TO64_25805) 39579..39791 - 213 WP_305953721 Hha/YmoA family nucleoid-associated regulatory protein -
TO64_RS27465 (TO64_25810) 39763..40173 - 411 WP_004187465 H-NS family nucleoid-associated regulatory protein -
TO64_RS27470 (TO64_25815) 40241..40954 + 714 WP_223294958 DotI/IcmL family type IV secretion protein traM
TO64_RS27475 (TO64_25820) 40963..42114 + 1152 WP_015062843 DotH/IcmK family type IV secretion protein traN
TO64_RS27480 (TO64_25825) 42126..43475 + 1350 WP_004206932 conjugal transfer protein TraO traO
TO64_RS27485 (TO64_25830) 43487..44191 + 705 WP_004206933 conjugal transfer protein TraP traP
TO64_RS27490 (TO64_25835) 44215..44745 + 531 WP_004187478 conjugal transfer protein TraQ traQ
TO64_RS27495 (TO64_25840) 44762..45151 + 390 WP_011154472 DUF6750 family protein traR
TO64_RS27500 (TO64_25845) 45197..45691 + 495 WP_004187480 hypothetical protein -
TO64_RS27505 (TO64_25850) 45985..48738 + 2754 WP_241790724 conjugal transfer protein traU
TO64_RS27510 (TO64_29935) 48735..49880 + 1146 WP_046810938 conjugal transfer protein TraW traW

Host bacterium

ID   1931 GenBank   NZ_JYFZ02000005
Plasmid name   pMRVIM1012 Incompatibility group   -
Plasmid size   49880 bp Coordinate of oriT [Strand]   30665..30769 [+]
Host baterium   Citrobacter freundii strain MRSN 12115

Cargo genes

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