Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   118028
Name   oriT_TSDC17.2-1.1|5 in_silico
Organism   Parabacteroides distasonis strain Parabacteroides distasonis TSDC17.2-1.1
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_OY725750 (13965..14164 [-], 200 nt)
oriT length   200 nt
IRs (inverted repeats)      25..30, 37..42  (AACATA..TATGTT)
 13..19, 24..30  (TATGTTC..GAACATA)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 200 nt

>oriT_TSDC17.2-1.1|5
CCGACGGATTTTTATGTTCGCCGGAACATAGCAAGGTATGTTTTCAGCCGCTCAAAATATTTTGAGCTTCCCGGAAAACGCCTTGCCCTTGCAGGGGGCGGGCTTTCCCTCCGAAGTCGGGAAGCCTTTCAGAACTGCGGTGCTGTGATCCGAAGCGGCGGTTTATGCCGTCAATCCGCTAAATCCAAAGTAATATGAAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   11433 GenBank   WP_320643320
Name   mobB_UNS60_RS03770_TSDC17.2-1.1|5 insolico UniProt ID   _
Length   415 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 415 a.a.        Molecular weight: 46568.10 Da        Isoelectric Point: 9.7700

>WP_320643320.1 conjugal transfer protein MobB [Parabacteroides distasonis]
MVAKISVGNSLYGAIAYNGEKINEAHGRLLTTNRIYNDGSGTVDINKAMEGFLTFLPPQMKVEKPVVHIS
LNPHPEDVLTDVELQDIAREYLEKLGFGNQPYLVFKHEDIDRHHLHIVTVRVDENGKCISDKNNYYRSKQ
ITRELEKKYGLHDAERRNRHLDTPLHKVDALAGDVKKQVAGTVKALNGQYRFQTMGEYRALLSLYNLTVE
EARGNVRGREYHGLVYSVTDDKGNKVGNPFKSSLFGKSAGYEAIQKKFVRSKQEIKDRKLADMTKRTVLS
VLQGTYDKDRFVSLLKKKGIDTVLRHTEEGRIYGATFIDHRTGCVLNGSRMGKELSANALQEHFTLPYAG
QPPIPLSIPADAADKAHGQTAYDREDVSGGMGLLTPEGPAVDAEEEAFIRAMKRKKKKKRKGLGM

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(61-165)


  Protein structure



No available structure.




T4CP

ID   13363 GenBank   WP_320643319
Name   mobC_UNS60_RS03765_TSDC17.2-1.1|5 insolico UniProt ID   _
Length   668 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 668 a.a.        Molecular weight: 76573.50 Da        Isoelectric Point: 7.8458

>WP_320643319.1 conjugal transfer protein MobC [Parabacteroides distasonis]
MSQEDDLRALAKIMDFLRAVSIILVVMNVYWFCYEAIRLWGVNIGVVDKILLNFDRTARLFHSILYTKLF
AVLLLALSCLGTKGVKGGKITWGRIWTALAAGFVLFFLNWWILALPLPVEAVTGLYVLTIGTGYVCLLMG
GLWMSRLLKHNLMEDVFNNENESFMQETRLIESEYSVNLPTRFYYRKRWNNGWINVVNPFRASIVLGTPG
SGKSYAVVNNFIKQQIEKGFSQYIYDFKYPDLSTIAYNHLMNNPEGYKVKPKFYVINFDDPRRSHRCNPI
HPDFMEDITDAYESAYTIMLNLNKTWVQKQGDFFVESPIILFASIIWYLKIYQNGKYCTFPHAIEFLNRR
YEDIFPILTSYPELENYLSPFMDAWLGGAAEQLMGQIASAKIPLSRMISPQLYWVMSDSEFTLDINNPEE
PKILCVGNNPDRQNIYGAALGLYNSRIVKLINKKGMLKSSVIIDELPTIYFKGLDNLIATARSNKVAVCL
GFQDFSQLVRDYGDKEAKVVMNTVGNIFSGQVVGETAKTLSERFGKVLQKRQSISINRQDVSTSINTQMD
ALIPPSKISGLTQGMFVGSVSDNFNERIEQKIFHCEIVVDAEKVKREESAYKKIPVITNFTDEDGNDRMK
ETVQANYRRIKEEVKQIVQEELERIAGDDNLKHLLQQK

  Protein domains


Predicted by InterproScan.

YWFCY protein (YWFCY)

(5-149)

TraM recognition site of TraD and TraG (TraG-D_C)

(461-571)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 17187..27748

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
UNS60_RS03770 (PDTSDC17_02856) 12316..13563 - 1248 WP_320643320 conjugal transfer protein MobB -
UNS60_RS03775 (PDTSDC17_02857) 13542..13970 - 429 WP_002560988 conjugal transfer protein MobA -
UNS60_RS03780 (PDTSDC17_02858) 14391..15437 + 1047 Protein_12 ParA family protein -
UNS60_RS03785 (PDTSDC17_02859) 15443..15883 + 441 WP_320643321 DUF3408 domain-containing protein -
UNS60_RS03790 (PDTSDC17_02860) 15886..16233 + 348 WP_005850496 DUF3408 domain-containing protein -
UNS60_RS03795 (PDTSDC17_02861) 16256..16984 + 729 WP_320643322 conjugal transfer protein TraD -
UNS60_RS03800 (PDTSDC17_02862) 17187..17498 + 312 WP_008645602 DUF4134 domain-containing protein traE
UNS60_RS03805 (PDTSDC17_02863) 17509..17841 + 333 WP_289689863 DUF4133 domain-containing protein traF
UNS60_RS03810 (PDTSDC17_02864) 17838..20360 + 2523 WP_320643323 TraG family conjugative transposon ATPase virb4
UNS60_RS03815 (PDTSDC17_02865) 20391..20771 + 381 WP_320643324 DUF3876 domain-containing protein traH
UNS60_RS03820 (PDTSDC17_02866) 20795..21424 + 630 WP_320643325 DUF4141 domain-containing protein traI
UNS60_RS03825 (PDTSDC17_02867) 21428..22432 + 1005 WP_320643326 conjugative transposon protein TraJ traJ
UNS60_RS03830 (PDTSDC17_02868) 22464..23087 + 624 WP_004308925 conjugative transposon protein TraK traK
UNS60_RS03835 (PDTSDC17_02869) 23093..23401 + 309 WP_320643327 TraL conjugative transposon family protein traL
UNS60_RS03840 (PDTSDC17_02870) 23382..24731 + 1350 WP_320643328 conjugative transposon protein TraM traM
UNS60_RS03845 (PDTSDC17_02871) 24774..25760 + 987 WP_320643329 conjugative transposon protein TraN traN
UNS60_RS03850 (PDTSDC17_02872) 25763..26338 + 576 WP_320643330 conjugal transfer protein TraO traO
UNS60_RS03855 (PDTSDC17_02873) 26349..27248 + 900 WP_320643331 toprim domain-containing protein traP
UNS60_RS03860 (PDTSDC17_02874) 27245..27748 + 504 WP_123613392 DUF3872 domain-containing protein traQ
UNS60_RS03865 (PDTSDC17_02875) 27745..28272 + 528 WP_320643332 lysozyme -
UNS60_RS03870 (PDTSDC17_02876) 28447..29166 + 720 WP_154327277 hypothetical protein -
UNS60_RS03875 (PDTSDC17_02877) 29261..29569 - 309 WP_320643333 hypothetical protein -
UNS60_RS03880 (PDTSDC17_02878) 29623..29871 - 249 WP_119958558 hypothetical protein -
UNS60_RS03885 (PDTSDC17_02879) 29868..30101 - 234 WP_068960793 DUF3873 domain-containing protein -
UNS60_RS03890 (PDTSDC17_02880) 30122..30379 - 258 WP_119958557 hypothetical protein -
UNS60_RS03895 (PDTSDC17_02881) 30404..31687 - 1284 WP_320643334 PcfJ domain-containing protein -
UNS60_RS03900 (PDTSDC17_02882) 31690..32100 - 411 WP_178495392 PcfK-like family protein -
UNS60_RS03905 (PDTSDC17_02883) 32116..32712 - 597 WP_136015029 hypothetical protein -

Host bacterium

ID   18461 GenBank   NZ_OY725750
Plasmid name   TSDC17.2-1.1|5 Incompatibility group   -
Plasmid size   168575 bp Coordinate of oriT [Strand]   13965..14164 [-]
Host baterium   Parabacteroides distasonis strain Parabacteroides distasonis TSDC17.2-1.1

Cargo genes

Drug resistance gene   tet(Q)
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIIA9