Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   200354
Name   oriT_ICEBviDSM18177-1 in_silico
Organism   Barnesiella viscericola DSM 18177
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   CP007034 (26509..26705 [+], 197 nt)
oriT length   197 nt
IRs (inverted repeats)      10..17, 20..27  (TATGTTCA..TGAACATA)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 197 nt

>oriT_ICEBviDSM18177-1
ACGGATTTTTATGTTCACCTGAACATAGCAAGATGTCTTTTCAGCCGCTCAAAATATTTTGAGCAGCCACGAAAAGCACTTGCCCTTGCAGGGGGCGGGCTTTCCCTCCGAAGTCGGGAAGCCTTTCAGAACTGCGGTGCTGTAATCCGAAGCGGCGGCTTATGCCGTCAATCCGCTAAATCCAAAGTAATATGAAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   14381 GenBank   AHF13390
Name   Relaxase_BARVI_12390_ICEBviDSM18177-1 insolico UniProt ID   _
Length   306 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 306 a.a.        Molecular weight: 34479.28 Da        Isoelectric Point: 10.2838

>AHF13390.1 relaxase [Barnesiella viscericola DSM 18177]
MDRHHLHIVTVNVDENGKRLNRDFLYRRSDRIRRELEQKYGLHPAERKNQRLDNPLRKVAASAGDVKKQV
GNTVKALNGQYRFQTMGEYRALLSLYNMTVEEARGNVRGREYHGLVYSVTDDKGNKVGNPFKSSLFGKSA
GYEAVQKKFVRSKSEIKDRKLADMTKRTVLSVLQGTYDKDKFVSQLKEKGIDTVLRYTEEGRIYGATFID
HRTGCVLNGSRMGKELSANALQEHFTLPYAGQPPIPLSIPVDAADKAHGQTAYDSEDISGGMGLLTPEGP
AVDAEEEAFIRAMKRKKKKKRKGLGM

  Protein domains



No domain identified.



  Protein structure



No available structure.




T4CP

ID   16876 GenBank   AHF13391
Name   t4cp2_BARVI_12395_ICEBviDSM18177-1 insolico UniProt ID   _
Length   672 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 672 a.a.        Molecular weight: 77086.10 Da        Isoelectric Point: 7.1001

>AHF13391.1 conjugal transfer protein TraG [Barnesiella viscericola DSM 18177]
MSQQEDDLRALAKIMDFLRAVSIILVVMNVYWFCYEAIRLWGVNIGVVDKILLNFDRTAGLFHSILYTKL
FSVLLLALSCLGTKGVKGEKITWGRIWTAFAVGFVLFFLNWWLLPLPLPLEAVTGLYVLTIGTGYVCLLM
GGLWMSRLLKHNLMEDVFNNENESFMQETRLIESEYSVNLPTRFYYRKRWNNGWINVVNPFRASIVLGTP
GSGKSYAVVNNFIKQQIEKGFSQYIYDFKYPDLSTIAYNHLLNHPDGYKVKPKFYVINFDDPRRSHRCNP
IHPDFMEDITDAYESAYTIMLNLNKTWVQKQGDFFVESPIILFASIIWYLKIYQNGKFCTFPHAIEFLNR
RYEDIFPILTSYPELENYLSPFMDAWLGGAAEQLMGQIASAKIPLSRMISPQLYWVMSDSEFTLDINNPE
EPKILCVGNNPDRQNIYGAALGLYNSRIVKLINKKGMLKSSVIIDELPTIYFKGLDNLIATARSNKVAVC
LGFQDFSQLVRDYGDKEAKVVMNTVGNIFSGQVVGETAKTLSERFGKVLQKRQSISINRQDVSTSINTQM
DALIPPSKISGLTQGMFVGSVSDNFNERIEQKIFHCEIVVDAEKVKREESAYKKIPVITNFTDEDGNDRM
KETVQANYRRIKEEVKQIVQEELERIKNDPVLCKLLPDNETV

  Protein domains


Predicted by InterproScan.

YWFCY protein (YWFCY)

(6-150)

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

(462-572)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 2861709..2874667

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
BARVI_12255 2858511..2859311 - 801 AHF13364 rRNA adenine methyltransferase -
BARVI_12260 2859502..2860788 + 1287 AHF13365 transposase -
BARVI_12265 2860893..2861120 - 228 AHF13366 hypothetical protein -
BARVI_12270 2861185..2861712 - 528 AHF13367 lysozyme -
BARVI_12275 2861709..2862212 - 504 AHF13368 conjugal transfer protein TraQ traQ
BARVI_12280 2862209..2863111 - 903 AHF13369 CHC2 zinc finger domain protein traP
BARVI_12285 2863119..2863694 - 576 AHF13370 conjugal transfer protein TraO traO
BARVI_12290 2863697..2864683 - 987 AHF13371 conjugate transposon protein traN
BARVI_12295 2864721..2866073 - 1353 AHF13372 conjugate transposon protein traM
BARVI_12300 2866054..2866341 - 288 AHF13373 conjugal transfer protein TraL traL
BARVI_12305 2866369..2866992 - 624 AHF13374 conjugal transfer protein traK
BARVI_12310 2867024..2868028 - 1005 AHF13375 conjugal transfer protein traJ
BARVI_12315 2868032..2868661 - 630 AHF13376 conjugate transposon protein traI
BARVI_12320 2868685..2869065 - 381 AHF13377 conjugal transfer protein TraH traH
BARVI_12325 2869106..2869663 - 558 AHF13378 conjugal transfer protein TraG virb4
BARVI_12330 2869699..2871354 - 1656 AHF13379 RNA-directed DNA polymerase -
BARVI_12335 2871977..2874010 - 2034 AHF13380 conjugate transposon protein virb4
BARVI_12340 2874007..2874339 - 333 AHF13381 conjugate transposon protein traF
BARVI_12345 2874350..2874667 - 318 AHF13382 conjugate transposon protein traE
BARVI_12350 2874869..2875597 - 729 AHF13383 conjugal transfer protein TraD -
BARVI_12355 2875614..2875967 - 354 AHF13384 conjugal transfer protein TraB -
BARVI_12360 2875970..2876410 - 441 AHF13385 conjugate transposon protein -
BARVI_12365 2876413..2877462 - 1050 AHF13386 conjugal transfer protein TraA -
BARVI_12370 2877884..2878312 + 429 AHF13387 MobA protein -
BARVI_12375 2878321..2878638 + 318 AHF13995 hypothetical protein -
BARVI_12380 2878743..2879240 + 498 AHF13388 hypothetical protein -

Host bacterium

ID   311 Element type   ICE (Integrative and conjugative element)
Element name   ICEBviDSM18177-1 GenBank   CP007034
Element size   3076856 bp Coordinate of oriT [Strand]   26509..26705 [+]
Host bacterium   Barnesiella viscericola DSM 18177 Coordinate of element   2851185..2910140

Cargo genes

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