Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   200385
Name   oriT_ICEPspCT06-1 in_silico
Organism   Parabacteroides sp. CT06
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   CP022754 (32163..32359 [-], 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_ICEPspCT06-1
ACGGATTTTTATGTTCACCTGAACATAGCAAGATGTCTTTTCAGCCGCTCAAAATATTTTGAGCAGCCACGAAAAGCACTTGCCCTTGCAGGGGGCGGGCTTTCCCTCCGAAGTCGGGAAGCCTTTCAGAACTGCGGTGCTGTAATCCGAAGCGGCGGCTTATGCCGTCAATCCGCTAAATCCAAAGTAATATGAAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   14412 GenBank   AST52261
Name   Relaxase_CI960_02150_ICEPspCT06-1 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: 46563.08 Da        Isoelectric Point: 9.8931

>AST52261.1 relaxase [Parabacteroides sp. CT06]
MVAKISVGSSLYGAIAYNGEKINEAQGRLLTTNRIYNDGSGTVDIGKAMEGFLTFLPPQMKIEKPVVHIS
LNPHPEDVLTDIELQNIAREYLEKLGFGNQPYLVFKHEDIDRHHLHIVTVNVDENGKRLNRDFLYRRSDR
IRRELEQKYGLHPAERKNQRLDNPLRKVAASAGDVKKQVGNTVKALNGQYRFQTMGEYRALLSLYNMTVE
EARGNVRGREYHGLVYSVTDDKGNKVGNPFKSSLFGKSAGYEAVQKKFVRSKSEIKDRKLADMTKRTVLS
VLQGTYDKDKFVSQLKEKGIDTVLRYTEEGRIYGATFIDHRTGCVLNGSRMGKELSANALQEHFTLPYAG
QPPIPLSIPVDAADKAHGQTAYDSEDISGGMGLLTPEGPAVDAEEEAFIRAMKRKKKKKRKGLGM

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(64-184)


  Protein structure



No available structure.




T4CP

ID   16933 GenBank   AST52260
Name   t4cp2_CI960_02145_ICEPspCT06-1 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

>AST52260.1 conjugal transfer protein TraG [Parabacteroides sp. CT06]
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: 547549..558104

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
CI960_02150 542678..543925 - 1248 AST52261 relaxase -
CI960_02155 543904..544332 - 429 AST52262 MobA protein -
CI960_02160 544329..544553 - 225 AST56053 hypothetical protein -
CI960_02165 544602..544769 - 168 AST52263 hypothetical protein -
CI960_02170 544754..545803 + 1050 AST52264 ParA family protein -
CI960_02175 545806..546246 + 441 AST52265 hypothetical protein -
CI960_02180 546249..546602 + 354 AST52266 conjugal transfer protein TraB -
CI960_02185 546619..547347 + 729 AST56054 conjugal transfer protein TraD -
CI960_02190 547549..547866 + 318 AST52267 conjugal transfer protein TraE traE
CI960_02195 547877..548209 + 333 AST52268 conjugal transfer protein TraF traF
CI960_02200 548206..550710 + 2505 AST52269 conjugal transfer protein TraG virb4
CI960_02205 550751..551131 + 381 AST52270 conjugal transfer protein TraH traH
CI960_02210 551155..551784 + 630 AST52271 hypothetical protein traI
CI960_02215 551788..552792 + 1005 AST52272 conjugative transposon protein TraJ traJ
CI960_02220 552824..553447 + 624 AST52273 conjugative transposon protein TraK traK
CI960_02225 553454..553762 + 309 AST52274 conjugal transfer protein TraL traL
CI960_02230 553743..555095 + 1353 AST52275 conjugative transposon protein TraM traM
CI960_02235 555130..556116 + 987 AST52276 conjugative transposon protein TraN traN
CI960_02240 556119..556694 + 576 AST52277 conjugal transfer protein TraO traO
CI960_02245 556702..557604 + 903 AST52278 DNA primase traP
CI960_02250 557601..558104 + 504 AST52279 conjugal transfer protein TraQ traQ
CI960_02255 558101..558628 + 528 AST52280 lysozyme -
CI960_02260 558837..559082 + 246 AST56055 hypothetical protein -
CI960_02265 559116..559424 - 309 AST52281 hypothetical protein -
CI960_02270 559478..559723 - 246 AST52282 hypothetical protein -
CI960_02275 559720..559953 - 234 AST52283 DUF3873 domain-containing protein -
CI960_02280 559973..560230 - 258 AST52284 hypothetical protein -
CI960_02285 560255..561586 - 1332 AST52285 hypothetical protein -
CI960_02290 561583..561999 - 417 AST52286 PcfK-like protein -
CI960_02295 562013..562234 - 222 AST52287 hypothetical protein -
CI960_02300 562246..562461 - 216 AST52288 hypothetical protein -
CI960_02305 562367..562611 + 245 Protein_445 hypothetical protein -
CI960_02310 562623..563033 - 411 AST52289 hypothetical protein -

Host bacterium

ID   342 Element type   ICE (Integrative and conjugative element)
Element name   ICEPspCT06-1 GenBank   CP022754
Element size   5372666 bp Coordinate of oriT [Strand]   32163..32359 [-]
Host bacterium   Parabacteroides sp. CT06 Coordinate of element   512165..563352

Cargo genes

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