Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   200396
Name   oriT_ICESsuYS388 in_silico
Organism   Streptococcus suis sequence
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   MK211824 (37889..37923 [-], 35 nt)
oriT length   35 nt
IRs (inverted repeats)      5..11, 15..21  (ACTTTGC..GCAAAGT)
Location of nic site      29..30
Conserved sequence flanking the
  nic site    		  GTGTGTTATA
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 35 nt

>oriT_ICESsuYS388
CACGACTTTGCGAAGCAAAGTGTAGTGTGTTATAC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   14422 GenBank   QID26664
Name   Relaxase_YS388-GM000016_ICESsuYS388 insolico UniProt ID   _
Length   627 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 627 a.a.        Molecular weight: 74663.90 Da        Isoelectric Point: 7.1885

>QID26664.1 relaxase [Streptococcus suis]
MVVTKHFAVHGNKYRKSLIKYILNPAKTDQLKLVSDFGMSNYLDFPNYEEIVEMYQANFVNNDRLYDSRN
DRQQIKQNKIHAHHLIQSFSPEDNLTPEEINRIGYETIKELTSGNFRFIVTTHTDRLHVHNHILINSVDL
NSHKKLKWDYAQERNLRMISDRLSKEAGAKIITPNRYSHEKFVTYRKSNHKFELKQRLYFLMENSKDFDD
FLSKAEALNVQIDFSRKYARFLMTDMPMKRVIRGKQLDKRQPYTEEYFREHFAKRAIEQCLDFLLPRVRD
LSQLLEFARELNLAMSLKQKNVAFTLTKNSQSITVNNQKVSSKNLYDVQFFETYFEKRGEVPDIDQSQLI
SDFEGYCEEQDKEKLAYEDLQEAYQAFKEKRDQVQEFEVVLADHQIDKLVKDGLFIRMNYGVKKDGLVFI
PNRHLDIKETESGKHYHAFIRETAQFFIYNKEASELNRYMRGRELIRQLTNDSQTISKRKRPTIDTLKKK
IEEINLLIELGTENKSYQDIKDEIIKDIAQLDLTITEIQEHIDHLNKVAEVLLNLDNNDIENRRLAKYDY
AKMNLTAAIKLEQVEKEIEIYQIKLDKSIDDYEYLIRRLEKFVKILNEIDSSKDELKFEHSEKNVKE

  Protein domains


Predicted by InterproScan.

Lantibiotic streptin immunity protein (Relaxase_C)

(518-608)

Relaxase/Mobilisation nuclease domain (Relaxase)

(12-265)


  Protein structure



No available structure.



ID   14423 GenBank   QID26683
Name   Mob_Pre_YS388-GM000037_ICESsuYS388 insolico UniProt ID   _
Length   383 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 383 a.a.        Molecular weight: 43958.43 Da        Isoelectric Point: 10.1155

>QID26683.1 plasmid recombination protein, Mob family [Streptococcus suis]
MTVTALARGYPKNTVIIDMTVMQGVRVTVAAVGRGDPKTAVTTVTAVTPKDGHPPKERRNPPMPYAILRF
QKRKAGGVAACERHNERKKEAYKSNPDIDMERSKNNYHLIAPPKYTYKKEINRMVAEAGCRTRKDSVMMV
ETLITASPEFMNQLPPEEQKAYFQTALDFISERVGKQNILSAVVHMDERTPHMHLCFVPITPDNKLSAKA
ILGNQKSLSEWQTAYHERMSSRWNQLERGQSSMETKRKHVPTWLYKLGGRLDKQYEEIVSALSDINAFNA
GKKRDKALDLLSAWLPDVEKFSKEIGKQQAYIDSLKERIGQESDYAGRMRDEKYEQELKVQKANQKIFEL
QRTNEQMGRLLSKIPPEVLEELQKNHRSRAKER

  Protein domains


Predicted by InterproScan.

Plasmid recombination enzyme (Mob_Pre)

(63-256)


  Protein structure



No available structure.




T4CP

ID   16944 GenBank   QID26706
Name   t4cp2_YS388-GM000060_ICESsuYS388 insolico UniProt ID   _
Length   606 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 606 a.a.        Molecular weight: 69106.73 Da        Isoelectric Point: 9.2044

>QID26706.1 conjugal transfer protein TraG [Streptococcus suis]
MVSGKKVFIFGILGLALGYFCHRLVLLYDSLPNQPPLERLAYLLGEGQNQVLNPLWNGNFTGKSVLGFCF
GFVTMGLVYLYVSTGQKVYREGAEYGSARFGNNRERKAFLSKNPFNDTILSRNVRLTLLERKAPQFDRNK
NLVVIGGSGAGKTFRFVKPNLIQLNCSNIVVDPKDHLAEKTGKLFLEHGYQVKVLDLVNMTNSDGFNPFR
YVETENDLNRMLTVYFNNTKGNGSRSDPFWDEASMTLVRAISSYLVDFYNPPGSTKEEADSRRKRGRYPS
FSEIGKLIKLLSKGENQDKSVLEVMFETYAKTYGTENFTMRNWADFQNYKDKTLDSVIAVTTAKFALFNI
QSVIDLTKRDTLDLKTWGTQKTMVYLVIPDNDTTFRFLSALFFSTVFSTLTRQADVDFKGQLPIHVRSYL
DEFANVGEIPDFAEQTSTVRSRNMSLVPILQNIAQLQGLYKEKEAWKTILGNCDSLLYLGGNDEETFKFM
SGLLGKQTIDVRSTSRSYGQTGSGSTSHQKIARDLMTPDEVGNMKRDECLVRIAGVPVFKEKKYFPLKHK
NWKYLADKESDERWWHYHIDPLKTEDVPFEPSDHKVRDLSKESTLH

  Protein domains


Predicted by InterproScan.

Type IV secretory system Conjugative DNA transfer (T4SS-DNA_transf)

(129-555)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 41169..66897

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
YS388-GM000043 36609..37475 + 867 QID26689 aminoglycoside 6-adenylyltransferase -
YS388-GM000044 38511..40430 - 1920 QID26690 TetO -
YS388-GM000045 40814..41188 - 375 QID26691 TnpV protein -
YS388-GM000046 41169..41858 - 690 QID26692 hypothetical protein prgL
YS388-GM000047 41954..42244 - 291 QID26693 hypothetical protein gbs1350
YS388-GM000048 42258..42557 - 300 QID26694 hypothetical protein -
YS388-GM000049 42628..49446 - 6819 QID26695 SNF2 family protein -
YS388-GM000050 49496..50047 - 552 QID26696 hypothetical protein gbs1354
YS388-GM000051 50031..50222 - 192 QID26697 calcium-binding protein -
YS388-GM000052 50223..55127 - 4905 QID26698 glucan-binding protein prgB
YS388-GM000053 55124..55228 - 105 QID26699 hypothetical protein -
YS388-GM000054 55370..55963 - 594 QID26700 hypothetical protein -
YS388-GM000055 56208..59012 - 2805 QID26701 amidase prgK
YS388-GM000056 59009..61339 - 2331 QID26702 VirB4 virb4
YS388-GM000057 61317..61670 - 354 QID26703 PrgI family protein prgIc
YS388-GM000058 61732..62586 - 855 QID26704 conjugal transfer protein TrbL prgHb
YS388-GM000059 62603..62845 - 243 QID26705 hypothetical protein prgF
YS388-GM000060 62863..64683 - 1821 QID26706 conjugal transfer protein TraG virb4
YS388-GM000061 64683..65171 - 489 QID26707 hypothetical protein gbs1365
YS388-GM000062 65249..65830 - 582 QID26708 abortive infection protein -
YS388-GM000063 65833..66066 - 234 QID26709 Uncharacterized protein -
YS388-GM000064 66076..66459 - 384 QID26710 arsenate reductase -
YS388-GM000065 66469..66897 - 429 QID26711 hypothetical protein gbs1369
YS388-GM000066 66881..68245 - 1365 QID26712 DNA (cytosine-5-)-methyltransferase -
YS388-GM000067 68394..69218 - 825 QID26713 replication initiator protein -
YS388-GM000068 69215..69568 - 354 QID26714 hypothetical protein -
YS388-GM000069 69648..70013 - 366 QID26715 LSU ribosomal protein L7/L12 (P1/P2) rplL -

Host bacterium

ID   352 Element type   ICE (Integrative and conjugative element)
Element name   ICESsuYS388 GenBank   MK211824
Element size   70013 bp Coordinate of oriT [Strand]   37889..37923 [-]
Host bacterium   Streptococcus suis sequence Coordinate of element   1..70013

Cargo genes

Drug resistance gene   erm(B), ant(6)-Ia, tet(O)
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIIA21