Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   200456
Name   oriT_ICESsu(SC84) in_silico
Organism   Streptococcus suis SC84
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   FM252031 (30632..30764 [-], 133 nt)
oriT length   133 nt
IRs (inverted repeats)      65..70, 83..88  (AAATCC..GGATTT)
 6..12, 23..29  (ACCCCCC..GGGGGGT)
Location of nic site      75..76
Conserved sequence flanking the
  nic site    		  TTTGGTTACA
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 133 nt

>oriT_ICESsu(SC84)
ACTTAACCCCCCGTATCTAACAGGGGGGTACAAATCGACAGGAAACAGTCAAAAAAACATTAGAAAATCCTTTGGTTACAAGGGATTTACAAAATTTCAGCGTATGTCAAATGGGCTTTAAAAGTTGACATAC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   14461 GenBank   CAZ51597
Name   Relaxase_SSUSC84_0819_ICESsu(SC84) insolico UniProt ID   _
Length   621 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 621 a.a.        Molecular weight: 73794.64 Da        Isoelectric Point: 7.0198

>CAZ51597.1 relaxase [Streptococcus suis SC84]
MVITKHYATHSRKYRKNLIRYILNPEKTAQLKLVSDFGMSNYLDFPSYEEMVKMYQANFLNNDGLYDSRN
DRQEKRQQKIHAHHLIQSFSPDDKLTPEEINRIGYETVKELTGGNFRFIVATHIDQSHIHNHILINSVDL
QSDKKLKWNYALERNLRMISDRISKEAGAKIITNRYSHQQYDVYRKTNHKFELKQRLYFLMEQSKDFEDF
LKKAEQLHLTIDFSSKHTTFLMTDRDQVKPIRGRQLNRREPYDESYFRQAFAKGAIEQRLHFLLPRVKTL
QELLEMAEELGLFIQLKQKNVTFTLTENDQKISLGHQQVSKKKLYDVSFFQDYFSERSDTDIELSDNIKE
DFEIFLAEQTEKLSTVESIVSDYETFSENRKAVHEFEVELAPHQVDKEVEGGIFIKVAFGVKKEGLIFIP
NYQLDEIEKEEEKRFKIFLREITSYFIYNKEGSDKNRYMKGRDLIRQLTQDNKSLPYRRRPNLKELQEKI
AEVNLLIELNVTNRAYTDIKDELVAEIATYDVSMSELNEKNATLNKMAEVLVNLKSHDIERRRLARYEFS
KLNLTESVTLEQIEREISNTQDQLSKLLDNYEESVRKLETFVAVLNRTAPRTRKDYDKELY

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(13-261)

Lantibiotic streptin immunity protein (Relaxase_C)

(517-608)


  Protein structure



No available structure.



ID   14462 GenBank   CAZ51614
Name   Rep_trans_SSUSC84_0835_ICESsu(SC84) insolico UniProt ID   _
Length   401 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 401 a.a.        Molecular weight: 47398.10 Da        Isoelectric Point: 6.5091

>CAZ51614.1 replication initiation factor [Streptococcus suis SC84]
MEGFLLNEQTWLQHLKEKRLAYGLSQNRLAVATGITRQYLSDIETGKVKPSEDLQQSLWEALERFNPDAP
LEMLFDYVRIRFPTTDVQQVVENILQLKLSYFLHEDYGFYSYSEHYALGDIFVLCSHELDKGVLVELKGR
GCRQFESYLLAQQRSWYEFFMDVLVAGGVMKRLDLAINDKTGILNIPVLTEKCQQEECISVFRSFKSYRS
GELVRKEEKECMGNTLYIGSLQSEVYFCIYEKDYEQYKKNDIPIEDAEVKNRFEIRLKNERAYYAVRDLL
VYDNPEHTAFKIINRYIRFVDKDDSKPRSDWKLNEEWAWFIGNNRERLKLTTKPEPYSFQRTLNWLSHQV
APTLKVAIKLDEINQTQVVKDILDHAKLTDRHKQILKQQSVKEQDVITTKK

  Protein domains


Predicted by InterproScan.

Helix-turn-helix (HTH_3)

(15-53)

Replication initiation factor (Rep_trans)

(169-373)

Rolling Circle replication initiation protein N-terminal domain (Rol_Rep_N)

(73-161)


  Protein structure



No available structure.




Auxiliary protein

ID   7892 GenBank   CAZ51601
Name   CAZ51601_ICESsu(SC84) insolico UniProt ID   _
Length   405 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 405 a.a.        Molecular weight: 47021.92 Da        Isoelectric Point: 9.7978

>CAZ51601.1 integrase [Streptococcus suis SC84]
MSEKRRDNKGRILKTGESQRKDGRYLYKYIDSFGEPQFVYSWKLVATDRVPAGKRDCISLREKIAELQKD
IHDGIDVVGKKMTLCQLYAKQNAQRPKVRKNTETGRKYLMDILKKDKLGVRSIDSIKPSDAKEWAIRMSE
NGYAYQTINNYKRSLKASFYIAIQDDCVRKNPFDFQLKAVLDDDTVPKTVLTEEQEEKLLAFAKADKTYS
KNYDEILILLKTGLRISEFGGLTLPDLDFENRLVNIDHQLLRDTEIGYYIETPKTKSGERQVPMVEEAYQ
AFKRVLANRKNDKRVEIDGYSDFLFLNRKNYPKVASDYNGMMKGLVKKYNKYNEDKLPHITPHSLRHTFC
TNYANAGMNPKALQYIMGHANIAMTLNYYAHATFDSAMAEMKRLNKEKQQERLVA

  Protein domains


Predicted by InterproScan.

Phage integrase family (Phage_integrase)

(190-383)

DNA binding domain of tn916 integrase (Integrase_DNA)

(1-71)


  Protein structure



No available structure.




T4CP

ID   17068 GenBank   CAZ51615
Name   tcpA_SSUSC84_0836_ICESsu(SC84) insolico UniProt ID   _
Length   461 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 461 a.a.        Molecular weight: 53370.27 Da        Isoelectric Point: 9.0687

>CAZ51615.1 FtsK/SpoIIIE family protein [Streptococcus suis SC84]
MKQRGKRIRPSGKDLVFHFTIASLLPVFLLVVGLFHVKTIQQINWQDFNLSQADKIDIPYLIISFSVAIL
ICLLVAFVFKRVRYDTVKQLYHRQKLAKMILENKWYESEQVKTEGFFKDSAGRTKEKITYFPKMYYRLKN
GLIQIRVEITLGKYQDQLLHLEKKLESGLYCELTDKELKDSYVEYTLLYDTIASRISIDEVEAKDGKLRL
MKNVWWEYDKLPHMLIAGGTGGGKTYFILTLIEALLHTDSKLYILDPKNADLADLGSVMANVYYRKEDLL
SCIETFYEEMMKRSEEMKQMKNYKTGKNYAYLGLPAHFLIFDEYVAFMEMLGTKENTAVMNKLKQIVMLG
RQAGFFLILACQRPDAKYLGDGIRDQFNFRVALGRMSEMGYGMMFGSDVQKDFFLKRIKGRGYVDVGTSV
ISEFYTPLVPKGYDFLEEIKKLSNSRQSTQATCEAEVAGVD

  Protein domains


Predicted by InterproScan.

FtsK/SpoIIIE family (FtsK_SpoIIIE)

(217-301)

  Protein structure



No available structure.



ID   17069 GenBank   CAZ51658
Name   t4cp2_SSUSC84_0881_ICESsu(SC84) insolico UniProt ID   _
Length   605 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 605 a.a.        Molecular weight: 69397.18 Da        Isoelectric Point: 9.2929

>CAZ51658.1 putative conjugal transfer protein TraG [Streptococcus suis SC84]
MYSRRKAFVFGLLGLAFGYFCHRLTLLYDSLTNAPPMERFAYLLGEGLNQVFNPLWLFAFTQKSLLAFIL
GVLTMTLVYLYVSTGQKVYREGEEYGSARFGTSKEKRNFYSKNPFNDTILARDVRLTLLEKKKPLFDRNK
NLIVIGGSGAGKTFRFVKPNLIQLNCSNIVVDPKDHLAEKTGKLFLENGYQVKVLDLVNMTNSDGFNPFR
YVETENDLNRMLTVYFNNTRGSGSRSDPFWDEASMTLVRAIASYLVDFYNPPGSSKQEQEARRKRGRYPA
FSEIGKLIKLLSKGDNQDKSVLEVLFEDYAKKYGHENFTMRNWADFQNYKDKTLDSVIAVTTAKFALFNI
QSVIDLTQRDTMDLKTWGTQKTMVYLVIPDNDTTFRFLSALFFSTVFSTLTRQADVDFKGQLPIHVRSYL
DEFANVGEIPDFAEQTSTVRSRNMSLVPILQNIAQLQGLYKEKEAWKTILGNCDSLLYLGGNDEETFKFM
SGLLGKQTIDVRSTSRSFGQTGSSSTSHQKIARDLMTADEVGNMKRDECLVRIAGVPVFRTKKYFPLKHK
NWKWLADKETDERWWHYHINPLTAEEEVDLSGHKIRDLSTETTLH

  Protein domains


Predicted by InterproScan.

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

(135-555)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 894280..914416

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
SSUSC84_0824 889468..889671 - 204 CAZ51602 excisionase -
SSUSC84_0824a 890132..890362 - 231 CAZ51603 hypothetical protein -
SSUSC84_0825 890359..890781 - 423 CAZ51604 putative DNA-binding protein -
SSUSC84_0826 891285..891638 + 354 CAZ51605 putative DNA-binding protein -
SSUSC84_0827 891984..893903 - 1920 CAZ51606 tetracycline resistance protein TetM -
SSUSC84_0828 894280..895212 - 933 CAZ51607 putative membrane protein orf13
SSUSC84_0829 895209..896210 - 1002 CAZ51608 putative exported protein orf14
SSUSC84_0830 896207..898384 - 2178 CAZ51609 putative membrane protein orf15
SSUSC84_0831 898387..900834 - 2448 CAZ51610 hypothetical protein virb4
SSUSC84_0832 900818..901324 - 507 CAZ51611 putative membrane protein orf17a
SSUSC84_0833 901299..901796 - 498 CAZ51612 antirestriction protein -
SSUSC84_0834 901913..902134 - 222 CAZ51613 putative membrane protein orf19
SSUSC84_0835 902177..903382 - 1206 CAZ51614 replication initiation factor -
SSUSC84_0836 903560..904945 - 1386 CAZ51615 FtsK/SpoIIIE family protein virb4
SSUSC84_0837 904974..905357 - 384 CAZ51616 hypothetical protein orf23
SSUSC84_0838 905376..905690 - 315 CAZ51617 hypothetical protein orf23
SSUSC84_0839 906446..908263 - 1818 CAZ51618 DNA helicase -
SSUSC84_0840 908250..910337 - 2088 CAZ51619 hypothetical protein -
SSUSC84_0841 910334..911110 - 777 CAZ51620 zeta-toxin -
SSUSC84_0842 911110..911586 - 477 CAZ51621 antidote epsilon protein -
SSUSC84_0843 911656..912009 - 354 CAZ51622 hypothetical protein -
SSUSC84_0844 911996..912385 - 390 CAZ51623 hypothetical protein gbs1346
SSUSC84_0845 912382..912609 - 228 CAZ51624 hypothetical protein gbs1347
SSUSC84_0846 912663..913739 - 1077 CAZ51625 DNA primase -
SSUSC84_0847 913778..914416 - 639 CAZ51626 putative exported protein prgL
SSUSC84_0848 914923..915186 + 264 Protein_849 transposase (fragment) -
SSUSC84_0849 915817..916416 - 600 CAZ51628 response regulator protein -
SSUSC84_0850 916394..917902 - 1509 CAZ51629 sensor histidine kinase -
SSUSC84_0852 917906..918595 - 690 CAZ51630 putative membrane protein -
SSUSC84_0853 918605..919324 - 720 CAZ51631 putative membrane protein -

Region 2: 933350..958886

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
SSUSC84_0864 929092..929619 + 528 CAZ51642 putative adenine phosphoribosyltransferase -
SSUSC84_0865 929847..931166 + 1320 CAZ51643 putative transposase -
SSUSC84_0866 932836..933009 - 174 CAZ51644 lantibiotic precursor -
SSUSC84_0868 933350..933646 - 297 CAZ51645 putative membrane protein gbs1350
SSUSC84_0869 933660..933959 - 300 CAZ51646 hypothetical protein -
SSUSC84_0870 934030..940854 - 6825 CAZ51647 hypothetical protein -
SSUSC84_0871 940904..941455 - 552 CAZ51648 hypothetical protein gbs1354
SSUSC84_0872 941439..941630 - 192 CAZ51649 hypothetical protein -
SSUSC84_0873 941631..946526 - 4896 CAZ51650 putative glucan-binding surface-anchored protein prgB
SSUSC84_0874 946698..947288 + 591 CAZ51651 hypothetical protein -
SSUSC84_0875 947285..948130 + 846 CAZ51652 hypothetical protein -
SSUSC84_0876 948193..950994 - 2802 CAZ51653 hypothetical protein prgK
SSUSC84_0877 950996..953326 - 2331 CAZ51654 hypothetical protein virb4
SSUSC84_0878 953304..953657 - 354 CAZ51655 putative membrane protein prgIc
SSUSC84_0879 953719..954573 - 855 CAZ51656 putative TrbL/VirB6 plasmid conjugal transfer protein prgHb
SSUSC84_0880 954592..954834 - 243 CAZ51657 putative membrane protein prgF
SSUSC84_0881 954852..956669 - 1818 CAZ51658 putative conjugal transfer protein TraG virb4
SSUSC84_0882 956669..957157 - 489 CAZ51659 hypothetical protein gbs1365
SSUSC84_0883 957235..957819 - 585 CAZ51660 CAAX amino terminal protease family protein -
SSUSC84_0884 957822..958055 - 234 CAZ51661 hypothetical protein -
SSUSC84_0885 958064..958447 - 384 CAZ51662 hypothetical protein -
SSUSC84_0886 958458..958886 - 429 CAZ51663 hypothetical protein gbs1369
SSUSC84_0887 958870..960225 - 1356 CAZ51664 C-5 cytosine-specific DNA methylase -
SSUSC84_0889 960374..961192 - 819 CAZ51665 replication initiator protein A protein -
SSUSC84_0890 961189..961362 - 174 CAZ51666 hypothetical protein -
SSUSC84_0891 961561..961926 - 366 CAZ51667 50S ribosomal protein L7/L12 -
SSUSC84_0892 961992..962486 - 495 CAZ51668 50S ribosomal protein L10 -

Host bacterium

ID   403 Element type   ICE (Integrative and conjugative element)
Element name   ICESsu(SC84) GenBank   FM252031
Element size   2095898 bp Coordinate of oriT [Strand]   30632..30764 [-]
Host bacterium   Streptococcus suis SC84 Coordinate of element   872762..961926

Cargo genes

Drug resistance gene   tet(M), ant(6)-Ia
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIIA21, AcrIIA8