Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   200508
Name   oriT_ICESpn11930 in_silico
Organism   Streptococcus pneumoniae integrative and
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   FR671403 (55335..55467 [-], 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    		  TTTGGTTATA
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 133 nt

>oriT_ICESpn11930
ACTTAACCCCCCGTATCTAACAGGGGGGTACAAATCGACAGGAAACAGTCAAAAAAACATTAGAAAATCCTTTGGTTATAAGGGATTTACAAAATTTCAGCGTATGTCAAATGGGCTTTAAAAGTTGACATAC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   14561 GenBank   CBW38771
Name   Relaxase_-_ICESpn11930 insolico UniProt ID   _
Length   609 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 609 a.a.        Molecular weight: 73069.47 Da        Isoelectric Point: 9.0694

>CBW38771.1 Relaxase [Streptococcus pneumoniae]
MVITKHFAIHGKNYRSKLIKYILNPSKTKNLTLVSDFGMRNYLDFPSYKELVKMYNDNFLSNDTLYEFRH
DRQEVNQRKIHSHHIIQSFSPDDHLTPEQINRIGYEAAKELTGGRFRFIVATHVDKGHIHNHIILNSIDQ
NSDKKFLWDYKAEHNLRMVSDRLSKIAGAKIIENRYSHRQYEVYRKTNYKYEIKQRVYFLIENSKNFEDL
KKKAKALHLKIDFRHKHVTYFMTDSNMKQVVRDSKLSRKQPYNETYFEKKFVQREIINILEFLLPKMKNM
NELIQRAEVFGLKIIPKEKHVLFEFDGIKLAEQELVKTNLYSVSYFQDYFNNKNETFVLDNKNLVELYNE
EKIIKEKELPSEEMVWKSYQDFKRNRDAVHEFEVELNLNQIEEVVDDGIYIKVQFGIRQEGLIFVPNIQI
NMEEEKVKVFLRETSSYYVYHKDSVEKNRFMKGKTLIRQFNLQYEPQYMYRRIPLSKIKEKIEQLDFLIS
AENSSNDFEDITNDFIAQISYLENMIEQVQNKINDLTNLEEVLLKDTTNSSSNLENSIQGKSSVDTIEKD
LYIYKGKIETLKEQHREAINLFEMFNKTIKKYKEKQNMKSIKENEIHLE

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(12-264)


  Protein structure



No available structure.



ID   14562 GenBank   CBW38817
Name   orf20_-_ICESpn11930 insolico UniProt ID   _
Length   472 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 472 a.a.        Molecular weight: 55639.89 Da        Isoelectric Point: 8.3884

>CBW38817.1 putative conjugative transposon replication initiation factor [Streptococcus pneumoniae]
MEGFLLNEQTWLQHLKEKRLAYGLSQNRLAVATGITRQYLSDIETGKVKPSEDLQQSLWEALERFNPDAP
LEMLFDYVRIRFPTTDVQQVVENILQLKLSYFLHEDYGFYSYSEHYALGDIFVLCSHELDKGVLVELKGR
GCRQFESYLLAQQRSWYEFFMDVLVAGGVMKRLDLAINDKTGILNIPVLTEKCQQEECISVFRSFKSYRS
GELVRKEEKECMGNTLYIGSLQSEVYFCIYEKDYEQYKKNDIPIEDAEVKNRFEIRLKNERAYYAVRDLL
VYDNPEHTAFKIINRYIRFVDKDDSKPRSDWKLNEEWAWFIGNNRERLKLTTKPEPYSFQRTLNWLSHQV
APTLKVAIKLDEINQTQVVKDILDHAKLTDRHKQILKQQSVKEQDVITTKKGYLSTIPVDRYPKKDIMGD
KTVRVRADLHHIIKIETAKNGGNVKEVMEIRLRSKLKSVLIVHYLKILYNRN

  Protein domains


Predicted by InterproScan.

Replication initiation factor (Rep_trans)

(169-373)

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

(73-161)

Helix-turn-helix (HTH_3)

(15-53)

Omega Transcriptional Repressor (Omega_Repress)

(414-453)


  Protein structure



No available structure.




Auxiliary protein

ID   7932 GenBank   CBW38800
Name   CBW38800_ICESpn11930 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

>CBW38800.1 putative integrase [Streptococcus pneumoniae]
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   17178 GenBank   CBW38818
Name   orf21_-_ICESpn11930 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

>CBW38818.1 conjugative transposon FtsK/SpoIIIE-family protein [Streptococcus pneumoniae]
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   17179 GenBank   CBW38826
Name   traG_-_ICESpn11930 insolico UniProt ID   _
Length   625 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 625 a.a.        Molecular weight: 72333.61 Da        Isoelectric Point: 9.5689

>CBW38826.1 putative conjugal transfer protein TraG [Streptococcus pneumoniae]
MYSGKKFLLFSLLGILLGYLFHRLTLLYDSYTGNSLDKWTHLLMEGQDEVLQSPWNVSFTGKSSAFFLLG
FVMMLLVYLYLETGKKQYREGVEYGSARFGTLKEKKLFYGKEFSHDTILAQDVRLTLLDKKPPQYDRNKN
IAVIGGSGSGKTFRFVKPNLIQMNSSNIVVDPKDHLAEKTGKLFLENGYQVKVLDLVNMKNSDGFNPFRY
IETENDLNRMLTVYFNNTKGSGSRSDPFWDEASMTLVRALASYLVDFYNPPKTREQLIEESRLSQKEYQN
LLKRQKKEVEERKKRGRYPSFAEISKLIKHLSKGENQEKSVLEILFENYAKKYGTENFTMRNWADFQNYK
DKTLDSVIAVTTAKFALFNIQSVMDLTKRDTLDMKTWGQEKSMVYLVIPDNDSTFRFLSALFFSTVFQTL
TRQADIDFKGQLPLHVRVYLDEFANIGEIPDFAEQTSTVRSRNMSLVPILQNIAQLQGLYKEKEAWKTIL
GNCDSLVYLGGNDEDTFKFMSGLLGKQTIDVRNTSRSFGQTGSGSLSHQKIARDLMTPDEVGNMKRHECL
VRIANMPVFKSKKYNSTKHPNWKYLANQETDERWWNYQINPLNRSQENHLEGLRIRDLTFESSLK

  Protein domains


Predicted by InterproScan.

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

(131-574)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 43371..71028

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
Locus_37 39231..39968 - 738 CBW38806 - -
Locus_38 41075..43009 - 1935 CBW38807 Tetracycline resistance protein -
Locus_39 43371..44306 - 936 CBW38808 putative conjugative transposon exported protein orf13
Locus_40 44303..45304 - 1002 CBW38809 putative cell wall hydrolase orf14
Locus_41 45301..47412 - 2112 CBW38810 conjugative transposon membrane protein orf15
Locus_42 47481..49928 - 2448 CBW38811 conjugative transposon ATP/GTP-binding protein virb4
Locus_43 49912..50418 - 507 CBW38812 putative conjugative transposon membrane protein orf17a
Locus_44 50393..50890 - 498 CBW38813 conjugative transposon protein -
Locus_45 51007..51174 - 168 CBW38814 conjugative transposon protein orf19
Locus_46 51408..52655 + 1248 CBW38815 Transposase -
Locus_47 52912..53649 - 738 CBW38816 erm(b) methylase; subname: full=mls methylase; subname: full=rrna adenine n-6-methyltransferase; ec=2.1.1.48; subname: full=erm(b) methylase; subname: full=mls methylase; subname: full=rRNA adenine N-6-methyltransferase; ec=2.1.1.48 -
Locus_48 53906..55324 - 1419 CBW38817 putative conjugative transposon replication initiation factor -
Locus_49 55502..56887 - 1386 CBW38818 conjugative transposon FtsK/SpoIIIE-family protein virb4
Locus_50 56916..57302 - 387 CBW38819 conjugative transposon protein orf23
Locus_51 57318..57632 - 315 CBW38820 conjugative transposon protein orf23
Locus_52 58199..61012 - 2814 CBW38821 putative conjugal transfer protein prgK
Locus_53 61024..63339 - 2316 CBW38822 putative conjugal transfer protein virb4
Locus_54 63332..63691 - 360 CBW38823 putative uncharacterized protein prgIc
Locus_55 63745..64599 - 855 CBW38824 putative uncharacterized protein prgHb
Locus_56 64616..64858 - 243 CBW38825 putative uncharacterized protein prgF
Locus_57 64879..66756 - 1878 CBW38826 putative conjugal transfer protein TraG virb4
Locus_58 66756..67244 - 489 CBW38827 putative uncharacterized protein gbs1365
Locus_59 67234..67533 - 300 CBW38828 putative uncharacterized protein -
Locus_60 67816..68652 - 837 CBW38829 conserved hypothetical protein -
Locus_61 68652..69296 - 645 CBW38830 conserved hypothetical protein -
Locus_62 69370..69957 - 588 CBW38831 putative membrane protein -
Locus_63 69960..70193 - 234 CBW38832 putative uncharacterized protein -
Locus_64 70206..70586 - 381 CBW38833 putative uncharacterized protein -
Locus_65 70579..71028 - 450 CBW38834 putative uncharacterized protein gbs1369
Locus_66 71012..72370 - 1359 CBW38835 putative DNA methylase -
Locus_67 72469..73248 - 780 CBW38836 putative replication initiator protein -
Locus_68 73245..73418 - 174 CBW38837 putative uncharacterized protein -

Host bacterium

ID   452 Element type   ICE (Integrative and conjugative element)
Element name   ICESpn11930 GenBank   FR671403
Element size   73716 bp Coordinate of oriT [Strand]   55335..55467 [-]
Host bacterium   Streptococcus pneumoniae integrative and Coordinate of element   1..73716

Cargo genes

Drug resistance gene   cat(pC194), erm(B), tet(M)
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIIA21