Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   200307
Name   oriT_ICE_SpyHKU_rumA in_silico
Organism   Streptococcus pyogenes HKU QMH11M0907901
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   AFRY01000001 (36476..36608 [+], 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_ICE_SpyHKU_rumA
ACTTAACCCCCCGTATCTAACAGGGGGGTACAAATCGACAGGAAACAGTCAAAAAAACATTAGAAAATCCTTTGGTTACAAGGGATTTACAAAATTTCAGCGTATGTCAAATGGGCTTTAAAAGTTGACATAC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   14347 GenBank   EIK41756
Name   Relaxase_SPYOHK_04090_ICE_SpyHKU_rumA insolico UniProt ID   _
Length   443 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 443 a.a.        Molecular weight: 52095.48 Da        Isoelectric Point: 9.7884

>EIK41756.1 conjugative transposon mobilization protein [Streptococcus pyogenes HKU QMH11M0907901]
MAITKIHPIKSTLNLAISYIVNGEKTDEQILVSTHKCHQETAHTQFLRTRNDAGTNGTVLARHLIQSFLP
GETSPEIAHQIGLELCKKILKDEYEFVLSTHIDKGHIHNHIIFNNVNMVTGKCYQSNKKSYHQIRYQSDK
LCKDNNLSVIDEFYESYKRKYKTNGKSWYENEQAKRGSSWKSKLQFDIDRLIKQSKDWEEFLKKMAELGY
EIKHGKHIAFKPKDKQKFTRAKTIGEDYTEERLRERITENQSIKAPPVKKRIGNVINMNTNAKVKESKGY
EYWATKHNLNTMAESVVFIREHGIKSVKQLDECIKKSAEERQNLQDKIKKIDKDMQLLSDTMEQVHTVKK
YRAYYKEYKANPSDKAFFEEHKSEITRYETDLAKLKKSYSKLPDSKDILDKLDKLQEKKNTLMQEYSSTK
STMDELYQIRKNYGIYMGKEMER

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(11-249)


  Protein structure



No available structure.



ID   14348 GenBank   EIK41766
Name   Rep_trans_SPYOHK_04140_ICE_SpyHKU_rumA insolico UniProt ID   _
Length   453 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 453 a.a.        Molecular weight: 53284.17 Da        Isoelectric Point: 8.5662

>EIK41766.1 Cro/CI family transcriptional regulator [Streptococcus pyogenes HKU QMH11M0907901]
MAYGLSQNRLAVATGITRQYLSDIETGKVKPSEDLQQSLWEALERFNPDAPLEMLFDYVRIRFPTTDVQH
VVENILQLKLSYFLHEDYGFYSYSEHYALGDIFVLCSHELDKGVLVELKGRGCRQFESYLLAQQRSWYEF
FMDALVAGGVMKRLDLAINDKTGILNIPVLTEKCRQEECISVFRSFKSYRSGELVRKEEKECMGNTLYIG
SLQSEVYFCIYEKDYEQYKKNDIPIEDAEVKNRFEIRLKNERAYYAVRDLLVYDNPEHTAFKIINRYIRF
VDKDDSKPRSDWKLNEEWAWFIGNNRERLKLTTKPEPYSFQRTLNWLSHQVAPTLKVAIKLDEINQTQVV
KDILDHAKLTDRHKQILKQQSVKEQDVITTKKGYLSTIPVDRYPKKDIMGDKTVRVRADLHHIIKIETAK
NGGNVKEVMEIRLRSKLKSVLIVHYLKILYNRN

  Protein domains


Predicted by InterproScan.

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

(54-142)

Replication initiation factor (Rep_trans)

(150-354)

Helix-turn-helix (HTH_3)

(3-34)

Omega Transcriptional Repressor (Omega_Repress)

(395-434)


  Protein structure



No available structure.




Auxiliary protein

ID   7873 GenBank   EIK41785
Name   EIK41785_ICE_SpyHKU_rumA 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

>EIK41785.1 Tn916 ORF2 integrase [Streptococcus pyogenes HKU QMH11M0907901]
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   16839 GenBank   EIK41739
Name   t4cp2_SPYOHK_04005_ICE_SpyHKU_rumA insolico UniProt ID   _
Length   594 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 594 a.a.        Molecular weight: 67889.37 Da        Isoelectric Point: 9.0726

>EIK41739.1 putative conjugal transfer protein [Streptococcus pyogenes HKU QMH11M0907901]
MIDKILKDIKGLFKVQDKSKFFKQNIPYLAFFYVGNIFSHHVRAYTGGDVIDKIFQGILELNTMSFIPSI
HPIDILMGVGVAVLIKFIVYTKGKNAKKFRQGKEYGSARWGTRKDIEPYVDEKFQNNILLTQTERLTMNG
RPANPKYARNKNVLVIGGSGSGKTRFYVKPNLMQMHSSYCVTDPKGTIVIECGKMLEDNGYEIKILNTIN
FKKSMKYNPFAYLRSEKDILKLVQTIIANTKGEGEKAGEDFWVKAEKLYYTALIGYIFYEAPREEKNFAT
LLDMIDASEVREDDETYMNPIDRLFEALEKKEPTHFAVKQYKKYKLAAGKTAKSILISCGARLAPFDIQE
LRDLMKEDELELDTLGDRKTALFVIISDTDDTFNFVVSIMYSQLFNLLCDKADDEYGGRLPVHVRCLLDE
FANIGLIPKFEKLIATIRSREISASIILQAQSQLKAIYKDNADTIVGNCDSTLFLGGKEKTTLKELSETL
GKETIDLYNTSETRSNANSYGLNYQKTGKELMSQDEITVMDGSKCIFQLRGVRPFLSDKFDITKHKNYKL
LEDFNKKNAFDIEEYIKRKGKAKLNRETVITRVQ

  Protein domains


Predicted by InterproScan.

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

(141-549)

  Protein structure



No available structure.



ID   16840 GenBank   EIK41765
Name   tcpA_SPYOHK_04135_ICE_SpyHKU_rumA 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

>EIK41765.1 Tn916 ORF21 FtsK/SpoIIIE family protein [Streptococcus pyogenes HKU QMH11M0907901]
MKQRGKRIRPSGKDLVFHFTIASLLPVFLLVVGLFHVKTIQQINWQDFNLSQADKIDIPYLIISFSVAIL
ICLLVAFVFKRVRYDTVKQLYHRQKLAKMILENKWYESEQVKTEGFFKDSAGRTKEKITYFPKMYYRLKN
GLIQIRVEITLGKYQDQLLHLEKKLESGLYCELTDKELKDSYVEYTLLYDTIASRISIDEVEAKDGKLRL
MKNVWWEYDKLPHMLIAGGTGGGKTYFILTLIEALLHTDSKLYILDPKNADLADLGSVMANVYYRKEDLL
SCIETFYEEMMKRSEEMKQMKNYKTGKNYAYLGLPAHFLIFDEYVAFMEMLGTKENTAVMNKLKQIVMLG
RQAGFFLILACQRPDAKYLGDGIRDQFNFRVALGRMSEMGYGMMFGSDVQKDFFLKRIKGRGYVDVGTSV
ISEFYTPLVPKGYDFLEEIKKLSNSRQSTQATCEAEVAGVD

  Protein domains


Predicted by InterproScan.

FtsK/SpoIIIE family (FtsK_SpoIIIE)

(217-301)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 815943..827945

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
SPYOHK_03975 812433..813791 + 1359 EIK41733 23S rRNA m(5)U1939 methyltransferase -
SPYOHK_03980 813791..813949 + 159 EIK41734 hypothetical protein -
SPYOHK_03985 813956..814237 + 282 EIK41735 membrane protein -
SPYOHK_03990 814328..815098 + 771 EIK41736 replication initiation protein -
SPYOHK_03995 815095..815946 + 852 EIK41737 hypothetical protein -
SPYOHK_04000 815943..816428 + 486 EIK41738 hypothetical protein cd411
SPYOHK_04005 816425..818209 + 1785 EIK41739 putative conjugal transfer protein virb4
SPYOHK_04010 818375..818686 + 312 EIK41740 single-stranded DNA binding protein cd424
SPYOHK_04015 818690..818905 + 216 EIK41741 conjugative transposon membrane protein prgF
SPYOHK_04020 818925..819788 + 864 EIK41742 conjugative transposon membrane protein prgHa
SPYOHK_04025 819806..820069 + 264 EIK41743 conjugative transposon membrane exported protein -
SPYOHK_04030 820073..820462 + 390 EIK41744 conjugative transposon membrane protein prgIa
SPYOHK_04035 820374..821459 + 1086 EIK41745 conjugal transfer protein virb4
SPYOHK_04040 822161..824035 + 1875 EIK41746 group II intron reverse transcriptase/maturase -
SPYOHK_04045 824054..825559 + 1506 EIK41747 conjugal transfer protein virb4
SPYOHK_04050 825564..827696 + 2133 EIK41748 membrane protein cd419b
SPYOHK_04055 827709..827945 + 237 EIK41749 hypothetical protein cd419
SPYOHK_04060 827923..830109 + 2187 EIK41750 cell surface protein -
SPYOHK_04065 830207..831913 + 1707 EIK41751 conjugative transposon DNA topoisomerase -
SPYOHK_04070 831997..832176 + 180 EIK41752 regulatory protein -

Region 2: 842509..874063

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
SPYOHK_04085 842509..843168 + 660 EIK41755 conjugative transposon protein cd424
SPYOHK_04090 843242..844573 - 1332 EIK41756 conjugative transposon mobilization protein -
SPYOHK_04095 844579..844929 - 351 EIK41757 hypothetical protein -
SPYOHK_04100 845269..845859 + 591 EIK41758 TetR family transcriptional regulator -
SPYOHK_04105 845871..846458 + 588 EIK41759 hypothetical protein -
SPYOHK_04110 846479..847180 + 702 EIK41760 hypothetical protein -
SPYOHK_04115 847173..847739 + 567 EIK41761 ABC cobalt transporter ATPase component -
SPYOHK_04120 847921..848040 + 120 EIK41762 hypothetical protein -
SPYOHK_04125 848063..848377 + 315 EIK41763 Tn916 ORF23 protein orf23
SPYOHK_04130 848393..848779 + 387 EIK41764 Tn916 ORF22 protein orf23
SPYOHK_04135 848808..850193 + 1386 EIK41765 Tn916 ORF21 FtsK/SpoIIIE family protein virb4
SPYOHK_04140 850428..851789 + 1362 EIK41766 Cro/CI family transcriptional regulator -
SPYOHK_04145 851838..851921 + 84 EIK41767 leader peptide -
SPYOHK_04150 852046..852783 + 738 EIK41768 erythromycin resistance protein -
SPYOHK_04155 852788..852919 + 132 EIK41769 hypothetical protein -
SPYOHK_04160 853040..854287 - 1248 EIK41770 transposase -
SPYOHK_04165 854467..854688 + 222 EIK41771 Tn916 ORF19 protein orf19
SPYOHK_04170 854805..855302 + 498 EIK41772 Tn916 ORF18 antirestriction (ArdA) protein -
SPYOHK_04175 855277..855783 + 507 EIK41773 Tn916 ORF17 signal peptide containing protein orf17a
SPYOHK_04180 855767..858214 + 2448 EIK41774 hypothetical protein virb4
SPYOHK_04185 858217..860394 + 2178 EIK41775 Tn916 ORF15 signal peptide containing protein orf15
SPYOHK_04190 860391..861392 + 1002 EIK41776 Tn916 ORF14 extracellular hydrolase/peptidase orf14
SPYOHK_04195 861389..862321 + 933 EIK41777 Tn916 ORF13 protein orf13
SPYOHK_04200 862566..862682 + 117 EIK41778 tetracycline resistance determinant leader peptide -
SPYOHK_04205 862698..864617 + 1920 EIK41779 Tn916 ORF11 tetracycline resistance protein -
SPYOHK_04210 864736..864903 + 168 EIK41780 hypothetical protein -
SPYOHK_04215 864963..865316 - 354 EIK41781 Tn916 ORF9 transcriptional regulator, putative -
SPYOHK_04220 865821..866243 + 423 EIK41782 Tn916 ORF7 DNA-binding protein -
SPYOHK_04225 866240..866470 + 231 EIK41783 hypothetical protein -
SPYOHK_04230 866931..867134 + 204 EIK41784 Tn916 ORF1 excisionase -
SPYOHK_04235 867216..868433 + 1218 EIK41785 Tn916 ORF2 integrase -
SPYOHK_04240 868621..869616 - 996 EIK41786 Integrase catalytic region -
SPYOHK_04245 869763..870557 + 795 EIK41787 ABC cobalt transporter ATPase component virb4
SPYOHK_04250 870591..872336 + 1746 EIK41788 multidrug ABC transporter -
SPYOHK_04255 872330..874063 + 1734 EIK41789 multidrug ABC transporter virb4
SPYOHK_04260 874099..875457 + 1359 EIK41790 Na+driven multidrug efflux pump -
SPYOHK_04265 875801..876211 + 411 EIK41791 hypothetical protein -
SPYOHK_04270 876668..876811 + 144 EIK41792 hypothetical protein -
SPYOHK_04275 876876..878675 + 1800 EIK41793 recombinase -
SPYOHK_04280 878709..878801 + 93 EIK41794 hypothetical protein -

Host bacterium

ID   275 Element type   ICE (Integrative and conjugative element)
Element name   ICE_SpyHKU_rumA GenBank   AFRY01000001
Element size   1908100 bp Coordinate of oriT [Strand]   36476..36608 [+]
Host bacterium   Streptococcus pyogenes HKU QMH11M0907901 Coordinate of element   813753..878646

Cargo genes

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