Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   200046
Name   oriT_Tn6003 in_silico
Organism   Streptococcus pneumoniae
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   AM410044 (2441..2655 [+], 215 nt)
oriT length   215 nt
IRs (inverted repeats)      61..76, 80..95  (ACTTAACCCCCCGTAT..ACAGGGGGGTACAAAT)
  123..134, 139..150  (GAAAATCCTTTG..CAAGGGATTTAC)
Location of nic site      135..136
Conserved sequence flanking the
  nic site    		  TGG|T
Note   blastn alignment with the oriT_Tn916

  oriT sequence  


Download         Length: 215 nt

>oriT_Tn6003
AAGCGGAAGTCGCAGGTGTGGACTGATCTTGCTGGCTGGTGTGGCAATAGCCACGCCAGCACTTAACCCCCCGTATCTAACAGGGGGGTACAAATCGACAGGAAACAGTCAAAAAAACATTAGAAAATCCTTTGGTTACAAGGGATTTACAAAATTTCAGCGTATGTCAAATGGGCTTTAAAAGTTGACATACGCCTTTTTGATTGGAGGGATTT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   260 GenBank   CAL92505
Name   ORF20FTn6003 insolico UniProt ID   A4F5E2
Length   400 a.a. PDB ID   
Note   _

  Relaxase protein sequence


Download         Length: 400 a.a.        Molecular weight: 47332.50 Da        Isoelectric Point: 8.8912

>CAL92505.1 hypothetical protein [Streptococcus pneumoniae]
MLFDYVRIRFPTTDVQQVVENILQLKLSYFLHEDYGFYSYSEHYALGDIFVLCSHELDKGVLVELKGRGC
RQFESYLLAQQRSWYEFFMDVLVAGGVMKRLDLAINDKTGILNIPVLTEKCQQEECISVFRSFKSYRSGE
LVRKEEKECMGNTLYIGSLQSEVYFCIYEKDYEQYKKNDIPIEDAEVKNRFEIRLKNERAYYAVRDLLVY
DNPEHTAFKIINRYIRFVDKDDSKPRSDWKLNEEWAWFIGNNRERLKLTTKPEPYSFQRTLNWLSHQVAP
TLKVAIKLDEINQTQVVKDILDHAKLTDRHKQILKQQSVKEQDVITTKKGYLSTIPVDRYPKKDIMGDKT
VRVRADLHHIIKIETAKNGGNVKEVMEIRLRSKLKSVLIVQYLKILYNRN

  Protein domains


Predicted by InterproScan.

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

(2-89)

Replication initiation factor (Rep_trans)

(97-301)

Omega Transcriptional Repressor (Omega_Repress)

(342-381)


  Protein structure


Source ID Structure
AlphaFold DB A4F5E2


T4CP

ID   260 GenBank   CAP45529
Name   ORF21_Tn6003 insolico UniProt ID   A9J066
Length   461 a.a. PDB ID   _
Note   _

  T4CP protein sequence


Download         Length: 461 a.a.        Molecular weight: 53428.20 Da        Isoelectric Point: 8.7965

>CAP45529.1 hypothetical protein [Streptococcus pneumoniae]
MKQRGKRIRPSDKDLVFHFTIASLLPILLLVVGLFHVKTIQQVNWQDFNLSQADKIDIPYLSISFSVAIL
VCLLVAFLFKRYRYDTIKQLYHRQKLAKMVLENKWYESEQVKTDGFFKDSPSRTKEKITYFPKIYYRLKN
GLIQIQVEITLGKYQDQLLHLEKKLESGLYCELTDKELKDSYVEYTLLYDTIASRISIDEVEAKDGKLRL
MKNVWWEYDKLPHMLIAGGTGGGKTYFILTLIEALLHTDSKLYILDPKNADLADLGSVMANVYYRKEDLL
SCIETFYEEMMKRSEEMKQMKNYKTGKNYAYLGLPAHFLIFDEYVAFMEMLGTKENTAVMNKLKQIVMLG
RQAGFFLILACQRPDAKYLGDGIRDQFNFRVALGRMSEMGYGMMFGSDVQKDFFLKRIKGRGYVDVGTSV
ISEFYTPLVPKGYDFLEEIKKLSNSRQSTQATCEAEVAGVD

  Protein domains


Predicted by InterproScan.

FtsK/SpoIIIE family (FtsK_SpoIIIE)

(217-301)

  Protein structure


Source ID Structure
AlphaFold DB A9J066


T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 336..18819

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
Locus_0 194..283 + 90 CAP45526 truncated hypothetical protein -
Locus_1 336..650 + 315 CAP45527 hypothetical protein orf23
Locus_2 666..1052 + 387 CAP45528 hypothetical protein orf23
Locus_3 1081..2466 + 1386 CAP45529 hypothetical protein virb4
Locus_4 2860..4062 + 1203 CAL92505 hypothetical protein -
Locus_5 3895..4062 + 168 CAN99689 MLS leader peptide -
ORFM0 4111..4194 + 84 CAL69037 MLS leader peptide -
Locus_7 4319..5104 + 786 Protein_7 - -
Locus_8 5107..5445 + 339 CAP45531 adenyltransferase -
ORFM1 5454..5984 + 531 CAL69039 streptothricin acetyltransferase -
ORFM2 6077..6871 + 795 CAL69040 aminoglycoside phosphotransferase type III -
Locus_11 7147..7719 + 573 CAL69041 hypothetical protein -
Locus_12 8336..8419 + 84 CAL92506 MLS leader peptide -
ORFP2 8544..9281 + 738 CAL92507 MLS methylase -
Locus_14 9226..9417 + 192 CAL92508 hypothetical protein -
Locus_15 9538..10785 - 1248 CAL92509 putative transposase -
Locus_16 10965..11186 + 222 CAL92510 hypothetical protein orf19
Locus_17 11303..11800 + 498 CAP45532 hypothetical protein -
Locus_18 11775..12281 + 507 CAP45533 hypothetical protein orf17a
Locus_19 12265..14712 + 2448 CAP45534 hypothetical protein virb4
Locus_20 14715..16892 + 2178 CAP45535 hypothetical protein orf15
Locus_21 16889..17674 + 786 CAP45536 hypothetical protein orf14
Locus_22 17887..18819 + 933 CAP45537 hypothetical protein orf13
Locus_23 19094..19180 + 87 CAP45538 tet(M) leader peptide -
Locus_24 19181..21113 + 1933 Protein_24 - -
Locus_25 21211..21399 + 189 CAP45539 hypothetical protein -
Locus_26 21459..21812 - 354 CAP45540 hypothetical protein -
Locus_27 22017..22088 + 72 CAP45541 hypothetical protein -
Locus_28 22266..22739 + 474 CAP45542 hypothetical protein -
Locus_29 22736..22966 + 231 CAP45543 hypothetical protein -
Locus_30 23187..23441 - 255 CAP45544 hypothetical protein -
ORF1 23425..23628 + 204 CAP45545 excisionase -

Host bacterium

ID   51 Element type   Transposon
Element name   Tn6003 GenBank   AM410044
Element size   25101 bp Coordinate of oriT [Strand]   2441..2655 [+]
Host bacterium   Streptococcus pneumoniae

Cargo genes

Drug resistance gene   erm(B), aph(3')-III, tet(M)
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -