Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 200024 |
| Name | oriT_ICESpnMalM6  |
| Organism | Streptococcus pneumoniae Tn916-type integrative and |
| Sequence Completeness | intact |
| NCBI accession of oriT (coordinates [strand]) | FR671413 (2106..2320 [+], 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_ICESpnMalM6
AAGCGGAAGTCGCAGGTGTGGACTGATCTTGCTGGCTGGTGTGGCAATAGCCACGCCAGCACTTAACCCCCCGTATCTAACAGGGGGGTACAAATCGACAGGAAACAGTCAAAAAAACATTAGAAAATCCTTTGGTTACAAGGGATTTACAAAATTTCAGCGTATGTCAAATGGGCTTTAAAAGTTGACATACGCCTTTTTGATTGGAGGGATTT
AAGCGGAAGTCGCAGGTGTGGACTGATCTTGCTGGCTGGTGTGGCAATAGCCACGCCAGCACTTAACCCCCCGTATCTAACAGGGGGGTACAAATCGACAGGAAACAGTCAAAAAAACATTAGAAAATCCTTTGGTTACAAGGGATTTACAAAATTTCAGCGTATGTCAAATGGGCTTTAAAAGTTGACATACGCCTTTTTGATTGGAGGGATTT
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 238 | GenBank | CBW39321 |
| Name | Orf20_ICESpnMalM6 |
UniProt ID | D3U1A0 |
| Length | 401 a.a. | PDB ID | |
| Note | _ | ||
Relaxase protein sequence
Download Length: 401 a.a. Molecular weight: 47398.10 Da Isoelectric Point: 6.5091
>CBW39321.1 putative conjugative transposon replication initiation factor [Streptococcus pneumoniae]
MEGFLLNEQTWLQHLKEKRLAYGLSQNRLAVATGITRQYLSDIETGKVKPSEDLQQSLWEALERFNPDAP
LEMLFDYVRIRFPTTDVQQVVENILQLKLSYFLHEDYGFYSYSEHYALGDIFVLCSHELDKGVLVELKGR
GCRQFESYLLAQQRSWYEFFMDVLVAGGVMKRLDLAINDKTGILNIPVLTEKCQQEECISVFRSFKSYRS
GELVRKEEKECMGNTLYIGSLQSEVYFCIYEKDYEQYKKNDIPIEDAEVKNRFEIRLKNERAYYAVRDLL
VYDNPEHTAFKIINRYIRFVDKDDSKPRSDWKLNEEWAWFIGNNRERLKLTTKPEPYSFQRTLNWLSHQV
APTLKVAIKLDEINQTQVVKDILDHAKLTDRHKQILKQQSVKEQDVITTKK
MEGFLLNEQTWLQHLKEKRLAYGLSQNRLAVATGITRQYLSDIETGKVKPSEDLQQSLWEALERFNPDAP
LEMLFDYVRIRFPTTDVQQVVENILQLKLSYFLHEDYGFYSYSEHYALGDIFVLCSHELDKGVLVELKGR
GCRQFESYLLAQQRSWYEFFMDVLVAGGVMKRLDLAINDKTGILNIPVLTEKCQQEECISVFRSFKSYRS
GELVRKEEKECMGNTLYIGSLQSEVYFCIYEKDYEQYKKNDIPIEDAEVKNRFEIRLKNERAYYAVRDLL
VYDNPEHTAFKIINRYIRFVDKDDSKPRSDWKLNEEWAWFIGNNRERLKLTTKPEPYSFQRTLNWLSHQV
APTLKVAIKLDEINQTQVVKDILDHAKLTDRHKQILKQQSVKEQDVITTKK
Protein domains
Predicted by InterproScan.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | D3U1A0 |
T4CP
| ID | 238 | GenBank | CBW39320 |
| Name | ORF21_ICESpnMalM6 |
UniProt ID | B7UTY5 |
| Length | 461 a.a. | PDB ID | _ |
| Note | conjugative transposon FtsK/SpoIIIE-family protein | ||
T4CP protein sequence
Download Length: 461 a.a. Molecular weight: 53370.27 Da Isoelectric Point: 9.0687
>CBW39320.1 conjugative transposon FtsK/SpoIIIE-family protein [Streptococcus pneumoniae]
MKQRGKRIRPSGKDLVFHFTIASLLPVFLLVVGLFHVKTIQQINWQDFNLSQADKIDIPYLIISFSVAIL
ICLLVAFVFKRVRYDTVKQLYHRQKLAKMILENKWYESEQVKTEGFFKDSAGRTKEKITYFPKMYYRLKN
GLIQIRVEITLGKYQDQLLHLEKKLESGLYCELTDKELKDSYVEYTLLYDTIASRISIDEVEAKDGKLRL
MKNVWWEYDKLPHMLIAGGTGGGKTYFILTLIEALLHTDSKLYILDPKNADLADLGSVMANVYYRKEDLL
SCIETFYEEMMKRSEEMKQMKNYKTGKNYAYLGLPAHFLIFDEYVAFMEMLGTKENTAVMNKLKQIVMLG
RQAGFFLILACQRPDAKYLGDGIRDQFNFRVALGRMSEMGYGMMFGSDVQKDFFLKRIKGRGYVDVGTSV
ISEFYTPLVPKGYDFLEEIKKLSNSRQSTQATCEAEVAGVD
MKQRGKRIRPSGKDLVFHFTIASLLPVFLLVVGLFHVKTIQQINWQDFNLSQADKIDIPYLIISFSVAIL
ICLLVAFVFKRVRYDTVKQLYHRQKLAKMILENKWYESEQVKTEGFFKDSAGRTKEKITYFPKMYYRLKN
GLIQIRVEITLGKYQDQLLHLEKKLESGLYCELTDKELKDSYVEYTLLYDTIASRISIDEVEAKDGKLRL
MKNVWWEYDKLPHMLIAGGTGGGKTYFILTLIEALLHTDSKLYILDPKNADLADLGSVMANVYYRKEDLL
SCIETFYEEMMKRSEEMKQMKNYKTGKNYAYLGLPAHFLIFDEYVAFMEMLGTKENTAVMNKLKQIVMLG
RQAGFFLILACQRPDAKYLGDGIRDQFNFRVALGRMSEMGYGMMFGSDVQKDFFLKRIKGRGYVDVGTSV
ISEFYTPLVPKGYDFLEEIKKLSNSRQSTQATCEAEVAGVD
Protein domains
Predicted by InterproScan.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | B7UTY5 |
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 1..11411
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| Locus_0 | 1..315 | + | 315 | CBW39318 | conjugative transposon protein | orf23 |
| Locus_1 | 334..717 | + | 384 | CBW39319 | conjugative transposon protein | orf23 |
| Locus_2 | 746..2131 | + | 1386 | CBW39320 | conjugative transposon FtsK/SpoIIIE-family protein | virb4 |
| Locus_3 | 2309..3514 | + | 1206 | CBW39321 | putative conjugative transposon replication initiation factor | - |
| Locus_4 | 3557..3778 | + | 222 | CBW39322 | conjugative transposon protein | orf19 |
| Locus_5 | 3895..4392 | + | 498 | CBW39323 | conjugative transposon protein | - |
| Locus_6 | 4643..4873 | + | 231 | CBW39324 | putative conjugative transposon membrane protein | orf17a |
| Locus_7 | 4857..7304 | + | 2448 | CBW39325 | conjugative transposon ATP/GTP-binding protein | virb4 |
| Locus_8 | 7307..9484 | + | 2178 | CBW39326 | conjugative transposon membrane protein | orf15 |
| Locus_9 | 9481..10482 | + | 1002 | CBW39327 | putative cell wall hydrolase | orf14 |
| Locus_10 | 10497..11411 | + | 915 | CBW39328 | putative conjugative transposon exported protein | orf13 |
| Locus_11 | 11788..13707 | + | 1920 | CBW39329 | conjugative transposon tetracycline resistance protein | - |
| Locus_12 | 13919..14316 | + | 398 | CBW39330 | UmuC/MucB-like protein | - |
| Locus_13 | 14313..14648 | + | 336 | CBW39331 | ImsC-like protein | - |
| Locus_14 | 14730..15029 | + | 300 | CBW39332 | YolD domain protein | - |
Host bacterium
| ID | 29 | Element type | Transposon |
| Element name | ICESpnMalM6 | GenBank | FR671413 |
| Element size | 23032 bp | Coordinate of oriT [Strand] | 2106..2320 [+] |
| Host bacterium | Streptococcus pneumoniae Tn916-type integrative and |
Cargo genes
| Drug resistance gene | tet(M), msr(D), mef(A) |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |