Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 200342 |
| Name | oriT_ICE_StpsHKU10-03_Tn916  |
| Organism | Staphylococcus pseudintermedius HKU10-03 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NC_014925 (15399..15531 [-], 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_StpsHKU10-03_Tn916
ACTTAACCCCCCGTATCTAACAGGGGGGTACAAATCGACAGGAAACAGTCAAAAAAACATTAGAAAATCCTTTGGTTACAAGGGATTTACAAAATTTCAGCGTATGTCAAATGGGCTTTAAAAGTTGACATAC
ACTTAACCCCCCGTATCTAACAGGGGGGTACAAATCGACAGGAAACAGTCAAAAAAACATTAGAAAATCCTTTGGTTACAAGGGATTTACAAAATTTCAGCGTATGTCAAATGGGCTTTAAAAGTTGACATAC
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 14366 | GenBank | WP_000398284 |
| Name | mobT_SPSINT_RS10790_ICE_StpsHKU10-03_Tn916 |
UniProt ID | A0A3P3PY43 |
| 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
>WP_000398284.1 MULTISPECIES: MobT family relaxase [Bacteria]
MEGFLLNEQTWLQHLKEKRLAYGLSQNRLAVATGITRQYLSDIETGKVKPSEDLQQSLWEALERFNPDAP
LEMLFDYVRIRFPTTDVQQVVENILQLKLSYFLHEDYGFYSYSEHYALGDIFVLCSHELDKGVLVELKGR
GCRQFESYLLAQQRSWYEFFMDVLVAGGVMKRLDLAINDKTGILNIPVLTEKCQQEECISVFRSFKSYRS
GELVRKEEKECMGNTLYIGSLQSEVYFCIYEKDYEQYKKNDIPIEDAEVKNRFEIRLKNERAYYAVRDLL
VYDNPEHTAFKIINRYIRFVDKDDSKPRSDWKLNEEWAWFIGNNRERLKLTTKPEPYSFQRTLNWLSHQV
APTLKVAIKLDEINQTQVVKDILDHAKLTDRHKQILKQQSVKEQDVITTKK
MEGFLLNEQTWLQHLKEKRLAYGLSQNRLAVATGITRQYLSDIETGKVKPSEDLQQSLWEALERFNPDAP
LEMLFDYVRIRFPTTDVQQVVENILQLKLSYFLHEDYGFYSYSEHYALGDIFVLCSHELDKGVLVELKGR
GCRQFESYLLAQQRSWYEFFMDVLVAGGVMKRLDLAINDKTGILNIPVLTEKCQQEECISVFRSFKSYRS
GELVRKEEKECMGNTLYIGSLQSEVYFCIYEKDYEQYKKNDIPIEDAEVKNRFEIRLKNERAYYAVRDLL
VYDNPEHTAFKIINRYIRFVDKDDSKPRSDWKLNEEWAWFIGNNRERLKLTTKPEPYSFQRTLNWLSHQV
APTLKVAIKLDEINQTQVVKDILDHAKLTDRHKQILKQQSVKEQDVITTKK
Protein domains
Predicted by InterproScan.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | A0A3P3PY43 |
Auxiliary protein
| ID | 7883 | GenBank | WP_015729619 |
| Name | WP_015729619_ICE_StpsHKU10-03_Tn916 |
UniProt ID | _ |
| Length | 405 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
Auxiliary protein sequence
Download Length: 405 a.a. Molecular weight: 46949.85 Da Isoelectric Point: 9.8430
>WP_015729619.1 tyrosine-type recombinase/integrase [Staphylococcus pseudintermedius]
MSEKRRDNKGRILKTGESQRKDGRYLYKYIDSFGEPQFVYSWKLVATDRVPAGKRDCISLREKIAELQKD
IHDGIDVVGKKMTLCQLYAKQNAQRPKVRKNTETGRKYLMDILKKDKLGVRSIDSIKPSDAKEWAIRMSE
NGYAYQTINNYKRSLKASFYIAIQDDCVRKNPFDFQLKAVLDDDTVPKTVLTEEQEEKLLAFAKADKTYS
KNYDEILILLKTGLRISGFGGLTLPDLDFENRLVNIDHQLLRDTEIGYYIETPKTKSGERQVPMVEEAYQ
AFKRVLANRKNDKRVEIDGYSDFLFLNRKNYPKVASDYNGMMKGLVKKYNKYNEDKLPHITPHSLRHTFC
TNYANAGMNPKALQYIMGHANIAMTLNYYAHATFDSAMAEMKRLNKEKQQERLVA
MSEKRRDNKGRILKTGESQRKDGRYLYKYIDSFGEPQFVYSWKLVATDRVPAGKRDCISLREKIAELQKD
IHDGIDVVGKKMTLCQLYAKQNAQRPKVRKNTETGRKYLMDILKKDKLGVRSIDSIKPSDAKEWAIRMSE
NGYAYQTINNYKRSLKASFYIAIQDDCVRKNPFDFQLKAVLDDDTVPKTVLTEEQEEKLLAFAKADKTYS
KNYDEILILLKTGLRISGFGGLTLPDLDFENRLVNIDHQLLRDTEIGYYIETPKTKSGERQVPMVEEAYQ
AFKRVLANRKNDKRVEIDGYSDFLFLNRKNYPKVASDYNGMMKGLVKKYNKYNEDKLPHITPHSLRHTFC
TNYANAGMNPKALQYIMGHANIAMTLNYYAHATFDSAMAEMKRLNKEKQQERLVA
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4CP
| ID | 16857 | GenBank | WP_000813488 |
| Name | tcpA_SPSINT_RS10800_ICE_StpsHKU10-03_Tn916 |
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
>WP_000813488.1 MULTISPECIES: FtsK/SpoIIIE domain-containing protein [Bacteria]
MKQRGKRIRPSGKDLVFHFTIASLLPVFLLVVGLFHVKTIQQINWQDFNLSQADKIDIPYLIISFSVAIL
ICLLVAFVFKRVRYDTVKQLYHRQKLAKMILENKWYESEQVKTEGFFKDSAGRTKEKITYFPKMYYRLKN
GLIQIRVEITLGKYQDQLLHLEKKLESGLYCELTDKELKDSYVEYTLLYDTIASRISIDEVEAKDGKLRL
MKNVWWEYDKLPHMLIAGGTGGGKTYFILTLIEALLHTDSKLYILDPKNADLADLGSVMANVYYRKEDLL
SCIETFYEEMMKRSEEMKQMKNYKTGKNYAYLGLPAHFLIFDEYVAFMEMLGTKENTAVMNKLKQIVMLG
RQAGFFLILACQRPDAKYLGDGIRDQFNFRVALGRMSEMGYGMMFGSDVQKDFFLKRIKGRGYVDVGTSV
ISEFYTPLVPKGYDFLEEIKKLSNSRQSTQATCEAEVAGVD
MKQRGKRIRPSGKDLVFHFTIASLLPVFLLVVGLFHVKTIQQINWQDFNLSQADKIDIPYLIISFSVAIL
ICLLVAFVFKRVRYDTVKQLYHRQKLAKMILENKWYESEQVKTEGFFKDSAGRTKEKITYFPKMYYRLKN
GLIQIRVEITLGKYQDQLLHLEKKLESGLYCELTDKELKDSYVEYTLLYDTIASRISIDEVEAKDGKLRL
MKNVWWEYDKLPHMLIAGGTGGGKTYFILTLIEALLHTDSKLYILDPKNADLADLGSVMANVYYRKEDLL
SCIETFYEEMMKRSEEMKQMKNYKTGKNYAYLGLPAHFLIFDEYVAFMEMLGTKENTAVMNKLKQIVMLG
RQAGFFLILACQRPDAKYLGDGIRDQFNFRVALGRMSEMGYGMMFGSDVQKDFFLKRIKGRGYVDVGTSV
ISEFYTPLVPKGYDFLEEIKKLSNSRQSTQATCEAEVAGVD
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 2201927..2213337
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| SPSINT_RS10730 (SPSINT_2109) | 2197115..2197318 | - | 204 | WP_000814511 | excisionase | - |
| SPSINT_RS13250 | 2197302..2197553 | + | 252 | WP_001845478 | hypothetical protein | - |
| SPSINT_RS10735 | 2197779..2198009 | - | 231 | WP_000857133 | helix-turn-helix domain-containing protein | - |
| SPSINT_RS10740 (SPSINT_2110) | 2198006..2198428 | - | 423 | WP_000804885 | sigma-70 family RNA polymerase sigma factor | - |
| SPSINT_RS10745 (SPSINT_2111) | 2198932..2199285 | + | 354 | WP_001227347 | helix-turn-helix transcriptional regulator | - |
| SPSINT_RS12665 | 2199345..2199512 | - | 168 | WP_000336323 | cysteine-rich KTR domain-containing protein | - |
| SPSINT_RS10750 (SPSINT_2112) | 2199631..2201550 | - | 1920 | WP_000691727 | tetracycline resistance ribosomal protection protein Tet(M) | - |
| SPSINT_RS12670 | 2201566..2201682 | - | 117 | WP_001791010 | tetracycline resistance determinant leader peptide | - |
| SPSINT_RS10755 (SPSINT_2113) | 2201927..2202859 | - | 933 | WP_001224319 | conjugal transfer protein | orf13 |
| SPSINT_RS10760 (SPSINT_2114) | 2202856..2203857 | - | 1002 | WP_000769868 | bifunctional lysozyme/C40 family peptidase | orf14 |
| SPSINT_RS10765 (SPSINT_2115) | 2203854..2206031 | - | 2178 | WP_000804748 | membrane protein | orf15 |
| SPSINT_RS10770 (SPSINT_2116) | 2206034..2208481 | - | 2448 | WP_000331160 | ATP-binding protein | virb4 |
| SPSINT_RS10775 (SPSINT_2117) | 2208465..2208857 | - | 393 | WP_000723888 | conjugal transfer protein | orf17a |
| SPSINT_RS10780 (SPSINT_2118) | 2208946..2209443 | - | 498 | WP_000342539 | antirestriction protein ArdA | - |
| SPSINT_RS10785 (SPSINT_2119) | 2209560..2209781 | - | 222 | WP_001009056 | hypothetical protein | orf19 |
| SPSINT_RS10790 (SPSINT_2120) | 2209824..2211029 | - | 1206 | WP_000398284 | MobT family relaxase | - |
| SPSINT_RS10795 | 2211052..2211204 | - | 153 | WP_000879507 | hypothetical protein | - |
| SPSINT_RS10800 (SPSINT_2121) | 2211207..2212592 | - | 1386 | WP_000813488 | FtsK/SpoIIIE domain-containing protein | virb4 |
| SPSINT_RS10805 (SPSINT_2122) | 2212621..2213007 | - | 387 | WP_000985015 | YdcP family protein | orf23 |
| SPSINT_RS10810 | 2213023..2213337 | - | 315 | WP_000420682 | YdcP family protein | orf23 |
| SPSINT_RS10815 (SPSINT_2124) | 2213663..2213908 | + | 246 | WP_015729620 | TipAS antibiotic-recognition domain-containing protein | - |
| SPSINT_RS10820 (SPSINT_2125) | 2214880..2216657 | - | 1778 | Protein_2127 | ABC transporter ATP-binding protein | - |
Host bacterium
| ID | 300 | Element type | ICE (Integrative and conjugative element) |
| Element name | ICE_StpsHKU10-03_Tn916 | GenBank | NC_014925 |
| Element size | 2617381 bp | Coordinate of oriT [Strand] | 15399..15531 [-] |
| Host bacterium | Staphylococcus pseudintermedius HKU10-03 | Coordinate of element | 2195642..2213672 |
Cargo genes
| Drug resistance gene | tet(M) |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |