Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 106319 |
| Name | oriT_XtKm15|unnamed2  |
| Organism | Xanthomonas translucens pv. undulosa strain XtKm15 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP063999 (16141..16238 [-], 98 nt) |
| oriT length | 98 nt |
| IRs (inverted repeats) | 24..30, 36..42 (TAACCGG..CCGGTTA) |
| Location of nic site | 61..62 |
| Conserved sequence flanking the nic site |
TCCTGCCCGC |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 98 nt
>oriT_XtKm15|unnamed2
GAATAAGGGACAGCGAAGATAGATAACCGGCTCGCCCGGTTAGCTAACTTCGCACATCCTGCCCGCCTTACGGCGTTGATAACACCAAGGAAAGTCTA
GAATAAGGGACAGCGAAGATAGATAACCGGCTCGCCCGGTTAGCTAACTTCGCACATCCTGCCCGCCTTACGGCGTTGATAACACCAAGGAAAGTCTA
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 4226 | GenBank | WP_206730328 |
| Name | Relaxase_ISN36_RS19910_XtKm15|unnamed2 |
UniProt ID | _ |
| Length | 752 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 752 a.a. Molecular weight: 82931.68 Da Isoelectric Point: 10.7285
>WP_206730328.1 TraI/MobA(P) family conjugative relaxase [Xanthomonas translucens]
MIAKHVPMRSLGKSDFAGLVNYVTDAQSKDHRLGQVQITNCDAVSVQDAITEVLATQHTNTRAKGDKTYH
LIVSFRAGEQPSADTLRAIEERICAGLGYGEHQRVSAVHNDTDNLHIHIAINKIHPTRNTMHEPYYSHRA
LAELCTTLERDYGLERDNHEPRQRGAEGRAADMERHAGVESLVGWIKRECLDEIKGAQSWQELHQVMRAN
GLELRERANGLVIEAGDGTMLKASTLARDLSKPKLEARLGPFEASPERHTRTKAKRQYQKDPIRLRVNTV
ELYARYKAEQQTLTATRGQALEQARRRRDRLVEAAKRSGRLRRATIKVIGENGANKKLLYAQASNALRDE
IQAINKQYQQDRQALYESHSRRTWADWLKKEATHGNAEALTALRAREAAQGLKGNTIQGRGDSRPGHAPV
TDNITKKGTIIFRAGLTAVRDDGDKLQVSREATREGLQEALRLAMGRYGSRITVNGTKQFQAQIIRAAVD
SQLPITFADPALESRRLALLKKENTHERPDRTEQADQRPAEHRERAGCGAGGPGQRTAAHDDAARPVAIA
RAGIGRPGRGRADAAGVHAGAVHRKPDIGRIGRVPPPQSQHRLRTLSQLGVVRIAGGSEVLLPRDVPRHL
EQQGTQPDHQLRRGISRPGTGVAAAPPGLTAADKYIAEREAKRSKGFDIPKHARYTAGDGALAFQGVRNI
EGQALALLKRGDEVMVMPIDQATARRLSRIAVSEAVTITPKGSIKTSKGRSR
MIAKHVPMRSLGKSDFAGLVNYVTDAQSKDHRLGQVQITNCDAVSVQDAITEVLATQHTNTRAKGDKTYH
LIVSFRAGEQPSADTLRAIEERICAGLGYGEHQRVSAVHNDTDNLHIHIAINKIHPTRNTMHEPYYSHRA
LAELCTTLERDYGLERDNHEPRQRGAEGRAADMERHAGVESLVGWIKRECLDEIKGAQSWQELHQVMRAN
GLELRERANGLVIEAGDGTMLKASTLARDLSKPKLEARLGPFEASPERHTRTKAKRQYQKDPIRLRVNTV
ELYARYKAEQQTLTATRGQALEQARRRRDRLVEAAKRSGRLRRATIKVIGENGANKKLLYAQASNALRDE
IQAINKQYQQDRQALYESHSRRTWADWLKKEATHGNAEALTALRAREAAQGLKGNTIQGRGDSRPGHAPV
TDNITKKGTIIFRAGLTAVRDDGDKLQVSREATREGLQEALRLAMGRYGSRITVNGTKQFQAQIIRAAVD
SQLPITFADPALESRRLALLKKENTHERPDRTEQADQRPAEHRERAGCGAGGPGQRTAAHDDAARPVAIA
RAGIGRPGRGRADAAGVHAGAVHRKPDIGRIGRVPPPQSQHRLRTLSQLGVVRIAGGSEVLLPRDVPRHL
EQQGTQPDHQLRRGISRPGTGVAAAPPGLTAADKYIAEREAKRSKGFDIPKHARYTAGDGALAFQGVRNI
EGQALALLKRGDEVMVMPIDQATARRLSRIAVSEAVTITPKGSIKTSKGRSR
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4CP
| ID | 4245 | GenBank | WP_058358168 |
| Name | t4cp2_ISN36_RS19915_XtKm15|unnamed2 |
UniProt ID | _ |
| Length | 634 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 634 a.a. Molecular weight: 69436.46 Da Isoelectric Point: 8.5058
>WP_058358168.1 type IV secretory system conjugative DNA transfer family protein [Xanthomonas translucens]
MKIKMNNAVGPQVRSAKPKPSKLLPILGGVSLVGGLQAATQFFAYTFQYHASLGANFGHVYAPWSILSWS
AKWYGQYPDEIMRAGSIGMVTATVGLLGVAVAKVVTANSSKANEYLHGSARWAEKKDIQAAGLLPRGRSV
LEVVTGKDAPTATGVYVGGWQDKDGNFFYLRHSGPEHVLTYAPTRSGKGVGLVVPTLLSWGASSVITDLK
GELWALTAGWRQKHAKNKVLRFEPASSSGGVCWNPLDEIRLGTDNEVGDVQNLATLIVDPDGKGLATHWD
KTAFALTVGVVLHALYKAKNEGGTATLGSIDAMLADPNRDIGELWMEMITYGHVDGENHRAIGSAARDML
DRPDEEAGSVLSTFKSNLSLYRDPVVERNISRSDFSIKDLMHANDPVSLYIVTQPNDKTRLKPLVRIMVN
MIVRLLADKMDFENGRPVAHYKHRLLMMLDEFPSLGKLEIMQESLAFVAGYGIKCYLICQDINQLRSRET
GYGHDEAITSNCHVQNAYPPNRIETAEHLSRLTGQTTVVKEQITTSGRRTAAMLGQVSRTFQEVQRPLLT
PDECLRMPGPKKNDKGEIEEAGDMVIYVAGYPAIYGKQPLYFKDPVFQARASIPAPKATDRLRQVVEAGE
GITI
MKIKMNNAVGPQVRSAKPKPSKLLPILGGVSLVGGLQAATQFFAYTFQYHASLGANFGHVYAPWSILSWS
AKWYGQYPDEIMRAGSIGMVTATVGLLGVAVAKVVTANSSKANEYLHGSARWAEKKDIQAAGLLPRGRSV
LEVVTGKDAPTATGVYVGGWQDKDGNFFYLRHSGPEHVLTYAPTRSGKGVGLVVPTLLSWGASSVITDLK
GELWALTAGWRQKHAKNKVLRFEPASSSGGVCWNPLDEIRLGTDNEVGDVQNLATLIVDPDGKGLATHWD
KTAFALTVGVVLHALYKAKNEGGTATLGSIDAMLADPNRDIGELWMEMITYGHVDGENHRAIGSAARDML
DRPDEEAGSVLSTFKSNLSLYRDPVVERNISRSDFSIKDLMHANDPVSLYIVTQPNDKTRLKPLVRIMVN
MIVRLLADKMDFENGRPVAHYKHRLLMMLDEFPSLGKLEIMQESLAFVAGYGIKCYLICQDINQLRSRET
GYGHDEAITSNCHVQNAYPPNRIETAEHLSRLTGQTTVVKEQITTSGRRTAAMLGQVSRTFQEVQRPLLT
PDECLRMPGPKKNDKGEIEEAGDMVIYVAGYPAIYGKQPLYFKDPVFQARASIPAPKATDRLRQVVEAGE
GITI
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
| ID | 4246 | GenBank | WP_206730312 |
| Name | t4cp2_ISN36_RS20025_XtKm15|unnamed2 |
UniProt ID | _ |
| Length | 852 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 852 a.a. Molecular weight: 93905.11 Da Isoelectric Point: 6.4347
>WP_206730312.1 VirB4 family type IV secretion/conjugal transfer ATPase [Xanthomonas translucens]
MIEAIAIAIAVLGAVLLLILFARIRAVDAELKLKKHRAKDAGLADLLNYAAVVDDGVIVGKNGSFMAAWL
YKGDDNASSTEEQREMVSFRINQALAGLGNGWMVHVDAVRRPAPNYSERGVSSFPDSVSLAIDEERRRLF
EGLGAMFEGYFVLTVTWFPPVLAQRKFVELMFDDDAVAPDHTARTTGLITQFKREITSLDSRLSSAVKLT
RLRGQKVVSEEGREVTHDDFLSWLQFCVTGLHHPVMLPSNPMYLDAVVGGQELWGGVVPKIGRKFIQVVA
IEGFPLESTPGVLSALAELPSEYRWSSRFIFMDQHESLKHLDKFRKKWKQKIRGFFDQVFATNTGSINQD
AAAMVGDAEAAIAEVNSGLVAAGYYTSVVVLMDEDRERLAASALLVEKTVNRLAFAARIETINTLDAYLG
SLPGHGVENVRRPLINTMNLADLLPTSTIWTGSATAPCPMYPPLAPALMHCVTHGATPFRLNLHVRDLGH
TFMFGPTGAGKSTHLGIIAAQLRRYAGMSIYAFDKGMSMYPLAAGIRAATKGKSGLHFTVAADDDRLAFC
PLQFLETKGDRAWAMEWIDTILALNGVNTTPAQRNEIGNAIMSMHASGARTLSEFSVTIQDEAIREAIKQ
YTVDGAMGHLLDAEEDGLSLSDFTVFEIEELMNLGEKFALPVLLYLFRRIERALKGQPAVIILDEAWLML
GHPAFRAKIREWLKVLRKANCLVLMATQSLSDAANSGILDVIVESTATKIFLPNIYARDEDTSALYRRMG
LNARQIEILATAIPKRQYYYVSENGRRLYDLALGPMALAFVGASDKESVAAIKSLEAKFGHEWVHEWLAG
RGLNLNDYLEAA
MIEAIAIAIAVLGAVLLLILFARIRAVDAELKLKKHRAKDAGLADLLNYAAVVDDGVIVGKNGSFMAAWL
YKGDDNASSTEEQREMVSFRINQALAGLGNGWMVHVDAVRRPAPNYSERGVSSFPDSVSLAIDEERRRLF
EGLGAMFEGYFVLTVTWFPPVLAQRKFVELMFDDDAVAPDHTARTTGLITQFKREITSLDSRLSSAVKLT
RLRGQKVVSEEGREVTHDDFLSWLQFCVTGLHHPVMLPSNPMYLDAVVGGQELWGGVVPKIGRKFIQVVA
IEGFPLESTPGVLSALAELPSEYRWSSRFIFMDQHESLKHLDKFRKKWKQKIRGFFDQVFATNTGSINQD
AAAMVGDAEAAIAEVNSGLVAAGYYTSVVVLMDEDRERLAASALLVEKTVNRLAFAARIETINTLDAYLG
SLPGHGVENVRRPLINTMNLADLLPTSTIWTGSATAPCPMYPPLAPALMHCVTHGATPFRLNLHVRDLGH
TFMFGPTGAGKSTHLGIIAAQLRRYAGMSIYAFDKGMSMYPLAAGIRAATKGKSGLHFTVAADDDRLAFC
PLQFLETKGDRAWAMEWIDTILALNGVNTTPAQRNEIGNAIMSMHASGARTLSEFSVTIQDEAIREAIKQ
YTVDGAMGHLLDAEEDGLSLSDFTVFEIEELMNLGEKFALPVLLYLFRRIERALKGQPAVIILDEAWLML
GHPAFRAKIREWLKVLRKANCLVLMATQSLSDAANSGILDVIVESTATKIFLPNIYARDEDTSALYRRMG
LNARQIEILATAIPKRQYYYVSENGRRLYDLALGPMALAFVGASDKESVAAIKSLEAKFGHEWVHEWLAG
RGLNLNDYLEAA
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 35384..45151
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| ISN36_RS19960 (ISN36_19935) | 30939..31652 | - | 714 | WP_206730306 | DNA adenine methylase | - |
| ISN36_RS19965 (ISN36_19940) | 31765..33036 | - | 1272 | WP_206730307 | hypothetical protein | - |
| ISN36_RS19970 (ISN36_19945) | 33056..33376 | - | 321 | WP_196479360 | hypothetical protein | - |
| ISN36_RS19975 (ISN36_19950) | 33392..34027 | - | 636 | WP_241754246 | TraX family protein | - |
| ISN36_RS19980 (ISN36_19955) | 34104..34760 | - | 657 | WP_206712242 | transglycosylase SLT domain-containing protein | - |
| ISN36_RS19985 (ISN36_19960) | 34774..35358 | - | 585 | WP_206730308 | TrbM/KikA/MpfK family conjugal transfer protein | - |
| ISN36_RS19990 (ISN36_19965) | 35384..37219 | - | 1836 | WP_206730309 | P-type conjugative transfer protein TrbL | virB6 |
| ISN36_RS19995 (ISN36_19970) | 37230..37457 | - | 228 | WP_206730310 | entry exclusion lipoprotein TrbK | - |
| ISN36_RS20000 (ISN36_19975) | 37467..38231 | - | 765 | WP_058358143 | P-type conjugative transfer protein TrbJ | virB5 |
| ISN36_RS20005 (ISN36_19980) | 38249..39667 | - | 1419 | WP_206730311 | TrbI/VirB10 family protein | virB10 |
| ISN36_RS20010 (ISN36_19985) | 39672..40145 | - | 474 | WP_058358145 | conjugal transfer protein TrbH | - |
| ISN36_RS20015 (ISN36_19990) | 40148..41047 | - | 900 | WP_058358146 | P-type conjugative transfer protein TrbG | virB9 |
| ISN36_RS20020 (ISN36_19995) | 41065..41847 | - | 783 | WP_058358172 | conjugal transfer protein TrbF | virB8 |
| ISN36_RS20025 (ISN36_20000) | 41850..44408 | - | 2559 | WP_206730312 | VirB4 family type IV secretion/conjugal transfer ATPase | virb4 |
| ISN36_RS20030 (ISN36_20005) | 44405..44716 | - | 312 | WP_206730313 | conjugal transfer protein TrbD | virB3 |
| ISN36_RS20035 (ISN36_20010) | 44720..45151 | - | 432 | WP_058358149 | IncP-type conjugal transfer pilin TrbC | virB2 |
Host bacterium
| ID | 6756 | GenBank | NZ_CP063999 |
| Plasmid name | XtKm15|unnamed2 | Incompatibility group | IncP1 |
| Plasmid size | 45639 bp | Coordinate of oriT [Strand] | 16141..16238 [-] |
| Host baterium | Xanthomonas translucens pv. undulosa strain XtKm15 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |