Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 120098 |
| Name | oriT_p1215_37960  |
| Organism | Pseudomonas syringae pv. actinidiae strain 1215 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_MK621010 (7577..8003 [-], 427 nt) |
| oriT length | 427 nt |
| IRs (inverted repeats) | 162..170, 174..182 (AAGCCGCGC..GCGCGGCTT) |
| Location of nic site | _ |
| Conserved sequence flanking the nic site |
_ |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 427 nt
>oriT_p1215_37960
GGTGGTCCTCTCTAAGCGAAAAATGGGGCATATTCAGGGTAAAGATAAAGTTCGATCCACTGTATAGCAAATGTATTACATATAAAGCTTGATTTTACTGGGCAAAAAGGTAATTTTGTAATACATATGTATAGCGTCTGATTTTCACGCTTTTGCTCTGTAAGCCGCGCTCTGCGCGGCTTTCACTCCCCGCAAGGGGGGTGCGTGTTGTGTATTGAGACTTTGACCCTGTTAAGGGGAAAAGTTGAAGCTCTTGTTAAGGGCGTATCCACTGATCAGGCCGTAGGCCGTAGGGGGGTAGCAGTGAGGGTATGCAAAAAGGGTGCAGGAAGGGTGCTAGGAGAGTGCAAGAGGGGTGCAGCTTGACTACAGGTAGGGGGCGAGTAAGATGCACATAGAGTGCAATAGGGGTGCAGATAGGGTGCAA
GGTGGTCCTCTCTAAGCGAAAAATGGGGCATATTCAGGGTAAAGATAAAGTTCGATCCACTGTATAGCAAATGTATTACATATAAAGCTTGATTTTACTGGGCAAAAAGGTAATTTTGTAATACATATGTATAGCGTCTGATTTTCACGCTTTTGCTCTGTAAGCCGCGCTCTGCGCGGCTTTCACTCCCCGCAAGGGGGGTGCGTGTTGTGTATTGAGACTTTGACCCTGTTAAGGGGAAAAGTTGAAGCTCTTGTTAAGGGCGTATCCACTGATCAGGCCGTAGGCCGTAGGGGGGTAGCAGTGAGGGTATGCAAAAAGGGTGCAGGAAGGGTGCTAGGAGAGTGCAAGAGGGGTGCAGCTTGACTACAGGTAGGGGGCGAGTAAGATGCACATAGAGTGCAATAGGGGTGCAGATAGGGTGCAA
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 12657 | GenBank | WP_228857469 |
| Name | mobF_LO775_RS00080_p1215_37960 |
UniProt ID | _ |
| Length | 981 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 981 a.a. Molecular weight: 109028.81 Da Isoelectric Point: 10.0622
>WP_228857469.1 MobF family relaxase [Pseudomonas syringae]
MFNVTSIKGSNQYAAAGYYTAADDYYAKESPGEWQGIGAELLGLEGPIDQKELAKLFDGKLPNGELMPKP
VNKETGEIVNRRMGLDLTFSAPKSVSMQALIAGDKDVVAAHDRAVTKAMEHVEKLAQTRRKEHGKSMLER
TGNLIIGKFRHELSRAKDPQLHTHAVVMNATRREDGKWRAIHNDDIFKIQPQIDAMYKGELAKELRALGY
EIRVLDKDGNFELAHISRDQIEAFSSRSKVIEDALAKDGKTRSNATALEKQIIAMATRPRKDERDRHLVK
EYWVTKARDLGIEFGGRSQLDNREYGRRSESIHAEHNLPEGITAGQAVVQYAINHLTEREQVVNESDLRT
AALRRAVGLASPSEVDDEIKRLVKQGTLIESPPTYRMATGTEGAALSPAGWRALLKEQKGWTDKEAQQYV
KMAIDRGSLVVTEKRYTTQRALKREKAILAIERSGRGQVAPLLSKEQVAKALEGSTLSAGQYQAVEVIVS
TSNRFVGIQGDAGTGKTYSVDRAVKLIESVNNAMTERTTTTDATFRVVALAPYGNQVTALKNEGLDAHTL
ASFFHTKDKKLDERTIVVLDEAGVVGARQMEQLMRIIEQSGARLVQLGDTKQTEAIEAGKPFAQLQQNGM
QTARIKEIQRQKNHELKIAVQHAADGNPGKSLEHVNHVEEFRDPGQRHQAIVRDYMSLTPEERKEVLIVA
GTNKDRKQINAMTRESLGLVGKGKELPTLNRVDTTQAERRYAPSYKKGMIVQPEKDYIRAGLSRGELYTV
DQALPGNVLVVKDKNGNRVEFNPRKLTKLSVYKLDKPEFSVGDLVRITRNDQKLDLTNGDRMRVVGNANG
VIELASIKEINGTPARVVALPTNRPLHLEHAYSATVHSAQGLTNDRVMISINTKSRTTSQNLWYVAISRA
RHEARIYTDSITGLPAAIANRYDKTTALSLQQARERQRKEAIKPRTVLDGKALERKQRTALDSVSAGKSG
V
MFNVTSIKGSNQYAAAGYYTAADDYYAKESPGEWQGIGAELLGLEGPIDQKELAKLFDGKLPNGELMPKP
VNKETGEIVNRRMGLDLTFSAPKSVSMQALIAGDKDVVAAHDRAVTKAMEHVEKLAQTRRKEHGKSMLER
TGNLIIGKFRHELSRAKDPQLHTHAVVMNATRREDGKWRAIHNDDIFKIQPQIDAMYKGELAKELRALGY
EIRVLDKDGNFELAHISRDQIEAFSSRSKVIEDALAKDGKTRSNATALEKQIIAMATRPRKDERDRHLVK
EYWVTKARDLGIEFGGRSQLDNREYGRRSESIHAEHNLPEGITAGQAVVQYAINHLTEREQVVNESDLRT
AALRRAVGLASPSEVDDEIKRLVKQGTLIESPPTYRMATGTEGAALSPAGWRALLKEQKGWTDKEAQQYV
KMAIDRGSLVVTEKRYTTQRALKREKAILAIERSGRGQVAPLLSKEQVAKALEGSTLSAGQYQAVEVIVS
TSNRFVGIQGDAGTGKTYSVDRAVKLIESVNNAMTERTTTTDATFRVVALAPYGNQVTALKNEGLDAHTL
ASFFHTKDKKLDERTIVVLDEAGVVGARQMEQLMRIIEQSGARLVQLGDTKQTEAIEAGKPFAQLQQNGM
QTARIKEIQRQKNHELKIAVQHAADGNPGKSLEHVNHVEEFRDPGQRHQAIVRDYMSLTPEERKEVLIVA
GTNKDRKQINAMTRESLGLVGKGKELPTLNRVDTTQAERRYAPSYKKGMIVQPEKDYIRAGLSRGELYTV
DQALPGNVLVVKDKNGNRVEFNPRKLTKLSVYKLDKPEFSVGDLVRITRNDQKLDLTNGDRMRVVGNANG
VIELASIKEINGTPARVVALPTNRPLHLEHAYSATVHSAQGLTNDRVMISINTKSRTTSQNLWYVAISRA
RHEARIYTDSITGLPAAIANRYDKTTALSLQQARERQRKEAIKPRTVLDGKALERKQRTALDSVSAGKSG
V
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4CP
| ID | 14858 | GenBank | WP_228857468 |
| Name | t4cp2_LO775_RS00075_p1215_37960 |
UniProt ID | _ |
| Length | 518 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 518 a.a. Molecular weight: 58413.82 Da Isoelectric Point: 8.8911
>WP_228857468.1 type IV secretion system DNA-binding domain-containing protein [Pseudomonas syringae]
MHKREVDSAVMTAGFGLPVAGWAAGVYLAQMPLTPFPAAFKETLHNGWHNPMVLGATIATSAVAASLVYY
LYEYCDDGFRGEQYQEFLRGSEIKNWHTVKAKVRRRNDKTNRERKKRGLAKSAPIMIGKLPMPLHLEDRN
TMICASIGAGKSVTMEGMIASALKRGDRMAVVDPNGTFYSKFSFKGDYILNPFDERSAGWTIFNEIRGIH
DFNRMAKSIIPPQPDSESEQWCAYARDVLSDTMRKLKETNNPNQDTLVNLLVREDGETIRAFLANTDSEG
YFRENAEKAIASIQFMMNKYIRPLRYMTKGDFSIYQWVNDPNAGNLFITWREDMRDTMKPLVATWIDTIC
ATILSSEPMTGKRLWLFLDELQSLGKLESFVPAATKGRKHGLRMVGSLQDWSQLTASYGRDDADTLLSCF
RNYVILAAANAKNAGMASEILGNHDVKRWRKSYTAGKLTRTEEVTRDEPVVQASEISNLPDLVAYVKFGE
DFPITKVKTPYIDYKERAQAIMITGQAA
MHKREVDSAVMTAGFGLPVAGWAAGVYLAQMPLTPFPAAFKETLHNGWHNPMVLGATIATSAVAASLVYY
LYEYCDDGFRGEQYQEFLRGSEIKNWHTVKAKVRRRNDKTNRERKKRGLAKSAPIMIGKLPMPLHLEDRN
TMICASIGAGKSVTMEGMIASALKRGDRMAVVDPNGTFYSKFSFKGDYILNPFDERSAGWTIFNEIRGIH
DFNRMAKSIIPPQPDSESEQWCAYARDVLSDTMRKLKETNNPNQDTLVNLLVREDGETIRAFLANTDSEG
YFRENAEKAIASIQFMMNKYIRPLRYMTKGDFSIYQWVNDPNAGNLFITWREDMRDTMKPLVATWIDTIC
ATILSSEPMTGKRLWLFLDELQSLGKLESFVPAATKGRKHGLRMVGSLQDWSQLTASYGRDDADTLLSCF
RNYVILAAANAKNAGMASEILGNHDVKRWRKSYTAGKLTRTEEVTRDEPVVQASEISNLPDLVAYVKFGE
DFPITKVKTPYIDYKERAQAIMITGQAA
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 8389..26502
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| LO775_RS00030 | 3428..3754 | + | 327 | WP_228857459 | TrfB-related DNA-binding protein | - |
| LO775_RS00035 | 3782..4051 | - | 270 | WP_228857460 | hypothetical protein | - |
| LO775_RS00040 | 4072..4335 | + | 264 | WP_228857461 | antirestriction protein ArdR | - |
| LO775_RS00045 | 4833..5063 | - | 231 | WP_228857462 | hypothetical protein | - |
| LO775_RS00050 | 5092..5877 | - | 786 | WP_228857463 | SprT-like domain-containing protein | - |
| LO775_RS00055 | 6014..6400 | - | 387 | WP_228857464 | hypothetical protein | - |
| LO775_RS00060 | 6404..7123 | - | 720 | WP_228857465 | StbB family protein | - |
| LO775_RS00065 | 7120..7575 | - | 456 | WP_228857466 | hypothetical protein | - |
| LO775_RS00070 | 8004..8396 | + | 393 | WP_228857467 | hypothetical protein | - |
| LO775_RS00075 | 8389..9945 | + | 1557 | WP_228857468 | type IV secretion system DNA-binding domain-containing protein | virb4 |
| LO775_RS00080 | 9955..12900 | + | 2946 | WP_228857469 | MobF family relaxase | - |
| LO775_RS00085 | 12919..13725 | + | 807 | WP_228857470 | hypothetical protein | - |
| LO775_RS00090 | 14054..14704 | - | 651 | WP_228857471 | hypothetical protein | - |
| LO775_RS00095 | 14752..15234 | - | 483 | WP_228857472 | hypothetical protein | - |
| LO775_RS00100 | 15249..15797 | - | 549 | WP_228857477 | phospholipase D family protein | - |
| LO775_RS00105 | 15844..16194 | - | 351 | WP_228857473 | TrbM/KikA/MpfK family conjugal transfer protein | - |
| LO775_RS00110 | 16203..17108 | - | 906 | WP_228857474 | lytic transglycosylase domain-containing protein | virB1 |
| LO775_RS00115 | 17092..18120 | - | 1029 | WP_228857475 | P-type DNA transfer ATPase VirB11 | virB11 |
| LO775_RS00120 | 18129..19412 | - | 1284 | WP_228857476 | TrbI/VirB10 family protein | virB10 |
| LO775_RS00125 | 19415..20206 | - | 792 | WP_228857432 | TrbG/VirB9 family P-type conjugative transfer protein | virB9 |
| LO775_RS00130 | 20232..20897 | - | 666 | WP_228857433 | type IV secretion system protein | virB8 |
| LO775_RS00135 | 20902..21765 | - | 864 | WP_228857434 | type IV secretion system protein | virB6 |
| LO775_RS00140 | 21753..22157 | - | 405 | WP_228857435 | hypothetical protein | - |
| LO775_RS00145 | 22150..22362 | - | 213 | WP_228857436 | hypothetical protein | - |
| LO775_RS00150 | 22390..23073 | - | 684 | WP_228857478 | type IV secretion system protein | virB5 |
| LO775_RS00155 | 23073..25757 | - | 2685 | WP_228857437 | type VI secretion protein | virb4 |
| LO775_RS00160 | 25744..26037 | - | 294 | WP_110973314 | VirB3 family type IV secretion system protein | virB3 |
| LO775_RS00165 | 26041..26502 | - | 462 | WP_228857438 | TrbC/VirB2 family protein | virB2 |
| LO775_RS00170 | 26519..26794 | - | 276 | WP_228857439 | hypothetical protein | - |
| LO775_RS00175 | 27449..28222 | + | 774 | WP_228857440 | ParA family protein | - |
| LO775_RS00180 | 28233..29159 | + | 927 | WP_228857441 | ParB/RepB/Spo0J family partition protein | - |
| LO775_RS00185 | 29156..29506 | + | 351 | WP_228857442 | TrfB-related DNA-binding protein | - |
| LO775_RS00190 | 29503..29997 | + | 495 | WP_228857443 | hypothetical protein | - |
| LO775_RS00195 | 30033..30449 | + | 417 | WP_228857444 | hypothetical protein | - |
| LO775_RS00200 | 30461..30706 | + | 246 | WP_228857445 | hypothetical protein | - |
Host bacterium
| ID | 20528 | GenBank | NZ_MK621010 |
| Plasmid name | p1215_37960 | Incompatibility group | - |
| Plasmid size | 37960 bp | Coordinate of oriT [Strand] | 7577..8003 [-] |
| Host baterium | Pseudomonas syringae pv. actinidiae strain 1215 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |