Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 116072 |
| Name | oriT_pDR208  |
| Organism | Pseudomonas sp. DR208 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP081945 (17725..18152 [-], 428 nt) |
| oriT length | 428 nt |
| IRs (inverted repeats) | 163..170, 174..181 (AGCCGCGC..GCGCGGCT) |
| Location of nic site | _ |
| Conserved sequence flanking the nic site |
_ |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 428 nt
>oriT_pDR208
GGTGGTCCTCTCTGAGCCAAAAATGGGACATATTCAGGCTAACGATAACTGCCGAATAGCCGTATAGCAAATGTAATACATAAAAAGCTTGATTTTGCTGGTCCAAATGGTACTTTTGTAATACATATGTATAGCGCATCAAAAACAGGCTTTTGCTCTGCAAGCCGCGCACAGCGCGGCTGTCACCTCCCGCAAGGGGGGTGCGTGTTGTGTATTGAGACTTTGACCCTGTTAAGGGGAAAAGTTGAAGCTCTTGTTAAGGGCGTATCCACTAGTCAGGCCGTAGGCCGTAGGGGGGTAGCACAGATGGTATGCAGAAAGGGTGCAGGAAGGGTGCTAAGAGAGAGCAGGAAGAGTGCAACTTGACTACAGGTAGGGGGCGAGTAAGATGCACATAGAGTGCAATAGGGGTGCAGATAGGGTGCAAA
GGTGGTCCTCTCTGAGCCAAAAATGGGACATATTCAGGCTAACGATAACTGCCGAATAGCCGTATAGCAAATGTAATACATAAAAAGCTTGATTTTGCTGGTCCAAATGGTACTTTTGTAATACATATGTATAGCGCATCAAAAACAGGCTTTTGCTCTGCAAGCCGCGCACAGCGCGGCTGTCACCTCCCGCAAGGGGGGTGCGTGTTGTGTATTGAGACTTTGACCCTGTTAAGGGGAAAAGTTGAAGCTCTTGTTAAGGGCGTATCCACTAGTCAGGCCGTAGGCCGTAGGGGGGTAGCACAGATGGTATGCAGAAAGGGTGCAGGAAGGGTGCTAAGAGAGAGCAGGAAGAGTGCAACTTGACTACAGGTAGGGGGCGAGTAAGATGCACATAGAGTGCAATAGGGGTGCAGATAGGGTGCAAA
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 10279 | GenBank | WP_222541789 |
| Name | mobF_K5K89_RS28460_pDR208 |
UniProt ID | _ |
| Length | 978 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 978 a.a. Molecular weight: 108602.07 Da Isoelectric Point: 9.9532
>WP_222541789.1 MobF family relaxase [Pseudomonas sp. DR208]
MFNVTSIKGSNQYAAAGYYTAADDYYAKESPGEWQGIGAELLGLEGPIDQKELAKLFDGKLPNGEVMPKT
FDKETGNRRMGLDLTFSAPKSVSMQALIAGDKDVVAAHDRAVTKAMEHVEKLAQARRKEHGKSMLERTGN
LIIGKFRHELSRAKDPQLHTHAVVMNATQRADGKWRAIHNDDIFKIQPQIDAMYKGELAKELRELGYEIR
VLDKDGNFELAHISRDQIEAFSSRAKVIEEALAKDGKTRSNATALEKQIIAMATRPRKDERDRHLVKEYW
VTKARDLGIEFGGRSQLDNREYGRRSESIHAEHNLPEGITAGQAVVQYAINHLTEREQVVGESDLRTAAL
RRAVGLASPSEVDDEIKRLVKQGTLIESPPTYTMATGKDGTALSPAGWRALLKEQKGWTDKEAQQYVKMA
ITRGSLVEAEKRYTTQRALKREKAILAIERSGRGQVAPLLSKEQVAKALEGSTLSAGQYQAVEVIVSTSN
RFVGIQGDAGTGKTYSVDRAVKLIESVNNAMTERTTTTDAVFRVVALAPYGNQVTALKNEGLDAHTLASF
FHTKDKKLDERTIVVLDEAGVVGARQMEQLMRIIEQSGARLVQLGDTKQTEAIEAGKPFAQLQQNGMQTA
RIKEIQRQKNQELKIAVQHAADGNPGKSLEHVNHVEEFRDPGQRHQAIVRDYMSLTPQERKEVLIVAGTN
KDRKQINAMTRESLGLVGNGKELPTLNRVDTTQAERRYAPSYKKGMIVQPEKDYIRAGLSRGELYTVDQA
LPGNVLVVKDKNGNRVEFNPRKLTKLSVYNLEKPEFSVGDLVRITRNDQKLDLTNGDRMRVVGNANGVIE
LASLKEKDGTPERVVALPTNRPLHLEHAYSATVHSAQGLTNDRVMISINTKSRTTSQNLWYVAISRARHE
ARIYTDSIAGLPAAIANRYDKTTALSLQQARERQRNESIKPRTVLDGKELERKQRSALNGASAGKSGI
MFNVTSIKGSNQYAAAGYYTAADDYYAKESPGEWQGIGAELLGLEGPIDQKELAKLFDGKLPNGEVMPKT
FDKETGNRRMGLDLTFSAPKSVSMQALIAGDKDVVAAHDRAVTKAMEHVEKLAQARRKEHGKSMLERTGN
LIIGKFRHELSRAKDPQLHTHAVVMNATQRADGKWRAIHNDDIFKIQPQIDAMYKGELAKELRELGYEIR
VLDKDGNFELAHISRDQIEAFSSRAKVIEEALAKDGKTRSNATALEKQIIAMATRPRKDERDRHLVKEYW
VTKARDLGIEFGGRSQLDNREYGRRSESIHAEHNLPEGITAGQAVVQYAINHLTEREQVVGESDLRTAAL
RRAVGLASPSEVDDEIKRLVKQGTLIESPPTYTMATGKDGTALSPAGWRALLKEQKGWTDKEAQQYVKMA
ITRGSLVEAEKRYTTQRALKREKAILAIERSGRGQVAPLLSKEQVAKALEGSTLSAGQYQAVEVIVSTSN
RFVGIQGDAGTGKTYSVDRAVKLIESVNNAMTERTTTTDAVFRVVALAPYGNQVTALKNEGLDAHTLASF
FHTKDKKLDERTIVVLDEAGVVGARQMEQLMRIIEQSGARLVQLGDTKQTEAIEAGKPFAQLQQNGMQTA
RIKEIQRQKNQELKIAVQHAADGNPGKSLEHVNHVEEFRDPGQRHQAIVRDYMSLTPQERKEVLIVAGTN
KDRKQINAMTRESLGLVGNGKELPTLNRVDTTQAERRYAPSYKKGMIVQPEKDYIRAGLSRGELYTVDQA
LPGNVLVVKDKNGNRVEFNPRKLTKLSVYNLEKPEFSVGDLVRITRNDQKLDLTNGDRMRVVGNANGVIE
LASLKEKDGTPERVVALPTNRPLHLEHAYSATVHSAQGLTNDRVMISINTKSRTTSQNLWYVAISRARHE
ARIYTDSIAGLPAAIANRYDKTTALSLQQARERQRNESIKPRTVLDGKELERKQRSALNGASAGKSGI
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4CP
| ID | 12013 | GenBank | WP_169882229 |
| Name | t4cp2_K5K89_RS28455_pDR208 |
UniProt ID | _ |
| Length | 518 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 518 a.a. Molecular weight: 58379.79 Da Isoelectric Point: 8.8911
>WP_169882229.1 MULTISPECIES: type IV secretion system DNA-binding domain-containing protein [Pseudomonas]
MHKREVDSAVMTAGFGLPIAGWAAGVYLAQMPLTPFPAAFKETLHNGWHNPIVLGATIATSAVAASLVYY
LYEYCDDGFRGEQYQEFLRGSEIKNWHTVKAKVRRRNEKTNRERKKRGLAKSEPIMIGKLPMPLHLEDRN
TMICASIGAGKSVTMEGMIASALKRGDRMAVVDPNGTFYSKFSFKGDYILNPFDARSAGWTIFNEIRGIH
DFNRMAKSIIPPQVDPSDEQWCAYARDVLSDTMRKLKETNNPNQDTLVNLLVREDGDTIRAFLANTDSEG
YFRDNAEKAIASIQFMMNKYIRPLRYMSKGDFSIYQWVNDPNAGNLFITWREDMRDTMKPLVATWIDTIC
ATILSSEPMTGKRLWLFLDELQSLGKLESFVPAATKGRKHGLRMVGSLQDWSQLNASYGRDDAETLLSCF
RNYVILAAANAKNAGMASEILGSHDVKRWRKSYTAGKLTRTEEVTRDEPVVQASEISNLPDLVAYVKFGE
DFPITKVKTPYIDYKERAQAIMITGQAA
MHKREVDSAVMTAGFGLPIAGWAAGVYLAQMPLTPFPAAFKETLHNGWHNPIVLGATIATSAVAASLVYY
LYEYCDDGFRGEQYQEFLRGSEIKNWHTVKAKVRRRNEKTNRERKKRGLAKSEPIMIGKLPMPLHLEDRN
TMICASIGAGKSVTMEGMIASALKRGDRMAVVDPNGTFYSKFSFKGDYILNPFDARSAGWTIFNEIRGIH
DFNRMAKSIIPPQVDPSDEQWCAYARDVLSDTMRKLKETNNPNQDTLVNLLVREDGDTIRAFLANTDSEG
YFRDNAEKAIASIQFMMNKYIRPLRYMSKGDFSIYQWVNDPNAGNLFITWREDMRDTMKPLVATWIDTIC
ATILSSEPMTGKRLWLFLDELQSLGKLESFVPAATKGRKHGLRMVGSLQDWSQLNASYGRDDAETLLSCF
RNYVILAAANAKNAGMASEILGSHDVKRWRKSYTAGKLTRTEEVTRDEPVVQASEISNLPDLVAYVKFGE
DFPITKVKTPYIDYKERAQAIMITGQAA
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 18538..36634
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| K5K89_RS28420 (K5K89_28420) | 13690..13962 | + | 273 | WP_222541787 | hypothetical protein | - |
| K5K89_RS28425 (K5K89_28425) | 14217..14486 | + | 270 | WP_219022095 | antirestriction protein ArdR | - |
| K5K89_RS28430 (K5K89_28430) | 15221..16024 | - | 804 | WP_219022094 | SprT-like domain-containing protein | - |
| K5K89_RS28435 (K5K89_28435) | 16163..16549 | - | 387 | WP_019694541 | hypothetical protein | - |
| K5K89_RS28440 (K5K89_28440) | 16553..17272 | - | 720 | WP_011475366 | StbB family protein | - |
| K5K89_RS28445 (K5K89_28445) | 17269..17724 | - | 456 | WP_222541788 | hypothetical protein | - |
| K5K89_RS28450 (K5K89_28450) | 18153..18545 | + | 393 | WP_261401117 | hypothetical protein | - |
| K5K89_RS28455 (K5K89_28455) | 18538..20094 | + | 1557 | WP_169882229 | type IV secretion system DNA-binding domain-containing protein | virb4 |
| K5K89_RS28460 (K5K89_28460) | 20105..23041 | + | 2937 | WP_222541789 | MobF family relaxase | - |
| K5K89_RS28465 (K5K89_28465) | 23117..23866 | + | 750 | WP_261401115 | hypothetical protein | - |
| K5K89_RS28470 (K5K89_28470) | 24189..24839 | - | 651 | WP_222541765 | hypothetical protein | - |
| K5K89_RS28475 (K5K89_28475) | 24887..25369 | - | 483 | WP_222541766 | hypothetical protein | - |
| K5K89_RS28480 (K5K89_28480) | 25384..25989 | - | 606 | WP_222541767 | phospholipase D family protein | - |
| K5K89_RS28485 (K5K89_28485) | 25979..26308 | - | 330 | WP_219022087 | TrbM/KikA/MpfK family conjugal transfer protein | - |
| K5K89_RS28490 (K5K89_28490) | 26338..27240 | - | 903 | WP_222541768 | lytic transglycosylase domain-containing protein | virB1 |
| K5K89_RS28495 (K5K89_28495) | 27224..28252 | - | 1029 | WP_219022085 | P-type DNA transfer ATPase VirB11 | virB11 |
| K5K89_RS28500 (K5K89_28500) | 28262..29545 | - | 1284 | WP_222541769 | TrbI/VirB10 family protein | virB10 |
| K5K89_RS28505 (K5K89_28505) | 29548..30339 | - | 792 | WP_219022083 | TrbG/VirB9 family P-type conjugative transfer protein | virB9 |
| K5K89_RS28510 (K5K89_28510) | 30365..31030 | - | 666 | WP_219022082 | type IV secretion system protein | virB8 |
| K5K89_RS28515 (K5K89_28515) | 31034..31897 | - | 864 | WP_222541770 | type IV secretion system protein | virB6 |
| K5K89_RS28520 (K5K89_28520) | 31885..32289 | - | 405 | WP_219022080 | hypothetical protein | - |
| K5K89_RS28525 (K5K89_28525) | 32282..32494 | - | 213 | WP_219022079 | hypothetical protein | - |
| K5K89_RS28530 (K5K89_28530) | 32522..33205 | - | 684 | WP_222541771 | type IV secretion system protein | virB5 |
| K5K89_RS28535 (K5K89_28535) | 33205..35889 | - | 2685 | WP_257603924 | type VI secretion protein | virb4 |
| K5K89_RS28540 (K5K89_28540) | 35876..36169 | - | 294 | WP_110973314 | VirB3 family type IV secretion system protein | virB3 |
| K5K89_RS28545 (K5K89_28545) | 36173..36634 | - | 462 | WP_219022077 | TrbC/VirB2 family protein | virB2 |
| K5K89_RS28550 (K5K89_28550) | 37573..38346 | + | 774 | WP_261401116 | ParA family protein | - |
| K5K89_RS28555 (K5K89_28555) | 38357..39274 | + | 918 | WP_222541772 | ParB/RepB/Spo0J family partition protein | - |
| K5K89_RS28560 (K5K89_28560) | 39271..39621 | + | 351 | WP_222541773 | TrfB-related DNA-binding protein | - |
| K5K89_RS28565 (K5K89_28565) | 39618..40118 | + | 501 | WP_222541774 | hypothetical protein | - |
| K5K89_RS28570 (K5K89_28570) | 40402..41031 | + | 630 | WP_219022072 | recombinase family protein | - |
Host bacterium
| ID | 16505 | GenBank | NZ_CP081945 |
| Plasmid name | pDR208 | Incompatibility group | - |
| Plasmid size | 41441 bp | Coordinate of oriT [Strand] | 17725..18152 [-] |
| Host baterium | Pseudomonas sp. DR208 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |