Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 106095 |
| Name | oriT_pPP1-2  |
| Organism | Pseudomonas syringae pv. pisi str. PP1 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP034080 (47434..47654 [+], 221 nt) |
| oriT length | 221 nt |
| IRs (inverted repeats) | 124..131, 135..142 (CAAAGGGG..CCCCTTTG) 86..92, 102..108 (CGGGGGG..CCCCCCG) 87..92, 101..106 (GGGGGG..CCCCCC) 32..38, 40..46 (TTGGGTC..GACCCAA) |
| Location of nic site | _ |
| Conserved sequence flanking the nic site |
_ |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 221 nt
>oriT_pPP1-2
CTGTGTCATCGAGAGACATTCAGAGACAATCTTGGGTCTGACCCAAAATCTCGAATTCGCTAAACAGGCACGTTACCGATGTATACGGGGGGATGAAGCGCCCCCCCGAATACATCGCCGTGCCAAAGGGGAAACCCCTTTGAAACCCCGCAGAGCGTTAGCGCTGCGCTTGTTGTTAGTCATCAGTCAGTAAATCAGTCGCGTCATTCATCGTCGGAGGC
CTGTGTCATCGAGAGACATTCAGAGACAATCTTGGGTCTGACCCAAAATCTCGAATTCGCTAAACAGGCACGTTACCGATGTATACGGGGGGATGAAGCGCCCCCCCGAATACATCGCCGTGCCAAAGGGGAAACCCCTTTGAAACCCCGCAGAGCGTTAGCGCTGCGCTTGTTGTTAGTCATCAGTCAGTAAATCAGTCGCGTCATTCATCGTCGGAGGC
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
T4CP
| ID | 4103 | GenBank | WP_024650172 |
| Name | t4cp2_N032_RS27835_pPP1-2 |
UniProt ID | _ |
| Length | 557 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 557 a.a. Molecular weight: 61668.26 Da Isoelectric Point: 6.2657
>WP_024650172.1 type IV secretory system conjugative DNA transfer family protein [Pseudomonas syringae]
MAKAKSKPISPDNPQERIEEHPAILIGKHPTKDTFLASYGQTFVMLAAPPGTGKTVGVVTPNLLSYPDSV
VVNDPKFENWRDTAGFRAAAGHKVYRFSPELLETHRWNPLSALSRDPLYRLGQIRTLAGVLFVSDNPKNQ
EWYNKAANVFAAILLYLMEMEGMKLNGMKLTLPQAYEVASLGTGLGVWAQQAIEQHSTGPNALSVETLRE
LNGVFEASKNKSSGWSTTVDILRGALSMYAEKTVAWAVSDTDIDFTKLRKEKISIYFCVTGNAIKKYGPL
MNLFFTQAIQQNTDVMPEQGGHCADGTLILKYQVLFVIDEIAVMGRIEIMEMAPALTRGAGLRYIIIFQG
KDQLRSERTYGREAGNGIMQAFHIEIVYGTGNVELAKEYSTRLGNTTVRVHNQSLNRQKHEIGARGQTDS
YSEQPRPLLLPQEVSALPYGEELIFVEATKTTPAANIRARKIFWYEEPVFKERAGMPTPDVPSGDASKID
ALTVPVRTVEAKVAVADTKPMQAEQRQRWNPKEKAANAVPDQPDAAQPVDVEPDLEPAQTDDTPETM
MAKAKSKPISPDNPQERIEEHPAILIGKHPTKDTFLASYGQTFVMLAAPPGTGKTVGVVTPNLLSYPDSV
VVNDPKFENWRDTAGFRAAAGHKVYRFSPELLETHRWNPLSALSRDPLYRLGQIRTLAGVLFVSDNPKNQ
EWYNKAANVFAAILLYLMEMEGMKLNGMKLTLPQAYEVASLGTGLGVWAQQAIEQHSTGPNALSVETLRE
LNGVFEASKNKSSGWSTTVDILRGALSMYAEKTVAWAVSDTDIDFTKLRKEKISIYFCVTGNAIKKYGPL
MNLFFTQAIQQNTDVMPEQGGHCADGTLILKYQVLFVIDEIAVMGRIEIMEMAPALTRGAGLRYIIIFQG
KDQLRSERTYGREAGNGIMQAFHIEIVYGTGNVELAKEYSTRLGNTTVRVHNQSLNRQKHEIGARGQTDS
YSEQPRPLLLPQEVSALPYGEELIFVEATKTTPAANIRARKIFWYEEPVFKERAGMPTPDVPSGDASKID
ALTVPVRTVEAKVAVADTKPMQAEQRQRWNPKEKAANAVPDQPDAAQPVDVEPDLEPAQTDDTPETM
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 24981..35335
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| N032_RS27695 (N032_27695) | 20090..20275 | - | 186 | WP_005730485 | hypothetical protein | - |
| N032_RS27700 (N032_27700) | 20326..20604 | - | 279 | WP_003320513 | hypothetical protein | - |
| N032_RS28795 (N032_27705) | 20697..20828 | - | 132 | Protein_25 | helix-turn-helix domain-containing protein | - |
| N032_RS27715 (N032_27715) | 21262..21588 | - | 327 | WP_003319696 | type II toxin-antitoxin system PemK/MazF family toxin | - |
| N032_RS27720 (N032_27720) | 21585..21809 | - | 225 | WP_003319697 | antitoxin MazE family protein | - |
| N032_RS27725 (N032_27725) | 22299..22931 | + | 633 | WP_003381804 | ParA family protein | - |
| N032_RS27730 (N032_27730) | 22967..23221 | + | 255 | WP_003381801 | hypothetical protein | - |
| N032_RS27735 (N032_27735) | 23646..24311 | - | 666 | WP_024647998 | LexA family transcriptional regulator | - |
| N032_RS27740 (N032_27740) | 24399..24629 | + | 231 | WP_010215521 | Cro/CI family transcriptional regulator | - |
| N032_RS27745 (N032_27745) | 24981..25679 | + | 699 | WP_024650160 | lytic transglycosylase domain-containing protein | virB1 |
| N032_RS27750 (N032_27750) | 25679..26014 | + | 336 | WP_024650161 | hypothetical protein | - |
| N032_RS27755 (N032_27755) | 26027..26302 | + | 276 | WP_024650162 | VirB3 family type IV secretion system protein | virB3 |
| N032_RS27760 (N032_27760) | 26363..28915 | + | 2553 | WP_024650163 | VirB4 family type IV secretion system protein | virb4 |
| N032_RS27765 (N032_27765) | 28912..29598 | + | 687 | WP_024650164 | P-type DNA transfer protein VirB5 | - |
| N032_RS27770 (N032_27770) | 29631..29984 | + | 354 | WP_024650165 | hypothetical protein | - |
| N032_RS27775 (N032_27775) | 29995..30927 | + | 933 | WP_024650166 | type IV secretion system protein | virB6 |
| N032_RS27780 (N032_27780) | 30995..31309 | + | 315 | WP_080271125 | conjugal transfer protein | - |
| N032_RS27785 (N032_27785) | 31347..32135 | + | 789 | WP_024650167 | type IV secretion system protein | virB8 |
| N032_RS27790 (N032_27790) | 32125..32934 | + | 810 | WP_024650168 | P-type conjugative transfer protein VirB9 | virB9 |
| N032_RS27795 (N032_27795) | 32921..34270 | + | 1350 | WP_024650169 | TrbI/VirB10 family protein | virB10 |
| N032_RS27800 (N032_27800) | 34280..35335 | + | 1056 | WP_024650170 | P-type DNA transfer ATPase VirB11 | virB11 |
| N032_RS27805 (N032_27805) | 35349..35735 | + | 387 | WP_003347401 | hypothetical protein | - |
| N032_RS27810 (N032_27810) | 35720..36076 | + | 357 | WP_024650171 | hypothetical protein | - |
| N032_RS27815 (N032_27815) | 36353..36976 | + | 624 | WP_003347396 | glycoside hydrolase family 25 protein | - |
| N032_RS27825 (N032_27825) | 37311..39731 | + | 2421 | WP_116894210 | ATP-binding protein | - |
| N032_RS27830 (N032_27830) | 39843..40076 | + | 234 | WP_003347392 | hypothetical protein | - |
Host bacterium
| ID | 6532 | GenBank | NZ_CP034080 |
| Plasmid name | pPP1-2 | Incompatibility group | - |
| Plasmid size | 54993 bp | Coordinate of oriT [Strand] | 47434..47654 [+] |
| Host baterium | Pseudomonas syringae pv. pisi str. PP1 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |