Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 104629 |
| Name | oriT_pLPN-3  |
| Organism | Lacticaseibacillus paracasei strain NSMJ15 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP049327 (2367..2387 [-], 21 nt) |
| oriT length | 21 nt |
| IRs (inverted repeats) | _ |
| Location of nic site | _ |
| Conserved sequence flanking the nic site |
_ |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 21 nt
>oriT_pLPN-3
AGTGGGGTGTAAGTGCGCATT
AGTGGGGTGTAAGTGCGCATT
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 3328 | GenBank | WP_202960494 |
| Name | mobQ_G5C68_RS14220_pLPN-3 |
UniProt ID | _ |
| Length | 687 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 687 a.a. Molecular weight: 80448.99 Da Isoelectric Point: 9.4092
>WP_202960494.1 MobQ family relaxase [Lacticaseibacillus paracasei]
MAIFHMSFSNISAGKGRSAIASAAYRSGEKLFDDQEGRHYFYARSVMPESFILTPKNAPAWASDREKLWN
EVERKDRRSNSRYAKEFNVALPVELSEDEQKELLTKYVQENFVDEGMVADVAIHRDHQDNPHAHVMLTNR
PFNPDGTWGIKSKKQYILDENGNKTYTGTSKYPKSRKILMVDWDKKEKITEWRHNWAVSVNQALEQKNIP
DRISEKSFVEQGIADTPMQHEGINSKRHERKEFNQQVKNYRKSKAGYKNMQEKVVNRGHLDSLSKHFSFN
EKKVVKELSHELKTYISLESLDDKRRMLFNWKNSTLIKHAVGEDVTKQLLTINQQESSLKKADELLNKVV
DRTTKKLYPELDFEQTTAAERRELIKETNSEQTIFKGSELNERLMNIRDDLLARQLLTFTKRPYTSWQLL
MQQEKEVKIELKYTLMIHDDSLESLEHVDQGLLEKYSPTEQQKITRAVKDLRTIMAVKQVIQTQYQEVLR
RAFPNGNFNELPMIKQEQAYKAVMYYDPVLKPCQAETIEQWQASPPQVFSPQEHQQGLAYLSGQLSLDQL
ENHHLQRVLKHDGTKQLFFGECKADPTIKNSQIEKIQKQLKGQQAKDDQYRKVNIGHYQPLNYKPVSPSY
YLKTAFSDAIMAALYARDEDYQRQRQAQGLKEAEWEMTKKQRQHQTRNRHEDGGMHL
MAIFHMSFSNISAGKGRSAIASAAYRSGEKLFDDQEGRHYFYARSVMPESFILTPKNAPAWASDREKLWN
EVERKDRRSNSRYAKEFNVALPVELSEDEQKELLTKYVQENFVDEGMVADVAIHRDHQDNPHAHVMLTNR
PFNPDGTWGIKSKKQYILDENGNKTYTGTSKYPKSRKILMVDWDKKEKITEWRHNWAVSVNQALEQKNIP
DRISEKSFVEQGIADTPMQHEGINSKRHERKEFNQQVKNYRKSKAGYKNMQEKVVNRGHLDSLSKHFSFN
EKKVVKELSHELKTYISLESLDDKRRMLFNWKNSTLIKHAVGEDVTKQLLTINQQESSLKKADELLNKVV
DRTTKKLYPELDFEQTTAAERRELIKETNSEQTIFKGSELNERLMNIRDDLLARQLLTFTKRPYTSWQLL
MQQEKEVKIELKYTLMIHDDSLESLEHVDQGLLEKYSPTEQQKITRAVKDLRTIMAVKQVIQTQYQEVLR
RAFPNGNFNELPMIKQEQAYKAVMYYDPVLKPCQAETIEQWQASPPQVFSPQEHQQGLAYLSGQLSLDQL
ENHHLQRVLKHDGTKQLFFGECKADPTIKNSQIEKIQKQLKGQQAKDDQYRKVNIGHYQPLNYKPVSPSY
YLKTAFSDAIMAALYARDEDYQRQRQAQGLKEAEWEMTKKQRQHQTRNRHEDGGMHL
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4CP
| ID | 3268 | GenBank | WP_202960502 |
| Name | t4cp2_G5C68_RS14280_pLPN-3 |
UniProt ID | _ |
| Length | 516 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 516 a.a. Molecular weight: 58047.27 Da Isoelectric Point: 4.8290
>WP_202960502.1 VirD4-like conjugal transfer protein, CD1115 family [Lacticaseibacillus paracasei]
MNGTILGIVDKQIVYQNNSTKPNRNIFVVGGPGSYKTQSVVITNLFNETENSIVVTDPKGELYEKTAGIK
LAQGYQVHVVNFANMAHSDRYNPFDYIQRDIQAETVATKIVQSENAEGKKDVWFSTQRQLLKALILFVMN
HRAPDQRNLAGVTQVLQENDVEAEEKGADSPLDILFLDLTMTDPARRAYELGFKKAKGEMKASIIESLLA
TISKFVDKEVADFTSFSDFDLKEIGNDKVVLYVIIPVMDNTYESFINLFFSQLFDELYKLAADNHAKLPH
QVDFILDEFVNLGKFPKYEEFLATCRGYGIGVTTICQTLTQLQALYGKDKAESILGNHAVKICLNAANDV
TAKYFSDLLGKSTVKVETGSESTSHSKEESHSKSDSYSYTSRSLMTPDEIMRMPEEQSLLIFSNTRPVKA
TKAFQFKLFPGADHLVNLSQNDYQGQPEASQETNFKNKVEKWKAKLKETAQKEVANKMSQKEEEQQQDNL
DSDLERVSNKDSQTEAPEEDDNNLLG
MNGTILGIVDKQIVYQNNSTKPNRNIFVVGGPGSYKTQSVVITNLFNETENSIVVTDPKGELYEKTAGIK
LAQGYQVHVVNFANMAHSDRYNPFDYIQRDIQAETVATKIVQSENAEGKKDVWFSTQRQLLKALILFVMN
HRAPDQRNLAGVTQVLQENDVEAEEKGADSPLDILFLDLTMTDPARRAYELGFKKAKGEMKASIIESLLA
TISKFVDKEVADFTSFSDFDLKEIGNDKVVLYVIIPVMDNTYESFINLFFSQLFDELYKLAADNHAKLPH
QVDFILDEFVNLGKFPKYEEFLATCRGYGIGVTTICQTLTQLQALYGKDKAESILGNHAVKICLNAANDV
TAKYFSDLLGKSTVKVETGSESTSHSKEESHSKSDSYSYTSRSLMTPDEIMRMPEEQSLLIFSNTRPVKA
TKAFQFKLFPGADHLVNLSQNDYQGQPEASQETNFKNKVEKWKAKLKETAQKEVANKMSQKEEEQQQDNL
DSDLERVSNKDSQTEAPEEDDNNLLG
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 5954..15801
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| G5C68_RS14200 (G5C68_14420) | 984..1265 | + | 282 | WP_002819873 | type II toxin-antitoxin system RelB/DinJ family antitoxin | - |
| G5C68_RS14700 (G5C68_14425) | 1255..1734 | + | 480 | Protein_4 | hypothetical protein | - |
| G5C68_RS14210 (G5C68_14430) | 1708..1986 | - | 279 | WP_003603789 | hypothetical protein | - |
| G5C68_RS14215 (G5C68_14435) | 2009..2236 | - | 228 | WP_202960493 | hypothetical protein | - |
| G5C68_RS14220 (G5C68_14440) | 2488..4551 | + | 2064 | WP_202960494 | MobQ family relaxase | - |
| G5C68_RS14225 (G5C68_14445) | 4635..4946 | + | 312 | WP_008212308 | hypothetical protein | - |
| G5C68_RS14230 (G5C68_14450) | 4982..5596 | + | 615 | WP_202960495 | hypothetical protein | - |
| G5C68_RS14235 (G5C68_14455) | 5598..5933 | + | 336 | WP_016381868 | CagC family type IV secretion system protein | - |
| G5C68_RS14240 (G5C68_14460) | 5954..6316 | + | 363 | WP_016381867 | hypothetical protein | trsC |
| G5C68_RS14245 (G5C68_14465) | 6285..6944 | + | 660 | WP_016381866 | TrsD/TraD family conjugative transfer protein | trsD |
| G5C68_RS14250 (G5C68_14470) | 6956..8974 | + | 2019 | WP_202960496 | DUF87 domain-containing protein | virb4 |
| G5C68_RS14255 (G5C68_14475) | 8967..10385 | + | 1419 | WP_202960497 | type VII secretion protein EssB/YukC | trsF |
| G5C68_RS14260 (G5C68_14480) | 10386..11540 | + | 1155 | WP_202960498 | phage tail tip lysozyme | prgK |
| G5C68_RS14265 (G5C68_14485) | 11554..12171 | + | 618 | WP_202960499 | hypothetical protein | - |
| G5C68_RS14270 (G5C68_14490) | 12158..12526 | + | 369 | WP_202960500 | thioredoxin | - |
| G5C68_RS14275 (G5C68_14495) | 12527..12997 | + | 471 | WP_202960501 | conjugal transfer protein | trsJ |
| G5C68_RS14280 (G5C68_14500) | 12999..14549 | + | 1551 | WP_202960502 | VirD4-like conjugal transfer protein, CD1115 family | - |
| G5C68_RS14285 (G5C68_14505) | 14564..14938 | + | 375 | WP_096585828 | hypothetical protein | - |
| G5C68_RS14290 (G5C68_14510) | 14962..15801 | + | 840 | WP_172885083 | conjugal transfer protein TrbL family protein | trsL |
| G5C68_RS14295 (G5C68_14515) | 15817..16227 | + | 411 | WP_202960503 | hypothetical protein | - |
| G5C68_RS14300 (G5C68_14520) | 16234..18369 | + | 2136 | WP_202960504 | type IA DNA topoisomerase | - |
| G5C68_RS14305 (G5C68_14525) | 18492..18707 | + | 216 | WP_202960505 | hypothetical protein | - |
| G5C68_RS14310 (G5C68_14530) | 18711..19835 | + | 1125 | WP_202960506 | ArdC-like ssDNA-binding domain-containing protein | - |
| G5C68_RS14315 (G5C68_14535) | 19994..20083 | - | 90 | WP_021353390 | putative holin-like toxin | - |
Host bacterium
| ID | 5068 | GenBank | NZ_CP049327 |
| Plasmid name | pLPN-3 | Incompatibility group | - |
| Plasmid size | 46080 bp | Coordinate of oriT [Strand] | 2367..2387 [-] |
| Host baterium | Lacticaseibacillus paracasei strain NSMJ15 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | AcrIIA21 |