Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 106735 |
| Name | oriT_SCB0563|unnamed1  |
| Organism | Lacticaseibacillus paracasei strain SCB0563 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP094662 (3252..3289 [-], 38 nt) |
| oriT length | 38 nt |
| IRs (inverted repeats) | 1..7, 19..25 (ACACAAC..GTTGTGT) |
| Location of nic site | _ |
| Conserved sequence flanking the nic site |
_ |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 38 nt
>oriT_SCB0563|unnamed1
ACACAACCAACTTTAGTTGTTGTGTGTAAGTGCGCATT
ACACAACCAACTTTAGTTGTTGTGTGTAAGTGCGCATT
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 4447 | GenBank | WP_043925530 |
| Name | mobQ_MRE03_RS13600_SCB0563|unnamed1 |
UniProt ID | _ |
| Length | 687 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 687 a.a. Molecular weight: 80720.36 Da Isoelectric Point: 9.6432
>WP_043925530.1 MobQ family relaxase [Lacticaseibacillus paracasei]
MAIFHMSFSNISAGKGRSAIASAAYRSGKKLFDKKEGRSYFYARSVMPESFILTPKNAPEWASDREQLWN
EVERKDRRANSRYAKEFNVALPVELSEDEQKELLTKYVQENFVDEGMVADVAIHRDHPDNPHAHVMLTNR
PFNPDGTWGLKSKRENILDENGNKTYTGNSRFPRSRKVWLVDWDKKEKINQWRHNWAVSVNQVLEQKNIP
DRISEKSFIEQGIDDTPMQHEGINSKRYERKEFNQQVKNYRKAKASYKNNQEKVINRGHLDSLSRHFSFN
EKRVVKELSHELKTYISLESLDDKRRMLFNWKNSTLIKHAVGEDVTKQLLTINQQESSLKKADELLNKVV
DRTTKKLYPELNFEQTTQAERRELIKETDSEQTIFKGSELNERLMNIRDDLLTQQLLTFTKRPYVGWKLL
MQQEKEVKIELKYTLMIHDDNLESLEHVDQGLLEKYSPTEQQKITRAVKDLRAIMAVKQVIKTQYHEVLK
RAFPKGDLNGLPLIKQEQAYTAVMYYDPVLKPCQAETIAQWQENPPRVFNTQEHLQGLAYLSGQLSLDQL
ENHHLQRVLKHDGTRQLFLGECKVDPTIKNSQIEKIQKQLKGQQAKDDQYRKANIGHYQPLNYRPVSPSY
YLKTAFSNAIMTALYAHDEDYERQKQARSLKETEWEMTKKQRQHQTRNRHEDGGMHL
MAIFHMSFSNISAGKGRSAIASAAYRSGKKLFDKKEGRSYFYARSVMPESFILTPKNAPEWASDREQLWN
EVERKDRRANSRYAKEFNVALPVELSEDEQKELLTKYVQENFVDEGMVADVAIHRDHPDNPHAHVMLTNR
PFNPDGTWGLKSKRENILDENGNKTYTGNSRFPRSRKVWLVDWDKKEKINQWRHNWAVSVNQVLEQKNIP
DRISEKSFIEQGIDDTPMQHEGINSKRYERKEFNQQVKNYRKAKASYKNNQEKVINRGHLDSLSRHFSFN
EKRVVKELSHELKTYISLESLDDKRRMLFNWKNSTLIKHAVGEDVTKQLLTINQQESSLKKADELLNKVV
DRTTKKLYPELNFEQTTQAERRELIKETDSEQTIFKGSELNERLMNIRDDLLTQQLLTFTKRPYVGWKLL
MQQEKEVKIELKYTLMIHDDNLESLEHVDQGLLEKYSPTEQQKITRAVKDLRAIMAVKQVIKTQYHEVLK
RAFPKGDLNGLPLIKQEQAYTAVMYYDPVLKPCQAETIAQWQENPPRVFNTQEHLQGLAYLSGQLSLDQL
ENHHLQRVLKHDGTRQLFLGECKVDPTIKNSQIEKIQKQLKGQQAKDDQYRKANIGHYQPLNYRPVSPSY
YLKTAFSNAIMTALYAHDEDYERQKQARSLKETEWEMTKKQRQHQTRNRHEDGGMHL
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4CP
| ID | 4483 | GenBank | WP_012552819 |
| Name | t4cp2_MRE03_RS13660_SCB0563|unnamed1 |
UniProt ID | _ |
| Length | 514 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 514 a.a. Molecular weight: 57737.01 Da Isoelectric Point: 5.1180
>WP_012552819.1 VirD4-like conjugal transfer protein, CD1115 family [Lacticaseibacillus paracasei]
MNGTILGIVDKQIVYQNNSTKPNRNIFVVGGPGSYKTQSVVITNLFNETENSIVVTDPKGELYEKAAGIK
LAQGYQVHVVNFANMAHSDRYNPFDYIQRDIQAETVATKIVQSENAEGKKDVWFSTQRQLLKALILFVMN
HRSPEQRNLAGVTQVLQENDVEAEEKGADSPLDTLFLELTMTDPARRAYELGFKKAKGEMKASIIESLLA
TISKFVDKEVADFTSFSDFDLKEIGKAKVVLYVIIPVMDNTYESFINLFFSQLFDELYKLAADHHAKLPH
QVDFILDEFVNLGKFPKYEEFLATCRGYGIGVTTICQTLTQLQALYGKEKAESILGNHAVKICLNAANDV
TAKYFSDLLGKSTVKVETGSESTSHSKEESHSKSDSYSYTSRSLMTPDEIMRMPEDQSLLIFSNARPVKA
TKAFQFKLFPGADHLVNLSQNEYQGQPEASQETNFHQRVAKWKAKLKETAQKKAANKMSQTEEEQQQDSL
DSDLERVSNKDSQTEEPDDDNLLG
MNGTILGIVDKQIVYQNNSTKPNRNIFVVGGPGSYKTQSVVITNLFNETENSIVVTDPKGELYEKAAGIK
LAQGYQVHVVNFANMAHSDRYNPFDYIQRDIQAETVATKIVQSENAEGKKDVWFSTQRQLLKALILFVMN
HRSPEQRNLAGVTQVLQENDVEAEEKGADSPLDTLFLELTMTDPARRAYELGFKKAKGEMKASIIESLLA
TISKFVDKEVADFTSFSDFDLKEIGKAKVVLYVIIPVMDNTYESFINLFFSQLFDELYKLAADHHAKLPH
QVDFILDEFVNLGKFPKYEEFLATCRGYGIGVTTICQTLTQLQALYGKEKAESILGNHAVKICLNAANDV
TAKYFSDLLGKSTVKVETGSESTSHSKEESHSKSDSYSYTSRSLMTPDEIMRMPEDQSLLIFSNARPVKA
TKAFQFKLFPGADHLVNLSQNEYQGQPEASQETNFHQRVAKWKAKLKETAQKKAANKMSQTEEEQQQDSL
DSDLERVSNKDSQTEEPDDDNLLG
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 6841..16923
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| MRE03_RS13585 (MRE03_13585) | 1922..2602 | + | 681 | WP_012552805 | zeta toxin family protein | - |
| MRE03_RS13590 (MRE03_13590) | 2592..2870 | - | 279 | WP_012552806 | hypothetical protein | - |
| MRE03_RS13595 (MRE03_13595) | 2893..3120 | - | 228 | WP_012552807 | hypothetical protein | - |
| MRE03_RS13600 (MRE03_13600) | 3374..5437 | + | 2064 | WP_043925530 | MobQ family relaxase | - |
| MRE03_RS13605 (MRE03_13605) | 5521..5832 | + | 312 | WP_003712158 | hypothetical protein | - |
| MRE03_RS13610 (MRE03_13610) | 5869..6483 | + | 615 | WP_012552809 | hypothetical protein | - |
| MRE03_RS13615 (MRE03_13615) | 6485..6820 | + | 336 | WP_012552810 | CagC family type IV secretion system protein | - |
| MRE03_RS13620 (MRE03_13620) | 6841..7203 | + | 363 | WP_003590770 | conjugal transfer protein | trsC |
| MRE03_RS13625 (MRE03_13625) | 7172..7831 | + | 660 | WP_012552811 | TrsD/TraD family conjugative transfer protein | trsD |
| MRE03_RS13630 (MRE03_13630) | 7843..9861 | + | 2019 | WP_012552812 | DUF87 domain-containing protein | virb4 |
| MRE03_RS13635 (MRE03_13635) | 9854..11272 | + | 1419 | WP_012552813 | conjugal transfer protein | trsF |
| MRE03_RS13640 (MRE03_13640) | 11273..12430 | + | 1158 | WP_012552814 | phage tail tip lysozyme | prgK |
| MRE03_RS13645 (MRE03_13645) | 12444..13061 | + | 618 | WP_012552815 | hypothetical protein | - |
| MRE03_RS13650 (MRE03_13650) | 13048..13416 | + | 369 | WP_012552816 | thioredoxin family protein | - |
| MRE03_RS13655 (MRE03_13655) | 13417..13887 | + | 471 | WP_012552817 | hypothetical protein | trsJ |
| MRE03_RS13660 (MRE03_13660) | 14117..15661 | + | 1545 | WP_012552819 | VirD4-like conjugal transfer protein, CD1115 family | - |
| MRE03_RS13665 (MRE03_13665) | 15676..16065 | + | 390 | WP_003712166 | hypothetical protein | - |
| MRE03_RS13670 (MRE03_13670) | 16084..16923 | + | 840 | WP_012552820 | conjugal transfer protein TrbL family protein | trsL |
| MRE03_RS13675 (MRE03_13675) | 16938..17348 | + | 411 | WP_012552821 | hypothetical protein | - |
| MRE03_RS13680 (MRE03_13680) | 17355..19490 | + | 2136 | WP_243810228 | type IA DNA topoisomerase | - |
| MRE03_RS13685 (MRE03_13685) | 19613..19828 | + | 216 | WP_012552823 | hypothetical protein | - |
| MRE03_RS13690 (MRE03_13690) | 19832..20956 | + | 1125 | WP_012552824 | hypothetical protein | - |
| MRE03_RS13695 (MRE03_13695) | 21110..21199 | - | 90 | WP_021353390 | putative holin-like toxin | - |
Host bacterium
| ID | 7172 | GenBank | NZ_CP094662 |
| Plasmid name | SCB0563|unnamed1 | Incompatibility group | - |
| Plasmid size | 36487 bp | Coordinate of oriT [Strand] | 3252..3289 [-] |
| Host baterium | Lacticaseibacillus paracasei strain SCB0563 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | AcrIIA21 |