Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 111549 |
| Name | oriT_pS304_2  |
| Organism | Salmonella enterica subsp. enterica serovar Typhimurium strain S304 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP061128 (13731..13783 [-], 53 nt) |
| oriT length | 53 nt |
| IRs (inverted repeats) | _ |
| Location of nic site | _ |
| Conserved sequence flanking the nic site |
_ |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 53 nt
>oriT_pS304_2
CACACGATTGTAACATGACCGGAACGGTCTTGTGTACAATCGGTATCGTGCCT
CACACGATTGTAACATGACCGGAACGGTCTTGTGTACAATCGGTATCGTGCCT
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
T4CP
| ID | 8545 | GenBank | WP_015059539 |
| Name | t4cp2_IBY93_RS25600_pS304_2 |
UniProt ID | _ |
| Length | 652 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 652 a.a. Molecular weight: 73404.02 Da Isoelectric Point: 9.4339
>WP_015059539.1 MULTISPECIES: type IV secretory system conjugative DNA transfer family protein [Enterobacteriaceae]
MNAKKMGGLILFLLLLLVGVLIASNYLGGYTALRYSSVDMSLLKWDTFHSVISTFSGNPQYKKLVFMAWF
GFSVPLIFFAIFMLIVVIGIMPKKVIYGDARLATDMDLSKSGFFPDKKSPYKHPPILIGKMFKGRYKKQF
IYFAGQQFLILYAPTRSGKGVGIVIPNCVNYPGSMVILDIKLENWFLSAGFRQKELGQKCFLFAPAGYAE
TIDQAIKGQIRSHRWNPLDCVSRSDLLRETDLAKIAAILIPASDDPIWSDSARNLFVGLGLYLLDKERFH
LDQKAKGHNAPDVLVSISAILKTSIPDNGKDLAAWMGQEVENRSWISDKTKSFFFEFMSAPDRTRGSIKT
NFSSPLNIFSNPVTAEATNFSDFDIRDIRKKPMSIYLGLTPDALITHEKIVNLFFSLLVNENCRELPEHN
PDLKYQCLILLDEFTSMGKSEVIERAVGFTAGYNLRFMFILQNEGQGQKSDMYGQEGWTTFTENSAVVLY
YPPKSKNALAKKISEEIGVRDMKISKRSISSGGGKGGSSRTRNDDVIERPVLLPEEIVSLRDKKNKARNI
AIREIITSEFSRPFIANKIIWFEEPEFKRRVDIARNNHVDIPNLFTQEVMDEIAKIAEIYLPKAGGKKVM
VAGGNVITNPDLDNHDKTDVSE
MNAKKMGGLILFLLLLLVGVLIASNYLGGYTALRYSSVDMSLLKWDTFHSVISTFSGNPQYKKLVFMAWF
GFSVPLIFFAIFMLIVVIGIMPKKVIYGDARLATDMDLSKSGFFPDKKSPYKHPPILIGKMFKGRYKKQF
IYFAGQQFLILYAPTRSGKGVGIVIPNCVNYPGSMVILDIKLENWFLSAGFRQKELGQKCFLFAPAGYAE
TIDQAIKGQIRSHRWNPLDCVSRSDLLRETDLAKIAAILIPASDDPIWSDSARNLFVGLGLYLLDKERFH
LDQKAKGHNAPDVLVSISAILKTSIPDNGKDLAAWMGQEVENRSWISDKTKSFFFEFMSAPDRTRGSIKT
NFSSPLNIFSNPVTAEATNFSDFDIRDIRKKPMSIYLGLTPDALITHEKIVNLFFSLLVNENCRELPEHN
PDLKYQCLILLDEFTSMGKSEVIERAVGFTAGYNLRFMFILQNEGQGQKSDMYGQEGWTTFTENSAVVLY
YPPKSKNALAKKISEEIGVRDMKISKRSISSGGGKGGSSRTRNDDVIERPVLLPEEIVSLRDKKNKARNI
AIREIITSEFSRPFIANKIIWFEEPEFKRRVDIARNNHVDIPNLFTQEVMDEIAKIAEIYLPKAGGKKVM
VAGGNVITNPDLDNHDKTDVSE
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 32821..55651
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| IBY93_RS25540 (IBY93_25525) | 28043..29167 | - | 1125 | WP_000486716 | site-specific integrase | - |
| IBY93_RS26215 (IBY93_25530) | 30575..30796 | + | 222 | Protein_34 | shufflon system plasmid conjugative transfer pilus tip adhesin PilV | - |
| IBY93_RS25550 (IBY93_25535) | 30793..32169 | - | 1377 | WP_000750519 | shufflon system plasmid conjugative transfer pilus tip adhesin PilV | - |
| IBY93_RS25555 (IBY93_25540) | 32182..32817 | - | 636 | WP_000934977 | A24 family peptidase | - |
| IBY93_RS25560 (IBY93_25545) | 32821..33303 | - | 483 | WP_001258095 | lytic transglycosylase domain-containing protein | virB1 |
| IBY93_RS25565 (IBY93_25550) | 33369..33932 | - | 564 | WP_034169414 | type 4 pilus major pilin | - |
| IBY93_RS25570 (IBY93_25555) | 33982..35091 | - | 1110 | WP_000974903 | type II secretion system F family protein | - |
| IBY93_RS25575 (IBY93_25560) | 35082..36620 | - | 1539 | WP_000466225 | ATPase, T2SS/T4P/T4SS family | virB11 |
| IBY93_RS25580 (IBY93_25565) | 36645..37139 | - | 495 | WP_000912553 | type IV pilus biogenesis protein PilP | - |
| IBY93_RS25585 (IBY93_25570) | 37123..38433 | - | 1311 | WP_001454111 | type 4b pilus protein PilO2 | - |
| IBY93_RS25590 (IBY93_25575) | 38484..40127 | - | 1644 | WP_001035592 | PilN family type IVB pilus formation outer membrane protein | - |
| IBY93_RS25595 (IBY93_25580) | 40120..40656 | - | 537 | WP_001220543 | sigma 54-interacting transcriptional regulator | virb4 |
| IBY93_RS25600 (IBY93_25585) | 40703..42661 | - | 1959 | WP_015059539 | type IV secretory system conjugative DNA transfer family protein | - |
| IBY93_RS25605 (IBY93_25590) | 42677..43732 | - | 1056 | WP_001542006 | P-type DNA transfer ATPase VirB11 | virB11 |
| IBY93_RS25610 (IBY93_25595) | 43751..44890 | - | 1140 | WP_034169415 | TrbI/VirB10 family protein | virB10 |
| IBY93_RS25615 (IBY93_25600) | 44880..45581 | - | 702 | WP_000274524 | TrbG/VirB9 family P-type conjugative transfer protein | virB9 |
| IBY93_RS25620 (IBY93_25605) | 45647..46381 | - | 735 | WP_000432282 | type IV secretion system protein | virB8 |
| IBY93_RS25625 (IBY93_25610) | 46381..46515 | - | 135 | WP_000701233 | hypothetical protein | - |
| IBY93_RS25630 (IBY93_25615) | 46547..48904 | - | 2358 | WP_000548950 | VirB4 family type IV secretion system protein | virb4 |
| IBY93_RS25635 (IBY93_25620) | 48910..49230 | - | 321 | WP_000362080 | VirB3 family type IV secretion system protein | virB3 |
| IBY93_RS26110 | 49301..49591 | - | 291 | WP_000865479 | conjugal transfer protein | - |
| IBY93_RS25645 (IBY93_25630) | 49591..50175 | - | 585 | WP_001177117 | lytic transglycosylase domain-containing protein | virB1 |
| IBY93_RS25650 (IBY93_25635) | 50196..50594 | - | 399 | WP_001153669 | hypothetical protein | - |
| IBY93_RS25655 (IBY93_25640) | 50713..51150 | - | 438 | WP_034169416 | type IV pilus biogenesis protein PilM | - |
| IBY93_RS25660 (IBY93_25645) | 51156..52391 | - | 1236 | WP_034169417 | toxin co-regulated pilus biosynthesis Q family protein | - |
| IBY93_RS25665 (IBY93_25650) | 52394..52693 | - | 300 | WP_000835763 | TrbM/KikA/MpfK family conjugal transfer protein | - |
| IBY93_RS25670 (IBY93_25655) | 52741..53550 | + | 810 | WP_024237698 | DUF5710 domain-containing protein | - |
| IBY93_RS25675 (IBY93_25660) | 53773..53997 | - | 225 | WP_000713562 | EexN family lipoprotein | - |
| IBY93_RS25680 (IBY93_25665) | 54006..54650 | - | 645 | WP_001310442 | type IV secretion system protein | - |
| IBY93_RS25685 (IBY93_25670) | 54656..55651 | - | 996 | WP_001028540 | type IV secretion system protein | virB6 |
| IBY93_RS25690 (IBY93_25675) | 55655..55912 | - | 258 | WP_000739144 | hypothetical protein | - |
| IBY93_RS25695 (IBY93_25680) | 55909..56211 | - | 303 | WP_001360345 | hypothetical protein | - |
| IBY93_RS25700 (IBY93_25685) | 56192..56449 | - | 258 | WP_001542015 | hypothetical protein | - |
| IBY93_RS25705 (IBY93_25690) | 56482..56928 | - | 447 | WP_001243165 | hypothetical protein | - |
| IBY93_RS25710 (IBY93_25695) | 56939..57109 | - | 171 | WP_000550720 | hypothetical protein | - |
| IBY93_RS25715 (IBY93_25700) | 57113..57556 | - | 444 | WP_000964330 | NfeD family protein | - |
| IBY93_RS25720 (IBY93_25705) | 57930..58883 | - | 954 | WP_072089442 | SPFH domain-containing protein | - |
| IBY93_RS25725 (IBY93_25710) | 58910..59086 | - | 177 | WP_000753050 | hypothetical protein | - |
| IBY93_RS25730 (IBY93_25715) | 59079..59294 | - | 216 | WP_001127357 | DUF1187 family protein | - |
| IBY93_RS25735 (IBY93_25720) | 59287..59739 | - | 453 | WP_000101552 | CaiF/GrlA family transcriptional regulator | - |
Host bacterium
| ID | 11984 | GenBank | NZ_CP061128 |
| Plasmid name | pS304_2 | Incompatibility group | IncI2 |
| Plasmid size | 60870 bp | Coordinate of oriT [Strand] | 13731..13783 [-] |
| Host baterium | Salmonella enterica subsp. enterica serovar Typhimurium strain S304 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |