Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 107839 |
| Name | oriT_pJD053-MCR-59K  |
| Organism | Escherichia fergusonii strain EF21JD053 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP095792 (11931..11983 [-], 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_pJD053-MCR-59K
CACACGATTGTAACATGACCGGAACGGTCTTGTGTACAATCGGTATCGTGCCT
CACACGATTGTAACATGACCGGAACGGTCTTGTGTACAATCGGTATCGTGCCT
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
T4CP
| ID | 5507 | GenBank | WP_015059539 |
| Name | t4cp2_MYB88_RS25330_pJD053-MCR-59K |
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: 30844..54301
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| MYB88_RS25270 (MYB88_25265) | 26333..27457 | - | 1125 | WP_000486716 | site-specific integrase | - |
| MYB88_RS25275 (MYB88_25270) | 27553..27750 | + | 198 | WP_001356717 | hypothetical protein | - |
| MYB88_RS25630 | 28598..28819 | + | 222 | Protein_31 | shufflon system plasmid conjugative transfer pilus tip adhesin PilV | - |
| MYB88_RS25280 (MYB88_25275) | 28816..30192 | - | 1377 | WP_000750519 | shufflon system plasmid conjugative transfer pilus tip adhesin PilV | - |
| MYB88_RS25285 (MYB88_25280) | 30205..30840 | - | 636 | WP_000934977 | A24 family peptidase | - |
| MYB88_RS25290 (MYB88_25285) | 30844..31326 | - | 483 | WP_001258095 | lytic transglycosylase domain-containing protein | virB1 |
| MYB88_RS25295 (MYB88_25290) | 31392..31949 | - | 558 | WP_000095048 | type 4 pilus major pilin | - |
| MYB88_RS25300 (MYB88_25295) | 31994..33103 | - | 1110 | WP_000974903 | type II secretion system F family protein | - |
| MYB88_RS25305 (MYB88_25300) | 33094..34632 | - | 1539 | WP_000466225 | ATPase, T2SS/T4P/T4SS family | virB11 |
| MYB88_RS25310 (MYB88_25305) | 34657..35151 | - | 495 | WP_000912553 | type IV pilus biogenesis protein PilP | - |
| MYB88_RS25315 (MYB88_25310) | 35135..36445 | - | 1311 | WP_001454111 | type 4b pilus protein PilO2 | - |
| MYB88_RS25320 (MYB88_25315) | 36496..38139 | - | 1644 | WP_001035592 | PilN family type IVB pilus formation outer membrane protein | - |
| MYB88_RS25325 (MYB88_25320) | 38132..38668 | - | 537 | WP_001220543 | sigma 54-interacting transcriptional regulator | virb4 |
| MYB88_RS25330 (MYB88_25325) | 38715..40673 | - | 1959 | WP_015059539 | type IV secretory system conjugative DNA transfer family protein | - |
| MYB88_RS25335 (MYB88_25330) | 40689..41744 | - | 1056 | WP_001059977 | P-type DNA transfer ATPase VirB11 | virB11 |
| MYB88_RS25340 (MYB88_25335) | 41763..42902 | - | 1140 | WP_000790640 | TrbI/VirB10 family protein | virB10 |
| MYB88_RS25345 (MYB88_25340) | 42892..43593 | - | 702 | WP_000274524 | TrbG/VirB9 family P-type conjugative transfer protein | - |
| MYB88_RS25350 (MYB88_25345) | 43659..44393 | - | 735 | WP_000432282 | type IV secretion system protein | virB8 |
| MYB88_RS25355 (MYB88_25350) | 44559..46916 | - | 2358 | WP_063078682 | VirB4 family type IV secretion system protein | virb4 |
| MYB88_RS25360 (MYB88_25355) | 46922..47242 | - | 321 | WP_000362080 | VirB3 family type IV secretion system protein | virB3 |
| MYB88_RS25365 (MYB88_25360) | 47313..47603 | - | 291 | WP_000865479 | conjugal transfer protein | - |
| MYB88_RS25370 (MYB88_25365) | 47603..48187 | - | 585 | WP_001177113 | lytic transglycosylase domain-containing protein | virB1 |
| MYB88_RS25375 (MYB88_25370) | 48208..48606 | - | 399 | WP_001153665 | hypothetical protein | - |
| MYB88_RS25380 (MYB88_25375) | 48725..49162 | - | 438 | WP_000539665 | type IV pilus biogenesis protein PilM | - |
| MYB88_RS25385 (MYB88_25380) | 49168..50403 | - | 1236 | WP_015059538 | TcpQ domain-containing protein | - |
| MYB88_RS25390 (MYB88_25385) | 50406..50705 | - | 300 | WP_000835764 | TrbM/KikA/MpfK family conjugal transfer protein | - |
| MYB88_RS25395 (MYB88_25390) | 50773..51054 | - | 282 | WP_000638823 | type II toxin-antitoxin system RelE/ParE family toxin | - |
| MYB88_RS25400 (MYB88_25395) | 51044..51295 | - | 252 | WP_000121741 | hypothetical protein | - |
| MYB88_RS25405 (MYB88_25400) | 51395..52030 | - | 636 | WP_015059536 | hypothetical protein | - |
| MYB88_RS25410 (MYB88_25405) | 52103..52390 | - | 288 | WP_001032611 | EexN family lipoprotein | - |
| MYB88_RS25415 (MYB88_25410) | 52403..52657 | - | 255 | WP_001043555 | EexN family lipoprotein | - |
| MYB88_RS25420 (MYB88_25415) | 52659..53300 | - | 642 | WP_001425343 | type IV secretion system protein | - |
| MYB88_RS25425 (MYB88_25420) | 53306..54301 | - | 996 | WP_001028543 | type IV secretion system protein | virB6 |
| MYB88_RS25430 (MYB88_25425) | 54305..54562 | - | 258 | WP_000739144 | hypothetical protein | - |
| MYB88_RS25435 (MYB88_25430) | 54559..54861 | - | 303 | WP_001360345 | hypothetical protein | - |
| MYB88_RS25440 (MYB88_25435) | 54842..55099 | - | 258 | WP_001542015 | hypothetical protein | - |
| MYB88_RS25445 (MYB88_25440) | 55132..55578 | - | 447 | WP_001243165 | hypothetical protein | - |
| MYB88_RS25450 (MYB88_25445) | 55589..55759 | - | 171 | WP_000550720 | hypothetical protein | - |
| MYB88_RS25455 (MYB88_25450) | 55763..56206 | - | 444 | WP_000964330 | NfeD family protein | - |
| MYB88_RS25460 (MYB88_25455) | 56580..57533 | - | 954 | WP_072089442 | SPFH domain-containing protein | - |
| MYB88_RS25465 (MYB88_25460) | 57560..57736 | - | 177 | WP_000753050 | hypothetical protein | - |
| MYB88_RS25470 (MYB88_25465) | 57729..57944 | - | 216 | WP_001127357 | DUF1187 family protein | - |
| MYB88_RS25475 (MYB88_25470) | 57937..58389 | - | 453 | WP_000101552 | CaiF/GrlA family transcriptional regulator | - |
Host bacterium
| ID | 8274 | GenBank | NZ_CP095792 |
| Plasmid name | pJD053-MCR-59K | Incompatibility group | IncI2 |
| Plasmid size | 59528 bp | Coordinate of oriT [Strand] | 11931..11983 [-] |
| Host baterium | Escherichia fergusonii strain EF21JD053 |
Cargo genes
| Drug resistance gene | mcr-1.1 |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |