Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 106652 |
| Name | oriT_RHB44-C03|unnamed4  |
| Organism | Escherichia fergusonii strain RHB44-C03 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP099335 (13051..13103 [-], 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_RHB44-C03|unnamed4
CACACGATTGTAACATGACCGGAACGGTCTTGTGTACAATCGGTATCGTGCCT
CACACGATTGTAACATGACCGGAACGGTCTTGTGTACAATCGGTATCGTGCCT
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
T4CP
| ID | 4433 | GenBank | WP_000338976 |
| Name | t4cp2_NFK96_RS23400_RHB44-C03|unnamed4 |
UniProt ID | _ |
| Length | 652 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 652 a.a. Molecular weight: 73346.95 Da Isoelectric Point: 9.3476
>WP_000338976.1 MULTISPECIES: type IV secretory system conjugative DNA transfer family protein [Enterobacteriaceae]
MDAKKTGGLILFLLLLLVGVLIASNYLGGYTALRYSSVDMSLLKWDTFHSVISTFSGNPQYKKLVFMAWF
GFSVPLIFFAIFMLIVVIGIMPKKVIYGDARLATDMDLSKSGFFPDKKSPYKHPPILIGKMFKGRYKKQF
IYFAGQQFLILYAPTRSGKGVGIVIPNCVNYPGSMVILDIKLENWFLSAGFRQKELGQKCFLFAPAGYAE
TIDQAIKGQIRSHRWNPLDCVSRSDLLRETDLAKIAAILIPASDDPIWSDSARNLFVGLGLYLLDKERFH
LEQKAKGHNVPDVLVSISAILKTSVPDGGKDLAAWMGQEIENRSWISDKTKSFFFKFMSAPDRTRGSIET
NFSSPLSIFSNPITAEATNFSDFDIRDIRKKPMSIYLGLTPDALITHEKIVNLFFSLLVNENCRELPEHN
PDLKYQCLILLDEFTSMGKSEVIERAVGFTAGYNLRFMFILQNEGQGQKSDMYGQEGWTTFTENSAVVLY
YPPKSKNALAKKISEEIGVRDMKISKRSISSGGGKGGSSRTRNDDVIERPVLLPEEIVSLRDKKNKARNI
AIREIITSEFSRPFIANKIIWFEEPEFKRRVDIARNNHVDIPNLFTQEVMDEIAKIAEIYLPKAGGKKVM
VAGGNVITNPDLDNHDKTDVSE
MDAKKTGGLILFLLLLLVGVLIASNYLGGYTALRYSSVDMSLLKWDTFHSVISTFSGNPQYKKLVFMAWF
GFSVPLIFFAIFMLIVVIGIMPKKVIYGDARLATDMDLSKSGFFPDKKSPYKHPPILIGKMFKGRYKKQF
IYFAGQQFLILYAPTRSGKGVGIVIPNCVNYPGSMVILDIKLENWFLSAGFRQKELGQKCFLFAPAGYAE
TIDQAIKGQIRSHRWNPLDCVSRSDLLRETDLAKIAAILIPASDDPIWSDSARNLFVGLGLYLLDKERFH
LEQKAKGHNVPDVLVSISAILKTSVPDGGKDLAAWMGQEIENRSWISDKTKSFFFKFMSAPDRTRGSIET
NFSSPLSIFSNPITAEATNFSDFDIRDIRKKPMSIYLGLTPDALITHEKIVNLFFSLLVNENCRELPEHN
PDLKYQCLILLDEFTSMGKSEVIERAVGFTAGYNLRFMFILQNEGQGQKSDMYGQEGWTTFTENSAVVLY
YPPKSKNALAKKISEEIGVRDMKISKRSISSGGGKGGSSRTRNDDVIERPVLLPEEIVSLRDKKNKARNI
AIREIITSEFSRPFIANKIIWFEEPEFKRRVDIARNNHVDIPNLFTQEVMDEIAKIAEIYLPKAGGKKVM
VAGGNVITNPDLDNHDKTDVSE
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 32304..54706
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| NFK96_RS23350 (NFK96_23305) | 28695..28868 | - | 174 | Protein_36 | integrase | - |
| NFK96_RS23855 | 29481..29702 | + | 222 | Protein_37 | shufflon system plasmid conjugative transfer pilus tip adhesin PilV | - |
| NFK96_RS23355 (NFK96_23310) | 30366..31652 | - | 1287 | WP_015057162 | shufflon system plasmid conjugative transfer pilus tip adhesin PilV | - |
| NFK96_RS23360 (NFK96_23315) | 31665..32300 | - | 636 | WP_000934979 | A24 family peptidase | - |
| NFK96_RS23365 (NFK96_23320) | 32304..32786 | - | 483 | WP_001258095 | lytic transglycosylase domain-containing protein | virB1 |
| NFK96_RS23370 (NFK96_23325) | 32852..33409 | - | 558 | WP_000095048 | type 4 pilus major pilin | - |
| NFK96_RS23375 (NFK96_23330) | 33454..34563 | - | 1110 | WP_000974903 | type II secretion system F family protein | - |
| NFK96_RS23380 (NFK96_23335) | 34554..36092 | - | 1539 | WP_000466225 | ATPase, T2SS/T4P/T4SS family | virB11 |
| NFK96_RS23385 (NFK96_23340) | 36117..36611 | - | 495 | WP_000912553 | type IV pilus biogenesis protein PilP | - |
| NFK96_RS23390 (NFK96_23345) | 36595..37905 | - | 1311 | WP_001454111 | type 4b pilus protein PilO2 | - |
| NFK96_RS23395 (NFK96_23350) | 37956..39599 | - | 1644 | WP_279284744 | PilN family type IVB pilus formation outer membrane protein | - |
| NFK96_RS23400 (NFK96_23355) | 39650..41608 | - | 1959 | WP_000338976 | type IV secretory system conjugative DNA transfer family protein | - |
| NFK96_RS23405 (NFK96_23360) | 41624..42679 | - | 1056 | WP_279284745 | P-type DNA transfer ATPase VirB11 | virB11 |
| NFK96_RS23410 (NFK96_23365) | 42698..43837 | - | 1140 | WP_000790638 | TrbI/VirB10 family protein | virB10 |
| NFK96_RS23415 (NFK96_23370) | 43827..44528 | - | 702 | WP_341475546 | TrbG/VirB9 family P-type conjugative transfer protein | - |
| NFK96_RS23420 (NFK96_23375) | 44594..45328 | - | 735 | WP_000432283 | type IV secretion system protein | virB8 |
| NFK96_RS23425 (NFK96_23380) | 45328..45462 | - | 135 | WP_095526288 | traF protein | - |
| NFK96_RS23430 (NFK96_23385) | 45494..47851 | - | 2358 | WP_135280266 | VirB4 family type IV secretion system protein | virb4 |
| NFK96_RS23435 (NFK96_23390) | 47857..48177 | - | 321 | WP_000362080 | VirB3 family type IV secretion system protein | virB3 |
| NFK96_RS23440 (NFK96_23395) | 48248..48538 | - | 291 | WP_000865478 | TrbC/VirB2 family protein | virB2 |
| NFK96_RS23445 (NFK96_23400) | 48538..49122 | - | 585 | WP_001177118 | lytic transglycosylase domain-containing protein | virB1 |
| NFK96_RS23450 (NFK96_23405) | 49143..49541 | - | 399 | WP_001153669 | hypothetical protein | - |
| NFK96_RS23455 (NFK96_23410) | 49660..50097 | - | 438 | WP_000539665 | type IV pilus biogenesis protein PilM | - |
| NFK96_RS23460 (NFK96_23415) | 50103..51338 | - | 1236 | WP_000733392 | toxin co-regulated pilus biosynthesis Q family protein | - |
| NFK96_RS23465 (NFK96_23420) | 51341..51628 | - | 288 | WP_001326593 | TrbM/KikA/MpfK family conjugal transfer protein | - |
| NFK96_RS23470 (NFK96_23425) | 51800..52435 | - | 636 | WP_279284747 | hypothetical protein | - |
| NFK96_RS23475 (NFK96_23430) | 52508..52795 | - | 288 | WP_001032611 | EexN family lipoprotein | - |
| NFK96_RS23480 (NFK96_23435) | 52808..53062 | - | 255 | WP_001043555 | EexN family lipoprotein | - |
| NFK96_RS23485 (NFK96_23440) | 53064..53705 | - | 642 | WP_001425343 | type IV secretion system protein | - |
| NFK96_RS23490 (NFK96_23445) | 53711..54706 | - | 996 | WP_001028543 | type IV secretion system protein | virB6 |
| NFK96_RS23495 (NFK96_23450) | 54710..54967 | - | 258 | WP_000739144 | hypothetical protein | - |
| NFK96_RS23500 (NFK96_23455) | 54964..55266 | - | 303 | WP_001360345 | hypothetical protein | - |
| NFK96_RS23505 (NFK96_23460) | 55247..55504 | - | 258 | WP_001542015 | hypothetical protein | - |
| NFK96_RS23510 (NFK96_23465) | 55537..55983 | - | 447 | WP_001243165 | hypothetical protein | - |
| NFK96_RS23515 (NFK96_23470) | 55994..56164 | - | 171 | WP_000550720 | hypothetical protein | - |
| NFK96_RS23520 (NFK96_23475) | 56168..56611 | - | 444 | WP_000964330 | NfeD family protein | - |
| NFK96_RS23525 (NFK96_23480) | 56985..57938 | - | 954 | WP_072089442 | SPFH domain-containing protein | - |
| NFK96_RS23530 (NFK96_23485) | 57965..58141 | - | 177 | WP_000753049 | hypothetical protein | - |
| NFK96_RS23535 (NFK96_23490) | 58134..58349 | - | 216 | WP_001127357 | DUF1187 family protein | - |
| NFK96_RS23540 (NFK96_23495) | 58342..58794 | - | 453 | WP_000101552 | CaiF/GrlA family transcriptional regulator | - |
Host bacterium
| ID | 7089 | GenBank | NZ_CP099335 |
| Plasmid name | RHB44-C03|unnamed4 | Incompatibility group | IncI2 |
| Plasmid size | 59932 bp | Coordinate of oriT [Strand] | 13051..13103 [-] |
| Host baterium | Escherichia fergusonii strain RHB44-C03 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |