Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 200411 |
| Name | oriT_Tn6587  |
| Organism | Pseudomonas aeruginosa strain DL201330 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | CP054623 (54707..55159 [-], 453 nt) |
| oriT length | 453 nt |
| IRs (inverted repeats) | 375..380, 393..398 (GCATTG..CAATGC) |
| Location of nic site | _ |
| Conserved sequence flanking the nic site |
_ |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 453 nt
>oriT_Tn6587
GAGGCCGGGAAGGCCTGGACCAGCTCGGCATAACGTTCCATCGGCGTGCGGTACAGCGCGGCGAACTGCTTGCGCGAGAGCGAGGTGCGCTGCCAGATGTGTTCCAGCAGCTTCTGCCGGCGCGGTGTCGCCAGCAGCGATGCGGCCGATTCCGGTTGCAGCAGCCCTTTCGGGAGATCGGTGACGGGTGCAGGCGACGGAGCGGCAGCGACCGGAGGCCGTTTCCGCTGGAACAGAGAGAGCATGTGGGTGTCCTGGTGGCGGGCAAGCGGGCGGCCTTTTCGCCTTTTCGGGTAGGGCCTTTCCCCTTGCACCCCATTCCCTTGCCGTTTCGGCCCTTTGGCCTTTAGAAGCCTTTGGATATAGAGCGGTGAGCATTGGTTGTCCACCGTCAATGCGGGTATGGCGGGGCCGGATTGATGCAGGAAGGCTGGCTGTTCCCACCCTACGATG
GAGGCCGGGAAGGCCTGGACCAGCTCGGCATAACGTTCCATCGGCGTGCGGTACAGCGCGGCGAACTGCTTGCGCGAGAGCGAGGTGCGCTGCCAGATGTGTTCCAGCAGCTTCTGCCGGCGCGGTGTCGCCAGCAGCGATGCGGCCGATTCCGGTTGCAGCAGCCCTTTCGGGAGATCGGTGACGGGTGCAGGCGACGGAGCGGCAGCGACCGGAGGCCGTTTCCGCTGGAACAGAGAGAGCATGTGGGTGTCCTGGTGGCGGGCAAGCGGGCGGCCTTTTCGCCTTTTCGGGTAGGGCCTTTCCCCTTGCACCCCATTCCCTTGCCGTTTCGGCCCTTTGGCCTTTAGAAGCCTTTGGATATAGAGCGGTGAGCATTGGTTGTCCACCGTCAATGCGGGTATGGCGGGGCCGGATTGATGCAGGAAGGCTGGCTGTTCCCACCCTACGATG
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 14439 | GenBank | QQD34288 |
| Name | rlx_HUF09_20420_Tn6587 |
UniProt ID | _ |
| Length | 618 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 618 a.a. Molecular weight: 67850.27 Da Isoelectric Point: 6.9301
>QQD34288.1 Relaxase [Pseudomonas aeruginosa]
MLSLFQRKRPPVAAAPSPAPVTDLPKGLLQPESAASLLATPRRQKLLEHIWQRTSLSRKQFAALYRTPME
RYAELVQAFPASEAHHHAYPGGMLDHGLEIVAYSLKLRQSHLLPIGANPEDQAAQAEAWTAAVAYAALLH
DIGKIAVDLHVELADGSIWHPWHGPLCQPYRFRYRDDREYRLHSAATGLLYRQLLDREVLDWLSCYPSLW
APLLYVLAGQYEHAGVLGELVVQADRASVAQELGGDPTRAMAAPKHALQRKLLDGLRYLLKEELKLNQHE
ASDGWLTEDGLWLVSKTVSDKLRAHLLSQGIDGIPANNTAVFNVLQDHGMLQPTPDGKAIWRATVTSSTG
WSHSFTLLRLAPALIWESGERPAPFTGTLTIDTPTAVEDVEAGATLSAKGATSALENPNAPPAEGSGITS
APPPKAQASPDVIADMLAMVGTGNSPTTDQDVETVPDEVPATLPDATQPPLAAAAPSSPAFTSSTTQPSG
EHFMAWLKHGIATRRLIINDAKALVHTVSDTAYLVSPGVFQRYAQEHPQVGKLAKQENLQDWQWVQKRFE
RLQLHRKQPSGLNIWTCEVTGARKSRKLHGYLLIKPEMVFEFTPPNNPYIFSMKFPGL
MLSLFQRKRPPVAAAPSPAPVTDLPKGLLQPESAASLLATPRRQKLLEHIWQRTSLSRKQFAALYRTPME
RYAELVQAFPASEAHHHAYPGGMLDHGLEIVAYSLKLRQSHLLPIGANPEDQAAQAEAWTAAVAYAALLH
DIGKIAVDLHVELADGSIWHPWHGPLCQPYRFRYRDDREYRLHSAATGLLYRQLLDREVLDWLSCYPSLW
APLLYVLAGQYEHAGVLGELVVQADRASVAQELGGDPTRAMAAPKHALQRKLLDGLRYLLKEELKLNQHE
ASDGWLTEDGLWLVSKTVSDKLRAHLLSQGIDGIPANNTAVFNVLQDHGMLQPTPDGKAIWRATVTSSTG
WSHSFTLLRLAPALIWESGERPAPFTGTLTIDTPTAVEDVEAGATLSAKGATSALENPNAPPAEGSGITS
APPPKAQASPDVIADMLAMVGTGNSPTTDQDVETVPDEVPATLPDATQPPLAAAAPSSPAFTSSTTQPSG
EHFMAWLKHGIATRRLIINDAKALVHTVSDTAYLVSPGVFQRYAQEHPQVGKLAKQENLQDWQWVQKRFE
RLQLHRKQPSGLNIWTCEVTGARKSRKLHGYLLIKPEMVFEFTPPNNPYIFSMKFPGL
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4CP
| ID | 16972 | GenBank | QQD34267 |
| Name | cpl_HUF09_20315_Tn6587 |
UniProt ID | _ |
| Length | 727 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 727 a.a. Molecular weight: 80726.47 Da Isoelectric Point: 7.1767
>QQD34267.1 coupling protein [Pseudomonas aeruginosa]
MSGKQPVEVLLRPAVEFYTVAACAGAAFLSLVAPWSLALSPAMGVGSALAFCVYGAIRYRDARVILRYRR
NIRRLPRYVMTSKDVPVSQQRLFVGRGFLWEQKHTHRLMQTYRPEFRRYVEPTPAYRLARRLEERLEFAP
FPLSRLPALTGWDVPFNPVRPLPPVGGLPRLHGIEPDEVDVSLPLGERVGHSLVLGTTRVGKTRLAELFV
TQDIRRKNADGEHEVVIVIDPKGDADLLKRVYVEAKHAGRESEFYVFHLGWPDISARYNAVGRFGRISEV
ATRVAGQLSGEGNSAAFREFAWRFVNIIARALVELGQRPDYMLIQRHVINIDALFIEYAQHYFAKTEPKA
WEVIVQIEAKLNEKNIPRNMIGREKRVVALEQYLSQARNYDPVLDGLRSAVRYDKTYFDKIVASLLPLLE
KLTSGKIAQLLAPNYSDLADPRPIFDWMQVIRKRAVVYVGLDALSDAEVAAAVGNSMFSDLVSVAGHIYK
HGIDDGLPGASAGSRVPINVHADEFNELMGDEFIPLINKGGGAGLQVTAYTQTLSDIEARIGNRAKAGQV
IGNFNNLFMLRVRETATAELLTRQLPKVEVYTTTIVSGATDSSDIRGATDFTSNTQDRISMSSVPMIEPS
HIVGLPKGQCFALLQGGQLWKVRMPLPAPDPDEVMPADLQQLAGHMRQSYSEATQWWEFTSSPVLQDAAL
PDDLLDETAIATPITGTGDTASEEAAP
MSGKQPVEVLLRPAVEFYTVAACAGAAFLSLVAPWSLALSPAMGVGSALAFCVYGAIRYRDARVILRYRR
NIRRLPRYVMTSKDVPVSQQRLFVGRGFLWEQKHTHRLMQTYRPEFRRYVEPTPAYRLARRLEERLEFAP
FPLSRLPALTGWDVPFNPVRPLPPVGGLPRLHGIEPDEVDVSLPLGERVGHSLVLGTTRVGKTRLAELFV
TQDIRRKNADGEHEVVIVIDPKGDADLLKRVYVEAKHAGRESEFYVFHLGWPDISARYNAVGRFGRISEV
ATRVAGQLSGEGNSAAFREFAWRFVNIIARALVELGQRPDYMLIQRHVINIDALFIEYAQHYFAKTEPKA
WEVIVQIEAKLNEKNIPRNMIGREKRVVALEQYLSQARNYDPVLDGLRSAVRYDKTYFDKIVASLLPLLE
KLTSGKIAQLLAPNYSDLADPRPIFDWMQVIRKRAVVYVGLDALSDAEVAAAVGNSMFSDLVSVAGHIYK
HGIDDGLPGASAGSRVPINVHADEFNELMGDEFIPLINKGGGAGLQVTAYTQTLSDIEARIGNRAKAGQV
IGNFNNLFMLRVRETATAELLTRQLPKVEVYTTTIVSGATDSSDIRGATDFTSNTQDRISMSSVPMIEPS
HIVGLPKGQCFALLQGGQLWKVRMPLPAPDPDEVMPADLQQLAGHMRQSYSEATQWWEFTSSPVLQDAAL
PDDLLDETAIATPITGTGDTASEEAAP
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 4316703..4336945
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| HUF09_20270 | 4312628..4314883 | + | 2256 | QQD34258 | Mov34/MPN/PAD-1 family protein | - |
| HUF09_20275 | 4314929..4315999 | + | 1071 | QQD34259 | competence protein ComEC | - |
| HUF09_20280 | 4316039..4316263 | + | 225 | QQD34260 | hypothetical protein | - |
| HUF09_20285 | 4316156..4316536 | - | 381 | QQD34261 | hypothetical protein | - |
| HUF09_20290 | 4316703..4317281 | + | 579 | QQD34262 | integrating conjugative element protein pill, pfgi-1 | tfc2 |
| HUF09_20295 | 4317278..4317919 | + | 642 | QQD34263 | hypothetical protein | - |
| HUF09_20300 | 4317934..4318671 | + | 738 | QQD34264 | TIGR03759 family integrating conjugative element protein | tfc3 |
| HUF09_20305 | 4318653..4319258 | + | 606 | QQD34265 | transglycosylase SLT domain-containing protein | virB1 |
| HUF09_20310 | 4319255..4319803 | + | 549 | QQD34266 | integrating conjugative element protein | tfc5 |
| HUF09_20315 | 4319808..4321991 | + | 2184 | QQD34267 | coupling protein | - |
| HUF09_20320 | 4321988..4322749 | + | 762 | QQD34268 | TIGR03747 family integrating conjugative element membrane protein | tfc7 |
| HUF09_20325 | 4322848..4323231 | + | 384 | QQD34269 | RAQPRD family plasmid | tfc8 |
| HUF09_20330 | 4323228..4323461 | + | 234 | QQD34270 | TIGR03758 family integrating conjugative element protein | tfc9 |
| HUF09_20335 | 4323478..4323837 | + | 360 | QQD34271 | TIGR03745 family integrating conjugative element membrane protein | tfc10 |
| HUF09_20340 | 4323851..4324261 | + | 411 | QQD34272 | TIGR03750 family conjugal transfer protein | tfc11 |
| HUF09_20345 | 4324258..4324950 | + | 693 | QQD34273 | TIGR03746 family integrating conjugative element protein | tfc12 |
| HUF09_20350 | 4324956..4325885 | + | 930 | QQD34274 | TIGR03749 family integrating conjugative element protein | tfc13 |
| HUF09_20355 | 4325875..4327284 | + | 1410 | QQD34275 | TIGR03752 family integrating conjugative element protein | tfc14 |
| HUF09_20360 | 4327265..4327714 | + | 450 | QQD34276 | TIGR03751 family conjugal transfer lipoprotein | tfc15 |
| HUF09_20365 | 4327714..4330623 | + | 2910 | QQD34277 | F-type type IV secretion, ATPase/inner membrane complex component TivF15 | virb4 |
| HUF09_20370 | 4330639..4331403 | + | 765 | QQD34278 | thioredoxin domain-containing protein | - |
| HUF09_20375 | 4331589..4332083 | + | 495 | QQD34279 | DNA repair protein RadC | - |
| HUF09_20380 | 4332228..4332674 | + | 447 | QQD34280 | TIGR03757 family integrating conjugative element protein | tfc24 |
| HUF09_20385 | 4332671..4333618 | + | 948 | QQD34281 | TIGR03756 family integrating conjugative element protein | tfc23 |
| HUF09_20390 | 4333629..4335047 | + | 1419 | QQD34282 | hypothetical protein | tfc22 |
| HUF09_20395 | 4335044..4335415 | + | 372 | QQD34283 | hypothetical protein | tfc18 |
| HUF09_20400 | 4335428..4336945 | + | 1518 | QQD34284 | F-type type IV secretion, mating pair stabilization protein | tfc19 |
| HUF09_20405 | 4336965..4337339 | - | 375 | QQD34285 | DUF3742 family protein | - |
| HUF09_20410 | 4337367..4337825 | - | 459 | QQD34286 | type II toxin-antitoxin system YhaV family toxin | - |
| HUF09_20415 | 4337825..4338142 | - | 318 | QQD34287 | type II toxin-antitoxin system PrlF family antitoxin | - |
| HUF09_20420 | 4338450..4340306 | + | 1857 | QQD34288 | Relaxase | - |
Host bacterium
| ID | 366 | Element type | ICE (Integrative and conjugative element) |
| Element name | Tn6587 | GenBank | CP054623 |
| Element size | 6552683 bp | Coordinate of oriT [Strand] | 54707..55159 [-] |
| Host bacterium | Pseudomonas aeruginosa strain DL201330 | Coordinate of element | 4283536..4404385 |
Cargo genes
| Drug resistance gene | ant(2'')-Ia, aac(6')-IIa, blaCARB-2, qacE, sul1 |
| Virulence gene | - |
| Metal resistance gene | merE, merD, merA, merP, merT, merR |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |