Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 200419 |
| Name | oriT_Tn6956  |
| Organism | Pseudomonas aeruginosa strain FFUP_PS_CB5 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | MF168946 (81550..82021 [-], 472 nt) |
| oriT length | 472 nt |
| IRs (inverted repeats) | 200..205, 219..224 (CAGCGA..TCGCTG) 135..141, 148..154 (TGCGGCC..GGCCGCA) |
| Location of nic site | _ |
| Conserved sequence flanking the nic site |
_ |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 472 nt
>oriT_Tn6956
GGGAACTGCTGGACCAACTCGGCGTAGCACTCCAGCGGAGCGCGATAGAGGATGGCGAACTGCTTGCGCGACAGCGATGTGCGCTGCCAGATGTGTTCCAGCAGCTTTTGCCGGCGCGGTATCGCCAGTAGGGATGCGGCCGACTCGGGCCGCAGCAGCCCTTTCGGAAGATCAGTGGCTGGCGTTGGCGACGGAGCGGCAGCGACCGAGGCCCGTTTTCGCTGGAACAGGGAGAGCATGAGGGTGTCCTGATGGCGGGCCGACCGGGAGGCCTTTTTGCTTTTTCGAGGTAGGGCCTTTCCCCTTGCACTCCATTCCCTTCCCCTTTCGGCCTTTTGGCCCTTAACAGCCTTTGGGTATAGGGCGCCAGGCGTTGATCGTCCACCACCAATGCGGGTTGCAGCGGGGCCGGATTGATGCGGGAAGGCGGGCTGTTCCCAGCCTACGATGGGCCGATTCTTGGACTCGGGAG
GGGAACTGCTGGACCAACTCGGCGTAGCACTCCAGCGGAGCGCGATAGAGGATGGCGAACTGCTTGCGCGACAGCGATGTGCGCTGCCAGATGTGTTCCAGCAGCTTTTGCCGGCGCGGTATCGCCAGTAGGGATGCGGCCGACTCGGGCCGCAGCAGCCCTTTCGGAAGATCAGTGGCTGGCGTTGGCGACGGAGCGGCAGCGACCGAGGCCCGTTTTCGCTGGAACAGGGAGAGCATGAGGGTGTCCTGATGGCGGGCCGACCGGGAGGCCTTTTTGCTTTTTCGAGGTAGGGCCTTTCCCCTTGCACTCCATTCCCTTCCCCTTTCGGCCTTTTGGCCCTTAACAGCCTTTGGGTATAGGGCGCCAGGCGTTGATCGTCCACCACCAATGCGGGTTGCAGCGGGGCCGGATTGATGCGGGAAGGCGGGCTGTTCCCAGCCTACGATGGGCCGATTCTTGGACTCGGGAG
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 14447 | GenBank | ATN45534 |
| Name | TraI_2_-_Tn6956 |
UniProt ID | _ |
| Length | 620 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 620 a.a. Molecular weight: 67923.42 Da Isoelectric Point: 7.1518
>ATN45534.1 relaxase [Pseudomonas aeruginosa]
MLSLFQRKRASVAAAPSPTPATDLPKGLLRPESAASLLAIPRRQKLLEHIWQRTSLSRKQFAILYRAPLE
CYAELVQQFPASEAHHHAYPGGMLDHGLEIVAYSLKLRQSHLLPIGANPEDQAAQSEAWTAAVAYAALLH
DIGKIAVDLHVELADGSTWHPWHGPLQQPYRFRYRDDREYRLHSAATGLLHHQLLDRQILDWLSGYPALW
GPLLYVLAGQYEHAGVLGELVVQADRASVALELGGDPARAMVAPKHALQRKLLDGLRYLLKEELKLNQPE
ASDGWLTEDGLWLVSKTVSDKLRAHLLSQGIDGIPANNTAVFNVLQDHGMLKPTPDGKAVWRATVISTTG
WSHSFTLLRLAPALIWESGERPAPFAGTVAIDATLAENDASAPATPPAVVMKPAQEDQGPRPWEGGSAAA
LAPPPTAHQALPDALEDMLTMVGMGDSSGTQQDAEVVSSMTPATRPEASMPAMVTVSPTSMPTAATSPST
ARPSGEHFMTWLQQGIASRRLIINDAKALVHTVSDTAYLVSPGVFQRYAQEHPQVGAFAKQENQQDWRWV
QKRFERLQLHRKQASGLNIWTCEVTGPRKSRKLHGYLLLQPQSVFGDVPPNNPYLAVLPT
MLSLFQRKRASVAAAPSPTPATDLPKGLLRPESAASLLAIPRRQKLLEHIWQRTSLSRKQFAILYRAPLE
CYAELVQQFPASEAHHHAYPGGMLDHGLEIVAYSLKLRQSHLLPIGANPEDQAAQSEAWTAAVAYAALLH
DIGKIAVDLHVELADGSTWHPWHGPLQQPYRFRYRDDREYRLHSAATGLLHHQLLDRQILDWLSGYPALW
GPLLYVLAGQYEHAGVLGELVVQADRASVALELGGDPARAMVAPKHALQRKLLDGLRYLLKEELKLNQPE
ASDGWLTEDGLWLVSKTVSDKLRAHLLSQGIDGIPANNTAVFNVLQDHGMLKPTPDGKAVWRATVISTTG
WSHSFTLLRLAPALIWESGERPAPFAGTVAIDATLAENDASAPATPPAVVMKPAQEDQGPRPWEGGSAAA
LAPPPTAHQALPDALEDMLTMVGMGDSSGTQQDAEVVSSMTPATRPEASMPAMVTVSPTSMPTAATSPST
ARPSGEHFMTWLQQGIASRRLIINDAKALVHTVSDTAYLVSPGVFQRYAQEHPQVGAFAKQENQQDWRWV
QKRFERLQLHRKQASGLNIWTCEVTGPRKSRKLHGYLLLQPQSVFGDVPPNNPYLAVLPT
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4CP
| ID | 16986 | GenBank | ATN45528 |
| Name | t4cp2_-_Tn6956 |
UniProt ID | _ |
| Length | 728 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 728 a.a. Molecular weight: 80922.65 Da Isoelectric Point: 7.3167
>ATN45528.1 PFGI-1 class conjugative coupling factor [Pseudomonas aeruginosa]
MSGKQPVEVLLRPAVEFYTVAACAGAAFLSLVAPWSLALSPAMGVGSALAFCAYGAIRYRDARVILRYRR
NIRRLPRYVMTSKDVPVSQQRLFVGRGFLWEQKHTHRLMQTYRPEFRRYVELTPAYRLARRLEERLEFAP
FPLSRLPALTGWDVSFNPVRPLPPVGGLPRLHGIEPDEVDVSLPLGERVGHSLVLGTTRVGKTRLAELFV
TQDIRRKNADGEHEVVIVIDPKGDADLLKRVYVEAKRAGREGEFYVFHLGWPDISARYNAVGRFGRISEV
ATRVAGQLSGEGNSAAFREFAWRFVNIIARALVELGQRPDYMLIQRHVINIDALFIEYAQHYFAKTEPKA
WEVIVQIEAKLNEKNIPRNMIGREKRVVALEQYLSQARNYDPVLDGLRSAVRYDKTYFDKIVASLLPLLE
KLTSGKISQLLAPNYSDLADPRPIFDWMQVIRKRAVVYVGLDALSDAEVAAAVGNSMFSDLVSVAGHIYK
HGIDDGLPGASAGTRVPINVHADEFNELMGDEFVPLINKGGGAGLQVTAYTQTLSDIEARIGNRAKAGQV
IGNFNNLFMLRVRETATAELLTRQLPKVEVYTTTIVSGATDSSDIRGATDFTSNTQDRISMSSVPMIEPS
HVVALPKGQCFALLQGGQLWKVRMPLPAPDPDEVMPQDLQQLAGYMRQSYSEATQWWEFTSSPVLQDTAL
PDDLLDEVATADAPASGTGDMARDEAAP
MSGKQPVEVLLRPAVEFYTVAACAGAAFLSLVAPWSLALSPAMGVGSALAFCAYGAIRYRDARVILRYRR
NIRRLPRYVMTSKDVPVSQQRLFVGRGFLWEQKHTHRLMQTYRPEFRRYVELTPAYRLARRLEERLEFAP
FPLSRLPALTGWDVSFNPVRPLPPVGGLPRLHGIEPDEVDVSLPLGERVGHSLVLGTTRVGKTRLAELFV
TQDIRRKNADGEHEVVIVIDPKGDADLLKRVYVEAKRAGREGEFYVFHLGWPDISARYNAVGRFGRISEV
ATRVAGQLSGEGNSAAFREFAWRFVNIIARALVELGQRPDYMLIQRHVINIDALFIEYAQHYFAKTEPKA
WEVIVQIEAKLNEKNIPRNMIGREKRVVALEQYLSQARNYDPVLDGLRSAVRYDKTYFDKIVASLLPLLE
KLTSGKISQLLAPNYSDLADPRPIFDWMQVIRKRAVVYVGLDALSDAEVAAAVGNSMFSDLVSVAGHIYK
HGIDDGLPGASAGTRVPINVHADEFNELMGDEFVPLINKGGGAGLQVTAYTQTLSDIEARIGNRAKAGQV
IGNFNNLFMLRVRETATAELLTRQLPKVEVYTTTIVSGATDSSDIRGATDFTSNTQDRISMSSVPMIEPS
HVVALPKGQCFALLQGGQLWKVRMPLPAPDPDEVMPQDLQQLAGYMRQSYSEATQWWEFTSSPVLQDTAL
PDDLLDEVATADAPASGTGDMARDEAAP
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 58723..80299
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| Locus_66 | 53824..54474 | + | 651 | ATN45580 | hypothetical protein | - |
| Locus_67 | 54539..55660 | + | 1122 | ATN45548 | hypothetical protein | - |
| Locus_68 | 55761..56072 | + | 312 | ATN45622 | hypothetical protein | - |
| Locus_69 | 56210..58489 | + | 2280 | ATN45527 | DEAD/DEAH box helicase | - |
| Locus_70 | 58723..59301 | + | 579 | ATN45644 | Conj_PilL superfamily protein | tfc2 |
| Locus_71 | 59298..59939 | + | 642 | ATN45581 | hypothetical protein | - |
| Locus_72 | 59954..60691 | + | 738 | ATN45573 | hypothetical protein | tfc3 |
| Locus_73 | 60691..61278 | + | 588 | ATN45585 | lytic transglycosylase | virB1 |
| Locus_74 | 61275..61823 | + | 549 | ATN45590 | hypothetical protein | tfc5 |
| Locus_75 | 61828..64014 | + | 2187 | ATN45528 | PFGI-1 class conjugative coupling factor | - |
| Locus_76 | 64011..64760 | + | 750 | ATN45571 | membrane protein | tfc7 |
| Locus_77 | 64761..66131 | - | 1371 | ATN45542 | hypothetical protein | - |
| Locus_78 | 66293..66673 | + | 381 | ATN45609 | hypothetical protein | tfc8 |
| Locus_79 | 66670..66903 | + | 234 | ATN45633 | hypothetical protein | tfc9 |
| Locus_80 | 66920..67279 | + | 360 | ATN45611 | membrane protein | tfc10 |
| Locus_81 | 67292..67702 | + | 411 | ATN45606 | conjugative transfer region protein | tfc11 |
| Locus_82 | 67699..68388 | + | 690 | ATN45579 | hypothetical protein | tfc12 |
| Locus_83 | 68385..69317 | + | 933 | ATN45554 | hypothetical protein | tfc13 |
| Locus_84 | 69307..70725 | + | 1419 | ATN45540 | hypothetical protein | tfc14 |
| Locus_85 | 70706..71146 | + | 441 | ATN45601 | conjugal transfer protein | tfc15 |
| Locus_86 | 71146..74016 | + | 2871 | ATN45522 | conjugative transfer ATPase | virb4 |
| Locus_87 | 74059..74784 | + | 726 | ATN45575 | DSBA oxidoreductase | - |
| Locus_88 | 74971..75465 | + | 495 | ATN45595 | DNA repair protein | - |
| Locus_89 | 75609..76055 | + | 447 | ATN45599 | hypothetical protein | tfc24 |
| Locus_90 | 76052..76999 | + | 948 | ATN45553 | TraU protein | tfc23 |
| Locus_91 | 77010..78404 | + | 1395 | ATN45541 | hypothetical protein | tfc22 |
| Locus_92 | 78401..78760 | + | 360 | ATN45612 | hypothetical protein | tfc18 |
| Locus_93 | 78776..80299 | + | 1524 | ATN45539 | conjugal transfer protein | tfc19 |
| Locus_94 | 80306..80668 | - | 363 | ATN45610 | hypothetical protein | - |
| Locus_95 | 80696..81154 | - | 459 | ATN45597 | toxin | - |
| Locus_96 | 81154..81471 | - | 318 | ATN45621 | AbrB family transcriptional regulator | - |
| Locus_97 | 81783..83645 | + | 1863 | ATN45534 | relaxase | - |
| Locus_98 | 83656..84237 | - | 582 | ATN45586 | hypothetical protein | - |
Host bacterium
| ID | 374 | Element type | ICE (Integrative and conjugative element) |
| Element name | Tn6956 | GenBank | MF168946 |
| Element size | 123131 bp | Coordinate of oriT [Strand] | 81550..82021 [-] |
| Host bacterium | Pseudomonas aeruginosa strain FFUP_PS_CB5 | Coordinate of element | 1..123131 |
Cargo genes
| Drug resistance gene | blaVIM-2, qacE, sul1 |
| Virulence gene | - |
| Metal resistance gene | merE, merD, merA, merP, merT, merR |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |