Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 200517 |
| Name | oriT_ICE6440  |
| Organism | Pseudomonas aeruginosa tRNA-Gly |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | MF168944 (49819..50290 [-], 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_ICE6440
GGGAACTGCTGGACCAACTCGGCGTAGCACTCCAGCGGAGCGCGATAGAGGATGGCGAACTGCTTGCGCGACAGCGATGTGCGCTGCCAGATGTGTTCCAGCAGCTTTTGCCGGCGCGGTATCGCCAGTAGGGATGCGGCCGACTCGGGCCGCAGCAGCCCTTTCGGAAGATCAGTGGCTGGCGTTGGCGACGGAGCGGCAGCGACCGAGGCCCGTTTTCGCTGGAACAGGGAGAGCATGAGGGTGTCCTGATGGCGGGCCGACCGGGAGGCCTTTTTGCTTTTTCGAGGTAGGGCCTTTCCCCTTGCACTCCATTCCCTTCCCCTTTCGGCCTTTTGGCCCTTAACAGCCTTTGGGTATAGGGCGCCAGGCGTTGATCGTCCACCACCAATGCGGGTTGCAGCGGGGCCGGATTGATGCGGGAAGGCGGGCTGTTCCCAGCCTACGATGGGCCGATTCTTGGACTCGGGAG
GGGAACTGCTGGACCAACTCGGCGTAGCACTCCAGCGGAGCGCGATAGAGGATGGCGAACTGCTTGCGCGACAGCGATGTGCGCTGCCAGATGTGTTCCAGCAGCTTTTGCCGGCGCGGTATCGCCAGTAGGGATGCGGCCGACTCGGGCCGCAGCAGCCCTTTCGGAAGATCAGTGGCTGGCGTTGGCGACGGAGCGGCAGCGACCGAGGCCCGTTTTCGCTGGAACAGGGAGAGCATGAGGGTGTCCTGATGGCGGGCCGACCGGGAGGCCTTTTTGCTTTTTCGAGGTAGGGCCTTTCCCCTTGCACTCCATTCCCTTCCCCTTTCGGCCTTTTGGCCCTTAACAGCCTTTGGGTATAGGGCGCCAGGCGTTGATCGTCCACCACCAATGCGGGTTGCAGCGGGGCCGGATTGATGCGGGAAGGCGGGCTGTTCCCAGCCTACGATGGGCCGATTCTTGGACTCGGGAG
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 14575 | GenBank | ATB17922 |
| Name | TraI_2_-_ICE6440 |
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
>ATB17922.1 Integrating conjugative element 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 | 17192 | GenBank | ATB17917 |
| Name | t4cp2_-_ICE6440 |
UniProt ID | _ |
| Length | 728 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 728 a.a. Molecular weight: 80888.63 Da Isoelectric Point: 7.3167
>ATB17917.1 Conjugative coupling factor TraD, PFGI-1 class [Pseudomonas aeruginosa]
MSGKQPVEVLLRPAVELYTVAACAGAAFLSLVAPWSLALSPAMGVGSALAFCAYGAIRYRDARVILRYRR
NIRRLPRYVMTSKDVPVSQQRLFVGRGFLWEQKHTHRLMQTYRPEFRRYVELTPAYRLARRLEERLEFAP
FPLSRLPALTGWDVSFNPVRPLPPVGGLPRLHGIEPDEVDVSLPLGERVGHSLVLGTTRVGKTRLAELFV
TQDIRRKNADGEHEVVIVIDPKGDADLLKRVYVEAKRAGREGEFYVFHLGWPDISARYNAVGRFGRISEV
ATRVAGQLSGEGNSAAFREFAWRFVNIIARALVELGQRPDYMLIQRHVINIDALFIEYAQHYFAKTEPKA
WEVIVQIEAKLNEKNIPRNMIGREKRVVALEQYLSQARNYDPVLDGLRSAVRYDKTYFDKIVASLLPLLE
KLTSGKISQLLAPNYSDLADPRPIFDWMQVIRKRAVVYVGLDALSDAEVAAAVGNSMFSDLVSVAGHIYK
HGIDDGLPGASAGTRVPINVHADEFNELMGDEFVPLINKGGGAGLQVTAYTQTLSDIEARIGNRAKAGQV
IGNFNNLFMLRVRETATAELLTRQLPKVEVYTTTIVSGATDSSDIRGATDFTSNTQDRISMSSVPMIEPS
HVVALPKGQCFALLQGGQLWKVRMPLPAPDPDEVMPQDLQQLAGYMRQSYSEATQWWEFTSSPVLQDTAL
PDDLLDEVATADAPASGTGDMARDEAAP
MSGKQPVEVLLRPAVELYTVAACAGAAFLSLVAPWSLALSPAMGVGSALAFCAYGAIRYRDARVILRYRR
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: 26992..48568
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| Locus_24 | 22062..23117 | + | 1056 | ATB17932 | DEAD/DEAH box helicase | - |
| Locus_25 | 23713..25431 | + | 1719 | ATB17923 | Group II intron reverse transcriptase/maturase | - |
| Locus_26 | 25598..26758 | + | 1161 | ATB17930 | DEAD/DEAH box helicase | - |
| Locus_27 | 26992..27570 | + | 579 | ATB17988 | Conj_PilL superfamily protein | tfc2 |
| Locus_28 | 27567..28208 | + | 642 | ATB17954 | Hypothetical protein | - |
| Locus_29 | 28223..28960 | + | 738 | ATB17949 | Integrating conjugative element protein | tfc3 |
| Locus_30 | 28960..29547 | + | 588 | ATB17957 | Lytic transglycosylase | virB1 |
| Locus_31 | 29544..30092 | + | 549 | ATB17961 | Integrating conjugative element protein | tfc5 |
| Locus_32 | 30097..32283 | + | 2187 | ATB17917 | Conjugative coupling factor TraD, PFGI-1 class | - |
| Locus_33 | 32280..33029 | + | 750 | ATB17947 | Integrating conjugative element membrane protein | tfc7 |
| Locus_34 | 33030..34400 | - | 1371 | ATB17928 | hypothetical protein | - |
| Locus_35 | 34562..34942 | + | 381 | ATB17974 | Integrative conjugative element protein | tfc8 |
| Locus_36 | 34939..35172 | + | 234 | ATB17985 | integrating conjugative element protein | tfc9 |
| Locus_37 | 35189..35548 | + | 360 | ATB17976 | integrating conjugative element membrane protein | tfc10 |
| Locus_38 | 35561..35971 | + | 411 | ATB17971 | Conjugative transfer region protein | tfc11 |
| Locus_39 | 35968..36657 | + | 690 | ATB17952 | integrating conjugative element protein | tfc12 |
| Locus_40 | 36654..37586 | + | 933 | ATB17936 | Integrating conjugative element protein | tfc13 |
| Locus_41 | 37576..38994 | + | 1419 | ATB17926 | Integrating conjugative element protein | tfc14 |
| Locus_42 | 38975..39415 | + | 441 | ATB17970 | Conjugal transfer protein | tfc15 |
| Locus_43 | 39415..42285 | + | 2871 | ATB17914 | Conjugative transfer ATPase | virb4 |
| Locus_44 | 42328..43053 | + | 726 | ATB17950 | DSBA oxidoreductase | - |
| Locus_45 | 43240..43734 | + | 495 | ATB17964 | DNA repair protein RadC | - |
| Locus_46 | 43878..44324 | + | 447 | ATB17968 | Integrating conjugative element protein | tfc24 |
| Locus_47 | 44321..45268 | + | 948 | ATB17935 | integrating conjugative element protein | tfc23 |
| Locus_48 | 45279..46673 | + | 1395 | ATB17927 | integrating conjugative element protein | tfc22 |
| Locus_49 | 46670..47029 | + | 360 | ATB17977 | Hypothetical protein | tfc18 |
| Locus_50 | 47045..48568 | + | 1524 | ATB17925 | conjugal transfer protein TraG | tfc19 |
| Locus_51 | 48575..48937 | - | 363 | ATB17975 | Hypothetical protein | - |
| Locus_52 | 48965..49423 | - | 459 | ATB17966 | toxin YhaV | - |
| Locus_53 | 49423..49740 | - | 318 | ATB17979 | AbrB family transcriptional regulator | - |
| Locus_54 | 50052..51914 | + | 1863 | ATB17922 | Integrating conjugative element relaxase | - |
| Locus_55 | 51925..52506 | - | 582 | ATB17958 | Hypothetical protein | - |
Host bacterium
| ID | 460 | Element type | ICE (Integrative and conjugative element) |
| Element name | ICE6440 | GenBank | MF168944 |
| Element size | 83413 bp | Coordinate of oriT [Strand] | 49819..50290 [-] |
| Host bacterium | Pseudomonas aeruginosa tRNA-Gly | Coordinate of element | 1..83339 |
Cargo genes
| Drug resistance gene | aac(6')-Il, blaVIM-2, aac(3)-Ia, qacE, sul1 |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |