Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 116643 |
| Name | oriT_pQL2  |
| Organism | Klebsiella variicola strain SY1 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP106965 (128412..128460 [+], 49 nt) |
| oriT length | 49 nt |
| IRs (inverted repeats) | 6..13, 16..23 (GCAAAATT..AATTTTGC) |
| Location of nic site | 32..33 |
| Conserved sequence flanking the nic site |
TGTGTGGTGA |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 49 nt
>oriT_pQL2
AATCTGCAAAATTTTAATTTTGCGTAGTGTGTGGTGATTTTGTGGTGAG
AATCTGCAAAATTTTAATTTTGCGTAGTGTGTGGTGATTTTGTGGTGAG
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 10608 | GenBank | WP_263528559 |
| Name | traI_OCU08_RS27110_pQL2 |
UniProt ID | _ |
| Length | 1752 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 1752 a.a. Molecular weight: 190328.00 Da Isoelectric Point: 6.0114
>WP_263528559.1 conjugative transfer relaxase/helicase TraI [Klebsiella variicola]
MLSFSQVKSAGSAGNYYTDKDNYYVIGSMDERWQGKGAEALGLEGKVDKQVFTELLQGKLPDGSDLTRIQ
DGVNKHRPGYDLTFSAPKSVSMLAMLGGDKRLIDAHNRAVTVALNQVESLASTRVKRDGVSETVLTGNLI
IARFNHDTSRAQDPQIHTHSVVINATQNGDKWQTLASDTVGKTGFSENILANRIALGKIYQNSLRADVES
MGYKTVDAGKNGMWEMEGVPVESFSTRSQELREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMNT
LKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLEA
KDGVFELARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVPF
SDAVSVLAQDRPVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVTG
KSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTYR
WQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKDT
TITALTPVWLDSKSRGVRDYYREGMVMERWDPETRTHDRFVIDRVTASSNMLTLKDREGDRLDLKVSAVD
SQWTLFRAETLPVAEGERLAVLGKIPDTRLKGGESVTVMKVEDGQLTVQRPGQKTTQTLAVGAGVFDGIK
VGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSEQ
LKARSGETDLDAAIAQQKAGLHTPAEQAIHLAIPLLESQDLTFSRPQLLATAMETGGGKVSMADIETTIQ
AQIRSGQLLNVPVAPGRGNDLLISRQAWDAEKSILTRVLEGKDAVAPLMDRVPDSLMTDLTAGQRAATRM
ILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLHD
MQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIAAGGGRAVPSGDTDQLPPIASGQPFRLTQQRS
AADVAIMKEIVRQIPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGAWAPGSSVVEFTPKQEKAIEK
ALSEGKTLPEGQPATLYEALVKDYTGRPPEAQSQTLVITHLNKDRRTLNGMIHDARRENGETGKEEITLP
VLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSEGKERYISPREASAEGVTLY
RQEKITVSQGDRMRFSKSDPERGYVANSIWEVQSVSGDSVTLSDGKLTRTLTPKAEQAQQHIDLAYAITA
HGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDNREGWIKAIKNSPEKATAHDILEP
RNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGSSPGKFISPGKKYPQPHVALPAFDKNGKAAGIW
LSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDRP
WNPGAMTGGRVWADPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEAHKAGEPA
DRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEAAIQQVASESLQRERLQAVERDMVRDLNREKTLG
GD
MLSFSQVKSAGSAGNYYTDKDNYYVIGSMDERWQGKGAEALGLEGKVDKQVFTELLQGKLPDGSDLTRIQ
DGVNKHRPGYDLTFSAPKSVSMLAMLGGDKRLIDAHNRAVTVALNQVESLASTRVKRDGVSETVLTGNLI
IARFNHDTSRAQDPQIHTHSVVINATQNGDKWQTLASDTVGKTGFSENILANRIALGKIYQNSLRADVES
MGYKTVDAGKNGMWEMEGVPVESFSTRSQELREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMNT
LKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLEA
KDGVFELARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVPF
SDAVSVLAQDRPVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVTG
KSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTYR
WQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKDT
TITALTPVWLDSKSRGVRDYYREGMVMERWDPETRTHDRFVIDRVTASSNMLTLKDREGDRLDLKVSAVD
SQWTLFRAETLPVAEGERLAVLGKIPDTRLKGGESVTVMKVEDGQLTVQRPGQKTTQTLAVGAGVFDGIK
VGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSEQ
LKARSGETDLDAAIAQQKAGLHTPAEQAIHLAIPLLESQDLTFSRPQLLATAMETGGGKVSMADIETTIQ
AQIRSGQLLNVPVAPGRGNDLLISRQAWDAEKSILTRVLEGKDAVAPLMDRVPDSLMTDLTAGQRAATRM
ILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLHD
MQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIAAGGGRAVPSGDTDQLPPIASGQPFRLTQQRS
AADVAIMKEIVRQIPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGAWAPGSSVVEFTPKQEKAIEK
ALSEGKTLPEGQPATLYEALVKDYTGRPPEAQSQTLVITHLNKDRRTLNGMIHDARRENGETGKEEITLP
VLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSEGKERYISPREASAEGVTLY
RQEKITVSQGDRMRFSKSDPERGYVANSIWEVQSVSGDSVTLSDGKLTRTLTPKAEQAQQHIDLAYAITA
HGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDNREGWIKAIKNSPEKATAHDILEP
RNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGSSPGKFISPGKKYPQPHVALPAFDKNGKAAGIW
LSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDRP
WNPGAMTGGRVWADPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEAHKAGEPA
DRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEAAIQQVASESLQRERLQAVERDMVRDLNREKTLG
GD
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
Auxiliary protein
| ID | 6240 | GenBank | WP_020805752 |
| Name | WP_020805752_pQL2 |
UniProt ID | A0A377TIM3 |
| Length | 130 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
Auxiliary protein sequence
Download Length: 130 a.a. Molecular weight: 14772.81 Da Isoelectric Point: 4.5715
>WP_020805752.1 MULTISPECIES: conjugal transfer relaxosome DNA-binding protein TraM [Gammaproteobacteria]
MAKIQVYVNDNVAEKINAIAVQRRAEGAKEKDISYSSIASMLLELGLRVYEAQMERKESGFNQMAFNRAL
LESMVKTQFTVNKVLGIECLSPHVNGNPKWEWSGLIENIRDDVSAVMEKFFPNESEIEDE
MAKIQVYVNDNVAEKINAIAVQRRAEGAKEKDISYSSIASMLLELGLRVYEAQMERKESGFNQMAFNRAL
LESMVKTQFTVNKVLGIECLSPHVNGNPKWEWSGLIENIRDDVSAVMEKFFPNESEIEDE
Protein domains
Predicted by InterproScan.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | A0A377TIM3 |
T4CP
| ID | 12394 | GenBank | WP_247181441 |
| Name | traD_OCU08_RS27115_pQL2 |
UniProt ID | _ |
| Length | 769 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 769 a.a. Molecular weight: 85805.71 Da Isoelectric Point: 4.9615
>WP_247181441.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Klebsiella]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTSFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDDDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSREIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRSLDARVDARLSALLEAREAEGSLARALFTPDAPEPGPADTNSHAGEQPEPISQPA
PADMTVSPAPVKAPPTTKSPAAEPSVRATEPPVLRVTTVPLIKPKAAAAATAASTASSAGAPAAAAGGTE
QELAQQSAEQGQDMLPAGMNEDGVIEDMQAYDAWADEQTQRDMQRREEVNINHSHRHDEQDDVEIGGNF
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTSFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDDDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSREIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRSLDARVDARLSALLEAREAEGSLARALFTPDAPEPGPADTNSHAGEQPEPISQPA
PADMTVSPAPVKAPPTTKSPAAEPSVRATEPPVLRVTTVPLIKPKAAAAATAASTASSAGAPAAAAGGTE
QELAQQSAEQGQDMLPAGMNEDGVIEDMQAYDAWADEQTQRDMQRREEVNINHSHRHDEQDDVEIGGNF
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 100179..126033
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| OCU08_RS27115 | 100179..102488 | - | 2310 | WP_247181441 | type IV conjugative transfer system coupling protein TraD | virb4 |
| OCU08_RS27120 | 102850..103581 | - | 732 | WP_004152629 | conjugal transfer complement resistance protein TraT | - |
| OCU08_RS27125 | 103771..104301 | - | 531 | WP_128206265 | conjugal transfer protein TraS | - |
| OCU08_RS27130 | 104304..107153 | - | 2850 | WP_263528560 | conjugal transfer mating-pair stabilization protein TraG | traG |
| OCU08_RS27135 | 107153..108532 | - | 1380 | WP_247181439 | conjugal transfer pilus assembly protein TraH | traH |
| OCU08_RS27140 | 108510..108953 | - | 444 | WP_247181438 | F-type conjugal transfer protein TrbF | - |
| OCU08_RS27145 | 108999..109556 | - | 558 | WP_114446709 | type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB | traF |
| OCU08_RS27150 | 109528..109767 | - | 240 | WP_009309875 | type-F conjugative transfer system pilin chaperone TraQ | - |
| OCU08_RS27155 | 109778..110530 | - | 753 | WP_020316647 | type-F conjugative transfer system pilin assembly protein TraF | traF |
| OCU08_RS27160 | 110551..110877 | - | 327 | WP_020323521 | hypothetical protein | - |
| OCU08_RS27165 | 110888..111115 | - | 228 | WP_049119078 | conjugal transfer protein TrbE | - |
| OCU08_RS27170 | 111105..111386 | - | 282 | WP_049119079 | hypothetical protein | - |
| OCU08_RS27175 | 111419..113374 | - | 1956 | WP_258219546 | type-F conjugative transfer system mating-pair stabilization protein TraN | traN |
| OCU08_RS27180 | 113433..114071 | - | 639 | WP_047667531 | type-F conjugative transfer system pilin assembly protein TrbC | trbC |
| OCU08_RS27185 | 114084..115073 | - | 990 | WP_046622837 | conjugal transfer pilus assembly protein TraU | traU |
| OCU08_RS27190 | 115070..115459 | - | 390 | WP_032445235 | hypothetical protein | - |
| OCU08_RS27195 | 115501..116127 | - | 627 | WP_004152507 | type-F conjugative transfer system protein TraW | traW |
| OCU08_RS27200 | 116127..116516 | - | 390 | WP_004167468 | type-F conjugative transfer system protein TrbI | - |
| OCU08_RS27205 | 116516..119155 | - | 2640 | WP_122463084 | type IV secretion system protein TraC | virb4 |
| OCU08_RS27210 | 119227..119625 | - | 399 | WP_162994809 | hypothetical protein | - |
| OCU08_RS27215 | 119633..119947 | - | 315 | WP_228258590 | hypothetical protein | - |
| OCU08_RS27220 | 120051..120341 | - | 291 | WP_128206242 | hypothetical protein | - |
| OCU08_RS27225 | 120338..120742 | - | 405 | WP_128206243 | hypothetical protein | - |
| OCU08_RS27230 | 120809..121126 | - | 318 | WP_023320103 | hypothetical protein | - |
| OCU08_RS27235 | 121127..121345 | - | 219 | WP_004171484 | hypothetical protein | - |
| OCU08_RS27240 | 121369..121659 | - | 291 | WP_048993668 | hypothetical protein | - |
| OCU08_RS27245 | 121664..122074 | - | 411 | WP_128206244 | hypothetical protein | - |
| OCU08_RS27250 | 122206..122790 | - | 585 | WP_114502744 | type IV conjugative transfer system lipoprotein TraV | traV |
| OCU08_RS27255 | 122809..122994 | - | 186 | WP_038990989 | hypothetical protein | - |
| OCU08_RS27260 | 122991..124415 | - | 1425 | WP_258219550 | F-type conjugal transfer pilus assembly protein TraB | traB |
| OCU08_RS27265 | 124415..125155 | - | 741 | WP_128206246 | type-F conjugative transfer system secretin TraK | traK |
| OCU08_RS27270 | 125142..125708 | - | 567 | WP_020316627 | type IV conjugative transfer system protein TraE | traE |
| OCU08_RS27275 | 125728..126033 | - | 306 | WP_004178059 | type IV conjugative transfer system protein TraL | traL |
| OCU08_RS27280 | 126047..126415 | - | 369 | WP_020316649 | type IV conjugative transfer system pilin TraA | - |
| OCU08_RS27285 | 126484..126684 | - | 201 | WP_048289787 | TraY domain-containing protein | - |
| OCU08_RS27290 | 126770..127471 | - | 702 | WP_258219551 | hypothetical protein | - |
| OCU08_RS27295 | 127709..128101 | - | 393 | WP_020805752 | conjugal transfer relaxosome DNA-binding protein TraM | - |
| OCU08_RS27300 | 128605..129012 | + | 408 | WP_226331063 | transglycosylase SLT domain-containing protein | - |
| OCU08_RS27305 | 129050..129580 | - | 531 | WP_023292160 | antirestriction protein | - |
Host bacterium
| ID | 17076 | GenBank | NZ_CP106965 |
| Plasmid name | pQL2 | Incompatibility group | IncFIB |
| Plasmid size | 183783 bp | Coordinate of oriT [Strand] | 128412..128460 [+] |
| Host baterium | Klebsiella variicola strain SY1 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | arsH, arsC, arsB, arsA, arsD, arsR |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | AcrIE9 |