Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 103767 |
| Name | oriT_pPM48_125  |
| Organism | Klebsiella pneumoniae strain PM48 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_MN543580 (93972..94020 [+], 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 |
GGTGTGGTGA |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 49 nt
>oriT_pPM48_125
AATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTGATTTTGTGGTGAG
AATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTGATTTTGTGGTGAG
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 2798 | GenBank | WP_047665818 |
| Name | traI_H5E32_RS00410_pPM48_125 |
UniProt ID | A0A0S1TL23 |
| Length | 1753 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 1753 a.a. Molecular weight: 190754.90 Da Isoelectric Point: 6.3385
>WP_047665818.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacterales]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMDERWQGKGAEALGIDGKAVDKALFTELLKGKLPDGSDLTRI
QDGANKHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVTEAVRQLETLAATRVMTDGKSETVLTGNL
IVAKFNHDTNRNQEPQIHTHAVVINATQNGDKWQSLGTDKIGKTGFIENVYANQIAFGKLYREAFKPLVE
KLGYETEVVGKHGMWEMKGVPVEPFSTRSQEVREAAGPDASLKSRDVAALDTRKSKDAIDPAEKMVEWMN
TLKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLE
AKDGVFELARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDAFVVRQVP
FSDAVSVLAQDRPVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVT
GKSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTY
RWQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKD
TTITALTPVWLDSKSRGVRDYYREGMVMERWDPETRTHDRFVIDRVTGSSNMLTLKDREGVRLDLKVSAV
DSQWTLFRADTLPVAEGERLAVLGKIPDTRLKGGESITVMKVEDGQLTVQRPGQKTTQTLAMGAGVFDGI
KIGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSE
QLKTRSGETDLDAAIAQQKAGLRTPAEQAIHLAIPLLESEKLTFSRPQLLATALETGGGKVSMADIDTTI
QAQIRSGQLLNVPVAHGYGNDLLISRQTWDAEKSILTHVLEGKDAVAPLMDRVPASLMTDLTAGQRAATR
MILESTDRFTVVQGYAGVGKTTQLRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLH
DTQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIVAGGGRAVSSGDNDQLQPIAPGQPFRLTQQR
SAADVAIMKEIVRQMPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGAWAPGSSVVEFTPKQEKAIE
KALSEGKTLPEGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITL
PVLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKANQLITLTDSEGKERYISPREASAEGVTL
YRQEKITVSQGDRMRFSKSDLERGYVANSIWEVQSVSGDSVTLSDGKLTRTLTPKADQAQQHIDLAYAIT
AHGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDNREGWIKAIKHSPEKATAHDILE
PRNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGSSPGKFISPGKKYPQPHVALPAFDKNGKAAGI
WLSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDR
PWNPGAMTGGRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEP
ADRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEEAIQQVASERLQRERLQAVERDMVRDLNREKTL
GGD
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMDERWQGKGAEALGIDGKAVDKALFTELLKGKLPDGSDLTRI
QDGANKHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVTEAVRQLETLAATRVMTDGKSETVLTGNL
IVAKFNHDTNRNQEPQIHTHAVVINATQNGDKWQSLGTDKIGKTGFIENVYANQIAFGKLYREAFKPLVE
KLGYETEVVGKHGMWEMKGVPVEPFSTRSQEVREAAGPDASLKSRDVAALDTRKSKDAIDPAEKMVEWMN
TLKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLE
AKDGVFELARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDAFVVRQVP
FSDAVSVLAQDRPVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVT
GKSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTY
RWQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKD
TTITALTPVWLDSKSRGVRDYYREGMVMERWDPETRTHDRFVIDRVTGSSNMLTLKDREGVRLDLKVSAV
DSQWTLFRADTLPVAEGERLAVLGKIPDTRLKGGESITVMKVEDGQLTVQRPGQKTTQTLAMGAGVFDGI
KIGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSE
QLKTRSGETDLDAAIAQQKAGLRTPAEQAIHLAIPLLESEKLTFSRPQLLATALETGGGKVSMADIDTTI
QAQIRSGQLLNVPVAHGYGNDLLISRQTWDAEKSILTHVLEGKDAVAPLMDRVPASLMTDLTAGQRAATR
MILESTDRFTVVQGYAGVGKTTQLRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLH
DTQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIVAGGGRAVSSGDNDQLQPIAPGQPFRLTQQR
SAADVAIMKEIVRQMPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGAWAPGSSVVEFTPKQEKAIE
KALSEGKTLPEGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITL
PVLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKANQLITLTDSEGKERYISPREASAEGVTL
YRQEKITVSQGDRMRFSKSDLERGYVANSIWEVQSVSGDSVTLSDGKLTRTLTPKADQAQQHIDLAYAIT
AHGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDNREGWIKAIKHSPEKATAHDILE
PRNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGSSPGKFISPGKKYPQPHVALPAFDKNGKAAGI
WLSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDR
PWNPGAMTGGRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEP
ADRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEEAIQQVASERLQRERLQAVERDMVRDLNREKTL
GGD
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4CP
| ID | 2624 | GenBank | WP_013023832 |
| Name | traD_H5E32_RS00415_pPM48_125 |
UniProt ID | _ |
| Length | 770 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 770 a.a. Molecular weight: 85974.10 Da Isoelectric Point: 5.1149
>WP_013023832.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacterales]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTSFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDAPASGPADTNSHAGEQPEPVSQPA
PADMTVSPAPVKAPPTTKMPAEEPSVRATEPSVLRLTTVPLIKPKAAAAAAAAATASSAGTPAAAAGGTE
QELAQQSAEQGQDMLPAGMNEDGVIEDMQAYDAWLADEQTQRDMQRREEVNINHSHRHDEQDYVEIGGNF
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTSFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDAPASGPADTNSHAGEQPEPVSQPA
PADMTVSPAPVKAPPTTKMPAEEPSVRATEPSVLRLTTVPLIKPKAAAAAAAAATASSAGTPAAAAGGTE
QELAQQSAEQGQDMLPAGMNEDGVIEDMQAYDAWLADEQTQRDMQRREEVNINHSHRHDEQDYVEIGGNF
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 65758..94578
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| H5E32_RS00415 | 65758..68070 | - | 2313 | WP_013023832 | type IV conjugative transfer system coupling protein TraD | virb4 |
| H5E32_RS00420 | 68197..68886 | - | 690 | WP_013023831 | hypothetical protein | - |
| H5E32_RS00425 | 69079..69810 | - | 732 | WP_013023830 | conjugal transfer complement resistance protein TraT | - |
| H5E32_RS00430 | 69996..70529 | - | 534 | WP_014343486 | conjugal transfer protein TraS | - |
| H5E32_RS00435 | 70532..73381 | - | 2850 | WP_013609534 | conjugal transfer mating-pair stabilization protein TraG | traG |
| H5E32_RS00440 | 73381..74760 | - | 1380 | WP_014343487 | conjugal transfer pilus assembly protein TraH | traH |
| H5E32_RS00445 | 74738..75181 | - | 444 | WP_013023828 | F-type conjugal transfer protein TrbF | - |
| H5E32_RS00450 | 75227..75784 | - | 558 | WP_013214031 | type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB | traF |
| H5E32_RS00455 | 75756..75995 | - | 240 | WP_004144400 | type-F conjugative transfer system pilin chaperone TraQ | - |
| H5E32_RS00460 | 76006..76758 | - | 753 | WP_048337413 | type-F conjugative transfer system pilin assembly protein TraF | traF |
| H5E32_RS00465 | 76779..77105 | - | 327 | WP_004152676 | hypothetical protein | - |
| H5E32_RS00470 | 77118..77366 | - | 249 | WP_004152675 | hypothetical protein | - |
| H5E32_RS00475 | 77344..77598 | - | 255 | WP_004152674 | conjugal transfer protein TrbE | - |
| H5E32_RS00480 | 77630..79585 | - | 1956 | WP_013023827 | type-F conjugative transfer system mating-pair stabilization protein TraN | traN |
| H5E32_RS00485 | 79644..80282 | - | 639 | WP_011977786 | type-F conjugative transfer system pilin assembly protein TrbC | trbC |
| H5E32_RS00490 | 80295..81284 | - | 990 | WP_009309872 | conjugal transfer pilus assembly protein TraU | traU |
| H5E32_RS00495 | 81281..81670 | - | 390 | WP_004194992 | hypothetical protein | - |
| H5E32_RS00500 | 81712..82338 | - | 627 | WP_009309871 | type-F conjugative transfer system protein TraW | traW |
| H5E32_RS00505 | 82338..82727 | - | 390 | WP_004197815 | type-F conjugative transfer system protein TrbI | - |
| H5E32_RS00510 | 82727..85366 | - | 2640 | WP_013023824 | type IV secretion system protein TraC | virb4 |
| H5E32_RS00515 | 85438..85836 | - | 399 | WP_013609531 | hypothetical protein | - |
| H5E32_RS00520 | 86212..86616 | - | 405 | WP_004197817 | hypothetical protein | - |
| H5E32_RS00525 | 86683..86994 | - | 312 | WP_015344986 | hypothetical protein | - |
| H5E32_RS00530 | 86995..87213 | - | 219 | WP_015344987 | hypothetical protein | - |
| H5E32_RS00535 | 87319..87729 | - | 411 | WP_009309869 | hypothetical protein | - |
| H5E32_RS00540 | 87861..88445 | - | 585 | WP_013023822 | type IV conjugative transfer system lipoprotein TraV | traV |
| H5E32_RS00545 | 88559..89983 | - | 1425 | WP_004194260 | F-type conjugal transfer pilus assembly protein TraB | traB |
| H5E32_RS00550 | 89983..90723 | - | 741 | WP_013023821 | type-F conjugative transfer system secretin TraK | traK |
| H5E32_RS00555 | 90710..91276 | - | 567 | WP_004144423 | type IV conjugative transfer system protein TraE | traE |
| H5E32_RS00560 | 91296..91601 | - | 306 | WP_004144424 | type IV conjugative transfer system protein TraL | traL |
| H5E32_RS00565 | 91615..91983 | - | 369 | WP_004194426 | type IV conjugative transfer system pilin TraA | - |
| H5E32_RS00800 | 92052..92252 | - | 201 | WP_004194116 | TraY domain-containing protein | - |
| H5E32_RS00570 | 92338..93039 | - | 702 | WP_004194113 | hypothetical protein | - |
| H5E32_RS00575 | 93269..93661 | - | 393 | WP_004194114 | conjugal transfer relaxosome DNA-binding protein TraM | - |
| H5E32_RS00580 | 94093..94578 | + | 486 | WP_001568108 | transglycosylase SLT domain-containing protein | virB1 |
| H5E32_RS00585 | 94611..94940 | - | 330 | WP_011977736 | DUF5983 family protein | - |
| H5E32_RS00590 | 94973..95794 | - | 822 | WP_004152492 | DUF932 domain-containing protein | - |
| H5E32_RS00595 | 96602..97810 | + | 1209 | WP_015344990 | IS256 family transposase | - |
| H5E32_RS00600 | 97946..98359 | - | 414 | WP_013023817 | helix-turn-helix domain-containing protein | - |
| H5E32_RS00605 | 98360..98638 | - | 279 | WP_004152721 | helix-turn-helix transcriptional regulator | - |
| H5E32_RS00610 | 98628..98948 | - | 321 | WP_004152720 | type II toxin-antitoxin system RelE/ParE family toxin | - |
| H5E32_RS00615 | 99029..99253 | - | 225 | WP_004152719 | hypothetical protein | - |
| H5E32_RS00620 | 99264..99476 | - | 213 | WP_013023815 | hypothetical protein | - |
Host bacterium
| ID | 4207 | GenBank | NZ_MN543580 |
| Plasmid name | pPM48_125 | Incompatibility group | IncFII |
| Plasmid size | 125936 bp | Coordinate of oriT [Strand] | 93972..94020 [+] |
| Host baterium | Klebsiella pneumoniae strain PM48 |
Cargo genes
| Drug resistance gene | aac(6')-Ib-cr, ARR-3, dfrA27, aadA16, qacE, sul1, mph(A), blaTEM-1B, blaCTX-M-3, qnrS1 |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | AcrIE9 |