Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 117672 |
| Name | oriT_pM142-3  |
| Organism | Klebsiella variicola strain M142-3 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP063868 (112293..112340 [-], 48 nt) |
| oriT length | 48 nt |
| IRs (inverted repeats) | 5..12, 15..22 (GCAAAATT..AATTTTGC) |
| Location of nic site | 31..32 |
| Conserved sequence flanking the nic site |
GGTGTGGTGA |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 48 nt
>oriT_pM142-3
ATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTGATTTTGTGGTGAG
ATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTGATTTTGTGGTGAG
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 11245 | GenBank | WP_200991777 |
| Name | traI_ISD32_RS27770_pM142-3 |
UniProt ID | _ |
| Length | 1753 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 1753 a.a. Molecular weight: 190470.61 Da Isoelectric Point: 6.4601
>WP_200991777.1 conjugative transfer relaxase/helicase TraI [Klebsiella variicola]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMDERWQGKGAEALGIDGKAVDKALFTELLKGKLPDGSDLTRI
QDGANKHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVTEAVRQLETLASTRVMTDGKSETVLTGNL
IVAKFNHDTNRNQEPQIHTHAVVINATQNGDKWQSLGTDKIGKTGFIENVYANQIAFGKLYREAFKPLVE
KLGYETEVVGKHGMWEMKGVPVEPFSTRTQELREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMN
TLKETGFDILGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLE
ARDGVFELARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVP
FSDAVSVLAQDRPVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVT
GKSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTY
RWQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDFLRHEGVLGEKD
TTITALTPVWLDSKSRGVRDYYREGMVMERWDPETRTHDRFVIDRVTGSSNMLTLKDREGVRLDLKVSAV
DSQWTLFRADTLPVAEGERLAVLGKIPDTRLKGGESITVMKVEDGQLTVQRPGQKTTQTLAVGSGVFDGI
KIGHGWVESPGRSVSETATVFASVTQRGLDKATLNQLAQSGSHLRLYSAQDAARTTEKLARHTAFSVVSE
QLKTRSGETDLDAAIAQQKAGLRTPAEQAIHLAIPLLESEKLTFSRPQLLATALETGGGNVPMADIDTTI
QAQIRSGQLLNVPVAHGYGNDLLISRQTWDAEKSILTHVLEGKDAVAPLMDRVPASLMTDLTAGQRAATR
MILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLH
DTQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIAAGGGRAVPSGDTDQLPPIASGQPFRLTQQR
SAADVAIMKEIVRQIPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGAWAPGSSVVEFTPKQEKAIE
KALSEGKTLPAGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRTLNGMIHNARRENGETGKEEITL
PVLVTSNIRDGELRKLSTWTVHKEAVALVDNVYHRISKVDRVNQLITLTDSEGKERYISPREASAEGVTL
YRQEKITVSQGDRMRFSKSDPERGYVANSIWEVQSVSGDSVTLSDGKLTRTLTPKADEAQQHIDLAYAIT
AHGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDSREGWIKAIRHSPEKATAHDILA
PRNDRAVKSADLLFGRARPLDETAAGRAALQQSGLAQGNSPGKFISPGKKYPQPHVALPAFDKNGKAAGI
WLSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNIGEGVRMARDNPDTGVVVRLAGDDR
PWNPGAMTGGRVWAEPAPVAQVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAWEVAGEARKAGEP
ADRVKAVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEAAIQQAASESLQRERLQAVERDMVRDLNREKTL
GGD
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMDERWQGKGAEALGIDGKAVDKALFTELLKGKLPDGSDLTRI
QDGANKHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVTEAVRQLETLASTRVMTDGKSETVLTGNL
IVAKFNHDTNRNQEPQIHTHAVVINATQNGDKWQSLGTDKIGKTGFIENVYANQIAFGKLYREAFKPLVE
KLGYETEVVGKHGMWEMKGVPVEPFSTRTQELREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMN
TLKETGFDILGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLE
ARDGVFELARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVP
FSDAVSVLAQDRPVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVT
GKSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTY
RWQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDFLRHEGVLGEKD
TTITALTPVWLDSKSRGVRDYYREGMVMERWDPETRTHDRFVIDRVTGSSNMLTLKDREGVRLDLKVSAV
DSQWTLFRADTLPVAEGERLAVLGKIPDTRLKGGESITVMKVEDGQLTVQRPGQKTTQTLAVGSGVFDGI
KIGHGWVESPGRSVSETATVFASVTQRGLDKATLNQLAQSGSHLRLYSAQDAARTTEKLARHTAFSVVSE
QLKTRSGETDLDAAIAQQKAGLRTPAEQAIHLAIPLLESEKLTFSRPQLLATALETGGGNVPMADIDTTI
QAQIRSGQLLNVPVAHGYGNDLLISRQTWDAEKSILTHVLEGKDAVAPLMDRVPASLMTDLTAGQRAATR
MILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLH
DTQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIAAGGGRAVPSGDTDQLPPIASGQPFRLTQQR
SAADVAIMKEIVRQIPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGAWAPGSSVVEFTPKQEKAIE
KALSEGKTLPAGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRTLNGMIHNARRENGETGKEEITL
PVLVTSNIRDGELRKLSTWTVHKEAVALVDNVYHRISKVDRVNQLITLTDSEGKERYISPREASAEGVTL
YRQEKITVSQGDRMRFSKSDPERGYVANSIWEVQSVSGDSVTLSDGKLTRTLTPKADEAQQHIDLAYAIT
AHGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDSREGWIKAIRHSPEKATAHDILA
PRNDRAVKSADLLFGRARPLDETAAGRAALQQSGLAQGNSPGKFISPGKKYPQPHVALPAFDKNGKAAGI
WLSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNIGEGVRMARDNPDTGVVVRLAGDDR
PWNPGAMTGGRVWAEPAPVAQVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAWEVAGEARKAGEP
ADRVKAVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEAAIQQAASESLQRERLQAVERDMVRDLNREKTL
GGD
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4CP
| ID | 13130 | GenBank | WP_227667297 |
| Name | traD_ISD32_RS27765_pM142-3 |
UniProt ID | _ |
| Length | 774 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 774 a.a. Molecular weight: 86395.50 Da Isoelectric Point: 5.0632
>WP_227667297.1 type IV conjugative transfer system coupling protein TraD [Klebsiella variicola]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTSFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSREIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIQRRLDTRVDARLSALLEAREAEGSLARTLFTPDAPEPGPADTDSHAGEQPEPVSQPA
PAEVTVSPAPVKAPPTTKMPAAEPSARAPASPPPEAPVLRVTTVPLIKPKAAAAAAAAATASSAVTPAAA
AGGTEQDLAQQSAEQGQDMLPAGMNEDGVIEDMQAYDAWADEQTQRDMQRREEVNINHSHRHDEQDDVEI
GGNF
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTSFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSREIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIQRRLDTRVDARLSALLEAREAEGSLARTLFTPDAPEPGPADTDSHAGEQPEPVSQPA
PAEVTVSPAPVKAPPTTKMPAAEPSARAPASPPPEAPVLRVTTVPLIKPKAAAAAAAAATASSAVTPAAA
AGGTEQDLAQQSAEQGQDMLPAGMNEDGVIEDMQAYDAWADEQTQRDMQRREEVNINHSHRHDEQDDVEI
GGNF
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 111741..140662
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| ISD32_RS28225 | 107436..107588 | + | 153 | WP_224230667 | DUF5431 family protein | - |
| ISD32_RS27555 | 107533..107652 | + | 120 | WP_223156217 | type I toxin-antitoxin system Hok family toxin | - |
| ISD32_RS27560 | 108556..108936 | + | 381 | WP_038990973 | hypothetical protein | - |
| ISD32_RS27565 | 109003..109350 | + | 348 | WP_038990975 | hypothetical protein | - |
| ISD32_RS27570 | 109438..109668 | + | 231 | WP_038990977 | hypothetical protein | - |
| ISD32_RS27575 | 109715..110548 | + | 834 | WP_040107920 | N-6 DNA methylase | - |
| ISD32_RS27580 | 111173..111703 | + | 531 | WP_023292160 | antirestriction protein | - |
| ISD32_RS27585 | 111741..112148 | - | 408 | WP_227667300 | transglycosylase SLT domain-containing protein | virB1 |
| ISD32_RS27590 | 112611..113027 | + | 417 | WP_074181767 | conjugal transfer relaxosome DNA-binding protein TraM | - |
| ISD32_RS27595 | 113227..113946 | + | 720 | WP_200991753 | conjugal transfer protein TrbJ | - |
| ISD32_RS27600 | 114079..114285 | + | 207 | WP_172412524 | TraY domain-containing protein | - |
| ISD32_RS27605 | 114347..114715 | + | 369 | WP_004194426 | type IV conjugative transfer system pilin TraA | - |
| ISD32_RS27610 | 114729..115034 | + | 306 | WP_004178059 | type IV conjugative transfer system protein TraL | traL |
| ISD32_RS27615 | 115054..115620 | + | 567 | WP_047665763 | type IV conjugative transfer system protein TraE | traE |
| ISD32_RS27620 | 115607..116347 | + | 741 | WP_088365335 | type-F conjugative transfer system secretin TraK | traK |
| ISD32_RS27625 | 116347..117771 | + | 1425 | WP_200991756 | F-type conjugal transfer pilus assembly protein TraB | traB |
| ISD32_RS27630 | 117764..118360 | + | 597 | WP_200991758 | conjugal transfer pilus-stabilizing protein TraP | - |
| ISD32_RS27635 | 118383..118952 | + | 570 | WP_200991759 | type IV conjugative transfer system lipoprotein TraV | traV |
| ISD32_RS28230 | 119108..119506 | + | 399 | WP_223170083 | hypothetical protein | - |
| ISD32_RS27645 | 119535..119825 | + | 291 | WP_200991761 | hypothetical protein | - |
| ISD32_RS27650 | 119849..120067 | + | 219 | WP_064188040 | hypothetical protein | - |
| ISD32_RS27655 | 120068..120379 | + | 312 | WP_086070799 | hypothetical protein | - |
| ISD32_RS27660 | 120446..120850 | + | 405 | WP_032740694 | hypothetical protein | - |
| ISD32_RS27665 | 120973..121218 | + | 246 | WP_227667296 | hypothetical protein | - |
| ISD32_RS27670 | 121226..121624 | + | 399 | WP_200991762 | hypothetical protein | - |
| ISD32_RS27675 | 121696..124335 | + | 2640 | WP_131034470 | type IV secretion system protein TraC | virb4 |
| ISD32_RS27680 | 124335..124724 | + | 390 | WP_046622835 | type-F conjugative transfer system protein TrbI | - |
| ISD32_RS27685 | 124724..125350 | + | 627 | WP_004152507 | type-F conjugative transfer system protein TraW | traW |
| ISD32_RS27690 | 125392..125781 | + | 390 | WP_047667530 | hypothetical protein | - |
| ISD32_RS27695 | 125778..126767 | + | 990 | WP_046622837 | conjugal transfer pilus assembly protein TraU | traU |
| ISD32_RS27700 | 126780..127418 | + | 639 | WP_200991764 | type-F conjugative transfer system pilin assembly protein TrbC | trbC |
| ISD32_RS27705 | 127477..129432 | + | 1956 | WP_200991766 | type-F conjugative transfer system mating-pair stabilization protein TraN | traN |
| ISD32_RS27710 | 129465..129746 | + | 282 | WP_200991767 | hypothetical protein | - |
| ISD32_RS27715 | 129736..129963 | + | 228 | WP_114268468 | conjugal transfer protein TrbE | - |
| ISD32_RS27720 | 129974..130300 | + | 327 | WP_042937346 | hypothetical protein | - |
| ISD32_RS27725 | 130321..131073 | + | 753 | WP_131024483 | type-F conjugative transfer system pilin assembly protein TraF | traF |
| ISD32_RS27730 | 131084..131323 | + | 240 | WP_004152687 | type-F conjugative transfer system pilin chaperone TraQ | - |
| ISD32_RS27735 | 131295..131867 | + | 573 | WP_200991771 | type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB | traF |
| ISD32_RS27740 | 131860..132288 | + | 429 | WP_200991773 | conjugal transfer protein TrbF | - |
| ISD32_RS27745 | 132275..133645 | + | 1371 | WP_114268465 | conjugal transfer pilus assembly protein TraH | traH |
| ISD32_RS27750 | 133645..136488 | + | 2844 | WP_200991775 | conjugal transfer mating-pair stabilization protein TraG | traG |
| ISD32_RS27755 | 136499..137023 | + | 525 | WP_117261541 | hypothetical protein | - |
| ISD32_RS27760 | 137245..137976 | + | 732 | WP_200991776 | conjugal transfer complement resistance protein TraT | - |
| ISD32_RS27765 | 138338..140662 | + | 2325 | WP_227667297 | type IV conjugative transfer system coupling protein TraD | virb4 |
Host bacterium
| ID | 18105 | GenBank | NZ_CP063868 |
| Plasmid name | pM142-3 | Incompatibility group | IncFIB |
| Plasmid size | 180701 bp | Coordinate of oriT [Strand] | 112293..112340 [-] |
| Host baterium | Klebsiella variicola strain M142-3 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | arsR, arsD, arsA, arsB, arsC, arsH |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |