Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 112893 |
| Name | oriT_MSB1_9C|3  |
| Organism | Serratia marcescens strain MSB1_9C isolate MSB1_9C |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_LR890659 (123974..124023 [+], 50 nt) |
| oriT length | 50 nt |
| IRs (inverted repeats) | 7..13, 18..24 (GCAAAAT..ATTTTGC) |
| Location of nic site | 33..34 |
| Conserved sequence flanking the nic site |
GGTGTGGTGA |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 50 nt
>oriT_MSB1_9C|3
AAATCTGCAAAATATTAATTTTGCGTGGGGTGTGGTGATTTTGTGGTGAG
AAATCTGCAAAATATTAATTTTGCGTGGGGTGTGGTGATTTTGTGGTGAG
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 8296 | GenBank | WP_063858703 |
| Name | traI_JMX15_RS28100_MSB1_9C|3 |
UniProt ID | _ |
| Length | 1752 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 1752 a.a. Molecular weight: 190474.13 Da Isoelectric Point: 5.7342
>WP_063858703.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacterales]
MMSIGSVKSAGSASNYYTDKDNYYVIGSMDERWQGKGAEALGLDGKVDKQVFTDLLKGKLPDGSDLTRMQ
DGVNKHRPGYDLTFSAPKSVSVMAMIGGDKRLIDAHNQAVTEAVKQVETLAATRVMTDGKSETVLTGNLI
VAKFNHDTNRNQEPQLHTHAVVINATQNGGKWQSLGTDTVGKTGFIENVYANQIAFGKLYREVLKPLVEK
LGYETEVTGKHGMWEMKDVPVEPFSTRSQEVREAAGPDASLKSRDVATLDTRKSKETLDPAEKMVEWVNT
LKESGFDIHSYREDADKRAAEINRAPVSPAKTDGPDISDVVTKAIAGLSDRKVQFTYADMLARTVSQLEA
KPGVFELARTGIDAAIEREQLIPLDREKGLFTSNIHVLDELSVKALSQEVQRQNHVSVTPDASVVRHAPF
SDAVSVLAQDRPAMGIVYGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDARLVGETVTG
KSALQDGTAFIPGGTLIVDQAEKLSLKETLSLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKESGVNTYR
WQGGNQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGVREQGVLNGIIREVLKNEGTLGAKEM
TVTTLTPVWLDSKSRGVRDYYREGMVMERWDPETRKHDRFLIDRVTASSNMLTLRDKEGERLDLKVSAVD
SQWSLFRADKLPVASGERLSVLGKIPETRLKGGESITVLNAEAGQLTVQRPGQKTTQTLAVGAGPFDGIK
VGHGWVESPGRSVSETATVFASLTQRELDNATLNQLAQSGSHIRLYSAQDAARTTEKLARHTAFSVVSEQ
LKARSGETDLDAAIALQKAGLHTPAEQVIHLSIPLLESEELTFTRPQLLATALETGGGKVPMTEIDATIQ
AQIKAGSLLNVPVAPGHGNDLLISRQTWDAEKSILTKVLEGKEAVAPLMDSVPGSLMTDLTSGQRASTRM
ILETTDRFTVVQGYAGVGKTTQLRAVTGAISLLPEATRPRVIGLGPTHRAVGEMQSAGVDAQTTASFLHD
TQLLQRNGQTPDFSNTLFLLDESSMVGLADTAKALSLIAAGGGRAVLSGDTDQLQSIAPGQPFRLMQQRS
AADVAIMKEIVRQVPELRPAVYSLIDRDVNRALATIEQITPEQVPRKDGAWVPENSVVEFTPAQEETIQK
ALNKGESVPAGQPTTLYEALVKDYADRTPEAQSQTLIITHLNDDRRVLNSLIHDARRDNGEVGREEVTLP
VLVTSNIRDGELRRLSTWTAHKGAVALVDNVYHRIGSVDKENQLITLMDGEGKERLISPREALAEGVTLY
REQEITVSQGDKMRFSKSDTERGYVANSVWEVKSVSGDSVTLSDGKTTRTLNPKADQAQQHVDLAYAITA
HGAQGASEPFAIALEGVAGGRERMASFESSYVGLSRMKQHVQLYTDNREGWIKAINHSPEKATAHDILEP
RNDRAVKTAGQLFSRARALDEAAAGRAALQQSGLARGQSPGKFISPGKKYPQPHVALPAFDKNGKDAGIW
LSPLTDNDGRLQVIGGEGRVMGNEEARFVALQNSRNGESLLAGNMGEGVRIARDNPDSGVVVRLAGDDRP
WNPEAITGGRIWADPLPNPPINDTGTDIPLPPEVLAQRAAEEAQRREMERQTEQATREVSGEEKKVGEPG
ERIKEVIGDVIRGLERDRPGEEKTVLPDDPQTRRQEAAVQQVATESLQRDRLQQMERDMVRDLSREKTLG
GD
MMSIGSVKSAGSASNYYTDKDNYYVIGSMDERWQGKGAEALGLDGKVDKQVFTDLLKGKLPDGSDLTRMQ
DGVNKHRPGYDLTFSAPKSVSVMAMIGGDKRLIDAHNQAVTEAVKQVETLAATRVMTDGKSETVLTGNLI
VAKFNHDTNRNQEPQLHTHAVVINATQNGGKWQSLGTDTVGKTGFIENVYANQIAFGKLYREVLKPLVEK
LGYETEVTGKHGMWEMKDVPVEPFSTRSQEVREAAGPDASLKSRDVATLDTRKSKETLDPAEKMVEWVNT
LKESGFDIHSYREDADKRAAEINRAPVSPAKTDGPDISDVVTKAIAGLSDRKVQFTYADMLARTVSQLEA
KPGVFELARTGIDAAIEREQLIPLDREKGLFTSNIHVLDELSVKALSQEVQRQNHVSVTPDASVVRHAPF
SDAVSVLAQDRPAMGIVYGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDARLVGETVTG
KSALQDGTAFIPGGTLIVDQAEKLSLKETLSLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKESGVNTYR
WQGGNQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGVREQGVLNGIIREVLKNEGTLGAKEM
TVTTLTPVWLDSKSRGVRDYYREGMVMERWDPETRKHDRFLIDRVTASSNMLTLRDKEGERLDLKVSAVD
SQWSLFRADKLPVASGERLSVLGKIPETRLKGGESITVLNAEAGQLTVQRPGQKTTQTLAVGAGPFDGIK
VGHGWVESPGRSVSETATVFASLTQRELDNATLNQLAQSGSHIRLYSAQDAARTTEKLARHTAFSVVSEQ
LKARSGETDLDAAIALQKAGLHTPAEQVIHLSIPLLESEELTFTRPQLLATALETGGGKVPMTEIDATIQ
AQIKAGSLLNVPVAPGHGNDLLISRQTWDAEKSILTKVLEGKEAVAPLMDSVPGSLMTDLTSGQRASTRM
ILETTDRFTVVQGYAGVGKTTQLRAVTGAISLLPEATRPRVIGLGPTHRAVGEMQSAGVDAQTTASFLHD
TQLLQRNGQTPDFSNTLFLLDESSMVGLADTAKALSLIAAGGGRAVLSGDTDQLQSIAPGQPFRLMQQRS
AADVAIMKEIVRQVPELRPAVYSLIDRDVNRALATIEQITPEQVPRKDGAWVPENSVVEFTPAQEETIQK
ALNKGESVPAGQPTTLYEALVKDYADRTPEAQSQTLIITHLNDDRRVLNSLIHDARRDNGEVGREEVTLP
VLVTSNIRDGELRRLSTWTAHKGAVALVDNVYHRIGSVDKENQLITLMDGEGKERLISPREALAEGVTLY
REQEITVSQGDKMRFSKSDTERGYVANSVWEVKSVSGDSVTLSDGKTTRTLNPKADQAQQHVDLAYAITA
HGAQGASEPFAIALEGVAGGRERMASFESSYVGLSRMKQHVQLYTDNREGWIKAINHSPEKATAHDILEP
RNDRAVKTAGQLFSRARALDEAAAGRAALQQSGLARGQSPGKFISPGKKYPQPHVALPAFDKNGKDAGIW
LSPLTDNDGRLQVIGGEGRVMGNEEARFVALQNSRNGESLLAGNMGEGVRIARDNPDSGVVVRLAGDDRP
WNPEAITGGRIWADPLPNPPINDTGTDIPLPPEVLAQRAAEEAQRREMERQTEQATREVSGEEKKVGEPG
ERIKEVIGDVIRGLERDRPGEEKTVLPDDPQTRRQEAAVQQVATESLQRDRLQQMERDMVRDLSREKTLG
GD
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4CP
| ID | 9619 | GenBank | WP_064411283 |
| Name | traD_JMX15_RS28105_MSB1_9C|3 |
UniProt ID | _ |
| Length | 764 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 764 a.a. Molecular weight: 85384.54 Da Isoelectric Point: 5.0132
>WP_064411283.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacterales]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLAPMR
DIIRSQPVYTISYYGKSLEYNAEQILADKYTIWCGEQLWTAFVFAAIVSLTICVVTFFVASWVLGRQGKL
QSEDENTGGRQLSDNPKDVARQMKRDGAASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMRGDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDQPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYNPRPKIAEGFIQRRLDTRIDERLSAQLEAREAEGSLVRALFTPDEPVSEPAEEKAGVQPEQTKPAKDS
VLPVPVKTSSMAAEGAGKTPAVPLSGAPVTRVKTVPLIRPKPAASVTGTAAAASTAAVSATAGGTEQELA
QQPVEADQDMLPAGMNEDGVIEDMQAYDAWLEGEQIQRDMQRREEVNINHSRSEQDDIEIGGNF
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLAPMR
DIIRSQPVYTISYYGKSLEYNAEQILADKYTIWCGEQLWTAFVFAAIVSLTICVVTFFVASWVLGRQGKL
QSEDENTGGRQLSDNPKDVARQMKRDGAASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMRGDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDQPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYNPRPKIAEGFIQRRLDTRIDERLSAQLEAREAEGSLVRALFTPDEPVSEPAEEKAGVQPEQTKPAKDS
VLPVPVKTSSMAAEGAGKTPAVPLSGAPVTRVKTVPLIRPKPAASVTGTAAAASTAAVSATAGGTEQELA
QQPVEADQDMLPAGMNEDGVIEDMQAYDAWLEGEQIQRDMQRREEVNINHSRSEQDDIEIGGNF
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 97664..124576
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| JMX15_RS28105 | 97664..99958 | - | 2295 | WP_064411283 | type IV conjugative transfer system coupling protein TraD | virb4 |
| JMX15_RS28110 | 100166..100693 | - | 528 | WP_064411282 | hypothetical protein | - |
| JMX15_RS28115 | 100704..103547 | - | 2844 | WP_082238102 | conjugal transfer mating-pair stabilization protein TraG | traG |
| JMX15_RS28120 | 103547..104917 | - | 1371 | WP_082238101 | conjugal transfer pilus assembly protein TraH | traH |
| JMX15_RS28125 | 104904..105464 | - | 561 | WP_082238100 | type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB | traF |
| JMX15_RS28130 | 105439..105675 | - | 237 | WP_053390221 | type-F conjugative transfer system pilin chaperone TraQ | - |
| JMX15_RS28135 | 105686..106438 | - | 753 | WP_082238099 | type-F conjugative transfer system pilin assembly protein TraF | traF |
| JMX15_RS28140 | 106459..106785 | - | 327 | WP_082238098 | hypothetical protein | - |
| JMX15_RS28145 | 106831..107073 | - | 243 | WP_082238097 | conjugal transfer protein TrbE | - |
| JMX15_RS28150 | 107063..107674 | - | 612 | WP_082238096 | hypothetical protein | - |
| JMX15_RS28155 | 107788..109731 | - | 1944 | WP_032736856 | type-F conjugative transfer system mating-pair stabilization protein TraN | traN |
| JMX15_RS28160 | 109728..110354 | - | 627 | WP_082238095 | type-F conjugative transfer system pilin assembly protein TrbC | trbC |
| JMX15_RS28165 | 110367..111326 | - | 960 | WP_088912317 | conjugal transfer pilus assembly protein TraU | traU |
| JMX15_RS28170 | 111370..111996 | - | 627 | WP_042946288 | type-F conjugative transfer system protein TraW | traW |
| JMX15_RS28175 | 111993..112382 | - | 390 | WP_032736860 | type-F conjugative transfer system protein TrbI | - |
| JMX15_RS28180 | 112382..112921 | - | 540 | Protein_117 | type IV secretion system protein TraC | - |
| JMX15_RS28185 | 112979..113947 | - | 969 | WP_077254959 | IS5-like element IS903B family transposase | - |
| JMX15_RS28190 | 113949..116087 | - | 2139 | WP_265342662 | type IV secretion system protein TraC | virb4 |
| JMX15_RS28195 | 116180..116563 | - | 384 | WP_042946290 | hypothetical protein | - |
| JMX15_RS28200 | 116650..116949 | - | 300 | WP_032736863 | hypothetical protein | - |
| JMX15_RS28640 | 116946..117347 | - | 402 | WP_032736864 | hypothetical protein | - |
| JMX15_RS28210 | 117432..117710 | - | 279 | WP_032736865 | hypothetical protein | - |
| JMX15_RS28215 | 117822..118391 | - | 570 | WP_042946293 | type IV conjugative transfer system lipoprotein TraV | traV |
| JMX15_RS28220 | 118411..118572 | - | 162 | WP_154235504 | hypothetical protein | - |
| JMX15_RS28225 | 118565..119986 | - | 1422 | WP_032736866 | F-type conjugal transfer pilus assembly protein TraB | traB |
| JMX15_RS28230 | 119986..120720 | - | 735 | WP_032736867 | type-F conjugative transfer system secretin TraK | traK |
| JMX15_RS28235 | 120707..121273 | - | 567 | WP_032736869 | type IV conjugative transfer system protein TraE | traE |
| JMX15_RS28240 | 121293..121598 | - | 306 | WP_032736870 | type IV conjugative transfer system protein TraL | traL |
| JMX15_RS28245 | 121612..121980 | - | 369 | WP_032736871 | type IV conjugative transfer system pilin TraA | - |
| JMX15_RS28250 | 122049..122249 | - | 201 | WP_060415469 | TraY domain-containing protein | - |
| JMX15_RS28255 | 122334..123035 | - | 702 | WP_032736872 | hypothetical protein | - |
| JMX15_RS28260 | 123274..123666 | - | 393 | WP_032736874 | conjugal transfer relaxosome DNA-binding protein TraM | - |
| JMX15_RS28265 | 124097..124576 | + | 480 | WP_032716648 | transglycosylase SLT domain-containing protein | virB1 |
| JMX15_RS28270 | 124614..125144 | - | 531 | WP_032716647 | antirestriction protein | - |
| JMX15_RS28275 | 125829..125975 | - | 147 | WP_032700834 | hypothetical protein | - |
| JMX15_RS28280 | 126069..126416 | - | 348 | WP_032700835 | hypothetical protein | - |
| JMX15_RS28285 | 126442..126600 | - | 159 | WP_162180130 | hypothetical protein | - |
| JMX15_RS28290 | 126657..126932 | - | 276 | WP_032700867 | hypothetical protein | - |
| JMX15_RS28295 | 127751..128032 | - | 282 | WP_004118961 | helix-turn-helix transcriptional regulator | - |
| JMX15_RS28300 | 128013..128342 | - | 330 | WP_004118963 | type II toxin-antitoxin system RelE/ParE family toxin | - |
| JMX15_RS28645 | 128662..128749 | - | 88 | Protein_142 | theronine dehydrogenase | - |
| JMX15_RS28305 | 128746..129474 | - | 729 | WP_112150740 | plasmid SOS inhibition protein A | - |
Host bacterium
| ID | 13328 | GenBank | NZ_LR890659 |
| Plasmid name | MSB1_9C|3 | Incompatibility group | IncFIB |
| Plasmid size | 147079 bp | Coordinate of oriT [Strand] | 123974..124023 [+] |
| Host baterium | Serratia marcescens strain MSB1_9C isolate MSB1_9C |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | mrkA |
| Metal resistance gene | chrA, ncrA, ncrB, ncrC, silR, silS, silE, merE, merD, merA, merP, merT, merR |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |