Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 107524 |
| Name | oriT_pNDM_7209  |
| Organism | Serratia marcescens strain 7209 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_MF042359 (71300..71402 [-], 103 nt) |
| oriT length | 103 nt |
| IRs (inverted repeats) | 89..94, 96..101 (AAATAA..TTATTT) 28..33, 40..45 (GCAAAA..TTTTGC) |
| Location of nic site | _ |
| Conserved sequence flanking the nic site |
_ |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 103 nt
>oriT_pNDM_7209
CTCACCACCAAAAGTTCCACACCCCACGCAAAATTAAAGTTTTGCTGATTGGGTATTCAAATCATGCAGTTAGTGAAAAAGTAATGTGAAATAATTTATTTTA
CTCACCACCAAAAGTTCCACACCCCACGCAAAATTAAAGTTTTGCTGATTGGGTATTCAAATCATGCAGTTAGTGAAAAAGTAATGTGAAATAATTTATTTTA
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 5048 | GenBank | WP_101452705 |
| Name | traI_HTN47_RS00315_pNDM_7209 |
UniProt ID | _ |
| Length | 1746 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 1746 a.a. Molecular weight: 189283.40 Da Isoelectric Point: 6.0099
>WP_101452705.1 conjugative transfer relaxase/helicase TraI [Serratia marcescens]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMGERWAGKGAEALGLSGGVDQKVFTKVLEGRLPDGSDLSRTQ
DGANKHRPGYDFTFSAPKSVSVMAMLGDDKRLIEAHNRAVETAIKQIEAMASTRVMTEGRSETQLTGNLV
MALFNHDTSRDQEPQLHTHAVVANATQHGDEWRTLSSDKVGKTGFIENIYANQIAFGRLYRAALKDDVAA
MGYETETVGKHGMWELKGVPTEPYSSRSRTISEAVGDDASLKSRDVAALDTRQSKQKVDPEQRMAEWMQT
LKETGFDIKAYREAADLRVVQGNIPATTPEAIDINSSVGQAIAMLSDRRARFTYSELLATTLGQLPARSG
MVEMARDGIDAAIKNEQLIPLDKEKGLFTSNIHVLDELSVSAMTRDLQRTGQADIFPDKSVPRSRSYSDA
VSVLAQDRPPVAIISGQGGAAGQRERVAELTMMAREQGRDVQIIAADRRSRSALMQDERLSGEHITDRRG
LTEGMAFTPGSTLIVDQGEKLTLKETLTLLDGALRHNVQLLIADSGQRTGTGSALTVMKEAGVSTLAWQG
GEKTQVSVISEPDRRQRYDRLAADFARSVRAGEHSVAQVTGPREQAVLAGVVREAPKAEKVLGEREVSIT
TLEPVWLDSRHQQVRDHYREGMVMERWNAEERSRERFVIDRVTGRNNSLTLRNAQGETRVTRLSELNSSW
SLYRTGTLQVAEGDRLAVLGQAQGTRLRGGDTVTVKALGEAGLVVSLPGRKADVVLPAGDSPFTAAKVVQ
GWVESPGRSVSDSATVFASLSQRELDNTTLNKLALSGRAVRLYSAQTAQKTTEKLSRQSAWSVVSEQIKD
AAGHDRLDDALAHQKAGLHTPEQQAIHLAIPVLEGNGLAFTKPQLMAAAKEFEQDSLSLQAIEKEADRQV
RSGDLLSVPVSPGNGLQLLVSRQSYNAEKSIIRHVLEGKEAVTPLMDKVPDAQLAGLTDGQRNATRMILE
SPDRFTLVQGYAGVGKTTQFRAVMSAIGTLPEREQPRVIGVAPTHRAVSEMRDAGVPETQTLAAFIHDTQ
QQLRGGERTDFSNVLFLVDESSMVGNADMAKAYSLIAGAGGRAVSSGDTDQLQSIAPGQPFRLLQKRSAI
DVAVMQEIVRQTPELKPAVYSLISRDIGSALTTIESVAPAQVPRRADAWQPDSSVMEFSREREEAIAKAV
AAGDLMPGGQPATLLEAIVKDYTGRTSEAQAQTIVITALNADRRQVNAMIHDARQGAGEVGEKEVTLPVL
TPANIRDGELRRMATWEASRDSLVLLDSTYYSIEALDGEAHLVMLKDAQGNTRSLSPAQAATEGVTLYRQ
DTITVSEGDRMRFSKSDNERGFVANSVWSVSEIKGDSVTLSDGKQTRTLTPSAEQAEQHIDLAYAVTVEG
SQGASEPFSISLQGTDGGRKRMVSFESAYVALSRMKQHAQVYTDNRDKWAAAMEKSQAKSTAHDILEPRG
DRAVANAARLTATAKALGEVPAGRAALRQAGLQPEGSMAKYISPGRKYPQPHVALPAFDRNGRKAGVWLS
ALTSGDGQLKGLAGEGRVMGSGDAAFAGLQASRNGESLLARDMEEGVRLARENPQSGVVVRLEGEARPWN
PGAITGGRVWADGLPDATGTQPAETVPPEVLAQQAREAEVQRELDKRAEEAVREMARSGDRPAGGADVAV
RDVVRDMDRIKETPASPLTLPDAPEERRRDEAVSQVVRESVQRDRLQQMERETVRDLEREKTLGGD
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMGERWAGKGAEALGLSGGVDQKVFTKVLEGRLPDGSDLSRTQ
DGANKHRPGYDFTFSAPKSVSVMAMLGDDKRLIEAHNRAVETAIKQIEAMASTRVMTEGRSETQLTGNLV
MALFNHDTSRDQEPQLHTHAVVANATQHGDEWRTLSSDKVGKTGFIENIYANQIAFGRLYRAALKDDVAA
MGYETETVGKHGMWELKGVPTEPYSSRSRTISEAVGDDASLKSRDVAALDTRQSKQKVDPEQRMAEWMQT
LKETGFDIKAYREAADLRVVQGNIPATTPEAIDINSSVGQAIAMLSDRRARFTYSELLATTLGQLPARSG
MVEMARDGIDAAIKNEQLIPLDKEKGLFTSNIHVLDELSVSAMTRDLQRTGQADIFPDKSVPRSRSYSDA
VSVLAQDRPPVAIISGQGGAAGQRERVAELTMMAREQGRDVQIIAADRRSRSALMQDERLSGEHITDRRG
LTEGMAFTPGSTLIVDQGEKLTLKETLTLLDGALRHNVQLLIADSGQRTGTGSALTVMKEAGVSTLAWQG
GEKTQVSVISEPDRRQRYDRLAADFARSVRAGEHSVAQVTGPREQAVLAGVVREAPKAEKVLGEREVSIT
TLEPVWLDSRHQQVRDHYREGMVMERWNAEERSRERFVIDRVTGRNNSLTLRNAQGETRVTRLSELNSSW
SLYRTGTLQVAEGDRLAVLGQAQGTRLRGGDTVTVKALGEAGLVVSLPGRKADVVLPAGDSPFTAAKVVQ
GWVESPGRSVSDSATVFASLSQRELDNTTLNKLALSGRAVRLYSAQTAQKTTEKLSRQSAWSVVSEQIKD
AAGHDRLDDALAHQKAGLHTPEQQAIHLAIPVLEGNGLAFTKPQLMAAAKEFEQDSLSLQAIEKEADRQV
RSGDLLSVPVSPGNGLQLLVSRQSYNAEKSIIRHVLEGKEAVTPLMDKVPDAQLAGLTDGQRNATRMILE
SPDRFTLVQGYAGVGKTTQFRAVMSAIGTLPEREQPRVIGVAPTHRAVSEMRDAGVPETQTLAAFIHDTQ
QQLRGGERTDFSNVLFLVDESSMVGNADMAKAYSLIAGAGGRAVSSGDTDQLQSIAPGQPFRLLQKRSAI
DVAVMQEIVRQTPELKPAVYSLISRDIGSALTTIESVAPAQVPRRADAWQPDSSVMEFSREREEAIAKAV
AAGDLMPGGQPATLLEAIVKDYTGRTSEAQAQTIVITALNADRRQVNAMIHDARQGAGEVGEKEVTLPVL
TPANIRDGELRRMATWEASRDSLVLLDSTYYSIEALDGEAHLVMLKDAQGNTRSLSPAQAATEGVTLYRQ
DTITVSEGDRMRFSKSDNERGFVANSVWSVSEIKGDSVTLSDGKQTRTLTPSAEQAEQHIDLAYAVTVEG
SQGASEPFSISLQGTDGGRKRMVSFESAYVALSRMKQHAQVYTDNRDKWAAAMEKSQAKSTAHDILEPRG
DRAVANAARLTATAKALGEVPAGRAALRQAGLQPEGSMAKYISPGRKYPQPHVALPAFDRNGRKAGVWLS
ALTSGDGQLKGLAGEGRVMGSGDAAFAGLQASRNGESLLARDMEEGVRLARENPQSGVVVRLEGEARPWN
PGAITGGRVWADGLPDATGTQPAETVPPEVLAQQAREAEVQRELDKRAEEAVREMARSGDRPAGGADVAV
RDVVRDMDRIKETPASPLTLPDAPEERRRDEAVSQVVRESVQRDRLQQMERETVRDLEREKTLGGD
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4CP
| ID | 5267 | GenBank | WP_238785716 |
| Name | t4cp2_HTN47_RS00555_pNDM_7209 |
UniProt ID | _ |
| Length | 810 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 810 a.a. Molecular weight: 88042.35 Da Isoelectric Point: 4.7489
>WP_238785716.1 type IV secretion system DNA-binding domain-containing protein [Serratia marcescens]
MSVLAIATTMASVNAFADADAQYRAGADFARQVQGQGESSLKNFNPSASIPNYTASPGEKKYYGGVTATG
DGALKADGTTGWTTNEATKAVTDSFVNNPKEPISPDAPFIKASQDVQSRADTIIGKTGQTQCEAQNISRS
EFTNYTCERDLLVEQACTRTASITGHYEDTSETKQIVIQSQNISFASSEAGYTGTWTAPVTGKVVAATAT
YSWNKRLAFSNPNWFMRVTTPFGLISMDNDTGSLALSSGMQLKKGAGMVFSIRTRRNNPTTDSIWKHSNM
RYSFTVTLQIEIPAKKWVPDVVWNESCPFSKSEGTLKKTECIEPGSTKTVVVDGVSYPVTQACWKYKDTY
MTQAADNGTCKTYMNNPACTLASRTCAFTAEDGSGCLHEYATYSCETRTSGQVMICGGDTFCLDGDCERA
QNGKNNDFAPVVSALAALAAAGKDVAAINSVNVRAFISMWLSIAIRGLLAMGENRNRRVWIFADELPTLH
KLPDLVEILPEARKFGGCYVIGIQSYAQLEDIYGQKPAETLFDVLNTRAFFRSPSRNIAEFAAGEIGEKE
ILKASEQYSYGVDPVRDGTSVGKDMERVTLVSYSDVQTLPDLSCYVTLPGPYPAVKMALKYQQRPKVAPE
FIPRTIDGKAEERLNAALAAREHESRSIAMLFEPDADVVAPEGGAENAGQPQQPQQPQQPQQPQQPQQPQ
QPQQPQQPQQPQQPQQPQQLTPAPRAADAASVAGAAGAGGVEPELKTKAEEAEQLPPGISESGEVVDMAA
WEAWQAEQDELSPQERQRREEVNINVHRAPEKDLEPGGYI
MSVLAIATTMASVNAFADADAQYRAGADFARQVQGQGESSLKNFNPSASIPNYTASPGEKKYYGGVTATG
DGALKADGTTGWTTNEATKAVTDSFVNNPKEPISPDAPFIKASQDVQSRADTIIGKTGQTQCEAQNISRS
EFTNYTCERDLLVEQACTRTASITGHYEDTSETKQIVIQSQNISFASSEAGYTGTWTAPVTGKVVAATAT
YSWNKRLAFSNPNWFMRVTTPFGLISMDNDTGSLALSSGMQLKKGAGMVFSIRTRRNNPTTDSIWKHSNM
RYSFTVTLQIEIPAKKWVPDVVWNESCPFSKSEGTLKKTECIEPGSTKTVVVDGVSYPVTQACWKYKDTY
MTQAADNGTCKTYMNNPACTLASRTCAFTAEDGSGCLHEYATYSCETRTSGQVMICGGDTFCLDGDCERA
QNGKNNDFAPVVSALAALAAAGKDVAAINSVNVRAFISMWLSIAIRGLLAMGENRNRRVWIFADELPTLH
KLPDLVEILPEARKFGGCYVIGIQSYAQLEDIYGQKPAETLFDVLNTRAFFRSPSRNIAEFAAGEIGEKE
ILKASEQYSYGVDPVRDGTSVGKDMERVTLVSYSDVQTLPDLSCYVTLPGPYPAVKMALKYQQRPKVAPE
FIPRTIDGKAEERLNAALAAREHESRSIAMLFEPDADVVAPEGGAENAGQPQQPQQPQQPQQPQQPQQPQ
QPQQPQQPQQPQQPQQPQQLTPAPRAADAASVAGAAGAGGVEPELKTKAEEAEQLPPGISESGEVVDMAA
WEAWQAEQDELSPQERQRREEVNINVHRAPEKDLEPGGYI
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
| ID | 5268 | GenBank | WP_008324134 |
| Name | traC_HTN47_RS00345_pNDM_7209 |
UniProt ID | _ |
| Length | 876 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 876 a.a. Molecular weight: 98841.51 Da Isoelectric Point: 5.7676
>WP_008324134.1 MULTISPECIES: type IV secretion system protein TraC [Enterobacterales]
MSNPLDSVTRTVNSLLTALKMPDASSEANDVLGQMRFPQFSRVLPYRDYDAETGLFMNEKTMGFMLEAQP
INGANETIVSSLENLMRTKLPREVPVAVHLVSSHLVGQDIEYGLRELSWTGEKADTFNAITRAYYLRAAE
EGFPLPDHLNLPLTLRNYRVYISCCVPRKRGSKASVMEMENQVKIIRASLQGAQIATRSVDADAFIRIAG
EMINHNPDALYPTERELDPLKDLNYQCVDDTFDLKVKADYMTLGLRGNGRNSTARIMNFQLTKNPELAFL
WNMADNYSNLLNPELSVSCPFILTLVLSVEDQVKAQNEANLKFMDLEKKSKTSYAKFFPGVAQEAKEWGD
LRQRLSSGQSSLVSYFLNVTLFCRDDQETALKVEQDVLNSFRKNGFELISPRFNHMRNFLVNLPFMAGGG
LFKQLRESGVLQRAESFNVANLMPVVADSPLATSGLLAPTYRNQLAFIDLFSRGMGNTNFNMAVCGTSGA
GKTGLIQPLIRSVIDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLKFNPFANVTDDTIDEMAERLRDQL
SVMASPNGNLDEVHEGLLLKAVKATWLTKKNQARIDDVVDYLMMARDSEEYSGSPTIRSRLDEMVVLLTQ
YTRDGVYGSYFNSDEPSLKDEARMVVLELGGLEDRPSLLVAVMFSLILYIENRMYRTPRSLKKLNVIDEG
WRLLDFKNNKVGAFIEKGYRTARRHTGSYITITQNIVDFDSETASSAARAAWGNSSYKIILKQSAKEFAK
YNQLYPDQYSQLQRDMIKGFGSAKDNWFSSFMLSVEHLTSWHRLFVDPLSRAMYSSDGPDFEFLQQRRRE
GLSIHEAVWELAWKKSGPEMAALERWLHEHEGKTIS
MSNPLDSVTRTVNSLLTALKMPDASSEANDVLGQMRFPQFSRVLPYRDYDAETGLFMNEKTMGFMLEAQP
INGANETIVSSLENLMRTKLPREVPVAVHLVSSHLVGQDIEYGLRELSWTGEKADTFNAITRAYYLRAAE
EGFPLPDHLNLPLTLRNYRVYISCCVPRKRGSKASVMEMENQVKIIRASLQGAQIATRSVDADAFIRIAG
EMINHNPDALYPTERELDPLKDLNYQCVDDTFDLKVKADYMTLGLRGNGRNSTARIMNFQLTKNPELAFL
WNMADNYSNLLNPELSVSCPFILTLVLSVEDQVKAQNEANLKFMDLEKKSKTSYAKFFPGVAQEAKEWGD
LRQRLSSGQSSLVSYFLNVTLFCRDDQETALKVEQDVLNSFRKNGFELISPRFNHMRNFLVNLPFMAGGG
LFKQLRESGVLQRAESFNVANLMPVVADSPLATSGLLAPTYRNQLAFIDLFSRGMGNTNFNMAVCGTSGA
GKTGLIQPLIRSVIDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLKFNPFANVTDDTIDEMAERLRDQL
SVMASPNGNLDEVHEGLLLKAVKATWLTKKNQARIDDVVDYLMMARDSEEYSGSPTIRSRLDEMVVLLTQ
YTRDGVYGSYFNSDEPSLKDEARMVVLELGGLEDRPSLLVAVMFSLILYIENRMYRTPRSLKKLNVIDEG
WRLLDFKNNKVGAFIEKGYRTARRHTGSYITITQNIVDFDSETASSAARAAWGNSSYKIILKQSAKEFAK
YNQLYPDQYSQLQRDMIKGFGSAKDNWFSSFMLSVEHLTSWHRLFVDPLSRAMYSSDGPDFEFLQQRRRE
GLSIHEAVWELAWKKSGPEMAALERWLHEHEGKTIS
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 57243..71950
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| HTN47_RS00555 | 57243..59675 | - | 2433 | WP_238785716 | type IV secretion system DNA-binding domain-containing protein | traN |
| HTN47_RS00325 | 59690..60319 | - | 630 | WP_008324130 | type-F conjugative transfer system pilin assembly protein TrbC | trbC |
| HTN47_RS00330 | 60336..61322 | - | 987 | WP_042934586 | conjugal transfer pilus assembly protein TraU | traU |
| HTN47_RS00335 | 61325..61972 | - | 648 | WP_008324132 | type-F conjugative transfer system protein TraW | traW |
| HTN47_RS00340 | 61972..62319 | - | 348 | WP_008324133 | type-F conjugative transfer system protein TrbI | - |
| HTN47_RS00345 | 62316..64946 | - | 2631 | WP_008324134 | type IV secretion system protein TraC | virb4 |
| HTN47_RS00350 | 64939..65505 | - | 567 | WP_008324135 | conjugal transfer pilus-stabilizing protein TraP | - |
| HTN47_RS00355 | 65495..65896 | - | 402 | WP_016479985 | hypothetical protein | - |
| HTN47_RS00360 | 65880..66065 | - | 186 | WP_008324139 | hypothetical protein | - |
| HTN47_RS00365 | 66069..66293 | - | 225 | WP_008324141 | TraR/DksA C4-type zinc finger protein | - |
| HTN47_RS00370 | 66413..66952 | - | 540 | WP_016247533 | type IV conjugative transfer system lipoprotein TraV | traV |
| HTN47_RS00375 | 66974..67189 | - | 216 | WP_101452704 | hypothetical protein | - |
| HTN47_RS00380 | 67286..68029 | - | 744 | WP_008324157 | type-F conjugative transfer system secretin TraK | traK |
| HTN47_RS00385 | 68016..68582 | - | 567 | WP_016247535 | type IV conjugative transfer system protein TraE | traE |
| HTN47_RS00390 | 68597..68902 | - | 306 | WP_008324160 | type IV conjugative transfer system protein TraL | traL |
| HTN47_RS00395 | 69053..69403 | - | 351 | WP_016247536 | type IV conjugative transfer system pilin TraA | - |
| HTN47_RS00400 | 69461..69685 | - | 225 | WP_008324165 | TraY domain-containing protein | - |
| HTN47_RS00405 | 69772..70461 | - | 690 | WP_008324166 | hypothetical protein | - |
| HTN47_RS00410 | 70650..71042 | - | 393 | WP_008324167 | conjugal transfer relaxosome DNA-binding protein TraM | - |
| HTN47_RS00415 | 71474..71950 | + | 477 | WP_008324168 | transglycosylase SLT domain-containing protein | - |
| HTN47_RS00420 | 71997..72527 | - | 531 | WP_008324170 | antirestriction protein | - |
| HTN47_RS00425 | 73154..73984 | - | 831 | WP_008324171 | N-6 DNA methylase | - |
| HTN47_RS00430 | 74027..74290 | - | 264 | WP_008324174 | hypothetical protein | - |
| HTN47_RS00435 | 74376..74720 | - | 345 | WP_008324177 | hypothetical protein | - |
| HTN47_RS00440 | 74767..75054 | - | 288 | WP_008324178 | hypothetical protein | - |
| HTN47_RS00445 | 75108..75482 | - | 375 | WP_008324180 | hypothetical protein | - |
| HTN47_RS00450 | 76109..76468 | - | 360 | WP_015493069 | hypothetical protein | - |
| HTN47_RS00455 | 76530..76853 | - | 324 | WP_008324183 | hypothetical protein | - |
Host bacterium
| ID | 7959 | GenBank | NZ_MF042359 |
| Plasmid name | pNDM_7209 | Incompatibility group | IncFIB |
| Plasmid size | 87593 bp | Coordinate of oriT [Strand] | 71300..71402 [-] |
| Host baterium | Serratia marcescens strain 7209 |
Cargo genes
| Drug resistance gene | blaNDM-1, rmtC, sul1 |
| Virulence gene | htpB |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |