Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 113729 |
| Name | oriT_pSA20121591.1  |
| Organism | Salmonella enterica subsp. diarizonae serovar 48:i:z strain SA20121591 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP029990 (108526..108607 [+], 82 nt) |
| oriT length | 82 nt |
| IRs (inverted repeats) | 44..49, 52..57 (CCGCGC..GCGCGG) |
| Location of nic site | _ |
| Conserved sequence flanking the nic site |
_ |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 82 nt
>oriT_pSA20121591.1
CGGGGTGTCGGGGCGAAGCCCTGACCAGGTGGTAAATGTATGGCCGCGCGTGCGCGGTTATACATTTACACATCCTGTCCCG
CGGGGTGTCGGGGCGAAGCCCTGACCAGGTGGTAAATGTATGGCCGCGCGTGCGCGGTTATACATTTACACATCCTGTCCCG
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 8790 | GenBank | WP_154715092 |
| Name | nikB_DOE59_RS26240_pSA20121591.1 |
UniProt ID | _ |
| Length | 899 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 899 a.a. Molecular weight: 104089.34 Da Isoelectric Point: 7.1711
>WP_154715092.1 MULTISPECIES: IncI1-type relaxase NikB [Salmonella]
MNAIIPKKRRDGKSSFEDLVSYVSVRDDVEDEELHALSSVQSELSHRSRFSRLVDYATRLRDESFVSLVD
VMKDGCEWVNFYGVTCFHNCTSLETAAEEMEYTARQARYAKDDTDPVFHYILSWQAHESPRPEQIYDSVR
HTLKALGLPEHQYVSAVHTDTDNLHVHVAVNRVHPDTGYLNCLSWSQEKLSRACRELELKHGFAPDNGCW
IHAPGNRIVRKTAVERDRQNAWKRGRKQTFREYVAQTAVAGLRSEPVHDWLSLHRRLAEDGLYLSQQNGS
FMVMDGWDRNHEGVQLDSFGPSWSGEKLRKKMGEYTPVPNDIFSQVVTPGRYKPEAVAADTRPEKITETE
SLMQYACRHTGERLPEMAREGQLESCQAIHRTLAEAGLWMRIQHGHLVICDGYDHNQTPVRADSVWSLLT
LENVKQLSGGWQPVPTDIFRQVTPTERFSGRRLENCPASDKEWHRMRTGTGPQGAIRRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLARAEP
QAGPFVSAPADLFDRVKPASRYNPELAVSDQSREDCRRDPVLRRQRREARAEARADLRARYLAWRDQWRK
PELRYGERSREIHQACRLRKSHIRVQYDDPVLRKLHYHIAEVQRMQALIRLKEEIRDERQKLIADGKWYP
PSYRQWVETQAAQGDRAAVSQLRGWDYRDRRKDKSRTTTADRCVILCEPGGTPVYENRGDLEARLQKNGS
VRFRDRRSGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFERDPGMGFEPEGNDRQFNQVFAEMVAW
HNVTERTGHGDYTISRPDVDHHREGSERYYRDYINAHTGSDMSLTSPEQETHREPPSPL
MNAIIPKKRRDGKSSFEDLVSYVSVRDDVEDEELHALSSVQSELSHRSRFSRLVDYATRLRDESFVSLVD
VMKDGCEWVNFYGVTCFHNCTSLETAAEEMEYTARQARYAKDDTDPVFHYILSWQAHESPRPEQIYDSVR
HTLKALGLPEHQYVSAVHTDTDNLHVHVAVNRVHPDTGYLNCLSWSQEKLSRACRELELKHGFAPDNGCW
IHAPGNRIVRKTAVERDRQNAWKRGRKQTFREYVAQTAVAGLRSEPVHDWLSLHRRLAEDGLYLSQQNGS
FMVMDGWDRNHEGVQLDSFGPSWSGEKLRKKMGEYTPVPNDIFSQVVTPGRYKPEAVAADTRPEKITETE
SLMQYACRHTGERLPEMAREGQLESCQAIHRTLAEAGLWMRIQHGHLVICDGYDHNQTPVRADSVWSLLT
LENVKQLSGGWQPVPTDIFRQVTPTERFSGRRLENCPASDKEWHRMRTGTGPQGAIRRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLARAEP
QAGPFVSAPADLFDRVKPASRYNPELAVSDQSREDCRRDPVLRRQRREARAEARADLRARYLAWRDQWRK
PELRYGERSREIHQACRLRKSHIRVQYDDPVLRKLHYHIAEVQRMQALIRLKEEIRDERQKLIADGKWYP
PSYRQWVETQAAQGDRAAVSQLRGWDYRDRRKDKSRTTTADRCVILCEPGGTPVYENRGDLEARLQKNGS
VRFRDRRSGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFERDPGMGFEPEGNDRQFNQVFAEMVAW
HNVTERTGHGDYTISRPDVDHHREGSERYYRDYINAHTGSDMSLTSPEQETHREPPSPL
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
Auxiliary protein
| ID | 5177 | GenBank | WP_080102196 |
| Name | WP_080102196_pSA20121591.1 |
UniProt ID | _ |
| Length | 110 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
Auxiliary protein sequence
Download Length: 110 a.a. Molecular weight: 12699.58 Da Isoelectric Point: 10.6646
>WP_080102196.1 MULTISPECIES: plasmid mobilization protein MobA [Salmonella]
MSDKRERSGSERRQKTLLRAVRFSPDEDEIIRKKAEDAGLTVSAYIRSAALNTRVNSRIDDKFLKELMRL
GRMQKHLFVEGKRTGDKEYASVLVAITELSNTVRKQLMEN
MSDKRERSGSERRQKTLLRAVRFSPDEDEIIRKKAEDAGLTVSAYIRSAALNTRVNSRIDDKFLKELMRL
GRMQKHLFVEGKRTGDKEYASVLVAITELSNTVRKQLMEN
Protein domains
No domain identified.
Protein structure
No available structure.
T4CP
| ID | 10189 | GenBank | WP_253743163 |
| Name | trbC_DOE59_RS26045_pSA20121591.1 |
UniProt ID | _ |
| Length | 764 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 764 a.a. Molecular weight: 86728.13 Da Isoelectric Point: 7.9613
>WP_253743163.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Salmonella]
MSEHRVNPELIHRAAWGNPLWNALQTLNIYGLCLAGSLVVSFIWPLALPACLLFTLITMLVFSLQRWRCP
LRMPMTLKCADPSQDRMIKRSLFSFWPTLFQYEVIKESPANGIFYVGYQRVRDIGRELWLNIDDLTRHIM
FFATTGGGKTETIFAWAINPLCWGRGFTLVDGKAQNDTARTIWYLARRFGREDDVEVINFMNGGKSRSEI
ILSGEKTRPQSNTWNPFCYSTEAFTAETMQSMLPQNVQGGEWQSRAIAMNKALVFGTKFWCVREGKTMSL
QMLREHMTLEGMAKLYCRGLDDQWPEEAIAPLRNYLQDVPGFDMSLVRTPSAWTEEPRKQHAYLSGQFSE
TFSTFTEAFGDIFAEDSGDIDIRDSIHSDRILMVMIPALDTSAHTTSALGRMFVTQQSMILARDLGYRLE
GTDSDALEVKKYKGRFPYLCFLDEVGAYYTDRIAVEATQVRSLDFALILMAQDQERIEGQTTATNTATLM
QNTGTKFAGRIVSEGSTARTLKSAAGEEARARMNSLQRQDGIFGESWIDSPQISILMESKINVQELIELH
AGEFFSIFRGDTVPSTSFLIPDGEKSCSSDPVVINRYISVDAPRLDCLRRLVPRTAQRRIPSPENVSAII
GVLTAKPSRKRRKIRTEPHTIVDTFQQRIAGRQAAMAMLEEYDTDINARERALWETAVNTLKTTTREERR
IRYITLNRPETSAADVEKKVSVITEKAGIRLLSPTEGDGLFNRIPDKKNSHISTIHRKGWNNRF
MSEHRVNPELIHRAAWGNPLWNALQTLNIYGLCLAGSLVVSFIWPLALPACLLFTLITMLVFSLQRWRCP
LRMPMTLKCADPSQDRMIKRSLFSFWPTLFQYEVIKESPANGIFYVGYQRVRDIGRELWLNIDDLTRHIM
FFATTGGGKTETIFAWAINPLCWGRGFTLVDGKAQNDTARTIWYLARRFGREDDVEVINFMNGGKSRSEI
ILSGEKTRPQSNTWNPFCYSTEAFTAETMQSMLPQNVQGGEWQSRAIAMNKALVFGTKFWCVREGKTMSL
QMLREHMTLEGMAKLYCRGLDDQWPEEAIAPLRNYLQDVPGFDMSLVRTPSAWTEEPRKQHAYLSGQFSE
TFSTFTEAFGDIFAEDSGDIDIRDSIHSDRILMVMIPALDTSAHTTSALGRMFVTQQSMILARDLGYRLE
GTDSDALEVKKYKGRFPYLCFLDEVGAYYTDRIAVEATQVRSLDFALILMAQDQERIEGQTTATNTATLM
QNTGTKFAGRIVSEGSTARTLKSAAGEEARARMNSLQRQDGIFGESWIDSPQISILMESKINVQELIELH
AGEFFSIFRGDTVPSTSFLIPDGEKSCSSDPVVINRYISVDAPRLDCLRRLVPRTAQRRIPSPENVSAII
GVLTAKPSRKRRKIRTEPHTIVDTFQQRIAGRQAAMAMLEEYDTDINARERALWETAVNTLKTTTREERR
IRYITLNRPETSAADVEKKVSVITEKAGIRLLSPTEGDGLFNRIPDKKNSHISTIHRKGWNNRF
Protein domains
No domain identified.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 30037..65076
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| DOE59_RS25850 (DOE59_27100) | 25093..26160 | + | 1068 | WP_154715048 | TcpQ domain-containing protein | - |
| DOE59_RS25855 (DOE59_27105) | 26160..26597 | + | 438 | WP_154715049 | type IV pilus biogenesis protein PilM | - |
| DOE59_RS25860 (DOE59_27110) | 26611..28293 | + | 1683 | WP_154715050 | PilN family type IVB pilus formation outer membrane protein | - |
| DOE59_RS25865 (DOE59_27115) | 28286..29587 | + | 1302 | WP_154715051 | type 4b pilus protein PilO2 | - |
| DOE59_RS25870 (DOE59_27120) | 29574..30026 | + | 453 | WP_154715052 | type IV pilus biogenesis protein PilP | - |
| DOE59_RS25875 (DOE59_27125) | 30037..31590 | + | 1554 | WP_080102248 | GspE/PulE family protein | virB11 |
| DOE59_RS25880 (DOE59_27130) | 31603..32700 | + | 1098 | WP_114047669 | type II secretion system F family protein | - |
| DOE59_RS25885 (DOE59_27135) | 32718..33335 | + | 618 | WP_080102244 | type 4 pilus major pilin | - |
| DOE59_RS25890 (DOE59_27140) | 33345..33905 | + | 561 | WP_154715053 | lytic transglycosylase domain-containing protein | virB1 |
| DOE59_RS25895 (DOE59_27145) | 33890..34546 | + | 657 | WP_114047666 | A24 family peptidase | - |
| DOE59_RS25900 (DOE59_27150) | 34546..35874 | + | 1329 | WP_080102286 | shufflon system plasmid conjugative transfer pilus tip adhesin PilV | - |
| DOE59_RS27260 (DOE59_27155) | 36034..36126 | + | 93 | Protein_46 | shufflon-specific DNA recombinase | - |
| DOE59_RS25905 (DOE59_27160) | 36277..37101 | + | 825 | WP_154715054 | conjugal transfer protein TraE | traE |
| DOE59_RS25910 (DOE59_27165) | 37188..38390 | + | 1203 | WP_154715055 | conjugal transfer protein TraF | - |
| DOE59_RS25915 (DOE59_27170) | 38911..39366 | + | 456 | WP_114047663 | DotD/TraH family lipoprotein | - |
| DOE59_RS25920 (DOE59_27175) | 39363..40196 | + | 834 | WP_080102237 | type IV secretory system conjugative DNA transfer family protein | traI |
| DOE59_RS25925 (DOE59_27180) | 40340..41488 | + | 1149 | WP_114047662 | plasmid transfer ATPase TraJ | virB11 |
| DOE59_RS27045 (DOE59_27185) | 41485..41775 | + | 291 | WP_001838506 | hypothetical protein | traK |
| DOE59_RS25930 (DOE59_27190) | 41790..42347 | + | 558 | WP_154715056 | phospholipase D family protein | - |
| DOE59_RS25935 (DOE59_27195) | 42627..46178 | + | 3552 | WP_154715057 | LPD7 domain-containing protein | - |
| DOE59_RS25940 (DOE59_27200) | 46196..46546 | + | 351 | WP_080102233 | conjugal transfer protein | traL |
| DOE59_RS25945 (DOE59_27205) | 46621..47244 | + | 624 | WP_253743170 | DotI/IcmL family type IV secretion protein | traM |
| DOE59_RS25950 (DOE59_27210) | 47260..48243 | + | 984 | WP_154715058 | DotH/IcmK family type IV secretion protein | traN |
| DOE59_RS25955 (DOE59_27215) | 48246..49547 | + | 1302 | WP_154715059 | conjugal transfer protein TraO | traO |
| DOE59_RS25960 (DOE59_27220) | 49544..50257 | + | 714 | WP_080102230 | conjugal transfer protein TraP | traP |
| DOE59_RS25965 (DOE59_27225) | 50257..50784 | + | 528 | WP_080102229 | conjugal transfer protein TraQ | traQ |
| DOE59_RS25970 (DOE59_27230) | 50827..51231 | + | 405 | WP_080102228 | DUF6750 family protein | traR |
| DOE59_RS25975 (DOE59_27235) | 51300..51488 | + | 189 | WP_000556965 | hypothetical protein | - |
| DOE59_RS25980 (DOE59_27240) | 51472..52272 | + | 801 | WP_080102227 | conjugal transfer protein TraT | traT |
| DOE59_RS25985 (DOE59_27245) | 52370..55414 | + | 3045 | WP_154715060 | ATP-binding protein | traU |
| DOE59_RS25990 (DOE59_27250) | 55414..56043 | + | 630 | WP_154715061 | conjugal transfer protein TraV | - |
| DOE59_RS25995 (DOE59_27255) | 56001..57203 | + | 1203 | WP_154715062 | conjugal transfer protein TraW | traW |
| DOE59_RS26000 (DOE59_27260) | 57200..57451 | + | 252 | WP_154715063 | hypothetical protein | - |
| DOE59_RS26005 (DOE59_27265) | 57444..58028 | + | 585 | WP_154715064 | conjugal transfer protein TraX | - |
| DOE59_RS26010 (DOE59_27270) | 58127..60298 | + | 2172 | WP_154715065 | DotA/TraY family protein | traY |
| DOE59_RS26015 (DOE59_27275) | 60331..60987 | + | 657 | WP_154715066 | plasmid IncI1-type surface exclusion protein ExcA | - |
| DOE59_RS26020 (DOE59_27280) | 61205..61414 | + | 210 | WP_080102219 | hemolysin expression modulator Hha | - |
| DOE59_RS27115 | 61484..61579 | - | 96 | WP_301337427 | DinQ-like type I toxin DqlB | - |
| DOE59_RS26025 (DOE59_27285) | 61969..62283 | - | 315 | WP_154715067 | DNA-binding transcriptional regulator | - |
| DOE59_RS26030 (DOE59_27290) | 62276..62620 | - | 345 | WP_080102217 | toxin | - |
| DOE59_RS26035 (DOE59_27295) | 62768..63976 | + | 1209 | WP_154715068 | IncI1-type conjugal transfer protein TrbA | trbA |
| DOE59_RS26040 (DOE59_27300) | 63994..65076 | + | 1083 | WP_154715069 | DsbC family protein | trbB |
| DOE59_RS26045 (DOE59_27305) | 65069..67363 | + | 2295 | WP_253743163 | F-type conjugative transfer protein TrbC | - |
| DOE59_RS26050 (DOE59_27310) | 67450..67751 | + | 302 | Protein_78 | transposase | - |
| DOE59_RS26055 (DOE59_27315) | 67833..68636 | - | 804 | WP_154715104 | transporter substrate-binding domain-containing protein | - |
| DOE59_RS26060 (DOE59_27320) | 69254..69634 | - | 381 | WP_154715070 | hypothetical protein | - |
| DOE59_RS26065 (DOE59_27325) | 69686..70027 | - | 342 | WP_080102214 | DsrE family protein | - |
Host bacterium
| ID | 14164 | GenBank | NZ_CP029990 |
| Plasmid name | pSA20121591.1 | Incompatibility group | IncB/O/K/Z |
| Plasmid size | 121189 bp | Coordinate of oriT [Strand] | 108526..108607 [+] |
| Host baterium | Salmonella enterica subsp. diarizonae serovar 48:i:z strain SA20121591 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |