Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 107629 |
| Name | oriT_KACC 13094|unnamed1  |
| Organism | Rhizobium daejeonense strain KACC 13094 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP048424 (60878..60921 [-], 44 nt) |
| oriT length | 44 nt |
| IRs (inverted repeats) | 23..28, 33..38 (CGTCGC..GCGACG) |
| Location of nic site | _ |
| Conserved sequence flanking the nic site |
_ |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 44 nt
>oriT_KACC 13094|unnamed1
GGATCCGAAGGGCGCAATTATACGTCGCTGACGCGACGCCCTGC
GGATCCGAAGGGCGCAATTATACGTCGCTGACGCGACGCCCTGC
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 5124 | GenBank | WP_163897203 |
| Name | traA_GT349_RS00325_KACC 13094|unnamed1 |
UniProt ID | _ |
| Length | 1102 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 1102 a.a. Molecular weight: 121880.63 Da Isoelectric Point: 9.8112
>WP_163897203.1 Ti-type conjugative transfer relaxase TraA [Rhizobium daejeonense]
MAVPHFSVNVVARGSGRSAVLSAAYRHCAKMEYEREARTIDYRAKQGLLHEAFVIPADAPQWLRAMISDR
SVSGASETFWNTVEMFEKRTDAQLAKDLTIALPVELSAEQNIALMREFVERHVTGKGMVADWVYHDAPGN
PHVHLMTTLRPLTEDGFGSKKVPVTGPDGKPRRNDAGRQVYELWAGGLDDFNAFRDGWFACQNRHLALAG
LDIRIDGRSFEKQGIELTPTIHLGVGTKAIERKAEGAEEKAALERLELQEERRAENARRIQRNPELVLDL
ITREKSVFDQRDVAKILHRYIDDAGLFQSLMARIRQSPETLRLDRERLDFVTGIRAPAKYTTRELIRLET
EMASRAIWLSQRSSHGVRKPILEATLARHERLSDEQKAAIEHVAGGERIAAVIGRAGAGKTTMMKAAREA
WEATGYCVVGGALAGKAAEGLEKEAGITSRTLSSWELGWKQGRGQLDDKTVFVLDEAGMVSSRQMALFVE
TVTRAGAKLVLVGDPEQLQPIEAGAAFRAIADRIGYAELETIHRHREQWMRDASLDLARGNVGKAVSAYQ
SNGKIIGSELKAEAVANLISDWNCEYDPAKSTLILAHLRRDVRMLNELARTKLIERGSVDQGFAFKTADG
IRSFAAGDQIVFLKNEGSLGVKNGRLAKVVEASPGRIVAEIGEGEHRVQVTVEQRFYNNVDHGYATTVHK
SQGATVDRVKVLASLSLDRHLTYVAMTRHREDLGVYYGRRSFAKAGGLVEILSRKNSKETTLDYAGGSFY
RQALRFAEARGLHIVNVARTVARDRLEWTVRQKQKLHDLAGKLAAIGAKLGFVASTARSVPIAAKETKPM
VAGITTFPKSIDQAVEDKLAADPSLKKQWEEVSMRFHHVYAQPEAAFKAANVDAMLSDQTSAEKTIAMIA
SEPETFGALKGKTGLLASRGDKADRDRALKNVTPLADSISDYLRQRGDAERRNHAEELAVRRQVALEIPA
LSSNAKSVLERVRDAIDRNDLPSGLEYALADKMVKAELEGFAKAVTERFGERTFLPLAAKDANGEAFQRV
TSGMNAAQKSEVQRAWNTMRTVQQLSAHERSVTALKQTEALRQTKSRGLTLK
MAVPHFSVNVVARGSGRSAVLSAAYRHCAKMEYEREARTIDYRAKQGLLHEAFVIPADAPQWLRAMISDR
SVSGASETFWNTVEMFEKRTDAQLAKDLTIALPVELSAEQNIALMREFVERHVTGKGMVADWVYHDAPGN
PHVHLMTTLRPLTEDGFGSKKVPVTGPDGKPRRNDAGRQVYELWAGGLDDFNAFRDGWFACQNRHLALAG
LDIRIDGRSFEKQGIELTPTIHLGVGTKAIERKAEGAEEKAALERLELQEERRAENARRIQRNPELVLDL
ITREKSVFDQRDVAKILHRYIDDAGLFQSLMARIRQSPETLRLDRERLDFVTGIRAPAKYTTRELIRLET
EMASRAIWLSQRSSHGVRKPILEATLARHERLSDEQKAAIEHVAGGERIAAVIGRAGAGKTTMMKAAREA
WEATGYCVVGGALAGKAAEGLEKEAGITSRTLSSWELGWKQGRGQLDDKTVFVLDEAGMVSSRQMALFVE
TVTRAGAKLVLVGDPEQLQPIEAGAAFRAIADRIGYAELETIHRHREQWMRDASLDLARGNVGKAVSAYQ
SNGKIIGSELKAEAVANLISDWNCEYDPAKSTLILAHLRRDVRMLNELARTKLIERGSVDQGFAFKTADG
IRSFAAGDQIVFLKNEGSLGVKNGRLAKVVEASPGRIVAEIGEGEHRVQVTVEQRFYNNVDHGYATTVHK
SQGATVDRVKVLASLSLDRHLTYVAMTRHREDLGVYYGRRSFAKAGGLVEILSRKNSKETTLDYAGGSFY
RQALRFAEARGLHIVNVARTVARDRLEWTVRQKQKLHDLAGKLAAIGAKLGFVASTARSVPIAAKETKPM
VAGITTFPKSIDQAVEDKLAADPSLKKQWEEVSMRFHHVYAQPEAAFKAANVDAMLSDQTSAEKTIAMIA
SEPETFGALKGKTGLLASRGDKADRDRALKNVTPLADSISDYLRQRGDAERRNHAEELAVRRQVALEIPA
LSSNAKSVLERVRDAIDRNDLPSGLEYALADKMVKAELEGFAKAVTERFGERTFLPLAAKDANGEAFQRV
TSGMNAAQKSEVQRAWNTMRTVQQLSAHERSVTALKQTEALRQTKSRGLTLK
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4CP
| ID | 5359 | GenBank | WP_163897209 |
| Name | traG_GT349_RS00340_KACC 13094|unnamed1 |
UniProt ID | _ |
| Length | 641 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 641 a.a. Molecular weight: 69117.96 Da Isoelectric Point: 9.2554
>WP_163897209.1 Ti-type conjugative transfer system protein TraG [Rhizobium daejeonense]
MKANRIVLVILTVTIMGVTVFAMTGIETWLAEFGQTEAARLALGRAGVAVPYMAAATLGLILLFATAGSA
SIRAAGVGVTIGNAVVILMACVREGVRLAALSSEVPAGKSALSHLDPSTMIGAAAALMSGGLAMRVAIAG
NAVFARAAPQRITGKRALHGEADWMKLPEADRLFPATGGIVVGERYRVDHDNVAGVAFRADRQGTWGAGG
KSPLLCFDGSFGSSHGIVFAGSGGFKTTSVTIPTALKWGGSLILLDPSNEVAPMVSKHREEAGRQVRILD
PRNPTTGFNTLDWVGQHGGTIEEDIASVASWIMSDSGRTSGARDDFFRASALQLLTAMIADVCLSGHTPK
EQQTLRQLRGNLSEPEPKVRQRLQDIYDNSGSDFVKENVAAFVNMTPETFSGVYANAIKETHWLSYGNYA
ALVSGSTFRTEDIASGKTDVFINIDLKTLETHSGLARVVIGSFLNAIYNRDGEMEGRALFLLDEIARLGY
MRILEIARDAGRKYGITLNLLFQSIGQLREAYGGRDASSKWFENASWISFAAINDPETADYISRRCGMTT
VEIDQVSRSVQSRGSSRTRSKQLAARPLIQPHEVLRMRTDEQIVFTAGNPPLRCGRAIWFRRDDMKACVQ
KSRFGQPHVRG
MKANRIVLVILTVTIMGVTVFAMTGIETWLAEFGQTEAARLALGRAGVAVPYMAAATLGLILLFATAGSA
SIRAAGVGVTIGNAVVILMACVREGVRLAALSSEVPAGKSALSHLDPSTMIGAAAALMSGGLAMRVAIAG
NAVFARAAPQRITGKRALHGEADWMKLPEADRLFPATGGIVVGERYRVDHDNVAGVAFRADRQGTWGAGG
KSPLLCFDGSFGSSHGIVFAGSGGFKTTSVTIPTALKWGGSLILLDPSNEVAPMVSKHREEAGRQVRILD
PRNPTTGFNTLDWVGQHGGTIEEDIASVASWIMSDSGRTSGARDDFFRASALQLLTAMIADVCLSGHTPK
EQQTLRQLRGNLSEPEPKVRQRLQDIYDNSGSDFVKENVAAFVNMTPETFSGVYANAIKETHWLSYGNYA
ALVSGSTFRTEDIASGKTDVFINIDLKTLETHSGLARVVIGSFLNAIYNRDGEMEGRALFLLDEIARLGY
MRILEIARDAGRKYGITLNLLFQSIGQLREAYGGRDASSKWFENASWISFAAINDPETADYISRRCGMTT
VEIDQVSRSVQSRGSSRTRSKQLAARPLIQPHEVLRMRTDEQIVFTAGNPPLRCGRAIWFRRDDMKACVQ
KSRFGQPHVRG
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
| ID | 5360 | GenBank | WP_163897324 |
| Name | t4cp2_GT349_RS00710_KACC 13094|unnamed1 |
UniProt ID | _ |
| Length | 806 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 806 a.a. Molecular weight: 90497.18 Da Isoelectric Point: 6.2513
>WP_163897324.1 conjugal transfer protein TrbE [Rhizobium daejeonense]
MVHLRSFRKSGPSFADLVPYAGLVDNGIILLKDGSLLAGWYFAGPDSESATDLERNDLSRQINAILSRLG
SGWMIHAEAIRLPTTAYPSPDRAHFPDPVSRMIDDERRRHFEHEGTHFESRHALILTYRPPERRRSSLAR
YIYSDQPSRKAGYADTVLETFRGSIREIEQYLGTVLSLQRMRTRETSERGGARIARYDELFQFIRFCITG
ENHPVRLPEIPMYLDWLATAELDHGLTPTVENRFLGVVAIDGLPAESWPGILNGLDQMAITYRWSSRFIF
LDAEEAKLKLERTRRRWQQKTRPFLDQLFQTRSRSLDQDAMSMVVETEDAIAEASSQLVAYGYYTPVVIL
FDERSESLRDKAEAVRRLIQAEGFGARIETLNATDAFLGSLPGNWFCNIREPLINTRNLADLIPLNSIWS
GRPTAPCPFYPPQAPPLLQVASGSTPFRLNLHVDDVGHTLILGPTGTGKSALLALIAAQFRRYKDAQVFA
FDKGNSMMPLTLGVGGDHYEIGGGAGECSRLAFCPLSDLVTDADRAWACEWIEALASLQGLAITPEHRNA
ISHQVALMAEAPGRSISDFVSGVQMRDIKDALHHYTIDGPMGQLLDAEEDGLTLGRFQCFEIEELMNMGE
RNLVPVLTYLFRRIEKRLDGSPSLIILDEAWLMLGHPVFREKIRTWLKVLRKANCAVVLATQSISDAERS
GIIDVLTESCLTKICLPNSSGREFYERLGFNERQIEIIANAIPKREYYVTSPDGRRLFEMALGPVTLAFV
GASGKADLSRIRALVSLHGKDWPRQWLIERGGDTDA
MVHLRSFRKSGPSFADLVPYAGLVDNGIILLKDGSLLAGWYFAGPDSESATDLERNDLSRQINAILSRLG
SGWMIHAEAIRLPTTAYPSPDRAHFPDPVSRMIDDERRRHFEHEGTHFESRHALILTYRPPERRRSSLAR
YIYSDQPSRKAGYADTVLETFRGSIREIEQYLGTVLSLQRMRTRETSERGGARIARYDELFQFIRFCITG
ENHPVRLPEIPMYLDWLATAELDHGLTPTVENRFLGVVAIDGLPAESWPGILNGLDQMAITYRWSSRFIF
LDAEEAKLKLERTRRRWQQKTRPFLDQLFQTRSRSLDQDAMSMVVETEDAIAEASSQLVAYGYYTPVVIL
FDERSESLRDKAEAVRRLIQAEGFGARIETLNATDAFLGSLPGNWFCNIREPLINTRNLADLIPLNSIWS
GRPTAPCPFYPPQAPPLLQVASGSTPFRLNLHVDDVGHTLILGPTGTGKSALLALIAAQFRRYKDAQVFA
FDKGNSMMPLTLGVGGDHYEIGGGAGECSRLAFCPLSDLVTDADRAWACEWIEALASLQGLAITPEHRNA
ISHQVALMAEAPGRSISDFVSGVQMRDIKDALHHYTIDGPMGQLLDAEEDGLTLGRFQCFEIEELMNMGE
RNLVPVLTYLFRRIEKRLDGSPSLIILDEAWLMLGHPVFREKIRTWLKVLRKANCAVVLATQSISDAERS
GIIDVLTESCLTKICLPNSSGREFYERLGFNERQIEIIANAIPKREYYVTSPDGRRLFEMALGPVTLAFV
GASGKADLSRIRALVSLHGKDWPRQWLIERGGDTDA
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 148897..158237
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| GT349_RS00685 | 145812..147056 | - | 1245 | WP_163897316 | plasmid replication protein RepC | - |
| GT349_RS00690 | 148260..148886 | + | 627 | WP_163897318 | acyl-homoserine-lactone synthase TraI | - |
| GT349_RS00695 | 148897..149868 | + | 972 | WP_163897320 | P-type conjugative transfer ATPase TrbB | virB11 |
| GT349_RS00700 | 149858..150250 | + | 393 | WP_244625278 | TrbC/VirB2 family protein | virB2 |
| GT349_RS00705 | 150243..150542 | + | 300 | WP_163897322 | conjugal transfer protein TrbD | virB3 |
| GT349_RS00710 | 150553..152973 | + | 2421 | WP_163897324 | conjugal transfer protein TrbE | virb4 |
| GT349_RS00715 | 152966..153772 | + | 807 | WP_163897326 | P-type conjugative transfer protein TrbJ | virB5 |
| GT349_RS00720 | 153826..154953 | + | 1128 | WP_244625284 | P-type conjugative transfer protein TrbL | virB6 |
| GT349_RS00725 | 154974..155636 | + | 663 | WP_163897330 | conjugal transfer protein TrbF | virB8 |
| GT349_RS00730 | 155651..156481 | + | 831 | WP_163897332 | P-type conjugative transfer protein TrbG | virB9 |
| GT349_RS00735 | 156485..156931 | + | 447 | WP_163897334 | conjugal transfer protein TrbH | - |
| GT349_RS00740 | 156942..158237 | + | 1296 | WP_163897336 | IncP-type conjugal transfer protein TrbI | virB10 |
| GT349_RS00745 | 158463..158922 | + | 460 | Protein_150 | DDE-type integrase/transposase/recombinase | - |
| GT349_RS00750 | 159214..159945 | + | 732 | WP_163897338 | class II aldolase and adducin N-terminal domain-containing protein | - |
| GT349_RS00755 | 160072..160461 | + | 390 | Protein_152 | 4-hydroxyphenylacetate 3-hydroxylase N-terminal domain-containing protein | - |
| GT349_RS00760 | 160504..161734 | - | 1231 | Protein_153 | IS3 family transposase | - |
| GT349_RS00765 | 161784..162005 | - | 222 | Protein_154 | IS6 family transposase | - |
| GT349_RS00770 | 162371..163225 | - | 855 | WP_163897342 | sulfurtransferase | - |
Host bacterium
| ID | 8064 | GenBank | NZ_CP048424 |
| Plasmid name | KACC 13094|unnamed1 | Incompatibility group | - |
| Plasmid size | 256449 bp | Coordinate of oriT [Strand] | 60878..60921 [-] |
| Host baterium | Rhizobium daejeonense strain KACC 13094 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | arsH |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | AcrIC6 |