Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 114824 |
| Name | oriT_DSM 19479|unnamed4  |
| Organism | Allorhizobium pseudoryzae strain DSM 19479 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP049245 (66724..66765 [+], 42 nt) |
| oriT length | 42 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: 42 nt
>oriT_DSM 19479|unnamed4
GGATCCGAAGGGCGCAATTATACGTCGCTGGCGCGACGCCCT
GGATCCGAAGGGCGCAATTATACGTCGCTGGCGCGACGCCCT
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 9506 | GenBank | WP_165225642 |
| Name | traA_G6N78_RS24930_DSM 19479|unnamed4 |
UniProt ID | _ |
| Length | 1103 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 1103 a.a. Molecular weight: 122726.85 Da Isoelectric Point: 9.6833
>WP_165225642.1 Ti-type conjugative transfer relaxase TraA [Allorhizobium pseudoryzae]
MAVPHFSVSVVARGSGRSAVLSAAYRHCAKMEFEREARTIDYTRKQGLLHEEFVIPADAPEWLRSMIADR
SVSGASEAFWNKVEDFEKRSDAQLAKDVTIALPIELSAEQNIALVRDFIEQHVRSKGMVADWVYHDAPGN
PHVHLMTTLRPLTEDGFGAKKVAVLGPDGNPIRNDAGRKVYELWAGSIDDFNAFRDGWFACQNGHLALAG
LDIRVDGRSFERQGIDLEPTIHLGVGTRAIERKADRASKPLELERLELQDARRAENARRIDRNPKLVLDL
ITREKSVFDERDVAEILYRYIDDADLFQRLMVRIILHPDTFRLERERIEFATAVRLPAKYTTRDMIRLEA
EMANRAIWLSQRSSHGVRDAALAATFKRHDRLSEEQRTAIEHVVGAERIAAVVGRAGAGKTTMMKAAREA
WEAAGYRVVGGALAGKAAEGLEKEAGIVSRTLSSWELRWNQGRDQLDSKTVFVLDEAGMVSSRQMALFVE
AVTKAGAKLVIIGDPEQLQPIEAGAAFRAIADRIGYAELETIYRQREQWMRDASLDLARGKVGKAVDAYR
ANGKVIGWDLKADAVDNLIAAWDRDYDPTKTSLILAHLRRDVHMLNQMARIKLIERGVLDKGTMFMTADG
DRNFAVGDQIVFLKNEGSLGVKNGMLAKVVETGAGRITAQVGDGEHARQVLVEQRFYNTLDYGYATTIHK
AQGATVDRVKVLASLSLDRHLTYVAMTRHREELAVYYGRGSFAKNGGLIQILSRRNAKESTLDYEKGVFY
RQALRFAEARGLNIVSVTRTLLGDRLEWTVRQKAKLANLGARLAAIAGKLGLVRGASHSPTQNTTKEAKS
MVSGVTTFTKSFEQAVEDKLAADPGLKKQWEEVSTRFYFVYAQPESAFKAINVEAMLKDETVATSTLATI
GSNPEHFGGLKGKTGMFASRADKQEREKAEINALALARNLERYLRQRAEAERKCEVEERAVRLKVSIDIP
ALSVNAKQVFERVRDAIDRHDLPAGLEYALADKMVKVELEGFARAVAQRFGERTFLPLAAKDANGQTFST
VTAGMTAAQKAEVQSAWNAMRTVQQLAAHERTTEALKQAQTLRQTKSQGLSLK
MAVPHFSVSVVARGSGRSAVLSAAYRHCAKMEFEREARTIDYTRKQGLLHEEFVIPADAPEWLRSMIADR
SVSGASEAFWNKVEDFEKRSDAQLAKDVTIALPIELSAEQNIALVRDFIEQHVRSKGMVADWVYHDAPGN
PHVHLMTTLRPLTEDGFGAKKVAVLGPDGNPIRNDAGRKVYELWAGSIDDFNAFRDGWFACQNGHLALAG
LDIRVDGRSFERQGIDLEPTIHLGVGTRAIERKADRASKPLELERLELQDARRAENARRIDRNPKLVLDL
ITREKSVFDERDVAEILYRYIDDADLFQRLMVRIILHPDTFRLERERIEFATAVRLPAKYTTRDMIRLEA
EMANRAIWLSQRSSHGVRDAALAATFKRHDRLSEEQRTAIEHVVGAERIAAVVGRAGAGKTTMMKAAREA
WEAAGYRVVGGALAGKAAEGLEKEAGIVSRTLSSWELRWNQGRDQLDSKTVFVLDEAGMVSSRQMALFVE
AVTKAGAKLVIIGDPEQLQPIEAGAAFRAIADRIGYAELETIYRQREQWMRDASLDLARGKVGKAVDAYR
ANGKVIGWDLKADAVDNLIAAWDRDYDPTKTSLILAHLRRDVHMLNQMARIKLIERGVLDKGTMFMTADG
DRNFAVGDQIVFLKNEGSLGVKNGMLAKVVETGAGRITAQVGDGEHARQVLVEQRFYNTLDYGYATTIHK
AQGATVDRVKVLASLSLDRHLTYVAMTRHREELAVYYGRGSFAKNGGLIQILSRRNAKESTLDYEKGVFY
RQALRFAEARGLNIVSVTRTLLGDRLEWTVRQKAKLANLGARLAAIAGKLGLVRGASHSPTQNTTKEAKS
MVSGVTTFTKSFEQAVEDKLAADPGLKKQWEEVSTRFYFVYAQPESAFKAINVEAMLKDETVATSTLATI
GSNPEHFGGLKGKTGMFASRADKQEREKAEINALALARNLERYLRQRAEAERKCEVEERAVRLKVSIDIP
ALSVNAKQVFERVRDAIDRHDLPAGLEYALADKMVKVELEGFARAVAQRFGERTFLPLAAKDANGQTFST
VTAGMTAAQKAEVQSAWNAMRTVQQLAAHERTTEALKQAQTLRQTKSQGLSLK
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4CP
| ID | 11072 | GenBank | WP_165225633 |
| Name | traG_G6N78_RS24915_DSM 19479|unnamed4 |
UniProt ID | _ |
| Length | 658 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 658 a.a. Molecular weight: 71191.36 Da Isoelectric Point: 8.2269
>WP_165225633.1 Ti-type conjugative transfer system protein TraG [Allorhizobium pseudoryzae]
MNRIMLFIAPVVLMILAAVAITGVEHWLSAFGKTEAARQALGRTGIAAPYLTAALIGIVFLFASAGAIRV
KTAGWGVVAGGVATILIAAFRETIRLWALTDQVPMGKSIIAYVDPATLIGAAAAAMATCFAQRVALVGNA
AFASAEPRRIRGKRALHGEADWMKLADAEKLFSDAGGIVLGEQYRVDRDSVAERSFRADNPETWGAGGKS
PLLCFDGSFGSSHGIVFAGSGGFKTTSVTIPTALKWGGSLIVLDPSNEVAPMVTAHRTGADRDVFVVDPK
KPETGFNALDWIGLFGGTKEEDIASVASWIMSDSGGTRGVRDDFFRASALQLLTAMIADVCLSGHTEKES
QTLRQVRANLSEPEPQLRQRLQEIYDNSGSDFVKENVAAFVNMTPETFSGVYANAIKETHWLSYPNYAAL
VSGKTFSTGDLAEGNTDVFINIDLKTLETHAGLARVIIGSFLNAIYNRDGSMKGRALFLLDEVARLGYMR
ILETARDAGRKYGITLLMIYQSIGQMRETYGGRDAASKWFESASWISFAAINDTETADYISRRCGMTTVE
IDQVSRSSQMKGSSRTRSKQLAARPLIQPHEVLRMRADEQIVFTAGNAPLRCGRAIWFRRDDMKACVGTN
RFHKLGSPPEASLIEPARSIASKVDPEQ
MNRIMLFIAPVVLMILAAVAITGVEHWLSAFGKTEAARQALGRTGIAAPYLTAALIGIVFLFASAGAIRV
KTAGWGVVAGGVATILIAAFRETIRLWALTDQVPMGKSIIAYVDPATLIGAAAAAMATCFAQRVALVGNA
AFASAEPRRIRGKRALHGEADWMKLADAEKLFSDAGGIVLGEQYRVDRDSVAERSFRADNPETWGAGGKS
PLLCFDGSFGSSHGIVFAGSGGFKTTSVTIPTALKWGGSLIVLDPSNEVAPMVTAHRTGADRDVFVVDPK
KPETGFNALDWIGLFGGTKEEDIASVASWIMSDSGGTRGVRDDFFRASALQLLTAMIADVCLSGHTEKES
QTLRQVRANLSEPEPQLRQRLQEIYDNSGSDFVKENVAAFVNMTPETFSGVYANAIKETHWLSYPNYAAL
VSGKTFSTGDLAEGNTDVFINIDLKTLETHAGLARVIIGSFLNAIYNRDGSMKGRALFLLDEVARLGYMR
ILETARDAGRKYGITLLMIYQSIGQMRETYGGRDAASKWFESASWISFAAINDTETADYISRRCGMTTVE
IDQVSRSSQMKGSSRTRSKQLAARPLIQPHEVLRMRADEQIVFTAGNAPLRCGRAIWFRRDDMKACVGTN
RFHKLGSPPEASLIEPARSIASKVDPEQ
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
| ID | 11073 | GenBank | WP_165225829 |
| Name | t4cp2_G6N78_RS25355_DSM 19479|unnamed4 |
UniProt ID | _ |
| Length | 818 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 818 a.a. Molecular weight: 92303.29 Da Isoelectric Point: 6.1935
>WP_165225829.1 conjugal transfer protein TrbE [Allorhizobium pseudoryzae]
MVALKRFRVTGPSFADLVPYAGLVDNGVLLLKDGSLMAGWYFAGPDSESATDYERNELSRQINAILSRLG
TGWMIQVEAVRVPTVDYPSPDQCHFPDPVTRAIDIERRTHFQREQGHFESKHAIILTYRPIESKKTALTK
YIYSDEESRKKSYADTVLFMFRNAIREIEQYLANTLSIARMQTREVRERGRERLARYDDLLQFVRFCITG
ESHPVRLPEVPMYLDWLATAELEHGLTPKVENRFLAVVSIDGLPAESWPGILNNLDLMPLTYRWSSRFIF
LDAEEARQKLERTRKKWQQKVRPFFDQLFQTQNGSVDQDAMTMVVETEDAIAQASSQLVAYGYYTPVVIL
FDHHREALQEKAEAIRRLVQAEGFGARIETLNATDAFLGSLPGNWYANIREPLINTSNLADLVPLNTVWS
GNPVAPCPFYPPNAPPLMQVASGSTPFRLNLHVDDVGHTLIFGPTGSGKSTLLALIAAQFRRYEFAQIFA
FDKGNSLLPLTLAAGGDHYEIGDDQNGEGRALAFCPLFDLSTDGDRAWATEWIEMLVALQGVIITPDHRN
AISRQIGLMATAPGKSLSDFVSGVQMREIKDALHHYTVDGPMGQLLDAEEDGLTLRAFQCFEIEQLMNMG
ERNLVPVLTYLFHRIEKRLDGSPSLILLDEAWLMLGHAVFRDKIREWLKVLRKANCAVVLATQSISDAER
SGIIDVLKESCPTKICLPNGAAREPGTREFYERIGFNERQIEIVSGAIPKREYYVATPDGRRLFDMSLGP
VTLSFVGASGKEDLKRIRALKAEYGHEWPAHWLQSRGVRDARSHLNVH
MVALKRFRVTGPSFADLVPYAGLVDNGVLLLKDGSLMAGWYFAGPDSESATDYERNELSRQINAILSRLG
TGWMIQVEAVRVPTVDYPSPDQCHFPDPVTRAIDIERRTHFQREQGHFESKHAIILTYRPIESKKTALTK
YIYSDEESRKKSYADTVLFMFRNAIREIEQYLANTLSIARMQTREVRERGRERLARYDDLLQFVRFCITG
ESHPVRLPEVPMYLDWLATAELEHGLTPKVENRFLAVVSIDGLPAESWPGILNNLDLMPLTYRWSSRFIF
LDAEEARQKLERTRKKWQQKVRPFFDQLFQTQNGSVDQDAMTMVVETEDAIAQASSQLVAYGYYTPVVIL
FDHHREALQEKAEAIRRLVQAEGFGARIETLNATDAFLGSLPGNWYANIREPLINTSNLADLVPLNTVWS
GNPVAPCPFYPPNAPPLMQVASGSTPFRLNLHVDDVGHTLIFGPTGSGKSTLLALIAAQFRRYEFAQIFA
FDKGNSLLPLTLAAGGDHYEIGDDQNGEGRALAFCPLFDLSTDGDRAWATEWIEMLVALQGVIITPDHRN
AISRQIGLMATAPGKSLSDFVSGVQMREIKDALHHYTVDGPMGQLLDAEEDGLTLRAFQCFEIEQLMNMG
ERNLVPVLTYLFHRIEKRLDGSPSLILLDEAWLMLGHAVFRDKIREWLKVLRKANCAVVLATQSISDAER
SGIIDVLKESCPTKICLPNGAAREPGTREFYERIGFNERQIEIVSGAIPKREYYVATPDGRRLFDMSLGP
VTLSFVGASGKEDLKRIRALKAEYGHEWPAHWLQSRGVRDARSHLNVH
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 147532..156986
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| G6N78_RS25300 | 142839..143531 | + | 693 | WP_165225799 | winged helix-turn-helix domain-containing protein | - |
| G6N78_RS25305 | 143651..144910 | + | 1260 | WP_165225802 | aminotransferase class I/II-fold pyridoxal phosphate-dependent enzyme | - |
| G6N78_RS25310 | 144907..145638 | + | 732 | WP_165225805 | LuxR family transcriptional regulator | - |
| G6N78_RS25315 | 145865..147097 | + | 1233 | WP_165225808 | GNAT family N-acetyltransferase | - |
| G6N78_RS25320 | 147532..148830 | - | 1299 | WP_165225811 | IncP-type conjugal transfer protein TrbI | virB10 |
| G6N78_RS25325 | 148845..149282 | - | 438 | WP_165225814 | conjugal transfer protein TrbH | - |
| G6N78_RS25330 | 149286..150098 | - | 813 | WP_165225817 | P-type conjugative transfer protein TrbG | virB9 |
| G6N78_RS25335 | 150115..150777 | - | 663 | WP_165225820 | conjugal transfer protein TrbF | virB8 |
| G6N78_RS25340 | 150799..151941 | - | 1143 | WP_234906133 | P-type conjugative transfer protein TrbL | virB6 |
| G6N78_RS25345 | 151967..152158 | - | 192 | WP_165225826 | entry exclusion protein TrbK | - |
| G6N78_RS25350 | 152152..152910 | - | 759 | WP_234906134 | P-type conjugative transfer protein TrbJ | virB5 |
| G6N78_RS25355 | 152927..155383 | - | 2457 | WP_165225829 | conjugal transfer protein TrbE | virb4 |
| G6N78_RS25360 | 155394..155678 | - | 285 | WP_234906118 | conjugal transfer protein TrbD | virB3 |
| G6N78_RS25365 | 155675..156025 | - | 351 | WP_234906135 | TrbC/VirB2 family protein | virB2 |
| G6N78_RS25370 | 156042..156986 | - | 945 | WP_234906136 | P-type conjugative transfer ATPase TrbB | virB11 |
| G6N78_RS25375 | 157571..158782 | + | 1212 | WP_165225834 | plasmid partitioning protein RepA | - |
| G6N78_RS25380 | 158852..159826 | + | 975 | WP_165225837 | plasmid partitioning protein RepB | - |
| G6N78_RS25385 | 159980..161218 | + | 1239 | WP_165225840 | plasmid replication protein RepC | - |
Host bacterium
| ID | 15259 | GenBank | NZ_CP049245 |
| Plasmid name | DSM 19479|unnamed4 | Incompatibility group | - |
| Plasmid size | 216696 bp | Coordinate of oriT [Strand] | 66724..66765 [+] |
| Host baterium | Allorhizobium pseudoryzae strain DSM 19479 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |