Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 116848 |
| Name | oriT_pAtl-11a  |
| Organism | Agrobacterium fabrum strain L-11 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP138321 (215976..216018 [-], 43 nt) |
| oriT length | 43 nt |
| IRs (inverted repeats) | 21..27, 31..37 (ACGTCGC..GCGACGT) |
| Location of nic site | _ |
| Conserved sequence flanking the nic site |
_ |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 43 nt
>oriT_pAtl-11a
GGCTCCAAGGGCGCAATTATACGTCGCGATGCGACGTGCTTGC
GGCTCCAAGGGCGCAATTATACGTCGCGATGCGACGTGCTTGC
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 10745 | GenBank | WP_174046894 |
| Name | traA_R8Z54_RS25050_pAtl-11a |
UniProt ID | _ |
| Length | 1100 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 1100 a.a. Molecular weight: 123446.02 Da Isoelectric Point: 9.7717
>WP_174046894.1 Ti-type conjugative transfer relaxase TraA [Agrobacterium fabrum]
MAIAHFSASIVSRGSGRSVVLSAAYRHCAKMEYEREVRTIDYTRKQGLLHEEFVLPADAPKWVRSLTADR
SVAGASEAFWNKVEAFEKRADAQLARDLTIALPLELSAEQNIALVRDFVEKHILAKGMVADWVFHDNPGN
PHIHLMTTLRPLTDEGFGSKKVAVIGEDGQPLRTKSGKILYELWAGSTDDFNALRDGWFERLNHHLALGG
IDLRVDGRSYEKQGINLEPTIHLGVSAKAIERKAEQQGVRPELERIELNEQRRSENTRRIIGDPAIVLDL
ITREKSVFDERDVAKVLHRYVDDPAVFQQLMIRIILNPEVLRLQRDTIDFATGEKVPARYSTRSMIRLEA
TMARQATWLSNREGRGVLRPALDATFRRHERLSDEQKTAIERISGPARIAAVVGRAGAGKTTMMKAAREA
WEMAGYRVVGGALAGKAAEGLEKEAGIESRTLASWELRWKGGCNVLDDKTIFVMDEAGMVASKQMAGFVD
AVVKAGAKIVLVGDPEQLQPIEAGAAFRAIVDRIGYAELETIYRQREDWMRKASLDLARGNVEKALSAYG
ANVRITGERLKAEAVERLIADWNHDYDQTKTTLILTHLRRDVRMLNVMAREKLVERGIVGEGHLFQTADG
ERRFDAGDQIVFLKNEGSLGVKNGMIGRVIEAAPNRISVMVGEGDQRRQVVVEQRFYNNLDHGYATTIHK
SQGATVDRVKVLASLSLDRHLTYVAMTRHREDLQLYYGTRSFSFNGGLAKVLSRQNAKETTLDYERGQLY
REALRFAENRGLSIVQVARTMVRDRLDWMLRQKAKLVDLSQRLAAFAARLGIIQIPDTQTMKEAAPMVAG
IKTFSGSLADTVDDKLGADPALKRQWEEVLTRFAYVFADPETAFRAMNFDAVLADKDNARQVLQKLEAEP
ASIGPLKGKTGILAGKADREDRRVAELNAPALKRDLEQYLRMRETAVQRLKADEQVLRQRMSIDIPALSP
AAHVVLERVRDAIDRNDLPAAMAYALSNRETKLEIDGFNQAVTQRFGQRTLLTNAAREPSGKIFDTLSNG
MQPDQKERLKEAWPVMRTAQQLAAHERTVRSLKQSEDLRLNQRQNPVLKQ
MAIAHFSASIVSRGSGRSVVLSAAYRHCAKMEYEREVRTIDYTRKQGLLHEEFVLPADAPKWVRSLTADR
SVAGASEAFWNKVEAFEKRADAQLARDLTIALPLELSAEQNIALVRDFVEKHILAKGMVADWVFHDNPGN
PHIHLMTTLRPLTDEGFGSKKVAVIGEDGQPLRTKSGKILYELWAGSTDDFNALRDGWFERLNHHLALGG
IDLRVDGRSYEKQGINLEPTIHLGVSAKAIERKAEQQGVRPELERIELNEQRRSENTRRIIGDPAIVLDL
ITREKSVFDERDVAKVLHRYVDDPAVFQQLMIRIILNPEVLRLQRDTIDFATGEKVPARYSTRSMIRLEA
TMARQATWLSNREGRGVLRPALDATFRRHERLSDEQKTAIERISGPARIAAVVGRAGAGKTTMMKAAREA
WEMAGYRVVGGALAGKAAEGLEKEAGIESRTLASWELRWKGGCNVLDDKTIFVMDEAGMVASKQMAGFVD
AVVKAGAKIVLVGDPEQLQPIEAGAAFRAIVDRIGYAELETIYRQREDWMRKASLDLARGNVEKALSAYG
ANVRITGERLKAEAVERLIADWNHDYDQTKTTLILTHLRRDVRMLNVMAREKLVERGIVGEGHLFQTADG
ERRFDAGDQIVFLKNEGSLGVKNGMIGRVIEAAPNRISVMVGEGDQRRQVVVEQRFYNNLDHGYATTIHK
SQGATVDRVKVLASLSLDRHLTYVAMTRHREDLQLYYGTRSFSFNGGLAKVLSRQNAKETTLDYERGQLY
REALRFAENRGLSIVQVARTMVRDRLDWMLRQKAKLVDLSQRLAAFAARLGIIQIPDTQTMKEAAPMVAG
IKTFSGSLADTVDDKLGADPALKRQWEEVLTRFAYVFADPETAFRAMNFDAVLADKDNARQVLQKLEAEP
ASIGPLKGKTGILAGKADREDRRVAELNAPALKRDLEQYLRMRETAVQRLKADEQVLRQRMSIDIPALSP
AAHVVLERVRDAIDRNDLPAAMAYALSNRETKLEIDGFNQAVTQRFGQRTLLTNAAREPSGKIFDTLSNG
MQPDQKERLKEAWPVMRTAQQLAAHERTVRSLKQSEDLRLNQRQNPVLKQ
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4CP
| ID | 12548 | GenBank | WP_174046893 |
| Name | traG_R8Z54_RS24145_pAtl-11a |
UniProt ID | _ |
| Length | 638 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 638 a.a. Molecular weight: 68500.43 Da Isoelectric Point: 9.5894
>WP_174046893.1 Ti-type conjugative transfer system protein TraG [Agrobacterium fabrum]
MTTNRLLLAILPAAIMVAAIILTSSMEHRLAALGTSAQAKLTLGRVGLALPYVAAAAIGVVALFAANGST
NIKAAGLSVLAGSAAVIIIAIARETVRLAGIASNVPAGQSVLIYTDPTTMVGAGVAFIGAMFALRVAIKG
NAAFAQTGPKRIGGKRAVHGEADWMKLQEAAKLFPDTGGIVIGERYRVEKDSVATLPFRADDPQSWGAGG
KSPLLCFDGSFGSSHGIVFAGSGGFKTTSVTIPTALKWGGGLVVLDPSSEVAPMVSEHRRQAGRKVIVLD
PTASAVGFNALDWIGRHGNTKEEDIVALATWIMTDNARTASARDDFFRASAMQLLTALIADVCLSGHTAE
KDQTLRRVRANLSEPEPQLRARLTKIYEGSESDFVKENVAVFVNMTPETFSGVYANAVKETHWLSYPNYA
GLVSGDSFSTDDLANGETDIFIALDLKVLEAHPGFARVVIGSLLNAIYNHKGNVKGRTLFLLDEVARLGY
LRILETARDAGRKYGITLTMIFQSLGQMREAYGGRDATSKWFESVSWISFSAINDPDTADYISKRCGDTT
VEVDQTNRSSGMKGSSRSRSKQLNRRPLILPHEVLRMRADEQIVFTSGNAPLRCGRAVWFRREDMKACVG
TNRFHRSE
MTTNRLLLAILPAAIMVAAIILTSSMEHRLAALGTSAQAKLTLGRVGLALPYVAAAAIGVVALFAANGST
NIKAAGLSVLAGSAAVIIIAIARETVRLAGIASNVPAGQSVLIYTDPTTMVGAGVAFIGAMFALRVAIKG
NAAFAQTGPKRIGGKRAVHGEADWMKLQEAAKLFPDTGGIVIGERYRVEKDSVATLPFRADDPQSWGAGG
KSPLLCFDGSFGSSHGIVFAGSGGFKTTSVTIPTALKWGGGLVVLDPSSEVAPMVSEHRRQAGRKVIVLD
PTASAVGFNALDWIGRHGNTKEEDIVALATWIMTDNARTASARDDFFRASAMQLLTALIADVCLSGHTAE
KDQTLRRVRANLSEPEPQLRARLTKIYEGSESDFVKENVAVFVNMTPETFSGVYANAVKETHWLSYPNYA
GLVSGDSFSTDDLANGETDIFIALDLKVLEAHPGFARVVIGSLLNAIYNHKGNVKGRTLFLLDEVARLGY
LRILETARDAGRKYGITLTMIFQSLGQMREAYGGRDATSKWFESVSWISFSAINDPDTADYISKRCGDTT
VEVDQTNRSSGMKGSSRSRSKQLNRRPLILPHEVLRMRADEQIVFTSGNAPLRCGRAVWFRREDMKACVG
TNRFHRSE
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
| ID | 12549 | GenBank | WP_174046991 |
| Name | t4cp2_R8Z54_RS24860_pAtl-11a |
UniProt ID | _ |
| Length | 822 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 822 a.a. Molecular weight: 91818.72 Da Isoelectric Point: 5.5735
>WP_174046991.1 conjugal transfer protein TrbE [Agrobacterium fabrum]
MVALKSFRHSGPSFADLVPYAGLVDNGVILLKDGSLMAGWYFAGPDSESSTDAERNEVSRQINAILSRLG
SGWMIQVEAVRVPTGDYPSDAESHFPDPVTRAIDDERRAHFQKERGHFESRHALILTWRPPEPRRSGLAR
YVYSDAASRSATYADTMLQSFLSSIREVEQYLANVLSIRRMMTRETSERGGFRVARYDELFQFIRFCITG
ENHPVRLPEIPMYLDWLVTAELQHGLTPLVENRFLGVVAIDGLPAESWPGILNTLDLMPLTYRWSSRFVF
LDAEEARGRLERTRKQWQQKVRPFFDQLFQTQSRSVDQDAMLMVAETEDAIAEASSQLVAYGYYTPVIVI
FEEDAIRLQEKCEAIRRLIQAEGFGARIETLNATDAFLGSLPGVSYANIREPLVNTRNLADLIPLNSVWS
GSPTAPCPFYPPASPPLMQVASGSTPFRLNLHVDDVGHTLIFGPTGSGKSTLIALIAAQFRRYADAQVFA
FDKGGSMLPLTLGLNGDHYQIGGDIGPSASGEVRVLAFCPLAELSSDGDRAWASEWIEMLVALQGVTITP
DYRNAISRQLALMAESRGRSLSDFVSGVQMREIKDALHHYTVDGPMGQLLDAEEDGLALGAFQCFEIEEL
MNMGERNLVPVLTYLFRRIEKRLTGAPSLIILDEAWLMLGHPVFRDKIREWLKVLRKANCAVVLATQSIS
DAERSGIIDVLKESCPTKICLPNGAAREPGTREFYERIGFNERQIEIVATAIPKREYYVVSPEGRRLFNM
ALGPVALSFVGATGKEDLKNIRTLHSEHGAVWPLHWLQQRGIAHAETLFPTF
MVALKSFRHSGPSFADLVPYAGLVDNGVILLKDGSLMAGWYFAGPDSESSTDAERNEVSRQINAILSRLG
SGWMIQVEAVRVPTGDYPSDAESHFPDPVTRAIDDERRAHFQKERGHFESRHALILTWRPPEPRRSGLAR
YVYSDAASRSATYADTMLQSFLSSIREVEQYLANVLSIRRMMTRETSERGGFRVARYDELFQFIRFCITG
ENHPVRLPEIPMYLDWLVTAELQHGLTPLVENRFLGVVAIDGLPAESWPGILNTLDLMPLTYRWSSRFVF
LDAEEARGRLERTRKQWQQKVRPFFDQLFQTQSRSVDQDAMLMVAETEDAIAEASSQLVAYGYYTPVIVI
FEEDAIRLQEKCEAIRRLIQAEGFGARIETLNATDAFLGSLPGVSYANIREPLVNTRNLADLIPLNSVWS
GSPTAPCPFYPPASPPLMQVASGSTPFRLNLHVDDVGHTLIFGPTGSGKSTLIALIAAQFRRYADAQVFA
FDKGGSMLPLTLGLNGDHYQIGGDIGPSASGEVRVLAFCPLAELSSDGDRAWASEWIEMLVALQGVTITP
DYRNAISRQLALMAESRGRSLSDFVSGVQMREIKDALHHYTVDGPMGQLLDAEEDGLALGAFQCFEIEEL
MNMGERNLVPVLTYLFRRIEKRLTGAPSLIILDEAWLMLGHPVFRDKIREWLKVLRKANCAVVLATQSIS
DAERSGIIDVLKESCPTKICLPNGAAREPGTREFYERIGFNERQIEIVATAIPKREYYVVSPEGRRLFNM
ALGPVALSFVGATGKEDLKNIRTLHSEHGAVWPLHWLQQRGIAHAETLFPTF
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 169434..179156
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| R8Z54_RS24825 | 164745..165956 | - | 1212 | WP_174046997 | plasmid replication protein RepC | - |
| R8Z54_RS24830 | 166125..167129 | - | 1005 | WP_174046996 | plasmid partitioning protein RepB | - |
| R8Z54_RS24835 | 167233..168441 | - | 1209 | WP_046634564 | plasmid partitioning protein RepA | - |
| R8Z54_RS24840 | 168799..169437 | + | 639 | WP_174046995 | acyl-homoserine-lactone synthase TraI | - |
| R8Z54_RS24845 | 169434..170405 | + | 972 | WP_174046994 | P-type conjugative transfer ATPase TrbB | virB11 |
| R8Z54_RS24850 | 170395..170799 | + | 405 | WP_174046993 | conjugal transfer pilin TrbC | virB2 |
| R8Z54_RS24855 | 170792..171091 | + | 300 | WP_174046992 | conjugal transfer protein TrbD | virB3 |
| R8Z54_RS24860 | 171102..173570 | + | 2469 | WP_174046991 | conjugal transfer protein TrbE | virb4 |
| R8Z54_RS24865 | 173542..174351 | + | 810 | WP_174046990 | P-type conjugative transfer protein TrbJ | virB5 |
| R8Z54_RS24870 | 174348..174575 | + | 228 | WP_174046989 | entry exclusion protein TrbK | - |
| R8Z54_RS24875 | 174569..175759 | + | 1191 | WP_174046988 | P-type conjugative transfer protein TrbL | virB6 |
| R8Z54_RS24880 | 175777..176454 | + | 678 | WP_174046987 | conjugal transfer protein TrbF | virB8 |
| R8Z54_RS24885 | 176531..177325 | + | 795 | WP_236781035 | P-type conjugative transfer protein TrbG | virB9 |
| R8Z54_RS24890 | 177325..177801 | + | 477 | WP_174047005 | conjugal transfer protein TrbH | - |
| R8Z54_RS24895 | 177813..179156 | + | 1344 | WP_174046985 | IncP-type conjugal transfer protein TrbI | virB10 |
| R8Z54_RS24900 | 179434..180375 | - | 942 | WP_174046984 | LysR substrate-binding domain-containing protein | - |
| R8Z54_RS24905 | 180486..182525 | + | 2040 | WP_174046983 | hydantoinase/oxoprolinase family protein | - |
Host bacterium
| ID | 17281 | GenBank | NZ_CP138321 |
| Plasmid name | pAtl-11a | Incompatibility group | - |
| Plasmid size | 216658 bp | Coordinate of oriT [Strand] | 215976..216018 [-] |
| Host baterium | Agrobacterium fabrum strain L-11 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | LinJ |
| Symbiosis gene | - |
| Anti-CRISPR | - |