Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 116849 |
| Name | oriT_pAtl-11c  |
| Organism | Agrobacterium fabrum strain L-11 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP138323 (67440..67481 [+], 42 nt) |
| oriT length | 42 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: 42 nt
>oriT_pAtl-11c
GGTTCCAAGGGCGCAATTATACGTCGCGATGCGACGTCTTGC
GGTTCCAAGGGCGCAATTATACGTCGCGATGCGACGTCTTGC
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 10746 | GenBank | WP_174051603 |
| Name | traA_R8Z54_RS26225_pAtl-11c |
UniProt ID | _ |
| Length | 1100 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 1100 a.a. Molecular weight: 123404.06 Da Isoelectric Point: 9.9078
>WP_174051603.1 MULTISPECIES: Ti-type conjugative transfer relaxase TraA [Agrobacterium tumefaciens complex]
MAIAHFSASIVSRSSGRSVVLSAAYRHCAKMEYEREARSIDYTRKQGLLHEEFVLPADAPKWARTLVADR
SVSGAVEAFWNKVEGFEKRADAQLARDLTIALPLELSAEQNIALVRDFVEKHILAKGMVADWVYHDNPGN
PHIHLMSTLRPLTEDGFGSKKVAVIGEDGQSVRTKSGKILYELWAGSTDDFNVLRDGWFERLNHHLALGG
IDLRIDGRSYERQGIDLEPTIHLGVGAKAIERKAEQQGVRPELERIELNEERRSENTRRILNNPAIVLDL
ITREKSVFDERDVAKVLHRYVDDPAVFQQLMLRIILSPEVLRLQRDTIDFATGEKVPARYSTRTMIRLEA
TMARQAMWLSGKETHAVSAAVLDATFRRHERLSDEQKTAIERIAGPARIAAVVGRAGAGKTTMMKAAREA
WELAGYRVVGGALAGKAAEGLEKEAGIVSRTLASWELGWNRGRDVLDNKTVFVMDEAGMVASKQMAGFVD
TVVRAGAKIVLVGDPEQLQPIEAGAAFRAIVDRIGYAELETIYRQREHWMRRASLDLARGNVEKALAVYN
ANAKITGERLKAGAVESLIADWNQDYDQTKTTLILAHLRRDVRMLNVMAREKLVERGIVGDGHAFRTADG
IRQFDTGDQIVFLKNESSLGVKNGMIGHVVEAAPNRIIALVGEGEHRRQVTVEQRFYSNLDHGYATTVHK
SQGATVDRVKVLASLSLDRHLTYVAMTRHREDLQLYYGTRSFAFNGGLSKVLSRRNAKETTLDYERGQLY
REALRFAEARGLHIIQVARTLLCDRLDWTLRQKTKLVDLGQRLAVFAERLGLHHPPKTQTMKEAAPMVAG
IKIFSGSVADRVGDRLGTDPALKQQWEELSARFRYVFADPETAFRAMNFDMVLADREMARQVLQRLETNP
ASIGPLRGKTGILAGKAGREARRVAEINVSALKRDIEQYLRMRETATQRVATEEQAMRQRASIDIPALSP
AARVVLERVRDAIDRNDLPAAMAYALSNRETKLEIDGFNQAVTERFGERTLLSNAAREPSGKLYEKLAEG
MKPEQMKQLKQAWPVMRTTQQLAAYERTTQTLKQAEDLRLTQRQSPVMKQ
MAIAHFSASIVSRSSGRSVVLSAAYRHCAKMEYEREARSIDYTRKQGLLHEEFVLPADAPKWARTLVADR
SVSGAVEAFWNKVEGFEKRADAQLARDLTIALPLELSAEQNIALVRDFVEKHILAKGMVADWVYHDNPGN
PHIHLMSTLRPLTEDGFGSKKVAVIGEDGQSVRTKSGKILYELWAGSTDDFNVLRDGWFERLNHHLALGG
IDLRIDGRSYERQGIDLEPTIHLGVGAKAIERKAEQQGVRPELERIELNEERRSENTRRILNNPAIVLDL
ITREKSVFDERDVAKVLHRYVDDPAVFQQLMLRIILSPEVLRLQRDTIDFATGEKVPARYSTRTMIRLEA
TMARQAMWLSGKETHAVSAAVLDATFRRHERLSDEQKTAIERIAGPARIAAVVGRAGAGKTTMMKAAREA
WELAGYRVVGGALAGKAAEGLEKEAGIVSRTLASWELGWNRGRDVLDNKTVFVMDEAGMVASKQMAGFVD
TVVRAGAKIVLVGDPEQLQPIEAGAAFRAIVDRIGYAELETIYRQREHWMRRASLDLARGNVEKALAVYN
ANAKITGERLKAGAVESLIADWNQDYDQTKTTLILAHLRRDVRMLNVMAREKLVERGIVGDGHAFRTADG
IRQFDTGDQIVFLKNESSLGVKNGMIGHVVEAAPNRIIALVGEGEHRRQVTVEQRFYSNLDHGYATTVHK
SQGATVDRVKVLASLSLDRHLTYVAMTRHREDLQLYYGTRSFAFNGGLSKVLSRRNAKETTLDYERGQLY
REALRFAEARGLHIIQVARTLLCDRLDWTLRQKTKLVDLGQRLAVFAERLGLHHPPKTQTMKEAAPMVAG
IKIFSGSVADRVGDRLGTDPALKQQWEELSARFRYVFADPETAFRAMNFDMVLADREMARQVLQRLETNP
ASIGPLRGKTGILAGKAGREARRVAEINVSALKRDIEQYLRMRETATQRVATEEQAMRQRASIDIPALSP
AARVVLERVRDAIDRNDLPAAMAYALSNRETKLEIDGFNQAVTERFGERTLLSNAAREPSGKLYEKLAEG
MKPEQMKQLKQAWPVMRTTQQLAAYERTTQTLKQAEDLRLTQRQSPVMKQ
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4CP
| ID | 12550 | GenBank | WP_174051609 |
| Name | traG_R8Z54_RS26210_pAtl-11c |
UniProt ID | _ |
| Length | 641 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 641 a.a. Molecular weight: 69303.49 Da Isoelectric Point: 9.5889
>WP_174051609.1 MULTISPECIES: Ti-type conjugative transfer system protein TraG [Agrobacterium tumefaciens complex]
MTANRLLQLILPAAIMVAAMILTPGMEHRLAALGTTAQAKLMLGRAGLALPYIVAAAIGVIALFAAKGSV
NVKATGLSVLTGNGMVIIIAIARETIRLNGIAGIVPAGQSVMAYVDPATAIGAGIAFIGGMFALRVAMKG
NAAFATDGPRRIGGKRAVHGEADWMKLQEAAKLFPEPGGIVIGERYRVDRDSVAAMPFRADEKQSWGAGG
KVPLLCFNGSFGSSHGIVFSGSGGFKTTSVTIPTALKWGSGLVVLDPSSEVAPMVSEHRRQAGRKVIVLD
PTASGVGFNALDWIGRHGNTKEEDIVAVATWIMTDNPRTASARDDFFRASAMQLLTALIADVCLSGHTDE
KDQTLRQVRANLSEPEPKLRARLTKIYEQSESDFVKENVSVFVNMTPETFSGVYANAVKETHWLSYPNYA
GLVSGDSFSTDDLADGRTDIFIALDLKVLEAHPGLARVVIGSLLNTIYNRNGNVKDRTLFLLDEVARLGY
LRILETARDAGRKYGITLTMIFQSLGQMREAYGGRDATSKWFESASWISFSAINDPDTADYISKRCGDTT
VEVDQTNRSTGMKGSSRSRSKQLSRRPLILPHEVLRMRGDEQIVFTSGNPPLRCGRAIWFRRDDMKACVG
TNRFHRNESET
MTANRLLQLILPAAIMVAAMILTPGMEHRLAALGTTAQAKLMLGRAGLALPYIVAAAIGVIALFAAKGSV
NVKATGLSVLTGNGMVIIIAIARETIRLNGIAGIVPAGQSVMAYVDPATAIGAGIAFIGGMFALRVAMKG
NAAFATDGPRRIGGKRAVHGEADWMKLQEAAKLFPEPGGIVIGERYRVDRDSVAAMPFRADEKQSWGAGG
KVPLLCFNGSFGSSHGIVFSGSGGFKTTSVTIPTALKWGSGLVVLDPSSEVAPMVSEHRRQAGRKVIVLD
PTASGVGFNALDWIGRHGNTKEEDIVAVATWIMTDNPRTASARDDFFRASAMQLLTALIADVCLSGHTDE
KDQTLRQVRANLSEPEPKLRARLTKIYEQSESDFVKENVSVFVNMTPETFSGVYANAVKETHWLSYPNYA
GLVSGDSFSTDDLADGRTDIFIALDLKVLEAHPGLARVVIGSLLNTIYNRNGNVKDRTLFLLDEVARLGY
LRILETARDAGRKYGITLTMIFQSLGQMREAYGGRDATSKWFESASWISFSAINDPDTADYISKRCGDTT
VEVDQTNRSTGMKGSSRSRSKQLSRRPLILPHEVLRMRGDEQIVFTSGNPPLRCGRAIWFRRDDMKACVG
TNRFHRNESET
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
| ID | 12551 | GenBank | WP_174051535 |
| Name | t4cp2_R8Z54_RS26440_pAtl-11c |
UniProt ID | _ |
| Length | 820 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 820 a.a. Molecular weight: 91557.43 Da Isoelectric Point: 5.9917
>WP_174051535.1 MULTISPECIES: conjugal transfer protein TrbE [Agrobacterium tumefaciens complex]
MVALKSFRHSGPSFADLVPYAGLVDNGVILLKDGSLLAGWYFAGPDSESSTDAERNDVSRQINAILSRLG
SGWMIQVEAVRVRTADYPQESDCHFPDRVTRAIDAERRAHFQKERGHFESRHALIVTWRPPEPRRSGLTR
YIYSDTASRSASHADRALASFLSSIREVEQYLANVVSIRRMMTRETSERGGFRIARYDELFQFIRFCVTG
ENHPVRLPEIPMYLDWLVTAELQHGLTPLIENRFLGVVAIDGLPAESWPGILKALDLMPLTYRWSSRFVF
LDAEEARTKLERTRKKWQQKVRPFFDQLFQTQSRSLDQDAMLMVAETEDAIAEASSQLVAYGYYTPVIVL
FDEDQQTLQEKCEAVRRLIQAEGFGARIETINATDAFLGSLPGVSYANIREPLINTRNLADLIPLNSVWS
GSAVAPCPFYPPASPPLVQVASGSTPFRLNLHVDDVGHTLIFGPTGSGKSTLLSLIAAQFRRYAGAQIFA
FDKGGSMLPLTLGLDGDHYQIGGDSTGGGEGKALSFCPLADLTTDGDRAFAAEWIEMLVALQGVMITPDY
RNAISRQIGLMAESRGRSLSDFVSGVQMREIKDALHHYTVDGPMGQLLDAEEDGLALGSFQCFEIEELMN
MGERNLVPVLTYLFRRIEKRLTGAPSLIILDEAWLMLGHPVFRDKIREWLKVLRKANCAVVLATQSISDA
ERSGIIDVLKESCLTKICLPNGAAREPGTREFYERIGFNERQIEIVATAIPKRDYYVVSPEGRRLFDMAL
GPVALSFVGASGKEDLKRIRALHFEHGAAWPLQWLQQRGIAHADTLFQTE
MVALKSFRHSGPSFADLVPYAGLVDNGVILLKDGSLLAGWYFAGPDSESSTDAERNDVSRQINAILSRLG
SGWMIQVEAVRVRTADYPQESDCHFPDRVTRAIDAERRAHFQKERGHFESRHALIVTWRPPEPRRSGLTR
YIYSDTASRSASHADRALASFLSSIREVEQYLANVVSIRRMMTRETSERGGFRIARYDELFQFIRFCVTG
ENHPVRLPEIPMYLDWLVTAELQHGLTPLIENRFLGVVAIDGLPAESWPGILKALDLMPLTYRWSSRFVF
LDAEEARTKLERTRKKWQQKVRPFFDQLFQTQSRSLDQDAMLMVAETEDAIAEASSQLVAYGYYTPVIVL
FDEDQQTLQEKCEAVRRLIQAEGFGARIETINATDAFLGSLPGVSYANIREPLINTRNLADLIPLNSVWS
GSAVAPCPFYPPASPPLVQVASGSTPFRLNLHVDDVGHTLIFGPTGSGKSTLLSLIAAQFRRYAGAQIFA
FDKGGSMLPLTLGLDGDHYQIGGDSTGGGEGKALSFCPLADLTTDGDRAFAAEWIEMLVALQGVMITPDY
RNAISRQIGLMAESRGRSLSDFVSGVQMREIKDALHHYTVDGPMGQLLDAEEDGLALGSFQCFEIEELMN
MGERNLVPVLTYLFRRIEKRLTGAPSLIILDEAWLMLGHPVFRDKIREWLKVLRKANCAVVLATQSISDA
ERSGIIDVLKESCLTKICLPNGAAREPGTREFYERIGFNERQIEIVATAIPKRDYYVVSPEGRRLFDMAL
GPVALSFVGASGKEDLKRIRALHFEHGAAWPLQWLQQRGIAHADTLFQTE
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 105852..115514
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| R8Z54_RS26380 | 100981..101808 | + | 828 | WP_174051553 | pyridoxal kinase | - |
| R8Z54_RS26385 | 101835..102239 | + | 405 | Protein_100 | aminotransferase class I/II-fold pyridoxal phosphate-dependent enzyme | - |
| R8Z54_RS26390 | 102286..103479 | + | 1194 | WP_174051722 | MFS transporter | - |
| R8Z54_RS26395 | 103887..104420 | - | 534 | WP_174051551 | winged helix DNA-binding protein | - |
| R8Z54_RS26400 | 105093..105569 | - | 477 | WP_174051549 | GNAT family N-acetyltransferase | - |
| R8Z54_RS26405 | 105852..107162 | - | 1311 | WP_174051547 | IncP-type conjugal transfer protein TrbI | virB10 |
| R8Z54_RS26410 | 107174..107650 | - | 477 | WP_174051545 | conjugal transfer protein TrbH | - |
| R8Z54_RS26415 | 107650..108504 | - | 855 | WP_236776238 | P-type conjugative transfer protein TrbG | virB9 |
| R8Z54_RS26420 | 108521..109183 | - | 663 | WP_174051543 | conjugal transfer protein TrbF | virB8 |
| R8Z54_RS26425 | 109198..110385 | - | 1188 | WP_174051541 | P-type conjugative transfer protein TrbL | virB6 |
| R8Z54_RS26430 | 110379..110606 | - | 228 | WP_174051539 | entry exclusion protein TrbK | - |
| R8Z54_RS26435 | 110603..111412 | - | 810 | WP_174051537 | P-type conjugative transfer protein TrbJ | virB5 |
| R8Z54_RS26440 | 111384..113846 | - | 2463 | WP_174051535 | conjugal transfer protein TrbE | virb4 |
| R8Z54_RS26445 | 113857..114156 | - | 300 | WP_174013085 | conjugal transfer protein TrbD | virB3 |
| R8Z54_RS26450 | 114149..114553 | - | 405 | WP_318765776 | conjugal transfer pilin TrbC | virB2 |
| R8Z54_RS26455 | 114543..115514 | - | 972 | WP_174051718 | P-type conjugative transfer ATPase TrbB | virB11 |
| R8Z54_RS26460 | 115511..116146 | - | 636 | WP_174051716 | acyl-homoserine-lactone synthase | - |
| R8Z54_RS26465 | 116525..117715 | + | 1191 | WP_174051714 | plasmid partitioning protein RepA | - |
| R8Z54_RS26470 | 117800..118795 | + | 996 | WP_174051712 | plasmid partitioning protein RepB | - |
| R8Z54_RS26475 | 118951..120195 | + | 1245 | WP_174051710 | plasmid replication protein RepC | - |
Host bacterium
| ID | 17282 | GenBank | NZ_CP138323 |
| Plasmid name | pAtl-11c | Incompatibility group | - |
| Plasmid size | 120468 bp | Coordinate of oriT [Strand] | 67440..67481 [+] |
| Host baterium | Agrobacterium fabrum strain L-11 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |