oriTDB
The information of the oriT region
oriTDB accession number 100144
Name oriT_pTiBo542  insolico
Sequence Completeness incomplete
oriT length 14 nt
oriT sequence CAAGGGCGCAATTA
IR (inverted repeat)_
Location of nic site [6-7] nt
Conserved sequence flanking the
  nic site 		_
Note Ti plasmid
D:6-7
Visualization of oriT structure
Reference
[1] Wetzel ME et al (2015) The repABC Plasmids with Quorum-Regulated Transfer Systems in Members of the Rhizobiales Divide into Two Structurally and Separately Evolving Groups. Genome Biol Evol. 7(12):3337-57. [PMID:26590210]
I. Information of Relaxase
ID 138
Name TraA_pTiBo542 insolico
GenBank accession number AAZ50586
Family MOBQ
Length 1100 aa
UniProt ID A5WYB8
PDB ID _
Pfam MobA_MobL [PF03389.14], Evalue: 9.40E-76, Aligned region: 17..243
AAA_30 [PF13604.5], Evalue: 7.00E-55, Aligned region: 381..569
AAA_19 [PF13245.5], Evalue: 1.20E-09, Aligned region: 386..513
Viral_helicase1 [PF01443.17], Evalue: 9.60E-05, Aligned region: 656..737
UvrD_C_2 [PF13538.5], Evalue: 1.90E-06, Aligned region: 692..736
Note Dtr system oriT relaxase; Provisional
Protein sequence [Download] MAIAHFSASIISRGDGRSVVLSAAYRHCAKMEYEREARTIDYTRKQGLLHEEFTLPADAP
KWAKALIADRAVSGAVEAFWNKVEAFEKRSDAQLARDLTIALPLELTPEQNIALVRDFVE
KHIRAKGMVADWVYHDNPGNPHVHLMSTLRPLSEDGFGSKKVAVIGEDGQPVRTKSGKIL
YELWGGSTDAFNVLRDGWFERQNHHLALAEIDLRIDGRSYEKQGIELEPTIHLGVGAKAI
ERKAASRGVRPELERIELNEERRSENARRILRNPAIVLDLITREKSVFDERDIAKVLHRY
IDDPAVFQQLMVRIILNPEVLRLQRETIDFATAKKVPARYSTRAMIRLEATMARQAMWLS
NRELRGVSPSALNATFGRHARLSDEQKAAIERIAGPARIAAVVGRAGAGKTTMMKAAREA
WELAGYRVVGGALAGKAAEGLSSEAGIESRTLSSWELRWNRGRDVLDNKTVFVMDEAGMV
ASKQMAGFVDAVVRAGAKIVLVGDPEQLQPIEAGAAFRAIVDRIGYAELETIYRQREDWM
RKASLDLARGNVEKALALYNANAGIVGERLKAEAVERLIAHWNHDYDQTKTTLILAHLRR
DVRMLNVMAREKLVERGIVGEGHVFRTADGERRFDAGDQIVFLKNETSLGVKNGMIGHVV
EAAPNRIVAVVGDRDHRRHVVVEQRFYRNLDHGYATTIHKSQGATVDRVKVLASLSLDRH
LTYVAMTRHREDLQLYYGRRSFAFNGGLAKVLSRKNAKETTLDYERGKLYREALRFAENR
GLHIMQVARTMLRDRLDWTLRQKTKVSDLVHRLRALGERLGPDQSPKTQTMKEAGPMVAG
IKTFSGSVADTVGDKLGADPTLKQQWEEVSARFRYVFADPVTAFRAINFDTVLADKEMAK
QVLQKLEAEPETIGPLKGKTGILAGKAEREARRIAEVNVPALKRDLEQYLQMRETATMRH
QADEQTLRQRVSIDIPALSPAARVVLERVRDAIDRNDLPAAMAYALSNRETKLEIDGFSQ
SVTERFGERTLLNNAAREPSGTLYEKLSEGMTPEQKQQLKQAWPVMRTAQQLAAHERTAQ
SLRQAEEQRLTQRQVPVLKQ
Reference
 N/A

II. Auxiliary DNA-binding protein(s) of the relaxosome
# ID Name GenBank Length Note
1 202 TraC_pTiBo542 insolico AAZ50585 98 aa conjugal transfer protein TraC
2 203 TraD_pTiBo542 insolico AAZ50584 71 aa conjugal transfer protein TraD
 N/A
Information of plasmid
ID 138
Plasmid name pTiBo542
GenBank accession number DQ058764.1
Genome size 244978 bp
Coordinate of oriT  [Strand] 213650..213663 [+]
Drug resistance _
Heavy-metal resistance _
Virulence factor experimental virulence-tumorigenic
Xenobiotic degradation _
Host bacterium [NCBI Taxonomy ID] Agrobacterium tumefaciens Bo542 [358]
Reference
[1] Wetzel ME et al (2014) Quorum-dependent mannopine-inducible conjugative transfer of an Agrobacterium opine-catabolic plasmid. J Bacteriol. 196(5):1031-44. [PMID:24363349]
[2] Wetzel ME et al (2015) The repABC Plasmids with Quorum-Regulated Transfer Systems in Members of the Rhizobiales Divide into Two Structurally and Separately Evolving Groups. Genome Biol Evol. 7(12):3337-57. [PMID:26590210]

Microbial Bioinformatics Group in MML, SJTU