 oriTDB accession number | 100209 |
| Name | oriT_R1  |
Sequence Completeness  | core |
| oriT length | 71 nt |
| oriT sequence | AGCAAATCAGCAAAAACTTGTTTTTGCGTGGGGTGTGGTGCTTTTGGTGGTGAGAACCAC CAACCTGTTGA |
| IR (inverted repeat) | [10-17] [20-27] nt (GCAAAAAC..GTTTTTGC) |
| Location of nic site | [36-37] nt |
| Conserved sequence flanking the nic site | GTGGGGTGT|GG |
| Note | _ |
Visualization of oriT structure (The oriT was characterized experimentally) Reference| [1] Csitkovits VC et al (2004) Concomitant reconstitution of TraI-catalyzed DNA transesterase and DNA helicase activity in vitro. J Biol Chem. 279(44):45477-84. [PMID:15322083] |
| ID | 202 |
| Name | TraI_R1 |
| GenBank accession number | AAQ98619 |
| Family | MOBF |
| Length | 1756 aa |
| UniProt ID | Q6TDU5 |
| PDB ID | 4L0J |
| Pfam | TrwC [PF08751.10], Evalue: 2.10E-75, Aligned region: 10..284 TraI [PF07057.10], Evalue: 1.70E-56, Aligned region: 1434..1556 AAA_30 [PF13604.5], Evalue: 1.80E-33, Aligned region: 968..1159 AAA_19 [PF13245.5], Evalue: 1.10E-08, Aligned region: 973..1108 |
| Note | TraI; relaxase; oriT nicking and unwinding |
| Protein sequence [Download] | MMSIAQVRSAGSAGNYYTDKDNYYVLGSMGERWAGKGAEQLGLQGSVDKDVFTRLLEGRL PDGADLSRMQDGSNKHRPGYDLTFSAPKSVSMMAMLGGDKRLIDAHNQAVDFAVRQVEAL ASTRVMTDGQSETVLTGNLVMALFNHDTSRDQEPQLHTHAVVANVTQHNGEWKTLSSDKV GKTGFIENVYANQIAFGRLYREKLKEQVEALGYETEVVGKHGMWEMPGVPVEAFSGRSQA IREAVGEDASLKSRDVAALDTRKSKQHVDPEIRMAEWMQTLKETGFDIRAYRDAADQRTE IRTQAPGPASQDGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPENGVIERARAG IDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDE RLSGELITGRRQLLEGMAFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQR TGTGSALMAMKDAGVNTYRWQGGEQRPATIISEPDRNVRYARLAGDFAASVKAGEESVAQ VSGVREQAILTQAIRSELKTQGVLGHPEVTMTALSPVWLDSRSRYLRDMYRPGMVMEQWN PETRSHDRYVIDRVTAQSHSLTLRDAQGETQVVRISSLDSSWSLFRPEKMPVADGERLRV TGKIPGLRVSGGDRLQVASVSEDAMTVVVPGRAEPASLPVSDSPFTALKLENGWVETPGH SVSDSATVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI KARAGETLLETAISLQKAGLHTPAQQAIHLALPVLESKNLAFSMVDLLTEAKSFAAEGTG FTELGGEINAQIKRGDLLYVDVAKGYGTGLLVSRASYEAEKSILRHILEGKEAVTPLMER VPGELMETLTSGQRAATRMILETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPASERPRV VGLGPTHRAVGEMRSAGVDAQTLASFLHDTQLQQRSGETPDFSNTLFLLDESSMVGNTEM ARAYALIAAGGGRAVASGDTDQLQAIAPGQSFRLQQTRSAADVVIMKEIVRQTPELREAV YSLINRDVERALSGLESVKPSQVPRLEGAWAPEHSVTEFSHSQEAKLAEAQQKAMLKGEA FPDIPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM VPVLNTANIRDGELRRLSTWEKNPDALALVDNVYHRIAGISKDDGLITLQDAEGNTRLIS PREAVAEGVTLYTPDKIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQT RVIRPGQERAEQHIDLAYAITAHGAQGASETFAIALEGTEGNRKLMAGFESAYVALSRMK QHVQVYTDNRQGWTDAINNAVQKGTAHDVLEPKPDREVMNAQRLFSTARELRDVAAGRAV LRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAGIWLNPLTTDDGNGLRGFSGE GRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGEGRPWNPGAIT GGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP DGKTELAVRDIAGQERDRSAISERETALPESVLRESQREREAVREVARENLLQERLQQME RDMVRDLQKEKTLGGD |
Reference| [1] Csitkovits VC et al (2004) Concomitant reconstitution of TraI-catalyzed DNA transesterase and DNA helicase activity in vitro. J Biol Chem. 279(44):45477-84. [PMID:15322083] |
| [2] Schwab M et al (1991) The TraM protein of plasmid R1 is a DNA-binding protein. Mol Microbiol. 5(2):439-46. [PMID:2041477] |
| # | ID | Name | GenBank | Length | Note |
| 1 | 283 | TraM_R1 | P07294 | 127 aa | TraM mediates signalling between transferosome and relaxosome; cd14804 |
| 2 | 284 | TraY_R1 | CAA31972 | 75 aa | conjugal transfer protein TraY |
| ID | 202 |
| Name | TraD_R1 |
| SecReT4 accesion number | _ |
| GenBank accession number | AAT85682 |
| Family | TrwB/TraD |
| Length | 735 |
| UniProt ID | Q6B3Y6 |
| PDB ID | _ |
| Pfam | TrwB_AAD_bind [PF10412.8], Evalue: 2.20E-119, Aligned region: 171..561 TraD_N [PF12615.7], Evalue: 1.10E-29, Aligned region: 31..128 TraG-D_C [PF12696.6], Evalue: 4.60E-18, Aligned region: 419..542 T4SS-DNA_transf [PF02534.13], Evalue: 2.20E-07, Aligned region: 198..500 |
| Note | Type IV Secretion System Coupling Protein |
| Protein sequence [Download] | MSFNAKDMTQGGQIASMRIRMFSQIANIMLYCLFIFFWILVGLVLWVKISWQTFVNGCIY WWCTTLEGMRDLIKSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLASVVAL VICLITFFVVSWILGRQGKQQSENEVTGGRQLTDNPKDVARMLKKDGKDSDIRIGDLPII RDSEIQNFCLHGTVSTGKSEVIRRLANYARKRGDMVVIYDRSCEFVKSYYDPSIDKILNP LDARCAAWDLWKECLTQPDFDNVANTLIPMGTKEDPFWQGSGRTIFAEAAYLMRNDPNRS YSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKAIRYLQGIEHN GEPFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVVSMWLSIAIRGLLAMGENRNRRV WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVLNTRA FFRSPSHQIAEFAAGEIGEKEHLKASLQYSYGADPVRDGISTGKEMERQTLVSYSDIQSL PDLTCYVTLPGPYPAVKLSLKYQARPKVAPEFIPRDINPEMENRLSAVLAAREAEGRQMA SLFEPDVPEVVSGEDVTQAEQPQQPQQPQQPQQPQQPQQPQQPVSPAINDKKSDSGVNIP AGGIEQELKMKPEEEMEQQLPPGISESGEVVDMAAYEAWQQENHPDIQQQMQRREEVNIN VHRERGEDVEPGDDF |
Reference| [1] Csitkovits VC et al (2004) Concomitant reconstitution of TraI-catalyzed DNA transesterase and DNA helicase activity in vitro. J Biol Chem. 279(44):45477-84. [PMID:15322083] |
| ID | 202 |
| Plasmid name | R1 |
| GenBank accession number | X00783.1 |
| Genome size | _ |
| Coordinate of oriT [Strand] | 299..369 [+] |
| Drug resistance | resistance to chloramphenicol, kanamycin, ampicillin, streptomycin and spectinomycinand sulphonamides |
| Heavy-metal resistance | _ |
| Virulence factor | _ |
| Xenobiotic degradation | _ |
| Host bacterium [NCBI Taxonomy ID] | Escherichia coli [562] |
Reference| [1] Dionisio F et al (2005) The evolution of a conjugative plasmid and its ability to increase bacterial fitness. Biol Lett. 1(2):250-2. [PMID:17148179] |