 oriTDB accession number | 100220 |
| Name | oriT_pADP-1  |
Sequence Completeness  | core |
| oriT length | 60 nt |
| oriT sequence | AGGGACAGTGAAGATAGATAACCGGCTCGCCGGTTAGCTAACTTCACACATCCTGCCCGC |
| IR (inverted repeat) | [8-26] [29-47] nt (GTGAAGATAGATAACCGGC..GCCGGTTAGCTAACTTCAC) |
| Location of nic site | [55-56] nt |
| Conserved sequence flanking the nic site | CATCCTG|C |
| Note | _ |
Visualization of oriT structure Reference| [1] Pachulec E et al (2010) Conjugative Plasmids of Neisseria gonorrhoeae. PLoS One. 5(4):e9962. [PMID:20376355] |
| ID | 213 |
| Name | TraI_pADP-1 |
| GenBank accession number | NP_862458 |
| Family | MOBP |
| Length | 746 aa |
| UniProt ID | Q937B9 |
| PDB ID | _ |
| Pfam | Relaxase [PF03432.13], Evalue: 5.60E-63, Aligned region: 12..252 |
| Note | DNA relaxase |
| Protein sequence [Download] | MIAKHVPMRSLGKSDFAGLANYITDAQSKDHRLGHVQATNCEAGSIQDAITEVLATQHTN TRAKGDKTYHLIVSFRAGEQPSADTLRAIEERICVGLGYGEHQRISAVHNDTDNLHIHIA INKIHPTRHTMHEPYYPHRALAELCTALERDYGLERDNHEPRKRGAEGRAADMERHAGVE SLVGWVKRECLDEIKGAQSWQELHQVMRDNGMELRVRANGLVFEAGDGTMVKASTVARDL SKPSLEARLGPFEASPERQAQTTAKRQYRKDPIRLRVNTVELYAKYKAEQQNLTTARAQA LERARHRKDRLIEAAKRSNRLRRATIKVVGEGRANKKLLYAQASKALRSEIQAINKQFQQ ERTALYAEHRRRTWADWLKKEAQHGGADALAALRAREAAQGLKGNTIRGEGQAKPGHAPA VDNITKKGTIIFRAGMSAVRDDGDRLQVSREATREGLQEALRLAMQRYGNRITVNGTVEF KAQMIRAAVDSQLPITFTDPALESRRQALLNKENTHERTERPEHRGRTGRGAGGPGQRPA ADQHATGAAAVARAGDGRPAAGRGDRADAGLHAATVHRKPDVGRLGRKPPPQSQHRLRAL SELGVVRIAGGSEVLLPRDVPRHVEQQGTQPDHALRRGISRPGTGVGQTPPGVAAADKYI AEREAKRLKGFDIPKHSRYTAGDGALTFQGTRTIEGQALALLKRGDEVMVMPIDQATARR LTRIAVGDAVSITAKGSIKTSKGRSR |
Reference| [1] Pachulec E et al (2010) Conjugative Plasmids of Neisseria gonorrhoeae. PLoS One. 5(4):e9962. [PMID:20376355] |
| # | ID | Name | GenBank | Length | Note |
| 1 | 299 | TraH_pADP-1 | NP_862459 | 130 aa | relaxosome stabilization protein |
| 2 | 300 | TraJ_pADP-1 | NP_862457 | 124 aa | conjugal transfer relaxosome component TraJ |
| 3 | 301 | TraK_pADP-1 | NP_862456 | 132 aa | TraK protein; oriT binding protein |
| ID | 213 |
| Name | TraG_pADP-1 |
| SecReT4 accesion number | 32455808 |
| GenBank accession number | NP_862460 |
| Family | VirD4/TraG |
| Length | 637 |
| UniProt ID | Q937B8 |
| PDB ID | _ |
| Pfam | T4SS-DNA_transf [PF02534.13], Evalue: 2.70E-162, Aligned region: 121..624 TraG-D_C [PF12696.6], Evalue: 5.50E-32, Aligned region: 444..569 TrwB_AAD_bind [PF10412.8], Evalue: 5.10E-22, Aligned region: 187..586 |
| Note | conjugal transfer coupling protein TraG |
| Protein sequence [Download] | MKIKMNNAVGPQVRTAKPKPSKLLPVLGAASMVGGLQAATQFFAHTFAYHATLGPNVGHV YAPWSILHWTYKWYSQYPDEIMKAGSMGMLVSTVGLLGVAVAKVVTSNSSKANEYLHGSA RWAEKKDIQAAGLLPRERNVLEIVTGKAAPTATGVYVGGWQDKDGNFFYLRHSGPEHVLT YAPTRSGKGVGLVVPTLLSWGASSVITDLKGELWALTAGWRQKHAKNKVLRFEPASTSGG VCWNPLDEIRLGTEYEVGDVQNLATLIVDPDGKGLDSHWQKTAFALLVGVILHALYKAKD DGGTATLPSVDAMLADPNRDIGELWMEMATYGHVDGQNHHAIGSAARDMMDRPEEEAGSV LSTAKSYLALYRDPVVARNVSRSDFRIKQLMHEDDPVSLYIVTQPNDKARLRPLVRVMVN MIVRLLADKMDFEGGRPVAHYKHRLLMMLDEFPSLGKLEIMQESLAFVAGYGIKCYLICQ DINQLKSRETGYGHDESITSNCHVQNAYPPNRVETAEHLSRLTGQTTVVKEQITTSGRRT AAMLGQVSRTYQEVQRPLLTPDECLRMPGPKKNAQGEIEEAGDMVIYVAGYPAIYGKQPL YFKDPVFSARAAIPAPKVSDRLRAVAQAETEGEGITI |
Reference| [1] Pachulec E et al (2010) Conjugative Plasmids of Neisseria gonorrhoeae. PLoS One. 5(4):e9962. [PMID:20376355] |
| ID | 213 |
| Plasmid name | pADP-1 |
| GenBank accession number | NC_004956.1 |
| Incompatibility group | IncP1 |
| Genome size | 108845 bp |
| Coordinate of oriT [Strand] | 11993..12052 [-] |
| Drug resistance | _ |
| Heavy-metal resistance |  mercury resistance |
| Virulence factor | _ |
| Xenobiotic degradation | degradation of herbicide atrazine |
| Host bacterium [NCBI Taxonomy ID] | Pseudomonas sp. ADP [47660] |
Reference| [1] Martinez B et al (2001) Complete nucleotide sequence and organization of the atrazine catabolic plasmid pADP-1 from Pseudomonas sp. strain ADP. J Bacteriol. 183(19):5684-97. [PMID:11544232] |