oriTDB
The information of the oriT region
oriTDB accession number 100162
Name oriT_pWW0  insolico
Sequence Completeness intact
oriT length 431 nt
oriT sequence GTTGTTCCCTCAAATTCCCCTGGAAAAATGGTGTCTCGCATGACCCAAGGTAACGCAGAT TGCTTGTAATGCAAATGTATTACACGTAATGCTTGATTCCAAAGGTCTAAACAGCTACTT TGTATTACAAGCGTATCACATCATAAAAGAAGGCAATACTCCGCAAGCTCAGGCACAGCG CGGCTTCCACCTCCCGCAAGGGAGGTGCGTGTTGTGTATTGAGACTTTGACCCTGTTAAG GGTCGAAGTTGATGCTCTTGTTAAGGGCGTTTTTAGGGCCTAGGCCGAAGGCCGTAGCGA GCGGAGGACAAGGGGTAGGCAATATGGGTGCAGTATGGCTGTAGATTGAGTGCAGAAGGG GTTTAGCTTGACTACTGGTAGGGGGTGAGTAGGATGCAGGGTAAATGCAATGTAGGTGCA GGTAGGGTGCA
IR (inverted repeat)R1: [65-73] [76-84] nt  (TGTAATGCA..TGTATTACA)
IR2: [120-124] [126-130] nt  (TTGTA..TACAA)
IR3: [188-195] [200-207] nt  (CACCTCCC..GGGAGGTG)
Location of nic site [217-218] nt
Conserved sequence flanking the
  nic site 		_
Note _
L:65-73;R:76-84;L:120-124;R:126-130;L:188-195;R:200-207;D:217-218
Visualization of oriT structure
Reference
[1] Greated A et al (2002) Complete sequence of the IncP-9 TOL plasmid pWW0 from Pseudomonas putida. Environ Microbiol. 4(12):856-71. [PMID:12534468]
I. Information of Relaxase
ID 156
Name TraC_pWW0 insolico
GenBank accession number NP_542915
Family MOBF
Length 978 aa
UniProt ID Q8VMG1
PDB ID _
Pfam TrwC [PF08751.10], Evalue: 3.50E-81, Aligned region: 8..287
AAA_30 [PF13604.5], Evalue: 5.10E-42, Aligned region: 473..673
Viral_helicase1 [PF01443.17], Evalue: 2.20E-05, Aligned region: 822..915
AAA_19 [PF13245.5], Evalue: 1.90E-06, Aligned region: 478..614
UvrD_C_2 [PF13538.5], Evalue: 5.80E-07, Aligned region: 867..914
Note relaxase
Protein sequence [Download] MFNVTLIKGDNQYAAAGYFSNADDYYAKEAPGEWQGIGAELLGLEGAIDQKELARLFDGK
LPNGERMAKTFDKETGTRRMGLDLTFSAPKSVSMQALIAGDKDVMAAHDRAVTKSMEEVE
RLAQTRLKVNGKTMLERSGNLVIGKFRHEMSRAKDPQMHTHAVVMNMTRRSDGKWRALRN
DDIYKIQPQVDAMYKGILAQELRALGYEIRVLDNQGNFELAHISRDQIEAFSSRSKVIED
ALAKDGKTRADATPLEKQIIAMATRPRKDERDRHLVKEYWVTKARELGIDFGARSHLDNR
EYAPRNGGPAEYSLPQGITPGQAVVQYAINHLTEREQVVGENDLRTVALRRAVGLATPDQ
VNDEIRRLVKQGTLIESPPTYRMPNGDLDSPVLSPAGWRAHLQELKGWSEKEARQYVDKA
IKRGSLEPAEKRYTTQKALKREKAILAIERTGRGQVTPLMTKEQVAKALEGSTLSPGQFQ
AVEVIVSTNNRFVGIQGDAGTGKTYSVDRAVKLIDSVNAAMATNNPQDITGYRVVALAPY
GNQVTALKNEGLDAHTLASFFHTKNKGLDAKTIVILDEAGVVGARQMERLMREIEQSGAR
LIQLGDTKQTEAIEAGKPFAQLQQSGMQTARIKEIQRQKDPELKRAVQHAAEGQPTKSLE
HLKHVEELRTASDRHQAIVRDYMALTPDQRKEVLIVAGTNKDRKEINTMARQALGLFGKG
KEFETLNRVDSTDAERRYAPSYKQGMIIQPEKDYKRAGLVRGELYVVDQALPGNVLVVKD
RSGNRFEFNPRQATKLSVYKLEKPELAVGDLIRINRQDPKLDLTNGDRMRVVSIEGGVVQ
LASLKEVNGQPERTVSLPTNKPLHLEHAYSATVHSAQGLTNDRVMISLNTKSRTTSQNLW
YVAISRARHEARVYADSIKGLPAAIAKRYDKTTALSLQQERERQRRDSIQPRTVSDGRAL
ERKQRTGLDGPSSGNARI
Reference
[1] Greated A et al (2002) Complete sequence of the IncP-9 TOL plasmid pWW0 from Pseudomonas putida. Environ Microbiol. 4(12):856-71. [PMID:12534468]


II. Auxiliary DNA-binding protein(s) of the relaxosome
# ID Name GenBank Length Note
1 226 TraA_pWW0 insolico NP_542913 127 aa putative TraA protein
Information of T4CP
ID 156
Name TraB_pWW0 insolico
SecReT4 accesion number 18150977
GenBank accession number NP_542914
Family TrwB/TraD
Length 516
UniProt ID Q8VMG2
PDB ID _
Pfam TrwB_AAD_bind [PF10412.8], Evalue: 9.40E-104, Aligned region: 124..499
TraG-D_C [PF12696.6], Evalue: 1.70E-17, Aligned region: 363..480
T4SS-DNA_transf [PF02534.13], Evalue: 2.70E-15, Aligned region: 242..508
Note Type IV secretion-system coupling protein DNA-binding domain; pfam10412
Protein sequence [Download]

Reference
[1] Greated A et al (2002) Complete sequence of the IncP-9 TOL plasmid pWW0 from Pseudomonas putida. Environ Microbiol. 4(12):856-71. [PMID:12534468]
Information of plasmid
ID 156
Plasmid name pWW0
GenBank accession number NC_003350.1
Incompatibility group IncP9
Genome size 116580 bp
Coordinate of oriT  [Strand] 96140..96570 [-]
Drug resistance _
Heavy-metal resistance insolico mercury resistance
Virulence factor _
Xenobiotic degradation insolico carries the degradative (xyl) genes for toluenes and xylenes within catabolic transposons Tn4651 and Tn4653
Host bacterium [NCBI Taxonomy ID] Pseudomonas putida [303]
Reference
[1] Greated A et al (2002) Complete sequence of the IncP-9 TOL plasmid pWW0 from Pseudomonas putida. Environ Microbiol. 4(12):856-71. [PMID:12534468]

Microbial Bioinformatics Group in MML, SJTU