oriTDB
The information of the oriT region
oriTDB accession number 200014
Name oriT_intD  insolico
Sequence Completeness intact
oriT length 124 nt
oriT sequence GCATTGAGGCACGTTGCCGACTGTCTGACAAACTGACGTTTTCAGACGTCGCGTGCCAAA GGGGATCCCCCTTTGAAACCCTATTGCGGAAAAATCAATGTGGAGACTTACTGACGTAAG GAAG
IR (inverted repeat)[23-31] [39-47] nt  (GTCTGACAA..TTTTCAGAC)
[57-64] [68-75] nt  (CAAAGGGG..CCCCTTTG)
Location of nic site _
Conserved sequence flanking the
  nic site 		_
Note _
L:23-31;R:39-47;L:57-64;R:68-75
Visualization of oriT structure
Reference
[1] Tanjung LR et al (2009) The intD mobile genetic element from Dichelobacter nodosus, the causative agent of ovine footrot, is associated with the benign phenotype. Anaerobe. 15(5):219-24. [PMID:19327404]
I. Information of Relaxase
ID 228
Name DapA_intD insolico
GenBank accession number AAW31842
Family MOBP
Length 520 aa
UniProt ID Q5I738
PDB ID _
Pfam
Note relaxase; similar to H. influenzae relaxase
Protein sequence [Download] MTINICLMNGMNTLPAKRDLSKKQQNMNADAYVAMNLPEKKSWLAAQWHHHLKHIGYEDS
PQSTHNFNYETITVTYVDIDHIPHIDDVPYIGDCRHLDEIPNLDEAPHINEIYGDLNDTT
QIEQRNSRFSMHELRTRRGNGNRGQRKPLSMPNLLQNDQCLDMVRNEKITFEELYTSSHE
RNVAAKRFIDQQNQQREVLKHHWSELINSIDSRNFLNYISYHYGLEVDNYRIEKNKSGNE
RIIADDRKYSVSDFLTKKMHMTWTEAQSILRTVAAQQQIGEQRKAAVTSRLMWQRFMRYE
ANKKNFSTVKSEYFTQRRMIKARYQYVHNDEISRGENAAKYRLIKMQKAAELAKLEQEYE
EQARYYRQKMHDRYMEYLYEEAEQGNSAALGELNRIYPIRDYAQRDVFEICIKEQKHHKQ
QFSLIDLDYKVKIKRNGTIEYQDEREKTVIIDSYNSIKVTDRSVDIIVKALELAKLRYGR
DGFEIRNATEQDLVAIQAAVNKTGVEVRIMNKEKNQDRGR
Reference
[1] Tanjung LR et al (2009) The intD mobile genetic element from Dichelobacter nodosus, the causative agent of ovine footrot, is associated with the benign phenotype. Anaerobe. 15(5):219-24. [PMID:19327404]


II. Auxiliary DNA-binding protein(s) of the relaxosome
# ID Name GenBank Length Note
1 316 DapB_intD insolico AAW31843 271 aa mobilisation protein
2 317 DapC_intD insolico AAW31844 113 aa mobilisation protein
 N/A
Information of mobile element
ID 19
Element type _
ICE description intD element and flanking genomic sequence
ICEberg accesion number _
GenBank accession number AY847513.2
Family _
Genome size 35198 bp
Coordinate of oriT  [+/-] 30074..30197 [-]
Drug resistance _
Heavy-metal resistance _
Virulence factor _
Xenobiotic degradation _
Host bacterium [NCBI Taxonomy ID] Dichelobacter nodosus strain C305-1 [19327404]
Reference
[1] Tanjung LR et al (2009) The intD mobile genetic element from Dichelobacter nodosus, the causative agent of ovine footrot, is associated with the benign phenotype. Anaerobe. 15(5):219-24. [PMID:19327404]

Microbial Bioinformatics Group in MML, SJTU