oriTDB
The information of the oriT region
oriTDB accession number 200009
Name oriT_Tn4399  experimental
Sequence Completeness intact
oriT length 199 nt
oriT sequence TAAGGTGATTATGTTGTTTTTCTTCATCTGTTCTATCTGTTTTTTAGTGAATAATCCGAT TGATGTAATCTGAAAAGTCCGTGACCATCGGGAGCCGTTCCCCTCATCTTTTTGAGGGGC AAGTGGTCGGGGAATGTAATACGCCGACATTAACTTGCTATCCTAAAAAAGATGTGATTT ACGGCTTAGATGCCGAATC
IR (inverted repeat)[98-106] [113-122] nt  (TTCCCCTCA..TGAGGGGCAA)
[126-135] [139-148] nt  (GTCGGGGAAT..ATACGCCGAC)
Location of nic site [156-157] nt
Conserved sequence flanking the
  nic site 		_
Note _
L:98-106;R:113-122;L:126-135;R:139-148;D:156-157
Visualization of oriT structure (The oriT was characterized experimentally)
Reference
[1] Vedantam G et al (2006) Bacteroides fragilis mobilizable transposon Tn5520 requires a 71 base pair origin of transfer sequence and a single mobilization protein for relaxosome formation during conjugation. Mol Microbiol. 59(1):288-300. [PMID:16359335]
[2] Hecht DW et al (1989) Tn4399, a conjugal mobilizing transposon of Bacteroides fragilis. J Bacteriol. 171(7):3603-8. [PMID:2544548]
[3] Murphy CG et al (1995) Requirements for strand- and site-specific cleavage within the oriT region of Tn4399, a mobilizing transposon from Bacteroides fragilis. J Bacteriol. 177(11):3158-65. [PMID:7768814]
I. Information of Relaxase
ID 223
Name MocA_Tn4399 insolico
GenBank accession number AAA98401
Family MOBP
Length 318 aa
UniProt ID Q56424
PDB ID _
Pfam Relaxase [PF03432.13], Evalue: 7.90E-54, Aligned region: 7..242
Note relaxase
Protein sequence [Download] MIGKQTKGTSFSGCVCYVLREDKSKLLEAVGVEGTPEQMAEQFELQTLLNDKVKNTVGHT
SLNFSPEDGERLKTDDALMLQIAHDYMAKMGIENTQYIVARHTDREHPHCHIVFNRVDND
GKTISDKNDFYRNEKVCKMLTAKYRLHFANGKDNIKEERLRPYDKAKHEVYKALKGELPH
ARSWNELKEALSERDIELKFKVSRTTKEVQGVKFEYGGISFSGSKVSREFSYMNIDYRLR
RNAFEDDFNHRQAAIREPGEEAVQTVSQNRSKDSVGNGLGLFSGIGSSFDVADAEANQEM
AEILRKKKKAKRKRGMRL
Reference
[1] Murphy CG et al (1995) Requirements for strand- and site-specific cleavage within the oriT region of Tn4399, a mobilizing transposon from Bacteroides fragilis. J Bacteriol. 177(11):3158-65. [PMID:7768814]


II. Auxiliary DNA-binding protein(s) of the relaxosome
# ID Name GenBank Length Note
1 311 MocB_Tn4399 insolico AAA98400 143 aa Bacterial mobilisation protein (MobC)
 N/A
Information of mobile element
ID 14
Element type ICE (Conjugative transposon)
ICE description Tn4399
ICEberg accesion number _
GenBank accession number L20975.1
Family _
Genome size 9.6 kb
Coordinate of oriT  [+/-] 991..1189 [+]
Drug resistance _
Heavy-metal resistance _
Virulence factor _
Xenobiotic degradation _
Host bacterium [NCBI Taxonomy ID] Bacteroides fragilis TMP230 [817]
Reference
[1] Hecht DW et al (1989) Characterization of the termini and transposition products of Tn4399, a conjugal mobilizing transposon of Bacteroides fragilis. Proc Natl Acad Sci U S A. 86(14):5340-4. [PMID:2546154]

Microbial Bioinformatics Group in MML, SJTU