oriTDB

The information of the oriT region

oriTDB accession number	100036
Name	oriT_pEST4011
Sequence Completeness	intact
oriT length	100 nt
oriT sequence	GAATAAGGGGATAGTGAAGATAGATAACCGGCTTTCCGGTTAGCTAACTTCACCTATCCT GCCCGCCTTTCGGCGGTATGAACACCAAGGAAAGCATACA
IR (inverted repeat)	[14-31] [36-53] nt (GTGAAGATAGATAACCGG..CCGGTTAGCTAACTTCAC)
Location of nic site	[61-62] nt
Conserved sequence flanking the nic site	TATCCTG\|C
Note	_
	L:14-31;R:36-53;D:61-62

Visualization of oriT structure

Reference

[1] Vedler E et al (2004) The completely sequenced plasmid pEST4011 contains a novel IncP1 backbone and a catabolic transposon harboring tfd genes for 2,4-dichlorophenoxyacetic acid degradation. J Bacteriol. 186(21):7161-74. [PMID:15489427]

I. Information of Relaxase

ID	35
Name	TraI_pEST4011
GenBank accession number	NP_990929
Family	MOB_P
Length	730 aa
UniProt ID	Q6QHL4
PDB ID	_
Pfam	Relaxase [PF03432.13], Evalue: 1.70E-54, Aligned region: 12..252
Note	relaxase
Protein sequence [Download]	MIAKHVSMKTVQKSDFAGLVKYITDEQAKNERVGYVAVTNCHTDRPEVAITEVLNTQAQN TRSGADKTYHLIVSFRPGEQPDDATLKAIEARICEGLGFGEHQRVSAVHHDTDNLHIHIA INKIHPTRYTILEPFNAYHTLGQLCEKLEREYSLERDNHQGNKLVSEGRAQDMERHASVE SLQGWVKRECAADMQAAQSWDALHQVMRDNGLELRERGNGFVIQAADGLDVKASSIGREF SKAKLEERLGTFEPSAEHLERAAQKPRKQYDKKPVRSRVNTVELHAKYKADQLTISGSRT AEWEKARAKKDRLIEAAKRSGRLKRSTIKLISGAGVGKKLMYSATSKTMKSEIEKINKQY LKERQEIHEKYQRRAWADWLRAKAAEGDQEALGALRARDAAQGLKGNTVAGTGPLRPQAA AAEQDSVTKKGTIIYRVGPTAVRDDGDRLKVSRGADQDGMQAALRMAMDRYGDRISVGGT PAFKEQIAQAAAASKLPITFDDDALERRRQELLTQATTKENDHDRTDRGRAAGGGISGSG PAIAAIPGAARAGQPRAAAAGRTTKPNVGRVGRKPPPQSQNRLRRLSQLGVVQLASGSEV LLPRHVPGDVEQQGAKPVDGLRRDIFGPGRLSPQVAAAADKYIAEREGKRLKGFDIPKHS RYTDGQDGAATFAGIRQVEGQSLALLTRGEEVMVLPVDEPTARRLKRLAVGDAITVTPQG SIKTTKGRSR

Reference

[1] Vedler E et al (2004) The completely sequenced plasmid pEST4011 contains a novel IncP1 backbone and a catabolic transposon harboring tfd genes for 2,4-dichlorophenoxyacetic acid degradation. J Bacteriol. 186(21):7161-74. [PMID:15489427]

II. Auxiliary DNA-binding protein(s) of the relaxosome

#	ID	Name	GenBank	Length	Note
1	53	TraH_pEST4011	NP_990930	108 aa	relaxosome stabilization
2	54	TraJ_pEST4011	NP_990932	129 aa	oriT recognizing protein; required for relaxase activity
3	55	TraK_pEST4011	NP_990933	132 aa	oriT-binding protein; constitutes a part of relaxosome, necessary for nicking at oriT

Information of T4CP

ID	35
Name	TraG_pEST4011
SecReT4 accesion number	_
GenBank accession number	NP_990928
Family	VirD4/TraG
Length	637
UniProt ID	Q6QHL5
PDB ID	_
Pfam	T4SS-DNA_transf [PF02534.13], Evalue: 2.60E-159, Aligned region: 122..626 TraG-D_C [PF12696.6], Evalue: 1.50E-31, Aligned region: 445..570 TrwB_AAD_bind [PF10412.8], Evalue: 1.00E-23, Aligned region: 177..577
Note	DNA transport during conjugation; connects relaxosome and Mpf complex
Protein sequence [Download]	MTKDRFNNAVGPQVRAEKEGPGKVIPALAVLSLGGGLQAATQFFAHDFKYQAALGAHINH IYPPWGIVQWAGKWYGQYPDAFMRAGSIGVTITGVGLISLVVAKMVLANSSKVNEYLHGS ARWANVRDIQAAGLIPRARSFWQTITGKDAAASSGVYVGAWIDKKGKQHYLRHNGPEHVL CYAPTRSGKGVGLVVPTLLSWGHSAVITDLKGELWALTAGWRQKHAKNKVLRFEPATASG SVCWNPLDEIRLGTENEVGDVQNLATLIVDPDGKGLESHWQKTSQALLVGVILHALYKAK AEGTPATLPGVDAMLADPNRDIGELWMEMTTYSHVDGQVHPVVGSAARDMMDRPDEEAGS VLSTAKSYLALYRDPIVARNVSKSEFKIKDLMHHDNAVSLYIVTQANDKARLRPLVRVMV NMIVRLLADKMDFENGRPVAHYKHRMLMMLDEFPSLGKLEIMQESLAFVAGYGIKCYLIC QDINQLKSRETGYGHDESITSNCHVQNAYPPNRVETAEHLSKLTGQTTVAKEQITTSGRR TSALLGQVSRTIQEVQRPLLTPDECLRMPGPVKTEGGDIAKAGDMVVYVAGYPAIYGKQP LYFQDPTFQARAAIPAPKNSDKLRNSFVAPAGEGITI

Reference

[1] Vedler E et al (2004) The completely sequenced plasmid pEST4011 contains a novel IncP1 backbone and a catabolic transposon harboring tfd genes for 2,4-dichlorophenoxyacetic acid degradation. J Bacteriol. 186(21):7161-74. [PMID:15489427]

Information of plasmid

ID	35
Plasmid name	pEST4011
GenBank accession number	NC_005793.2
Incompatibility group	IncP1
Genome size	76958 bp
Coordinate of oriT [Strand]	74354..74453 [+]
Drug resistance	_
Heavy-metal resistance	_
Virulence factor	_
Xenobiotic degradation	degradation of 2,4-dichlorophenoxyacetic acid (2,4-D)
Host bacterium [NCBI Taxonomy ID]	Achromobacter denitrificans EST4002 [32002]

Reference

[1] Vedler E et al (2004) The completely sequenced plasmid pEST4011 contains a novel IncP1 backbone and a catabolic transposon harboring tfd genes for 2,4-dichlorophenoxyacetic acid degradation. J Bacteriol. 186(21):7161-74. [PMID:15489427]