oriTDB

The information of the oriT region

oriTDB accession number	100110
Name	oriT_QKH54
Sequence Completeness	core
oriT length	90 nt
oriT sequence	GTGAAGATAGTTAACCGGCTTGCCGGTTAGCTAACTTCACCTATCTTGCCCGGCTCTTCG AGCCGTTTAACGCCAGGTGAGTATCGCATA
IR (inverted repeat)	[1-19] [22-40] nt (GTGAAGATAGTTAACCGGC..GCCGGTTAGCTAACTTCAC)
Location of nic site	[48-49] nt
Conserved sequence flanking the nic site	TATCTTG\|C
Note	_
	L:1-19;R:22-40;D:48-49

Visualization of oriT structure

1...5....10....15....20....25....30....35....40....45....50....55....60

1

GTGAAGATAGTTAACCGGCTTGCCGGTTAGCTAACTTCACCTATCTTGCCCGGCTCTTCG

61

AGCCGTTTAACGCCAGGTGAGTATCGCATA

Reference

[1] Haines AS et al (2006) Plasmids from freshwater environments capable of IncQ retrotransfer are diverse and include pQKH54, a new IncP-1 subgroup archetype. Microbiology. 152(Pt 9):2689-701. [PMID:16946264]

[2] Pachulec E et al (2010) Conjugative Plasmids of Neisseria gonorrhoeae. PLoS One. 5(4):e9962. [PMID:20376355]

I. Information of Relaxase

ID	105
Name	TraI_QKH54
GenBank accession number	CAJ43356
Family	MOB_P
Length	802 aa
UniProt ID	Q1H9W9
PDB ID	_
Pfam	Relaxase [PF03432.13], Evalue: 2.00E-50, Aligned region: 12..252
Note	TraI DNA relaxase
Protein sequence [Download]	MIAKRIPMNSAKKSSFAGLVKYITSSQGINERVGQVRVTNCQTEELSWAVHEVLHTQKIN TRAEGDKTYHLLISLAPGEQPSSEVLRDIEDRVCSAIGYQDHQRVSAVHNDTDCLHIHIA INKIHPERHTLHEPYRDFKTLGDICARLELEHGLQQVNHARKKSVSEGRANDMEQHAGIE SLITWVRRECLEQVQGAKNWTELHQVLHENGLELRERGNGLVITDQAGTMVKASTVARDL SKGKLEERLGAFENQQQQARASHNQGKPLPRKPGIGRVGRRPPPASKNRLRGLSTLQAIQ IDSGKRYEKSPVKHKSDTTELYARFRDEQNAVRHTKAKELAAARERRDRAIEQAKNVAKL KRSSIKLMATPGLTKKLLYASTHKSLQEQITSLRAEHIKAIENINTLNKARQWADWLQAK ALDGDQDALKALRARQGVKGLQGDAVAAKGQQHSAKAVPIEQDHITKEGTVIYRAGTSAI RDDGSKLQLSRGANFDGIETALRMAAARYGEKITITGSDQFKELVAQTAAIRSLPIKFDD PALEQRRQSLQQAIEKERNNVGRTDRGRAAGSGAGVDGLHAARGGRGIGAGGTTGAGRGT GVRGSTAGTQLSGRAGTAASGRITVRAPGGTPKPGVARVGRKPPPESQNRLRALSKLGVV QLTQGSEVLLPRDVPGVVEHQGAKPDNGLRRDVSRSGGIAAEGKTISSAQAARQYVAERE DKRAKGFDIPKHRLYNQADDGPATFEGLRQVEGQSMALLKRGDELLVLPVNEATARRMKR MKLGDPVTANATGAIKSKGRSR

Reference

[1] Haines AS et al (2006) Plasmids from freshwater environments capable of IncQ retrotransfer are diverse and include pQKH54, a new IncP-1 subgroup archetype. Microbiology. 152(Pt 9):2689-701. [PMID:16946264]

[2] Pachulec E et al (2010) Conjugative Plasmids of Neisseria gonorrhoeae. PLoS One. 5(4):e9962. [PMID:20376355]

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

#	ID	Name	GenBank	Length	Note
1	157	TraJ_QKH54	CAJ43359	118 aa	TraJ oriT-binding protein
2	158	TraK_QKH54	CAJ43360	142 aa	TraK oriT-binding protein
3	159	TraH_QKH54	CAJ43357	139 aa	TraH relaxosome stabilising protein

Information of T4CP

ID	105
Name	TraG_QKH54
SecReT4 accesion number	108524647
GenBank accession number	CAJ43355
Family	VirD4/TraG
Length	638
UniProt ID	Q1H9X0
PDB ID	_
Pfam	T4SS-DNA_transf [PF02534.13], Evalue: 1.10E-155, Aligned region: 123..626 TraG-D_C [PF12696.6], Evalue: 2.30E-31, Aligned region: 446..571 TrwB_AAD_bind [PF10412.8], Evalue: 4.70E-22, Aligned region: 198..582
Note	TraG coupling protein
Protein sequence [Download]	MISKDKFNNAVGPQVRAKKPGVGKVIPALSLLSIGVGLAAATQYFAYDFKYQDVLGPHVN HIYAPWSILTWASKWYGTYPEAVMRAGSIGVLASGVGLLALAITKMIQANSSKANEYLHG SARWANKKDIQAAGLLQRGRTALEVVTSKSPPTHTGVYVGAWLDENGVQHYLRHNGPEHI LTYAPTRSGKGVGLVIPTLLSWPASTVVTDLKGELWALTSGWRQKHANNKVLRFEPATSN GGVRWNPLDEIRIGTENEVGDVQNLATLIVDPDGKGLESHWQKTSQALLVGLIMHVLYKS KIEGTLATLPEVDRILADPDRDLGELWMEMTTYGHVNGKNHPVVGSSARDMMDRPEEEAG SVLSTAKSYLSLYRDPIVARNVSASEFKVKDLMNHDNPVSLYIVTQPNDKARLRPLVRVL INMIIRLLADKMDFENGRPVAHYNHRLLAMLDEFPSLGKLEILQESLAFVAGYGIKCYLI CQDINQLKSRETGYGPDETITSNCHVQNAYPPNRVETAEHLSKLTGQTTVVKEQITTSGR RTSALLGQVSRTMQEVQRPLLTPDECLRMPGPVKSAAGDITQAGDMVVYMAGYPAIYGKQ PLYFKDPVFQARASIPAPKASDKLRFVQDHSQAEAITI

Reference

[1] Haines AS et al (2006) Conjugative Plasmids of Neisseria gonorrhoeae. Microbiology. 152(Pt 9):2689-701. [PMID:16946264]

Information of plasmid

ID	105
Plasmid name	QKH54
GenBank accession number	AM157767.1
Incompatibility group	IncP1
Genome size	69966 bp
Coordinate of oriT [Strand]	68225..68314 [+]
Drug resistance	_
Heavy-metal resistance	mercury resistance
Virulence factor	_
Xenobiotic degradation	_
Host bacterium [NCBI Taxonomy ID]	Uncultured bacterium [77133]

Reference

[1] Haines AS et al (2006) Plasmids from freshwater environments capable of IncQ retrotransfer are diverse and include pQKH54, a new IncP-1 subgroup archetype. Microbiology. 152(Pt 9):2689-701. [PMID:16946264]