oriTDB

The information of the oriT region

oriTDB accession number	100064
Name	oriT_pPDL2
Sequence Completeness	core
oriT length	45 nt
oriT sequence	GCTATCCCGCGCCGCTGCTGAAGAAGAAGAAAAGCGCCGCCTCTT
IR (inverted repeat)	[24-34] [35-45] nt (AAGAAGAAAAG..CGCCGCCTCTT)
Location of nic site	[9-10] nt
Conserved sequence flanking the nic site	TATCCCG\|C
Note	_
	L:24-34;R:35-45;D:9-10

Visualization of oriT structure

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

1

GCTATCCCGCGCCGCTGCTGAAGAAGAAGAAAAGCGCCGCCTCTT

Reference

[1] Pandeeti EV et al (2012) Multiple mechanisms contribute to lateral transfer of an organophosphate degradation (opd) island in Sphingobium fuliginis ATCC 27551. G3 (Bethesda). 2(12):1541-54. [PMID:23275877]

I. Information of Relaxase

ID	60
Name	RepB_pPDL2
GenBank accession number	YP_006965809
Family	MOB_F
Length	303 aa
UniProt ID	K4I164
PDB ID	_
Pfam	Rep_3 [PF01051.20], Evalue: 2.20E-24, Aligned region: 38..257
Note	relaxase
Protein sequence [Download]	MNHATSPVNGGKAKVALDGDTALTLAQKGRGNPFDPANYGEIVKPGELVDIVELSPLTLA DRRIYNLLIANAWERIGEPVIHRIPKSALKGTHQGNERIESSLLRLMGTIAIVTIRKGGK SFKRRVQLLGPSDESLEKDGFLHYRIPEELIEILRNSEVYARLKTQVMYCFESKYALCLY EMIERRIGLEYKQSEEFTIAELRGLLNVPEGKLERFADFNKYCLKVAQEEINKLCPFWVE FTPIKKGRKVERVSMMWLPKTMSGRRDAQNLIDQHSIVRRAKLRGDIPEMPVLVDFSAPA AQR

Reference

[1] Pandeeti EV et al (2012) Multiple mechanisms contribute to lateral transfer of an organophosphate degradation (opd) island in Sphingobium fuliginis ATCC 27551. G3 (Bethesda). 2(12):1541-54. [PMID:23275877]

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

#	ID	Name	GenBank	Length	Note
1	91	_

N/A

Information of plasmid

ID	60
Plasmid name	pPDL2
GenBank accession number	NC_019376.1
Incompatibility group	IncP1
Genome size	37317 bp
Coordinate of oriT [Strand]	35038..35082 [+]
Drug resistance	_
Heavy-metal resistance	_
Virulence factor	_
Xenobiotic degradation	organophosphate degradation(opd gene cluster)
Host bacterium [NCBI Taxonomy ID]	Sphingobium fuliginis ATCC 27551 [1208342]

Reference

[1] Pandeeti EV et al (2012) Multiple mechanisms contribute to lateral transfer of an organophosphate degradation (opd) island in Sphingobium fuliginis ATCC 27551. G3 (Bethesda). 2(12):1541-54. [PMID:23275877]