oriTDB

The information of the oriT region

oriTDB accession number	100274
Name	oriT_pNOCA01
Sequence Completeness	intact
oriT length	510 nt
oriT sequence	TTGAGGCCGCGGCCGCGAAGTCGCCGGCGGAACGCTGGGCCCCGCTGGCCCGCGAGGTCG ACCCGCGCCTGGCGGAGCAGGACGACTGGCCCGCCACCGCCGCGATGCTGCAACAGGCCC ACGAGCAAGGCCACGACGTCAGCGCCGCTACCCGCGCCCTGGTCGCAGCAGCACCCCTGG GCGACGCCCCCGCCCGCGAACTGCGCTACCGGCTGGTTCGGCAGGTTGGATTCGGCGAAC ACGACGCCGAATCCACCGACCGTGACGCCCCGAAGCGCCGGCGCGACGCGGGTACTGGAC ATGAGCTCGGCTCTTCGAACCCAGTGCACCGCAGCCGCCGCCGGTAGGCCTGGGCACAGG TTGAGACCTACAACGAGAGGGCTGTCGGACACTCAACGCGAGGTACCCGCGTGCAGACCT GCCACATTGCGGCCCACTGTGGGGCAGCGTCATGGCGCTCAAACGGGCGGGCTCCTTGTC CAGAGGTCTTCAAAGCGCCGGACTGGGCCG
IR (inverted repeat)	IR1: [179-183] [185-189] nt (GGGCG..CGCCC) IR2: [225-237] [245-257] nt (GTTGGATTCGGCG..CGCCGAATCCACC)
Location of nic site	[155-156] nt
Conserved sequence flanking the nic site	TACCCGCG\|CCCT
Note	predicted by the oriTfinder
	L:179-183;R:185-189;L:225-237;R:245-257;D:155-156

Visualization of oriT structure

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

1

TTGAGGCCGCGGCCGCGAAGTCGCCGGCGGAACGCTGGGCCCCGCTGGCCCGCGAGGTCG

61

ACCCGCGCCTGGCGGAGCAGGACGACTGGCCCGCCACCGCCGCGATGCTGCAACAGGCCC

121

ACGAGCAAGGCCACGACGTCAGCGCCGCTACCCGCGCCCTGGTCGCAGCAGCACCCCTGG

181

GCGACGCCCCCGCCCGCGAACTGCGCTACCGGCTGGTTCGGCAGGTTGGATTCGGCGAAC

241

ACGACGCCGAATCCACCGACCGTGACGCCCCGAAGCGCCGGCGCGACGCGGGTACTGGAC

301

ATGAGCTCGGCTCTTCGAACCCAGTGCACCGCAGCCGCCGCCGGTAGGCCTGGGCACAGG

361

TTGAGACCTACAACGAGAGGGCTGTCGGACACTCAACGCGAGGTACCCGCGTGCAGACCT

421

GCCACATTGCGGCCCACTGTGGGGCAGCGTCATGGCGCTCAAACGGGCGGGCTCCTTGTC

481

CAGAGGTCTTCAAAGCGCCGGACTGGGCCG

Reference
N/A

I. Information of Relaxase

ID	345
Name	Tra_pNOCA01
GenBank accession number	WP_011751509
Family	MOB_F
Length	1967 aa
UniProt ID	A1SC49
PDB ID	_
Pfam	TrwC [PF08751.10], Evalue: 2.80E-91, Aligned region: 8..420 AAA_30 [PF13604.5], Evalue: 1.70E-54, Aligned region: 583..786 Toprim_N [PF08275.10], Evalue: 2.10E-27, Aligned region: 1523..1655 AAA_19 [PF13245.5], Evalue: 1.70E-08, Aligned region: 592..730 Toprim_2 [PF13155.5], Evalue: 7.50E-08, Aligned region: 1664..1751 Toprim_4 [PF13662.5], Evalue: 2.80E-05, Aligned region: 1662..1735
Note	putative relaxase
Protein sequence [Download]	MSLHKLTAGSGYDYLTRQVAAMDATDKGHTGLASYYTEKGETPGVWVGSGMEGIEGLDAG DVVTADHMQNLFGAGHHPLATARTKELDLRVGRAGVGSPTAADYKAAARLGTPFKVYEND VSAFRVEVAKRLAAVNEAAGLPGDWPVPAEERARIRTEIGRDFFRAEHGREPADARELAA TIAKHSRPKTNAVAGYDLTFSPVKSVSTLWALADPKTAAVIEGAHQSAIKDALNFIETKA LFTRQGTNGIRQVNVRGLLATAFTHRDSRAGDPDLHTHVAVANKVQTLDGKWLAIDGRLL YKAKVSASETYNTALERHLGDALGVRFAERPNPDARKRPVREIVGVDPDLNHRFSKRRVS VEARRKELAAQFQATHGRPPTPIETLQLAQRATLETREAKHEPRSLNDQREAWDREAVEV LGSPRGLQQMLHGTLNPTAAGTAPVADAAWFAKTGDRIVTTMEGGRATWQYWHVYAEAQR QVRAANVPTDQVSTVVGLLVSEVLDGRSVSITRPFDEISEPPELRKLDGASVYTVGGVHL FTSSKVLAAEERLVEAAGRRDGYAVDEQNVALALLESEANGVTLNAGQATLVKEMATSGA RLQLAIAPAGSGKTTAMRALAQAWTDGGGSVIGLAPSAAAADALRVSMGSQIDTQTDTLA KLTHSLEQSQVTGAEVPDWVAGIGPQTLVVIDEAGMADTLSLDIAVQHVLERGGSVRLVG DDQQLAAIGAGGVLRDIRATHGALQLTELVRFTDPAEGAASLALREGKGEALGFYLDRDR VHVGDLATMTEDVFAAWQADRAAGLDAIMLAPTRELVSELNQQARAHRLEGADPASVGPA RRLADGNEASIGELIITRTNDRKLRTSATDWVKNGDRWTVLGLHEGGDLTVQHTQHGRTV RLPREYVETSTELGYACTVHTAQGVTTDTMHGLATGNESRQQLYTMLTRGKSGNHIYLQV VGDGDPHSVIHPTLVRPLTPTDILESMLARDDAQRSATSLMREQADPATQLGEAAQRYLD SLYVAAENHLRNTAGPDGSNVVEALDSTVDQLLPGLADEAAWPTLRAHLLLLGAAGENPV EAMRAAASDRELVSAEDRAAVLDWRLDASGMRNVGTGPLPWIPGVPERLADDPHWGAYLD QRAHLVDQLADEVRGRAAAQTSLPTWAQNGIRPDTDTVADVEVWRAAMQVPLDDRRPTGA PQLQKASSTYQRRLNRRITGDHTPALTEWRQLLYSLAPQVRGDEFTPLLAERLAAMSRAG VEAHQLLRTATAADTGAGPLPDEHAAAALWWRMARHLSPAVAAQVGDGSHGEGVTTSWAA QLPELLSDERSARIQASAWWPALVSNIDHGLQRGWQLEALLSAGSALPSDDIDECQALVW RTSIALEPIPDEHEHDDHFDEPPVDMWDGVEPDPATLVDHPDDTEWPLPHDLEADGDHLV DHPEPDEAIDQVDVAPAAADNVDEQQFVEGDLTLAAYIRDLGGTPLEPTAADIRLMYQRA DEWYSFPVTRERMIEINEITQTFFESRFTDSWGRDYLTGRFGIDLAGHEHFRPGQAPAGW TNLVDHLRHRGVSGAEMLATGVATTASTGRLIDRFRDRVMFPVVHNGEVLGFVGRRRPEL TDADQANGRGGPKYLNTADTPLFHKGAQLYGVVDELLAEGAVPVIVEGPMDAIAVTLASA ARYVGVAPLGTSLTDEQASQLGGIGRDPIVATDADLAGEVAAERDFWMLTPHGLDPGYAR FPEGLDPADLLAQRGPAALTASLASGQTLGDQLLSERLDNLAPEQARVAAMRVLAARPSR AWAPGTNLVRARLKLSQLQSRRDLRDAIKAWDADPRRAARAELNSSSEVRARLEAAAAKS PAERWAPLAREVDPRLAEQDDWPATAAMLQQAHEQGHDVSAATRALVAAAPLGDAPAREL RYRLVRQVGFGEHDAESTDRDAPKRRRDAGTGHELGSSNPVHRSRRR

Reference
N/A

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

N/A

Information of plasmid

ID	736
Plasmid name	pNOCA01
GenBank accession number	NC_008697.1
Genome size	307814 bp
Coordinate of oriT [Strand]	124416..124925 [+]
Drug resistance	_
Heavy-metal resistance	mercury resistance
Virulence factor	_
Xenobiotic degradation	_
Host bacterium [NCBI Taxonomy ID]	Nocardioides sp. JS614 [196162]

Reference

[1] Coleman NV et al (2011) Genome Sequence of the ethene- and vinyl chloride-oxidizing actinomycete Nocardioides sp strain JS614. J Bacteriol. 193(13):3399-400. [PMID:21551312]