oriTDB

The information of the oriT region

oriTDB accession number	100323
Name	oriT_pNAH20
Sequence Completeness	intact
oriT length	428 nt
oriT sequence	GGTGGTCCTCTCTGAGCCAAATATGGGACTAATTCAGGATAACGATAACTTCCGAAATAG CGTATAGCAAATGCAATACATAAAATGCTTGATTTTATTGGTCTAAATGATAATTTTGTA ATACATATGTATAGCGCATGAAATTCATGAATTTGCTCTGTAAGCCGCTCCCAGCGCGGC TTTAACCTACCGCTAGGGGGGTGCGTGTTGTGTATTGAGACTTTGACCCTGTTAAGGGGA AAAGTTGAAGCTCTTGTTAAGGGCGTATCCACTAGTCAGGCCGCAGGCCGTAGGGGGGTA GCACAGATGGTATGCAGAAAGGGTGCAGGAAGGGTGCTAAGAGAGTGCAAGAGGGGTGCA ACTTGACTACAGGTAGGGGGCGATTAAGATGCACCTAGAGTGCAATAGGGGTGCAGATAG GGTGCAAA
IR (inverted repeat)	IR1: [121-126] [127-132] nt (ATACAT..ATGTAT) IR2: [137-142] [144-149] nt (CATGAA..TTCATG) IR3: [162-170] [174-182] nt (AAGCCGCTC..GCGCGGCTT)
Location of nic site	[213-214] nt
Conserved sequence flanking the nic site	_
Note	predicted by the oriTfinder
	L:121-126;R:127-132;L:137-142;R:144-149;L:162-170;R:174-182;D:213-214

Visualization of oriT structure

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

1

GGTGGTCCTCTCTGAGCCAAATATGGGACTAATTCAGGATAACGATAACTTCCGAAATAG

61

CGTATAGCAAATGCAATACATAAAATGCTTGATTTTATTGGTCTAAATGATAATTTTGTA

121

ATACATATGTATAGCGCATGAAATTCATGAATTTGCTCTGTAAGCCGCTCCCAGCGCGGC

181

TTTAACCTACCGCTAGGGGGGTGCGTGTTGTGTATTGAGACTTTGACCCTGTTAAGGGGA

241

AAAGTTGAAGCTCTTGTTAAGGGCGTATCCACTAGTCAGGCCGCAGGCCGTAGGGGGGTA

301

GCACAGATGGTATGCAGAAAGGGTGCAGGAAGGGTGCTAAGAGAGTGCAAGAGGGGTGCA

361

ACTTGACTACAGGTAGGGGGCGATTAAGATGCACCTAGAGTGCAATAGGGGTGCAGATAG

421

GGTGCAAA

Reference
N/A

I. Information of Relaxase

ID	394
Name	TraC_pNAH20
GenBank accession number	YP_002887474
Family	MOB_F
Length	981 aa
UniProt ID	C3KFS3
PDB ID	_
Pfam	TrwC [PF08751.10], Evalue: 6.70E-82, Aligned region: 9..290 AAA_30 [PF13604.5], Evalue: 4.60E-40, Aligned region: 476..674 Viral_helicase1 [PF01443.17], Evalue: 1.60E-05, Aligned region: 829..918 AAA_19 [PF13245.5], Evalue: 5.10E-07, Aligned region: 481..617 UvrD_C_2 [PF13538.5], Evalue: 3.50E-07, Aligned region: 870..917
Note	putative relaxase
Protein sequence [Download]	MFNVTSIKGSNQYAAAGYYTAADDYYAKESPGEWQGIGAELLGLDGPIDQKELAKLFDGK LPNGELMPKPVNKETGQIVNRRMGLDLTFSAPKSVSMQALIAGDKDVVAAHDRAVTKAME HVEKLAQTRRKEHGKSMLERTGNLIIGKFRHELSRAKDPQLHTHAVVMNATRRADGKWRA IHNDDIFKIQPQIDAMYKGELAKELRELGYEIRVLDKDGNFELAHISRDQIEAFSSRSKV IEEALAKDGKTRSNATALEKQIIAMATRPRKDERDRHLVKEYWVIKARDLGIEFGGRSQL DNREYGRRSESIHAEHNLPEGITAGQAVVQYAINHLTEREQVVGESDLRTAALRRAVGLA SPSEVDDEIKRLVKQGTLIESPPTYTMATGKDGTALSPAGWRALLKEQKGWTDKEAQQYV KMAITRGSLVEAEKRYTTQRALKREKAILAIERSGRGLVAPLLSKEQVAKALEGSTLSAG QYQAVEVIVSTSNRFVGIQGDAGTGKTYSVDRAVKLIESVNNAMTERTTTTDAVFRVVAL APYGNQVTALKNEGLDAHTLASFFHTKDKKLDERTIVVLDEAGVVGARQMEHLMRIIEQS GARLVQLGDTKQTEAIEAGKPFAQLQQNGMQTARIKEIQRQKNQELKIAVQHAADGNPGK SLEHVNHVEEFREPGQRHQAIVRDYMSLTPEERKEVLIVAGTNKDRKQINAMTRESLGLV GNGKELPTLNRVDTTQAERRYAPSYKKGMIVQPEKDYIRTGLSRGELYTVDQALPGNVLV VKDKNGNRVEFNPRKLTKLSVYNLEKPEFSVGDLVRITRNDQKLDLTNGDRMRVVGNANG VIELASLKEKDGTPERVVALPTNRPLHLEHAYSATVHSAQGLTNDRVMISINTKSRTTSQ NLWYVAISRARHEARIYTDSIAGLPAAIANRYDKTTALSLQQARERQRNESIKPRTVLDG KALERKQRSALDGPSAGKSGV

Reference
N/A

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

N/A

Information of plasmid

ID	784
Plasmid name	pNAH20
GenBank accession number	NC_012674.1
Genome size	83042 bp
Coordinate of oriT [Strand]	62665..63092 [-]
Drug resistance	_
Heavy-metal resistance	_
Virulence factor	_
Xenobiotic degradation	naphthalene degradation;
Host bacterium [NCBI Taxonomy ID]	Pseudomonas fluorescens PC20 [294]

Reference

[1] Merimaa M et al (2006) Grouping of phenol hydroxylase and catechol 2,3-dioxygenase genes among phenol- and p-cresol-degrading Pseudomonas species and biotypes. Arch Microbiol. 186(4):287-96. [PMID:16906406]

[2] Heinaru E et al (2000) Three types of phenol and p-cresol catabolism in phenol- and p-cresol-degrading bacteria isolated from river water continuously polluted with phenolic compounds. FEMS Microbiol Ecol. 31(3):195-205. [PMID:10719200]