oriTDB

The information of the oriT region

oriTDB accession number	100252
Name	oriT_pAPEC-O2-R
Sequence Completeness	intact
oriT length	462 nt
oriT sequence	AAGAAGAGCACCCCTAGCAGCGCCCCTAGGGGCATACTATAAAAAAACGCACGGCGCTGC TAGGGGCGGCCCTAATATATCCAAATGTTTTTCATGAAAATTGTCAGTACTGACCCTAAC AAGGGTCGTCATAGGGTCGCCATAGGGTCGTCAACGACCCTATTTAATAATGTAAAATAA ATTAAAATACATTATTTATAACATAAGCTAATGATTCAAAAAACAAATCAGCAAAAACTT GTTTTTGCGTGGGGTGTGGTGCTTTTGGTGGTGAGAACCACCAACCTGTTGAGCCTTTTT GTGGAGTGGGTTAAATTATTTACGGATAAAGTCACCAGAGGTGGAAAAATGAAAAAATGG ATGTTAGCCATCTGCTTGATGTTTATAAATGAGATCTGCCATGCCACTGATTGCTTTGAT CTTGCAGGCCGGGATTACAAAATAGATCCTGATTTACTGAGA
IR (inverted repeat)	[142-151] [154-163] nt (ATAGGGTCGT..ACGACCCTAT) [231-238] [241-248] nt (GCAAAAAC..GTTTTTGC)
Location of nic site	[257-258] nt
Conserved sequence flanking the nic site	GTGGGGTGT\|GG
Note	predicted by the oriTfinder
	L:142-151;R:154-163;L:231-238;R:241-248;D:257-258

Visualization of oriT structure

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

1

AAGAAGAGCACCCCTAGCAGCGCCCCTAGGGGCATACTATAAAAAAACGCACGGCGCTGC

61

TAGGGGCGGCCCTAATATATCCAAATGTTTTTCATGAAAATTGTCAGTACTGACCCTAAC

121

AAGGGTCGTCATAGGGTCGCCATAGGGTCGTCAACGACCCTATTTAATAATGTAAAATAA

181

ATTAAAATACATTATTTATAACATAAGCTAATGATTCAAAAAACAAATCAGCAAAAACTT

241

GTTTTTGCGTGGGGTGTGGTGCTTTTGGTGGTGAGAACCACCAACCTGTTGAGCCTTTTT

301

GTGGAGTGGGTTAAATTATTTACGGATAAAGTCACCAGAGGTGGAAAAATGAAAAAATGG

361

ATGTTAGCCATCTGCTTGATGTTTATAAATGAGATCTGCCATGCCACTGATTGCTTTGAT

421

CTTGCAGGCCGGGATTACAAAATAGATCCTGATTTACTGAGA

Reference
N/A

I. Information of Relaxase

ID	323
Name	TraI_pAPEC-O2-R
GenBank accession number	YP_190115
Family	MOB_F
Length	1756 aa
UniProt ID	Q5JBP8
PDB ID	_
Pfam	TrwC [PF08751.10], Evalue: 2.30E-75, Aligned region: 10..284 TraI [PF07057.10], Evalue: 7.60E-56, Aligned region: 1434..1556 AAA_30 [PF13604.5], Evalue: 5.10E-34, Aligned region: 968..1159 AAA_19 [PF13245.5], Evalue: 7.70E-09, Aligned region: 973..1108
Note	putative relaxase
Protein sequence [Download]	MMSIAQVRSAGSAGNYYTDKDNYYVLGSMGERWAGRGAEQLGLQGSVDKDVFTRLLEGRL PDGADLSRMQDGSNKHRPGYDLTFSAPKSVSMMAMLGGDKRLIDAHNQAVDFAVRQVEAL ASTRVMTDGQSETVLTGNLVMALFNHDTSRDQEPQLHTHAVVANVTQHNGEWKTLSSDKV GKTGFIENVYANQIAFGRLYREKLKEQVEALGYETEVVGKHGMWEMPGVPVEAFSGRSQA IREAVGEDASLKSRDVAALDTRKSKQHVDPEVRMAEWMQTLKETGFDIRAYRDAADQRAE TRTQAPGAVSQEGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPENGVIERARAG IDEAISREQLIPLDREKGLFTSGINVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDE RLSGELITGRRQLLEGMAFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQR TGTGSALMAMKDAGVNTYRWQGGEQRPATIISEPDRNVRYARLAGDFAASVKAGEESVAQ VSGVREQAILTQAIRSELKTQGVLGHPEVTMTALSPVWLDSRSRYLRDMYRPGMVMEQWN PETRSHDRYVIDRVTAQSHSLTLRDAQGETQVVRISSLDSSWSLFRPEKMPVADGERLRV TGKIPGLRVSGGDRLQVTSVSEDAMTVVVPGRAEPASLPVADSPFTALKLENGWVETPGH SVSDSAKVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI KARAGETLLETAISLQKTGLHTPAQQAIHLALPVVESKNLAFSMVDLLTEAKSFAAEGTS FTELGGEINAQIKRGDLLYVDVAKGYGTGLLVSRASYEAEKSILRHILEGKEAVTPLMER VPGELMEKLTSGQRAATRMILETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLSASERPRV VGLGPTHRAVGEMRSAGVDAQTLASFLHDTQLQQRSGETPDFSNTLFLLDESSMVGNTDM ARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSAADVAIMKEIVRQTPELREAV YSLINRDVERALSGLESVKPSQVPRLEGAWAPEHSVTEFSHSQEAKLAEAQQKAMLKGEA FPDVPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM VPVLNTANIRDGELRRLSTWETHRDALALVDNVYHRIAGISRDDGLITLQDAEGNTRLIS PREAVAEGVTLYTPDTIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQT RVIRPGQERAEQHIDLAYAITAHGAQGASETFAIALEGTEGNRKLMAGFESAYVALSRMK QHVQVYTDNRQGWTDAINNAVQKGTAHDVFEPKPDREVMNAERLFSTARELRDVAAGRAV LRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAGIWLNPLTTDDGNGLRGFSGE GRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGEGRPWNPGAIT GGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP DGKTEQAVRDIAGLERDRSAISEREAALPESVLREPQRVREAVREVARENLLQERLQQME RDMVRDLQKEKTLGGD

Reference
N/A

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

N/A

Information of plasmid

ID	714
Plasmid name	pAPEC-O2-R
GenBank accession number	NC_006671.1
Incompatibility group	IncFII(pRSB107)
Genome size	101375 bp
Coordinate of oriT [Strand]	39494..39955 [+]
Drug resistance	resistance to ampicillin, sulfisoxazole, tetracycline, streptomycin,gentamicin, trimethoprim
Heavy-metal resistance	resistance to silver nitrate
Virulence factor	_
Xenobiotic degradation	_
Host bacterium [NCBI Taxonomy ID]	Escherichia coli A2363 [562]

Reference

[1] Johnson TJ et al (2005) DNA sequence and comparative genomics of pAPEC-O2-R, an avian pathogenic Escherichia coli transmissible R plasmid. Antimicrob Agents Chemother. 49(11):4681-8. [PMID:16251312]