oriTDB

The information of the oriT region

oriTDB accession number	100587
Name	oriT_pMC-NDM
Sequence Completeness	intact
oriT length	462 nt
oriT sequence	AAGAAGAGCACCCCTAGCAGCGCCCCTAGGGTCATACTATAAAAAAACGCACGGCGCTGC TAGGGGCGGCCCTAATATATCCAAATGTTTTTCATAAAATTTGTCAGTACTGACCCTAAC AAGGGTCGCCATAGGGTCGCCATAGGGTCGTCAACGACCCTATTTAATAATGTAAAATAA ATTAAAATACATTATTTAAAACATAAGCTAATGATTCAAAAAGCAAATCAGCAAAAACTT GTTTTTGCGTGGGGTGTGGTGCTTTTGGTGGTGAGAACCACCAACCTGTTGAGCCTTTTT GTGGAGTGGGTTAAATTATTTACGGATAAAGTCACCAGAGGTGGAAAAATGAAAAAGTGG ATGTTAGCCATCTGCCTGATGTTTATAAATGAGATCTGCCAGGCCACTGATTGCTTTGAT 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

AAGAAGAGCACCCCTAGCAGCGCCCCTAGGGTCATACTATAAAAAAACGCACGGCGCTGC

61

TAGGGGCGGCCCTAATATATCCAAATGTTTTTCATAAAATTTGTCAGTACTGACCCTAAC

121

AAGGGTCGCCATAGGGTCGCCATAGGGTCGTCAACGACCCTATTTAATAATGTAAAATAA

181

ATTAAAATACATTATTTAAAACATAAGCTAATGATTCAAAAAGCAAATCAGCAAAAACTT

241

GTTTTTGCGTGGGGTGTGGTGCTTTTGGTGGTGAGAACCACCAACCTGTTGAGCCTTTTT

301

GTGGAGTGGGTTAAATTATTTACGGATAAAGTCACCAGAGGTGGAAAAATGAAAAAGTGG

361

ATGTTAGCCATCTGCCTGATGTTTATAAATGAGATCTGCCAGGCCACTGATTGCTTTGAT

421

CTTGCAGGCCGGGATTACAAAATAGATCCTGATTTACTGAGA

Reference
N/A

I. Information of Relaxase

ID	659
Name	TraI_pMC-NDM
GenBank accession number	YP_009066506
Family	MOB_F
Length	1756 aa
UniProt ID	I1WZQ7
PDB ID	_
Pfam	TrwC [PF08751.10], Evalue: 3.70E-75, Aligned region: 10..284 TraI [PF07057.10], Evalue: 1.00E-55, Aligned region: 1434..1556 AAA_30 [PF13604.5], Evalue: 1.50E-34, Aligned region: 968..1159 AAA_19 [PF13245.5], Evalue: 6.20E-09, Aligned region: 973..1108
Note	putative relaxase
Protein sequence [Download]	MMSIAQVRSAGSAGNYYTDKDNYYVLGSMGERWAGRGAEQLGLQGSVDKDVFTRLLEGRL PDGADLSRMQDGSNRHRPGYDLTFSAPKSVSMMAMLGGDKRLIDAHNQAVDFAVRQVEAL ASTRVMTDGQSETVLTGNLVMALFNHDTSRDQEPQLHTHAVVANVTQHNGEWKTLSSDKV GKTGFIENVYANQIAFGRLYREKLKEQVEALGYETEVVGKHGMWEMPGVPVEAFSGRSQA IREAVGEDASLKSRDVAALDTRKSKQHVDPEVRMAEWMQTLKETGFDIRAYRDAADQRAE TRTQAPGAVSQEGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPENGVIERARAG IDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMVREQGREVQIIAADRRSQMNLKQDE RLSGELITGRRQLLEGMAFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQR TGTGSALMAMKDAGVNTYRWQGGEQRPATIISEPDRNVRYARLAGDFAASVKAGEESVAQ VSGVREQAILTQAIRSELKTQGVLGHQEVTMTALSPVWLDSRSRYLRDMYRPGMVMEQWN PETRSHDRYVIDRVTAQSHSLTLRDAQGETQVVRISSLDSSWSLFRPEKMPVADGERLRV TGKISGLRVSGGDRLQVASVSEDAMTVVVPGRAEPASLPVSDSPFTALKLENGWVETPGH SVSDSAKVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI KARAGETLLETAISLQKTGLHTPAQQAIHLALPVVESKNLAFSMVDLLTEAKSFAAEGTS FTELGGEINAQIKRGDLLYVDVAKGYGTGLLVSRASYEAEKSILRHILEGKEAVTPLMER VPGELMEKLTSGQRAATRMILETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRV VGLGPTHRAVGEMRSAGVDAQTLASFLHDTQLLQRSGETPNFSNTLFLLDESSMVGNTDM ARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSAADVAIMKEIVRQTPELREAV YSLINRDVERALSGLESVKPSQVPRLEGAWAPEHSVTEFSHSQEAKLAEAQQKAMQKGEA FPDVPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM VPVLNTANIRDGELRRLSTWETHRDALALVDNVYHRIAGISKDDGLITLQDAEGNTRLIS PREAVAEGVTLYTPDTIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQT RVIRPGQERAEQHIGLAYAITAHGAQGASETFAIALEGTEGNRKQMAGFESAYVALSRMK QHVQVYTDNRQGWTDAINNAVQKGTAHDVLEPKSDREVMNAERLFSTARELRDVVAGRAV LRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAGIWLNPLTTDDGNGLRGFSGE GRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGEGRPWNPGTIT GGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP DGKTEQAVRDIAGLERDRSAISEREAALPESVLREPQRVREAVREVARENLLQERLQQME RDMVRDLQKEKTLGGD

Reference
N/A

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

N/A

Information of plasmid

ID	1047
Plasmid name	pMC-NDM
GenBank accession number	NC_025106.1
Incompatibility group	IncFII
Genome size	87619 bp
Coordinate of oriT [Strand]	36855..37316 [-]
Drug resistance	bleomycin resistance; sulfonamides resistance; aminoglycoside resistance
Heavy-metal resistance	_
Virulence factor	_
Xenobiotic degradation	_
Host bacterium [NCBI Taxonomy ID]	Escherichia coli NMI5428/11 [562]

Reference

[1] Fiett J et al (2014) The first NDM metallo-β-lactamase-producing Enterobacteriaceae isolate in Poland: evolution of IncFII-type plasmids carrying the bla(NDM-1) gene. Antimicrob Agents Chemother. 58(2):1203-7. [PMID:24247128]