oriTDB
The information of the oriT region
oriTDB accession number 100571
Name oriT_pYD626E  insolico
Sequence Completeness intact
oriT length 627 nt
oriT sequence AGCGCCGCAGATAATCTGACCGATTACCTCCTGAAACCAGGTCTATATAGGCCAAAAGTT CATCTGATACTTTTGCGGTTATTATTGGCATTCAGTCCTCACATTGTGCATTTTTTAAAC AAAAAATTGGGATCTAACAAGCTGAAATCTTAGTATTACCAAAGTAATAAAGCAAACTCA TTATAAAACAATGAGTTATTGGGTGTTTTTAATACCTAATTATTACCGAATATTGTTGCT ATTTATTTTTTTATCTTTTAAATCAGTATGATAGCGTGATTTATCGCGCTGCGTTAGGTG TATAGCAGGTTAAGGGATAAAAAATCATCTTTTTTGGTAGGGGCGATCTACGTAGGTTAA GGACTAACTGGCTAAAAAGCGTTCAATATTCCGTATTCATGCTTGCATGAATACCAGTAC AACAAAAGTACATCAAAATTACATCAAAATTACATCACTTGAAGGTTGACAGTACAACAA AATTACATCATTCTTTGGTCATGAGGTAGCCAGTACAACAAAAGTACATCAAAAGTACAT CAAAATTACATCAAAATTACATCATTCTAAATGAGGGTACTATGAAGCCCAAAAGTATCA GGGCGGCACTTCAGTTGATGTTGCCGG
IR (inverted repeat)IR1: [198-207] [211-220] nt  (ATTGGGTGTT..AATACCTAAT)
IR2:[319-324] [330-335] nt  (AAAAAA..TTTTTT)
IR3: [393-402] [405-414] nt  (GTATTCATGC..GCATGAATAC)
Location of nic site [301-302] nt
Conserved sequence flanking the
  nic site 		GGTGT|ATAGC
Note predicted by the oriTfinder
L:198-207;R:211-220;L:319-324;R:330-335;L:393-402;R:405-414;D:301-302
Visualization of oriT structure
Reference
 N/A
I. Information of Relaxase
ID 643
Name TraI_pYD626E insolico
GenBank accession number YP_009060593
Family MOBF
Length 1078 aa
UniProt ID _
PDB ID _
Pfam TrwC [PF08751.10], Evalue: 6.70E-80, Aligned region: 12..288
AAA_30 [PF13604.5], Evalue: 4.60E-42, Aligned region: 477..663
Viral_helicase1 [PF01443.17], Evalue: 5.00E-07, Aligned region: 774..899
UvrD_C_2 [PF13538.5], Evalue: 1.10E-08, Aligned region: 851..897
Note putative relaxase
Protein sequence [Download] MLDITTITRQNVTSVVGYYSDAKDDYYSKDSSFTSWQGTGAEALGLSGDVESARFKELLV
GEIDTFTHMQRHVGDAKKERLGYDLTFSAPKGVSMQALIHGDKTIIEAHEKAVAAAVREA
EKLAQARTTRQGKSVTQNTNNLVVATFRHETSRALDPDLHTHAFVMNMTQREDGQWRALK
NDELMRNKMHLGDVYKQELALELTKAGYELRYNSKNNTFDMAHFSDEQIRAFSRRSEQIE
KGLAAMGLTRETADAQTKSRVSMATREKKTEHSREEIHQEWASRAKTLGIDFDNREWQGH
GKPLEADIARNMAPDFTSPEVKADRAIQFAVKSLSERDASFERQKLIQIANKQVLGHATM
ADVEKAYLKAVQKGAIIEGEARYQSTLKVGASVMAETLTRKEWIDSLTNSGMRADKARFA
VDDGIKNGRLKKTSHRVTTVEGIRLERSILTIESRGRGQMPRQLTAEIAGQLLAGKTLKN
EQMRAVTEIVTSKDRFVAAHGYAGTGKSYMTMAAKELLESQGLKVTALAPYGTQKKALED
DGLPARTVAAFLKAKDKKLDEKSVVFIDEAGVIPARQMKQLMEVIEKHNARAVFLGDTSQ
TKAVEAGKPFEQLIKAGMQTSYMKDIQRQKNEVLLEAVKYAAEGNAARALKNITGVNELK
EEAPRLAQLADRYLSLSSEQQDATLIISGTNASRKTLNDYIRGNLGLAGTGETFTLLDRV
DSTQAERRDSRYFSKGQIIIPEQDYKNGMKRGESYQVLDTGPGNKLTVESSSGEQIAFSP
RTHTKLSVYQAVSAELAPGDKVMVTRNDKTLDVANGDRFTVKTVEGEKLTLEDKKGRTVE
LDKKQASYLSYAYATTVHKSQGLTCDRVLFNIDTKSLTTSKDVFYVGISRARHEVEIFTD
DKKSLASSVSRDSPKTTAAEIDRFFGLEARFKDIGRDTSLETRSAEKGLPEATGESMAFN
QKPDEHNMTTGTDYQPVSNAEDAFHLKQNPMDDSVGLRRHEAQQNDAELAHDYAAADDQQ
WSAQEYADYEHYAEASDYDFDSSIYDDYAMPQTSQAEQSHTGKEHTHEHEHEEGGHEI
Reference
 N/A

II. Auxiliary DNA-binding protein(s) of the relaxosome
 N/A
 N/A
Information of plasmid
ID 1031
Plasmid name pYD626E
GenBank accession number NC_024967.1
Incompatibility group IncN
Genome size 72800 bp
Coordinate of oriT  [Strand] 59368..59994 [+]
Drug resistance _
Heavy-metal resistance _
Virulence factor _
Xenobiotic degradation _
Host bacterium [NCBI Taxonomy ID] Escherichia coli YD626E [562]
Reference
[1] Li JJ et al (2014) Complete sequence of a conjugative incn plasmid harboring blaKPC-2, blaSHV-12, and qnrS1 from an Escherichia coli sequence type 648 strain. Antimicrob Agents Chemother. 58(11):6974-7. [PMID:25182636]

Microbial Bioinformatics Group in MML, SJTU