oriTDB
The information of the oriT region
oriTDB accession number 100416
Name oriT_pRK1  insolico
Sequence Completeness intact
oriT length 110 nt
oriT sequence TCACTTCAGGCTCCTTACGGGGTGTCGGGGCGAAGCCCTGACCAGATGGCAATTGTAATA GCGTCGCGTGTGACGGTATTACAATTGCACATCCTGTCCCGTTTTTCAGG
IR (inverted repeat)IR1: [24-31] [35-42] nt  (GTCGGGGC..GCCCTGAC)
IR2: [49-65] [72-88] nt  (GCAATTGTAATAGCGTC..GACGGTATTACAATTGC)
Location of nic site [96-97] nt
Conserved sequence flanking the
  nic site 		CATCCTG|T
Note predicted by the oriTfinder
L:24-31;R:35-42;L:49-65;R:72-88;D:96-97
Visualization of oriT structure
Reference
 N/A
I. Information of Relaxase
ID 487
Name NikB_pRK1 insolico
GenBank accession number WP_001350015
Family MOBP
Length 899 aa
UniProt ID _
PDB ID _
Pfam Relaxase [PF03432.13], Evalue: 7.60E-64, Aligned region: 47..315
Note putative relaxase
Protein sequence [Download] MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELDLSSSSQAEQPHRSRFSRLVDYATRL
RNESFVALVDVMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIARQAHYAKDDTDPVFHY
ILSWQSHESPRPEQIYDSVRHTLKSLGLADHQYVSAVHTDTDNLHVHVAVNRVHPETGYL
NRLSWSQEKLSRACRELELKHGFAPDNGCWVHAPGNRIVRKTAVERDRQNAWTRGKKQTF
REYVAQTAVAGLRSEPVHDWLSLHRRLAEDGLYLSQMDGKFLVMDGWDRNREGVQLDSFG
PSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETESLQQYACRHL
GERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKREL
FSDKESLWGYSISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHE
QTPVKASSIHPDLTLGRAEPQAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDP
MLRRQRREARAEARADLRARYLAWREQWRKPDLRYGERCREIHQACRLRKSHIRAQYDDP
ALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYPPSYRQWVEIQAAQGDRAAVS
QLRGWDYRDRRKDRSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGSVRFRDRRTGE
FVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG
Reference
 N/A

II. Auxiliary DNA-binding protein(s) of the relaxosome
 N/A
 N/A
Information of plasmid
ID 877
Plasmid name pRK1
GenBank accession number NC_017665.1
Incompatibility group IncI1
Genome size 102535 bp
Coordinate of oriT  [Strand] 5704..5813 [-]
Drug resistance _
Heavy-metal resistance _
Virulence factor _
Xenobiotic degradation _
Host bacterium [NCBI Taxonomy ID] Escherichia coli W [566546]
Reference
[1] Turner PC et al (2012) Optical mapping and sequencing of the Escherichia coli KO11 genome reveal extensive chromosomal rearrangements, and multiple tandem copies of the Zymomonas mobilis pdc and adhB genes. J Ind Microbiol Biotechnol. 39(4):629-39. [PMID:22075923]

Microbial Bioinformatics Group in MML, SJTU