Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100644
Name   oriT_pKEC-39c in_silico
Organism   UNVERIFIED_ORG: Enterobacter cloacae ECNIH2
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   NZ_CP008824 (92229..92779 [+], 551 nt)
oriT length   551 nt
IRs (inverted repeats)      IR1: 62..70, 71..79  (AACCCTTTC..GACAGGGTT)
  IR2: 143..150, 154..161  (TGGCCTGC..GGAGGCCA)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   predicted by the oriTfinder

  oriT sequence  


Download         Length: 551 nt

>oriT_pKEC-39c
GAGCAGAGCTATGTGTGACAAGAAGTATAGAGATTACGAGGTAGCCATCATGGTCGATGTGAACCCTTTCGACAGGGTTATGAATGAATTGAAAAGTCGTGGCCGCAAGAACGCTCACATCCTGAGCATCCTCCAATTCGACTGGCCTGCATCGGAGGCCATCATCGAGAAGCTGAGCTGCTACATCACAGACGGGATTAAGGCTAATCAGGAGCCTGTGATTTACCCGATCATTGAAGAAGCTCTGCATCGCTACAGCCAGCTCGTGTTTCATGAGCAGAGAGAGAAATATGAAGACCCGGCCAGAATTGGGGCATTTCTGGAAACCCTGATCACCGAAACCTGCCGGGCGTTGGAAGTGCAAATTGTCGATAGTGGCGGTGATTCATGGTCTGTCGATTCAGGAGAGTCGTTCTCACTGTGGCTTTCTTCCCATCCAGGAGAACTATCCATTAACCCGCAGCCCCATGAGGATGAGACCTCTTTGCGTGGCTTGCTGTATGAGCTCATCACCTGTGAGAGCGTGAAAACTGTTTTAAGGAGAACCGACT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   716 GenBank   WP_012561166
Name   Relaxase_pKEC-39c insolico UniProt ID   A0A1B0VMV6
Length   1078 a.a. PDB ID   
Note   putative relaxase

  Relaxase protein sequence


Download         Length: 1078 a.a.        Molecular weight: 120141.30 Da        Isoelectric Point: 6.5229

>WP_012561166.1 MULTISPECIES: MobF family relaxase [Gammaproteobacteria]
MLDITTITRQNVTSVVGYYSDAKDDYYSKDSSFTSWQGTGAEALGLSGDVESARFKELLVGEIDTFTHMQ
RHVGDAKKERLGYDLTFSAPKGVSMQALIHGDKTIIEAHEKAVAAAVREAEKLAQARTTRQGKSVTQNTN
NLVVATFRHETSRALDPDLHTHAFVMNMTQREDGQWRALKNDELMRNKMHLGDVYKQELALELTKAGYEL
RYNSKNNTFDMAHFSDEQIRAFSRRSEQIEKGLAAMGLTRETADAQTKSRVSMATREKKTEHSREEIHQE
WASRAKTLGIDFDNREWQGHGKPLEADIARNMAPDFTSPEVKADRAIQFAVKSLSERDASFERQKLIQIA
NKQVLGHATMADVEKAYLKAVQKGAIIEGEARYQSTLKVGASVMAETLTRKEWIDSLTNSGMRADKARFA
VDDGIKNGRLKKTSHRVTTVEGIRLERSILTIESRGRGQMPRQLTAEIAGQLLAGKTLKNEQMRAVTEIV
TSKDRFVAAHGYAGTGKSYMTMAAKELLESQGLKVTALAPYGTQKKALEDDGLPARTVAAFLKAKDKKLD
EKSVVFIDEAGVIPARQMKQLMEVIEKHNARAVFLGDTSQTKAVEAGKPFEQLIKAGMQTSYMKDIQRQK
NEVLLEAVKYAAEGNAARALKNITGVNELKEEAPRLAQLADRYLSLSSEQQDATLIISGTNASRKTLNDY
IRGNLGLAGTGETFTLLDRVDSTQAERRDSRYFSKGQIIIPEQDYKNGMKRGESYQVLDTGPGNKLTVES
SSGEQIAFSPRTHTKLSVYQAVSAELAPGDKVMVTRNDKTLDVANGDRFTVKTVEGEKLTLEDKKGRTVE
LDKKQASYLSYAYATTVHKSQGLTCDRVLFNIDTKSLTTSKDVFYVGISRARHEVEIFTDDKKSLASSVS
RDSPKTTAAEIDRFFGLEARFKDIGRDTSLETRSAEKGLPEATGESMAFNQKPDEHNMTTGTDYQPVSNA
EDAFHLKQNPMDDSVGLRRHEAQQNDAELAHDYAAADDQQWSAQEYADYEHYAEASDYDFDSSIYDDYAM
PQTSQAEQSHTGKEHTHEHEHEEGGHEI

  Protein domains


Predicted by InterproScan.

UvrD-like helicase C-terminal domain (UvrD_C_2)

(851-895)

TrwC relaxase (TrwC)

(16-287)

AAA domain (AAA_30)

(477-653)


  Protein structure


Source ID Structure
AlphaFold DB A0A1B0VMV6


T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 90363..116893

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
ECNIH2_RS23865 (ECNIH2_24000) 86388..86621 - 234 WP_001191892 hypothetical protein -
ECNIH2_RS23870 (ECNIH2_24005) 86603..87220 - 618 WP_001249396 hypothetical protein -
ECNIH2_RS26795 (ECNIH2_24010) 87388..90366 + 2979 WP_001337757 MobH family relaxase -
ECNIH2_RS23880 (ECNIH2_24015) 90363..92228 + 1866 WP_000178856 conjugative transfer system coupling protein TraD virb4
ECNIH2_RS23885 (ECNIH2_24020) 92278..92823 + 546 WP_000228720 hypothetical protein -
ECNIH2_RS23890 (ECNIH2_24025) 92780..93409 + 630 WP_000743450 DUF4400 domain-containing protein tfc7
ECNIH2_RS23895 (ECNIH2_24030) 93419..93865 + 447 WP_000122506 hypothetical protein -
ECNIH2_RS23900 (ECNIH2_24035) 93875..94054 + 180 WP_041445762 hypothetical protein -
ECNIH2_RS23910 (ECNIH2_24045) 94143..95347 + 1205 WP_086008128 IS3 family transposase -
ECNIH2_RS23920 (ECNIH2_24055) 95590..96252 + 663 WP_001231463 hypothetical protein -
ECNIH2_RS23925 (ECNIH2_24060) 96588..96953 + 366 WP_001052531 hypothetical protein -
ECNIH2_RS23930 (ECNIH2_24065) 97098..97379 + 282 WP_000805625 type IV conjugative transfer system protein TraL traL
ECNIH2_RS23935 (ECNIH2_24070) 97376..98002 + 627 WP_001049716 TraE/TraK family type IV conjugative transfer system protein traE
ECNIH2_RS23940 (ECNIH2_24075) 97986..98903 + 918 WP_000794249 type-F conjugative transfer system secretin TraK traK
ECNIH2_RS23945 (ECNIH2_24080) 98903..100216 + 1314 WP_024131605 TraB/VirB10 family protein traB
ECNIH2_RS23950 (ECNIH2_24085) 100213..100791 + 579 WP_000793435 type IV conjugative transfer system lipoprotein TraV traV
ECNIH2_RS23955 (ECNIH2_24090) 100795..101187 + 393 WP_000479535 TraA family conjugative transfer protein -
ECNIH2_RS23960 (ECNIH2_24095) 101388..106919 + 5532 WP_000606833 Ig-like domain-containing protein -
ECNIH2_RS23965 (ECNIH2_24100) 107069..107776 + 708 WP_001259347 DsbC family protein -
ECNIH2_RS23970 (ECNIH2_24105) 107773..110220 + 2448 WP_000637386 type IV secretion system protein TraC virb4
ECNIH2_RS23975 (ECNIH2_24110) 110235..110552 + 318 WP_000351984 hypothetical protein -
ECNIH2_RS23980 (ECNIH2_24115) 110549..111079 + 531 WP_001010738 S26 family signal peptidase -
ECNIH2_RS23985 (ECNIH2_24120) 111042..112307 + 1266 WP_000621288 TrbC family F-type conjugative pilus assembly protein traW
ECNIH2_RS23990 (ECNIH2_24125) 112304..112975 + 672 WP_001337754 EAL domain-containing protein -
ECNIH2_RS23995 (ECNIH2_24130) 112975..113979 + 1005 WP_043940352 TraU family protein traU
ECNIH2_RS24000 (ECNIH2_24135) 114095..116893 + 2799 WP_001256487 conjugal transfer mating pair stabilization protein TraN traN
ECNIH2_RS24005 (ECNIH2_24140) 116932..117792 - 861 WP_041445776 hypothetical protein -
ECNIH2_RS24010 (ECNIH2_24145) 117915..118556 - 642 WP_000796664 hypothetical protein -
ECNIH2_RS24015 (ECNIH2_24150) 118850..119170 + 321 WP_000547566 hypothetical protein -
ECNIH2_RS24020 (ECNIH2_24155) 119474..119659 + 186 WP_001186917 hypothetical protein -
ECNIH2_RS24025 (ECNIH2_24160) 119879..120847 + 969 WP_000085162 AAA family ATPase -
ECNIH2_RS24030 (ECNIH2_24165) 120858..121766 + 909 WP_000739139 hypothetical protein -

Host bacterium

ID   1104 GenBank   NZ_CP008824
Plasmid name   pKEC-39c Incompatibility group   IncA/C2
Plasmid size   319976 bp Coordinate of oriT [Strand]   92229..92779 [+]
Host baterium   UNVERIFIED_ORG: Enterobacter cloacae ECNIH2

Cargo genes

Drug resistance gene   quinolone resistance
Virulence gene   -
Metal resistance gene   mercury resistance
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -