Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100638
Name   oriT_pKEC-a3c in_silico
Organism   Citrobacter freundii CFNIH1
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   NZ_CP007558 (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-a3c
GAGCAGAGCTATGTGTGACAAGAAGTATAGAGATTACGAGGTAGCCATCATGGTCGATGTGAACCCTTTCGACAGGGTTATGAATGAATTGAAAAGTCGTGGCCGCAAGAACGCTCACATCCTGAGCATCCTCCAATTCGACTGGCCTGCATCGGAGGCCATCATCGAGAAGCTGAGCTGCTACATCACAGACGGGATTAAGGCTAATCAGGAGCCTGTGATTTACCCGATCATTGAAGAAGCTCTGCATCGCTACAGCCAGCTCGTGTTTCATGAGCAGAGAGAGAAATATGAAGACCCGGCCAGAATTGGGGCATTTCTGGAAACCCTGATCACCGAAACCTGCCGGGCGTTGGAAGTGCAAATTGTCGATAGTGGCGGTGATTCATGGTCTGTCGATTCAGGAGAGTCGTTCTCACTGTGGCTTTCTTCCCATCCAGGAGAACTATCCATTAACCCGCAGCCCCATGAGGATGAGACCTCTTTGCGTGGCTTGCTGTATGAGCTCATCACCTGTGAGAGCGTGAAAACTGTTTTAAGGAGAACCGACT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   710 GenBank   WP_012561166
Name   Relaxase_pKEC-a3c insolico UniProt ID   A0A023VGX3
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



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 90363..116893

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
CFNIH1_RS24930 (CFNIH1_25335) 86388..86621 - 234 WP_001191892 hypothetical protein -
CFNIH1_RS24935 (CFNIH1_25340) 86603..87220 - 618 WP_001249396 hypothetical protein -
CFNIH1_RS24940 (CFNIH1_25345) 87388..90366 + 2979 WP_001337757 MobH family relaxase -
CFNIH1_RS24945 (CFNIH1_25350) 90363..92228 + 1866 WP_000178856 conjugative transfer system coupling protein TraD virb4
CFNIH1_RS24950 (CFNIH1_25355) 92278..92823 + 546 WP_000228720 hypothetical protein -
CFNIH1_RS24955 (CFNIH1_25360) 92780..93409 + 630 WP_000743450 DUF4400 domain-containing protein tfc7
CFNIH1_RS24960 (CFNIH1_25365) 93419..93865 + 447 WP_000122506 hypothetical protein -
CFNIH1_RS24965 (CFNIH1_25370) 93875..94054 + 180 WP_041445762 hypothetical protein -
CFNIH1_RS24975 (CFNIH1_25380) 94143..95347 + 1205 WP_086008128 IS3 family transposase -
CFNIH1_RS24980 (CFNIH1_25385) 95426..95590 + 165 WP_230592331 hypothetical protein -
CFNIH1_RS24985 (CFNIH1_25390) 95590..96252 + 663 WP_001231463 hypothetical protein -
CFNIH1_RS28285 96433..96576 + 144 WP_001275801 hypothetical protein -
CFNIH1_RS24990 (CFNIH1_25395) 96588..96953 + 366 WP_001052531 hypothetical protein -
CFNIH1_RS24995 (CFNIH1_25400) 97098..97379 + 282 WP_000805625 type IV conjugative transfer system protein TraL traL
CFNIH1_RS25000 (CFNIH1_25405) 97376..98002 + 627 WP_001049716 TraE/TraK family type IV conjugative transfer system protein traE
CFNIH1_RS25005 (CFNIH1_25410) 97986..98903 + 918 WP_000794249 type-F conjugative transfer system secretin TraK traK
CFNIH1_RS25010 (CFNIH1_25415) 98903..100216 + 1314 WP_024131605 TraB/VirB10 family protein traB
CFNIH1_RS25015 (CFNIH1_25420) 100213..100791 + 579 WP_000793435 type IV conjugative transfer system lipoprotein TraV traV
CFNIH1_RS25020 (CFNIH1_25425) 100795..101187 + 393 WP_000479535 TraA family conjugative transfer protein -
CFNIH1_RS25025 (CFNIH1_25430) 101388..106919 + 5532 WP_000606833 Ig-like domain-containing protein -
CFNIH1_RS25030 (CFNIH1_25435) 107069..107776 + 708 WP_001259347 DsbC family protein -
CFNIH1_RS25035 (CFNIH1_25440) 107773..110220 + 2448 WP_000637386 type IV secretion system protein TraC virb4
CFNIH1_RS25040 (CFNIH1_25445) 110235..110552 + 318 WP_000351984 hypothetical protein -
CFNIH1_RS25045 (CFNIH1_25450) 110549..111079 + 531 WP_001010738 S26 family signal peptidase -
CFNIH1_RS25050 (CFNIH1_25455) 111042..112307 + 1266 WP_000621288 TrbC family F-type conjugative pilus assembly protein traW
CFNIH1_RS25055 (CFNIH1_25460) 112304..112975 + 672 WP_001337754 EAL domain-containing protein -
CFNIH1_RS25060 (CFNIH1_25465) 112975..113979 + 1005 WP_043940352 TraU family protein traU
CFNIH1_RS25065 (CFNIH1_25470) 114095..116893 + 2799 WP_001256487 conjugal transfer mating pair stabilization protein TraN traN
CFNIH1_RS25070 (CFNIH1_25475) 116932..117792 - 861 WP_041445776 hypothetical protein -
CFNIH1_RS25075 (CFNIH1_25480) 117915..118556 - 642 WP_000796664 hypothetical protein -
CFNIH1_RS25080 (CFNIH1_25485) 118850..119170 + 321 WP_000547566 hypothetical protein -
CFNIH1_RS25085 (CFNIH1_25490) 119474..119659 + 186 WP_001186917 hypothetical protein -
CFNIH1_RS25090 (CFNIH1_25495) 119879..120847 + 969 WP_000085162 AAA family ATPase -
CFNIH1_RS25095 (CFNIH1_25500) 120858..121766 + 909 WP_000739139 hypothetical protein -

Host bacterium

ID   1098 GenBank   NZ_CP007558
Plasmid name   pKEC-a3c Incompatibility group   IncA/C2
Plasmid size   272297 bp Coordinate of oriT [Strand]   92229..92779 [+]
Host baterium   Citrobacter freundii CFNIH1

Cargo genes

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