Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100410
Name   oriT_pUMNK88 in_silico
Organism   Escherichia coli UMNK88
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   NC_017645 (51243..51793 [+], 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_pUMNK88
TGTAAAGAGGCTGTGAAAGAATAAGAGCATCAAGATTCCAGATAGATAGAGGGAAATTTGACAAATTCCAAAGATGGGTTAGCCTAGTGACAGAACTAGATTCCAGTATTGGAATAATCAGCTTTAAATTCCAGATAGATAGTTATGTGGATAGGAATTGGATAGGAATTGGGAGGGTATTGAGG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   481 GenBank   WP_001326173
Name   TraI_pUMNK88 insolico UniProt ID   A0A0E0SXR5
Length   990 a.a. PDB ID   
Note   putative relaxase

  Relaxase protein sequence


Download         Length: 990 a.a.        Molecular weight: 109356.90 Da        Isoelectric Point: 4.9395

>WP_001326173.1 MULTISPECIES: MobH family relaxase [Gammaproteobacteria]
MLKALNKLFGGRSGVIETAPSVRVLPLKDVEDEEIPRYPPFAKGLPVAPLDKILATQAELIEKVRNSLGF
TVDDFNRLVLPVIQRYAAFVHLLPASESHHHRGAGGLFRHGLEVAFWAAQASESVIFSIEGTPRERRDNE
PRWRLASCFSGLLHDVGKPLSDVSITDKDGSITWNPYSESLHDWAHRHEIDRYFIRWRDKRHKRHEQFSL
LAVDRIIPAETREFLSKSGPSIMEAMLEAISGTSVNQPVTKLMLRADQESVSRDLRQSRLDVDEFSYGVP
VERYVFDAIRRLVKTGKWKVNEPGAKVWHLNQGVFIAWKQLGDLYDLISHDKIPGIPRDPDTLADILIER
GFAVPNTVQEKGERAYYRYWEVLPEMLQEAAGSVKILMLRLESNDLVFTTEPPAAVAAEVVGDVEDAEIE
FVDPEEVDDDQEEDVSALNDDMLAAEQEAEKALAGLGFGDAMEMLKSTSDAVEEKPEQKDAGSTESSKPD
AGKKGKPQSKPGKAKPKSDTEKQPHKPEAKEDLSPQDIAKNAPPLANDNPLQALKDVGGGLGDIDFPFDA
FSASAETASTDATNSEIPDVAMPGKQEKQPKQDFVPQEQNSLQGDDFPMFGSSDEPPSWAIEPLPMLTDA
PEQTTPAPAMPPTDKPNLHEKDAKTLLVEMLAGYGEASALLEQAIMPVLEGKTTLGEVLCLMKGQAVILY
PDGARSLGAPSEVLSKLSHANAIVPDPIMPGRKVRDFSGVKAIVLAEQLSDAVVAAIKDAEASMGGYQDA
FELVSPPGLDASKNKSAPKQQSRKKAQQQKPEVNAGKPSPEQKAKGKDSQPQQKEKKVDVTSPVEEPQRQ
PVQEKQNVARLPKREVQPVAPEPKVEREKELGHVEVREREEPEVREFEPPKAKTNPKDINAEDFLPSGVT
PQKALQMLKDMIQKRSGRWLVTPVLEEDGCLVTSDKAFDMIAGENIGISKHILCGMLSRAQRRPLLKKRQ
GKLYLEVNET

  Protein domains


Predicted by InterproScan.

Putative helicase (TraI_2)

(51-357)


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 49377..58467

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
UMNK88_RS28710 45408..45641 - 234 WP_001191890 hypothetical protein -
UMNK88_RS28715 (pUMNK88_63) 45623..46240 - 618 WP_001249395 hypothetical protein -
UMNK88_RS29430 (pUMNK88_64) 46408..49380 + 2973 WP_001326173 MobH family relaxase -
UMNK88_RS28725 (pUMNK88_65) 49377..51242 + 1866 WP_000178857 conjugative transfer system coupling protein TraD virb4
UMNK88_RS28730 (pUMNK88_66) 51292..51837 + 546 WP_000228720 hypothetical protein -
UMNK88_RS28735 (pUMNK88_67) 51794..52423 + 630 WP_000743449 DUF4400 domain-containing protein tfc7
UMNK88_RS28740 (pUMNK88_68) 52433..52879 + 447 WP_000122507 hypothetical protein -
UMNK88_RS28745 (pUMNK88_69) 52889..53266 + 378 WP_000869297 hypothetical protein -
UMNK88_RS28750 (pUMNK88_70) 53266..53928 + 663 WP_001231464 hypothetical protein -
UMNK88_RS34545 54109..54252 + 144 WP_001275801 hypothetical protein -
UMNK88_RS28755 (pUMNK88_71) 54264..54629 + 366 WP_001052530 hypothetical protein -
UMNK88_RS28760 (pUMNK88_72) 54774..55055 + 282 WP_000805625 type IV conjugative transfer system protein TraL traL
UMNK88_RS28765 (pUMNK88_73) 55052..55678 + 627 WP_001049717 TraE/TraK family type IV conjugative transfer system protein traE
UMNK88_RS28770 (pUMNK88_74) 55662..56579 + 918 WP_000794249 type-F conjugative transfer system secretin TraK traK
UMNK88_RS28775 (pUMNK88_75) 56579..57892 + 1314 WP_024131605 TraB/VirB10 family protein traB
UMNK88_RS28780 (pUMNK88_76) 57889..58467 + 579 WP_000793435 type IV conjugative transfer system lipoprotein TraV traV
UMNK88_RS28785 (pUMNK88_77) 58471..58863 + 393 WP_000479535 TraA family conjugative transfer protein -
UMNK88_RS28790 (pUMNK88_78) 59144..60399 + 1256 Protein_85 IS1380 family transposase -
UMNK88_RS28800 (pUMNK88_79) 60723..61868 + 1146 WP_000976514 extended-spectrum class C beta-lactamase CMY-2 -
UMNK88_RS28805 (pUMNK88_80) 61962..62495 + 534 WP_001221666 lipocalin family protein -
UMNK88_RS28810 (pUMNK88_81) 62492..62809 - 318 WP_000118520 quaternary ammonium compound efflux SMR transporter SugE -
UMNK88_RS35495 (pUMNK88_82) 63066..63431 + 366 Protein_89 LuxR family transcriptional regulator -

Host bacterium

ID   871 GenBank   NC_017645
Plasmid name   pUMNK88 Incompatibility group   IncA/C2
Plasmid size   160573 bp Coordinate of oriT [Strand]   51243..51793 [+]
Host baterium   Escherichia coli UMNK88

Cargo genes

Drug resistance gene   floR, tet(A), aph(6)-Id, aph(3'')-Ib, sul2, blaCMY-2, ant(3'')-Ia, cmlA1, aadA2, qacE, sul1
Virulence gene   -
Metal resistance gene   merE, merD, merB, merA, merP, merT, merR
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -