Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   104191
Name   oriT_2020CK-00215|unnamed1 in_silico
Organism   Klebsiella michiganensis strain 2020CK-00215
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP117854 (17425..17525 [+], 101 nt)
oriT length   101 nt
IRs (inverted repeats)      80..85, 91..96  (AAAAAA..TTTTTT)
 20..26, 38..44  (TAAATCA..TGATTTA)
Location of nic site      62..63
Conserved sequence flanking the
  nic site    		  GGTGTATAGC
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 101 nt

>oriT_2020CK-00215|unnamed1
TATTTATTTTTTTATCTTTTAAATCAGTATGATAGCGTGATTTATCGCGCTGCGTTAGGTGTATAGCAGGTTAAGGGATAAAAAATCATCTTTTTTGGTAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3080 GenBank   WP_000884351
Name   mobF_PUO96_RS27865_2020CK-00215|unnamed1 insolico UniProt ID   D7RVP6
Length   1076 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1076 a.a.        Molecular weight: 119897.16 Da        Isoelectric Point: 6.6071

>WP_000884351.1 MULTISPECIES: MobF family relaxase [Enterobacterales]
MLDITTITRQNVTSVVGYYSDAKDDYYSKDSSFTSWQGTGAEALGLSGDVESARFKELLVGEIDTFTHMQ
RHVGDAKKERLGYDLTFSAPKGVSMQALIHGDKTIIEAHEKAVAAAVREAEKLAQARTTRQGKSVTQNTN
NLVVATFRHETSRALDPDLHTHAFVMNMTQREDGQWRALKNDELMRNKMHLGDVYKQELALELTKAGYEL
RYNSKNNTFDMAHFSDEQIRAFSRRSEQIEKGLAAMGLTRETADAQTKSRVSMATREKKTEHSREEIHQE
WASRAKTLGIDFDNREWQGHGKPLEADIARNMAPDFTSPEVKADRAIQFAVKSLSERDASFERQKLIQIA
NKQVLGHATIADVEKAYLKAVQKGAIIEGEARYQSTLKVGASVMAETLTRKEWIDSLTNSGMRADKARFA
VDDGIKNGRLKKTSHRVTTVEGIRLERSILTIESRGRGQMPRQLTAEIAGQLLAGKTLKKEQMRAVTEIV
TSKDRFVAAHGYAGTGKSYMTMAAKELLESQGLKVTALAPYGTQKKALEDDGLPARTVAAFLKAKDKKLD
EKSVVFIDEAGVIPARQMKQLMEVIEKHNARAVFLGDTSQTKAVEAGKPFEQLIKAGMQTSYMKDIQRQK
NEVLLEAVKYAAEGNAARALKNITGVNELKEEAPRLAQLADRYLSLSSEQQDATLIISGTNASRKTLNDY
IRGNLGLAGTGETFTLLDRVDSTQAERRDSRYFSKGQIIIPEQDYKNGMKRGESYQVLDTGPGNKLTVES
ISGEQIAFSPRTHTKLSVYQAVSAELAPGDKVMVTRNDKTLDVANGDRFTVKTVEGEKLTLEDKKGRTVE
LDKKQASYLSYAYATTVHKSQGLTCDRVLFNIDTKSLTTSKDVFYVGISRARHEVEIFTDDKKSLASSVS
RDSPKTTAAEIDRFFGLEARFKDIGRDTSLETRSAEKGLPEATGESMAFNQKPDEHNMTTGTDYQPVSNA
EDAFHLKQNPMDDSVGLRRHEAQQNDAELAHDYAAADDQQWSAQEYADYEHYAEASDYDFDSSIYDDYAM
PQTSQAEQSHTGKEHTHEHEEGGHEI

  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 D7RVP6


Auxiliary protein

ID   1333 GenBank   WP_001749975
Name   WP_001749975_2020CK-00215|unnamed1 insolico UniProt ID   A0A5C2CVS6
Length   138 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 138 a.a.        Molecular weight: 15332.60 Da        Isoelectric Point: 5.9670

>WP_001749975.1 MULTISPECIES: hypothetical protein [Gammaproteobacteria]
MPIITAKVSDELLAYIDLVSGGNRSDYLRRCIEAGPGDRESGLKIVADRLSDVNRKLDYLFDRASDADFG
PLRDELKAITETLSGVKFPPAGQMMLHESLAIETLILLRSIAEPGKTKAAKAEVERNGYKVWEPKKER

  Protein domains



No domain identified.



  Protein structure


Source ID Structure
AlphaFold DB A0A5C2CVS6


T4CP

ID   2979 GenBank   WP_000342688
Name   t4cp2_PUO96_RS27870_2020CK-00215|unnamed1 insolico UniProt ID   _
Length   509 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 509 a.a.        Molecular weight: 57762.87 Da        Isoelectric Point: 9.6551

>WP_000342688.1 MULTISPECIES: type IV secretion system DNA-binding domain-containing protein [Enterobacterales]
MDDRERGLAFLFAITLPPVMVWFLVAKFTYGIDPSTAKYLIPYLVKNTFSLWPLWSALIAGWFIGVGGLI
AFIIYDKSRVFKGERFKKIYRGTELVRARTLADKTRERGVNQLTVANIPIPTYAENLHFSIAGTTGTGKT
TIFNELLFKSIIRGGKNIALDPNGGFLKNFYRPGDVILNAYDKRTEGWVFFNEIRRSYDYERLVNSIVQE
SPDMATEEWFGYGRLIFSEVSKKLHSLYSTVTMEEVIHWACNVDQKKLKEFLMGTPAEAIFSGSEKAVGS
ARFVLSKNLAPHLKMPEGNFSLRDWLDDGKPGTLFITWQEEMKRSLNPLISCWLDSIFSIVLGMGEKESR
INVFIDELESLQFLPNLNDALTKGRKSGLCVYAGYQTYSQLVKVYGRDMAQTILANMRSNIVLGGSRLGD
ETLDQMSRSLGEIEGEVERKESDPQKPWIVRKRRDVKVVRAVTPTEISMLPNLTGYLALPGDMPVAKFKA
KHVKYHRKNPVPGIELREI

  Protein domains


Predicted by InterproScan.

Type IV secretion-system coupling protein DNA-binding domain (TrwB_AAD_bind)

(113-489)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 42933..53258

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
PUO96_RS28015 (PUO96_28015) 38789..40222 - 1434 WP_001288432 DNA cytosine methyltransferase -
PUO96_RS28020 (PUO96_28020) 40321..40582 + 262 Protein_44 IS1 family transposase -
PUO96_RS28025 (PUO96_28025) 40593..40799 - 207 WP_001749967 hypothetical protein -
PUO96_RS28030 (PUO96_28030) 40804..41451 - 648 WP_015344958 restriction endonuclease -
PUO96_RS28035 (PUO96_28035) 41501..41812 - 312 WP_001452736 hypothetical protein -
PUO96_RS28040 (PUO96_28040) 41848..42162 - 315 WP_001749965 TrbM/KikA/MpfK family conjugal transfer protein -
PUO96_RS28045 (PUO96_28045) 42159..42503 - 345 WP_001749964 hypothetical protein -
PUO96_RS28050 (PUO96_28050) 42519..42824 - 306 WP_000960954 H-NS family nucleoid-associated regulatory protein -
PUO96_RS28055 (PUO96_28055) 42933..43667 + 735 WP_001749963 lytic transglycosylase domain-containing protein virB1
PUO96_RS28060 (PUO96_28060) 43676..43957 + 282 WP_000440698 transcriptional repressor KorA -
PUO96_RS28065 (PUO96_28065) 43967..44260 + 294 WP_001749962 hypothetical protein virB2
PUO96_RS28070 (PUO96_28070) 44310..44627 + 318 WP_000496058 VirB3 family type IV secretion system protein virB3
PUO96_RS28075 (PUO96_28075) 44627..47227 + 2601 WP_001200711 VirB4 family type IV secretion/conjugal transfer ATPase virb4
PUO96_RS28080 (PUO96_28080) 47245..47958 + 714 WP_000749362 type IV secretion system protein virB5
PUO96_RS28085 (PUO96_28085) 47966..48193 + 228 WP_000734973 IncN-type entry exclusion lipoprotein EexN -
PUO96_RS28090 (PUO96_28090) 48209..49249 + 1041 WP_000886022 type IV secretion system protein virB6
PUO96_RS29055 49350..49478 + 129 WP_071882546 conjugal transfer protein TraN -
PUO96_RS28095 (PUO96_28095) 49468..50166 + 699 WP_000646594 type IV secretion system protein virB8
PUO96_RS28100 (PUO96_28100) 50177..51061 + 885 WP_000735067 TrbG/VirB9 family P-type conjugative transfer protein virB9
PUO96_RS28105 (PUO96_28105) 51061..52221 + 1161 WP_000101712 type IV secretion system protein VirB10 virB10
PUO96_RS28110 (PUO96_28110) 52263..53258 + 996 WP_000128596 ATPase, T2SS/T4P/T4SS family virB11
PUO96_RS28115 (PUO96_28115) 53258..53791 + 534 WP_000731968 phospholipase D family protein -
PUO96_RS28120 (PUO96_28120) 53861..56827 - 2967 WP_001138014 Tn3-like element TnAs1 family transposase -
PUO96_RS28125 (PUO96_28125) 56831..57391 - 561 WP_001161490 recombinase family protein -

Host bacterium

ID   4630 GenBank   NZ_CP117854
Plasmid name   2020CK-00215|unnamed1 Incompatibility group   IncN
Plasmid size   198749 bp Coordinate of oriT [Strand]   17425..17525 [+]
Host baterium   Klebsiella michiganensis strain 2020CK-00215

Cargo genes

Drug resistance gene   blaKPC-4, blaTEM-1A, aph(3')-Ia, dfrA14, aac(3)-Ib, qacE, sul1
Virulence gene   -
Metal resistance gene   merR, merT, merP, merC, merA, merD, merE, pbrA, arsR, arsD, arsA, arsB, arsC, arsH, pcoE, pcoS, pcoR, pcoD, pcoC, pcoB, pcoA, silP, silA, silB, silF, silC, silR, silS, silE
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -