Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   103155
Name   oriT_p1220-IMP in_silico
Organism   Klebsiella pneumoniae strain 1220
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_KX711880 (33541..33641 [+], 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_p1220-IMP
TATTTATTTTTTTATCTTTTAAATCAGTATGATAGCGTGATTTATCGCGCTGCGTTAGGTGTATAGCAGGTTAAGGGATAAAAAATCATCTTTTTTGGTAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2360 GenBank   WP_012561166
Name   TrwC_HTK07_RS00210_p1220-IMP insolico UniProt ID   D7RU03
Length   1078 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  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 D7RU03


Auxiliary protein

ID   997 GenBank   WP_001749975
Name   WP_001749975_p1220-IMP 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   2099 GenBank   WP_000342688
Name   t4cp2_HTK07_RS00215_p1220-IMP 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: 9107..19432

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HTK07_RS00320 4852..4998 + 147 WP_001494701 hypothetical protein -
HTK07_RS00030 4992..5366 - 375 WP_228719119 recombinase family protein -
HTK07_RS00035 5503..6048 - 546 WP_001493763 plasmid pRiA4b ORF-3 family protein -
HTK07_RS00040 6188..6385 - 198 Protein_8 DNA (cytosine-5-)-methyltransferase -
HTK07_RS00045 6484..6756 + 273 Protein_9 IS1 family transposase -
HTK07_RS00050 6767..6973 - 207 WP_001749967 hypothetical protein -
HTK07_RS00055 6978..7625 - 648 WP_015344958 restriction endonuclease -
HTK07_RS00060 7675..7908 - 234 WP_001191790 hypothetical protein -
HTK07_RS00065 8022..8336 - 315 WP_001749965 TrbM/KikA/MpfK family conjugal transfer protein -
HTK07_RS00070 8333..8677 - 345 WP_001749964 hypothetical protein -
HTK07_RS00075 8693..9064 - 372 WP_011867773 H-NS family nucleoid-associated regulatory protein -
HTK07_RS00080 9107..9841 + 735 WP_001749963 lytic transglycosylase domain-containing protein virB1
HTK07_RS00085 9850..10131 + 282 WP_000440698 transcriptional repressor KorA -
HTK07_RS00090 10141..10434 + 294 WP_001749962 hypothetical protein virB2
HTK07_RS00095 10484..10801 + 318 WP_000496058 VirB3 family type IV secretion system protein virB3
HTK07_RS00100 10801..13401 + 2601 WP_001749961 VirB4 family type IV secretion/conjugal transfer ATPase virb4
HTK07_RS00105 13419..14132 + 714 WP_001749960 type IV secretion system protein virB5
HTK07_RS00110 14140..14367 + 228 WP_001749959 IncN-type entry exclusion lipoprotein EexN -
HTK07_RS00115 14383..15423 + 1041 WP_001749958 type IV secretion system protein virB6
HTK07_RS00120 15494..15652 + 159 WP_012561180 hypothetical protein -
HTK07_RS00125 15642..16340 + 699 WP_000646594 type IV secretion system protein virB8
HTK07_RS00130 16351..17235 + 885 WP_000735066 TrbG/VirB9 family P-type conjugative transfer protein virB9
HTK07_RS00135 17235..18395 + 1161 WP_000101710 type IV secretion system protein VirB10 virB10
HTK07_RS00140 18437..19432 + 996 WP_000128596 ATPase, T2SS/T4P/T4SS family virB11
HTK07_RS00145 19432..19965 + 534 WP_000792636 phospholipase D family protein -
HTK07_RS00340 20138..20425 - 288 Protein_30 DUF6710 family protein -
HTK07_RS00155 20692..20871 + 180 Protein_31 helix-turn-helix domain-containing protein -
HTK07_RS00160 20936..21640 + 705 WP_001067855 IS6-like element IS26 family transposase -
HTK07_RS00165 21695..22571 - 877 Protein_33 group II intron reverse transcriptase/maturase -
HTK07_RS00325 23308..23463 + 156 Protein_34 plasmid mobilization relaxosome protein MobC -
HTK07_RS00330 23534..23599 + 66 Protein_35 EAL domain-containing protein -

Host bacterium

ID   3598 GenBank   NZ_KX711880
Plasmid name   p1220-IMP Incompatibility group   IncN
Plasmid size   46629 bp Coordinate of oriT [Strand]   33541..33641 [+]
Host baterium   Klebsiella pneumoniae strain 1220

Cargo genes

Drug resistance gene   blaIMP-4
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -