Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   103108
Name   oriT_pIMP1496 in_silico
Organism   Klebsiella pneumoniae strain CRE 1496
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_KT982613 (13790..13890 [-], 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_pIMP1496
TATTTATTTTTTTATCTTTTAAATCAGTATGATAGCGTGATTTATCGCGCTGCGTTAGGTGTATAGCAGGTTAAGGGATAAAAAATCATCTTTTTTGGTAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2329 GenBank   WP_172687994
Name   TrwC_HTG74_RS00110_pIMP1496 insolico UniProt ID   _
Length   1078 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1078 a.a.        Molecular weight: 120007.29 Da        Isoelectric Point: 6.6996

>WP_172687994.1 MobF family relaxase [Klebsiella pneumoniae]
MLDITTITRQNVTSVVGYYSDAKDDYYSKDSSFTSWQGTGAEALGLSGDVESARFKELLVGEIDTFTHMQ
RHVGDAKKERLGYDLTFSAPKGVSMQALIHGDKTIIEAHEKAVAAAVREAEKLAQARTTRQGKSVTQNTN
NLVVATFRHETSRALDPDLHTHAFVMNMTQREDGQWRALKNDELMRNKMHLGDVYKQELALELTKAGYEL
RYNSKNNTFDMAHFSDEQIRAFSRRSEQIEKGLAAMGLTRETADAQTKSRVSMATREKKTEHSREEIHQE
WASRAKTLGIDFDNREWQGHGKPLEADIARNMAPDFTSPEVKADRAIQFAVKSLSERDASFERQKLIQIA
NKQVLGHATMADVEKAYLKAVQKGAIIEGEARYQSTLKVGASVMAETLTRKEWIDSLTNSGMRADKARFA
VDDGIKNGRLKKTSHRVTTVEGIRLERSILTIESRGRGQMPRQLTAEIAGQLLAGKTLKNEQMRAVTEIV
TSKDRFVAAHGYAGTGKSYMTMAAKELLESQGLKVTALAPYGTQKKALEDDGLPARTVAAFLKAKDKKLD
EKSVVFIDEAGVIPARQMKQLMEVIEKHNARAVFLGDTSQTKAVEAGKPFEQLIKAGMQTSYMKDIQRQK
NEVLLEAVKYAAEGNAARALKNITGVNELKEEAPRLAQLADRYLSLSSEQQDATLIISGTNASRKTLNDY
IRGNLGLAGTGETFTLLDRVDSTQAERRDSRYFSKGQIIIPEQDYKNGMKRGESYQVLDTGPGNKLTVES
SSGEQIAFSPRTHTKLSVYQAVSAELAPGDKVMVTRNDKTLDVANGDRFTVKTVEGEKLTLEDKKGRTVE
LDKKQASYLSYAYATTVHKSQGLTCDRVLFNIDTKSLTTSKDVFYVGISRARHEVEIFTDDKKSLASSVS
RDSPKTTAAEIDRFFGLEARFKDIGRDTSLETRSAEKGLPEATGESMAFNQKPDEHNMTTGTDYQPVSNA
EDAFHLKQNPMDDSVGLRRHEAQQNDAELAHDYAAADDQQWSAQEYADYEHYAEASDYDFDSSIYDDYAM
PQTSQAEQSHTGKEHTHEHESIKNIGAA

  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.




Auxiliary protein

ID   990 GenBank   WP_001749975
Name   WP_001749975_pIMP1496 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   2056 GenBank   WP_000342688
Name   t4cp2_HTG74_RS00105_pIMP1496 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: 27264..37589

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HTG74_RS00135 22386..23000 + 615 WP_014839983 recombinase family protein -
HTG74_RS00140 23319..23975 - 657 WP_001516695 quinolone resistance pentapeptide repeat protein QnrS1 -
HTG74_RS00145 24370..25001 + 632 Protein_28 transposase -
HTG74_RS00150 25055..25759 - 705 WP_001067855 IS6-like element IS26 family transposase -
HTG74_RS00155 25824..26003 - 180 Protein_30 helix-turn-helix domain-containing protein -
HTG74_RS00345 26270..26557 + 288 Protein_31 DUF6710 family protein -
HTG74_RS00165 26731..27264 - 534 WP_000792636 phospholipase D family protein -
HTG74_RS00170 27264..28259 - 996 WP_000128596 ATPase, T2SS/T4P/T4SS family virB11
HTG74_RS00175 28301..29461 - 1161 WP_000101710 type IV secretion system protein VirB10 virB10
HTG74_RS00180 29461..30345 - 885 WP_000735066 TrbG/VirB9 family P-type conjugative transfer protein virB9
HTG74_RS00185 30356..31054 - 699 WP_000646594 type IV secretion system protein virB8
HTG74_RS00190 31044..31202 - 159 WP_012561180 hypothetical protein -
HTG74_RS00195 31273..32313 - 1041 WP_001749958 type IV secretion system protein virB6
HTG74_RS00200 32329..32556 - 228 WP_001749959 IncN-type entry exclusion lipoprotein EexN -
HTG74_RS00205 32564..33328 - 765 WP_013149461 type IV secretion system protein virB5
HTG74_RS00210 33295..35895 - 2601 WP_001749961 VirB4 family type IV secretion/conjugal transfer ATPase virb4
HTG74_RS00215 35895..36212 - 318 WP_000496058 VirB3 family type IV secretion system protein virB3
HTG74_RS00220 36262..36555 - 294 WP_001749962 hypothetical protein virB2
HTG74_RS00225 36565..36846 - 282 WP_000440698 transcriptional repressor KorA -
HTG74_RS00230 36855..37589 - 735 WP_001749963 lytic transglycosylase domain-containing protein virB1
HTG74_RS00235 37632..38003 + 372 WP_011867773 H-NS family nucleoid-associated regulatory protein -
HTG74_RS00240 38019..38363 + 345 WP_001749964 hypothetical protein -
HTG74_RS00245 38360..38674 + 315 WP_001749965 TrbM/KikA/MpfK family conjugal transfer protein -
HTG74_RS00250 38788..39021 + 234 WP_001191790 hypothetical protein -
HTG74_RS00255 39071..39718 + 648 WP_015344958 restriction endonuclease -
HTG74_RS00260 39723..39929 + 207 WP_001749967 hypothetical protein -
HTG74_RS00265 39940..40212 - 273 Protein_52 IS1 family transposase -
HTG74_RS00270 40311..41744 + 1434 WP_001288432 DNA cytosine methyltransferase -

Host bacterium

ID   3551 GenBank   NZ_KT982613
Plasmid name   pIMP1496 Incompatibility group   IncN
Plasmid size   50979 bp Coordinate of oriT [Strand]   13790..13890 [-]
Host baterium   Klebsiella pneumoniae strain CRE 1496

Cargo genes

Drug resistance gene   qnrS1, blaIMP-4
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -