Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   106023
Name   oriT_pKP_160-4 in_silico
Organism   Klebsiella pneumoniae strain KP_160
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP078036 (36774..36859 [+], 86 nt)
oriT length   86 nt
IRs (inverted repeats)      61..68, 73..80  (TTGGTGGT..ACCACCAA)
 27..34, 37..44  (GCAAAAAC..GTTTTTGC)
 8..14, 20..26  (TGATTTA..TAAATCA)
Location of nic site      53..54
Conserved sequence flanking the
  nic site    		  TGTGTGGTGC
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 86 nt

>oriT_pKP_160-4
AATTACATGATTTAAAACGTAAATCAGCAAAAACTTGTTTTTGCGTAGTGTGTGGTGCTTTTGGTGGTGAGAACCACCAACCTGTT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


T4CP

ID   4063 GenBank   WP_017901267
Name   traD_EGK18_RS28540_pKP_160-4 insolico UniProt ID   _
Length   729 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 729 a.a.        Molecular weight: 82840.44 Da        Isoelectric Point: 5.1644

>WP_017901267.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MSFNAKDMTQGGQIASMRIRMFSQIANIMLYCLFIFFWILIGLVLWVKISWQTFINGCIYWWCTSLEGMR
DLIKSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLASVVALVICLITFFVVSWILGRQGKQ
QSENEVTGGRQLTDNPKDVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRLANYAR
QRGDMVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEHNGDPFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIA
EFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL
KYQARPKVAPEFIPRDINPEMENRLSAVLAAREAEGRQMASLFEPEVASGEDVTQAEQPQQPQQPQQPQQ
PQQPQQPVSSVINDKKSDAGVSVPAGGIEQELKMKPEEEMEQQLPPGISESGEVVDMAAYEAWQQENHPD
IQQHMQRREEVNINVHRERGEDVEPGDDF

  Protein domains


Predicted by InterproScan.

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

(173-560)

F sex factor protein N terminal (TraD_N)

(32-128)

  Protein structure



No available structure.



ID   4064 GenBank   WP_000069777
Name   traC_EGK18_RS28635_pKP_160-4 insolico UniProt ID   _
Length   876 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 876 a.a.        Molecular weight: 99195.86 Da        Isoelectric Point: 6.1126

>WP_000069777.1 MULTISPECIES: type IV secretion system protein TraC [Enterobacteriaceae]
MSNNPLEAVTQAVNSLVTALKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESGLFMNDTTMGFMLEAI
PINGANKSIVEALDHMLRTKLPRGIPLCIHLMSSQLVGDRIEYGLREFSWSGEQAERFNAITRAYYMKAA
ATQFPLPEGMNLPLTLRHYRVFISYCSPSKKKSRADILEMENLVKIIRASLQGASIATQTVDAQAFIDIV
GEMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLNVRADYLTLGLRENGRNSTARILNFHLARNPEIAF
LWNMADNYSNLLNPELSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWG
ELRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGK
GLFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFRGMNNTNYNMAVCGTSG
AGKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERVRDQLS
VMASPNGNLDEVHEGLLLQAVRASWLAKENRARIDDVVDFLKNASDSEQYAGSPTIRSRLDEMIVLLDQY
TANGTYGQYFNSDEPSLRDDAKMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRNLKKLNVIDEGW
RLLDFKNRKVGEFIEKGYRTARRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKY
NQLYPDQFQPLQRDMIGKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRKEG
LSIHEAVWQLAWKKSGPEMASLEAWLEEHEKYRSVA

  Protein domains


Predicted by InterproScan.

Family of unknown function (DUF5934) (DUF5934)

(290-447)

TraG P-loop domain (P-loop_TraG)

(468-764)

TraC protein (TraC_F_IV)

(39-277)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 9356..37427

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
EGK18_RS28530 (EGK18_028530) 4445..5149 - 705 WP_001067855 IS6-like element IS26 family transposase -
EGK18_RS28535 (EGK18_028535) 5214..9356 - 4143 Protein_7 conjugative transfer relaxase/helicase TraI -
EGK18_RS28540 (EGK18_028540) 9356..11545 - 2190 WP_017901267 type IV conjugative transfer system coupling protein TraD virb4
EGK18_RS28545 (EGK18_028545) 11596..12333 - 738 WP_000199905 hypothetical protein -
EGK18_RS28550 (EGK18_028550) 12536..13267 - 732 WP_000782451 conjugal transfer complement resistance protein TraT -
EGK18_RS28555 (EGK18_028555) 13316..13801 - 486 WP_000605870 hypothetical protein -
EGK18_RS28560 (EGK18_028560) 13817..16639 - 2823 WP_001007039 conjugal transfer mating-pair stabilization protein TraG traG
EGK18_RS28565 (EGK18_028565) 16636..18018 - 1383 WP_001309243 conjugal transfer pilus assembly protein TraH traH
EGK18_RS28570 (EGK18_028570) 17996..18388 - 393 WP_000660699 F-type conjugal transfer protein TrbF -
EGK18_RS28575 (EGK18_028575) 18369..18716 - 348 WP_001309242 P-type conjugative transfer protein TrbJ -
EGK18_RS28580 (EGK18_028580) 18646..19191 - 546 WP_000059831 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
EGK18_RS28585 (EGK18_028585) 19178..19462 - 285 WP_000624194 type-F conjugative transfer system pilin chaperone TraQ -
EGK18_RS28590 (EGK18_028590) 19581..19925 - 345 WP_000556796 conjugal transfer protein TrbA -
EGK18_RS28595 (EGK18_028595) 19939..20688 - 750 WP_001336806 type-F conjugative transfer system pilin assembly protein TraF traF
EGK18_RS28600 (EGK18_028600) 20675..20932 - 258 WP_000864353 conjugal transfer protein TrbE -
EGK18_RS28605 (EGK18_028605) 20959..22809 - 1851 WP_000821856 type-F conjugative transfer system mating-pair stabilization protein TraN traN
EGK18_RS28610 (EGK18_028610) 22806..23444 - 639 WP_001080256 type-F conjugative transfer system pilin assembly protein TrbC trbC
EGK18_RS28615 (EGK18_028615) 23453..23758 - 306 WP_000224416 hypothetical protein -
EGK18_RS28620 (EGK18_028620) 23788..24780 - 993 WP_000830838 conjugal transfer pilus assembly protein TraU traU
EGK18_RS28625 (EGK18_028625) 24777..25409 - 633 WP_001203728 type-F conjugative transfer system protein TraW traW
EGK18_RS28630 (EGK18_028630) 25406..25792 - 387 WP_000214084 type-F conjugative transfer system protein TrbI -
EGK18_RS28635 (EGK18_028635) 25789..28419 - 2631 WP_000069777 type IV secretion system protein TraC virb4
EGK18_RS28640 (EGK18_028640) 28545..28892 - 348 WP_000836682 hypothetical protein -
EGK18_RS28645 (EGK18_028645) 28920..29138 - 219 WP_000556745 hypothetical protein -
EGK18_RS28650 (EGK18_028650) 29218..29694 - 477 WP_000549587 hypothetical protein -
EGK18_RS28655 (EGK18_028655) 29687..29908 - 222 WP_001278683 conjugal transfer protein TraR -
EGK18_RS28660 (EGK18_028660) 30043..30558 - 516 WP_000809881 type IV conjugative transfer system lipoprotein TraV traV
EGK18_RS28665 (EGK18_028665) 30555..30875 - 321 WP_001057307 conjugal transfer protein TrbD -
EGK18_RS28670 (EGK18_028670) 30862..31428 - 567 WP_000896599 conjugal transfer pilus-stabilizing protein TraP -
EGK18_RS28675 (EGK18_028675) 31418..32869 - 1452 WP_000146675 F-type conjugal transfer pilus assembly protein TraB traB
EGK18_RS28680 (EGK18_028680) 32869..33597 - 729 WP_001230772 type-F conjugative transfer system secretin TraK traK
EGK18_RS28685 (EGK18_028685) 33584..34150 - 567 WP_000399780 type IV conjugative transfer system protein TraE traE
EGK18_RS28690 (EGK18_028690) 34172..34483 - 312 WP_000012113 type IV conjugative transfer system protein TraL traL
EGK18_RS28695 (EGK18_028695) 34498..34857 - 360 WP_001098992 type IV conjugative transfer system pilin TraA -
EGK18_RS28700 (EGK18_028700) 34890..35117 - 228 WP_000089263 conjugal transfer relaxosome protein TraY -
EGK18_RS28705 (EGK18_028705) 35254..35925 - 672 WP_000283561 conjugal transfer transcriptional regulator TraJ -
EGK18_RS28710 (EGK18_028710) 36119..36502 - 384 WP_001354030 conjugal transfer relaxosome DNA-binding protein TraM -
EGK18_RS28715 (EGK18_028715) 36837..37427 + 591 WP_000252683 transglycosylase SLT domain-containing protein virB1
EGK18_RS28720 (EGK18_028720) 37724..38545 - 822 WP_001234445 DUF932 domain-containing protein -
EGK18_RS28725 (EGK18_028725) 38656..38952 - 297 WP_001272251 hypothetical protein -
EGK18_RS28730 (EGK18_028730) 39252..39548 + 297 Protein_46 hypothetical protein -
EGK18_RS28735 (EGK18_028735) 39867..39992 - 126 WP_001372321 type I toxin-antitoxin system Hok family toxin -
EGK18_RS29240 39934..40083 - 150 Protein_48 plasmid maintenance protein Mok -
EGK18_RS28740 (EGK18_028740) 40305..41024 - 720 WP_001276217 plasmid SOS inhibition protein A -
EGK18_RS28745 (EGK18_028745) 41021..41455 - 435 WP_000845953 conjugation system SOS inhibitor PsiB -

Host bacterium

ID   6460 GenBank   NZ_CP078036
Plasmid name   pKP_160-4 Incompatibility group   IncFII
Plasmid size   69836 bp Coordinate of oriT [Strand]   36774..36859 [+]
Host baterium   Klebsiella pneumoniae strain KP_160

Cargo genes

Drug resistance gene   blaCTX-M-15
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -