Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   106241
Name   oriT_pKP102-1 in_silico
Organism   Klebsiella pneumoniae strain KP102
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP089885 (152134..152183 [+], 50 nt)
oriT length   50 nt
IRs (inverted repeats)      7..14, 17..24  (GCAAAATT..AATTTTGC)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 50 nt

>oriT_pKP102-1
AAATCTGCAAAATTTTAATTTTGCGTAGTGTGTGGTCATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   4182 GenBank   WP_015065542
Name   traI_LR951_RS26815_pKP102-1 insolico UniProt ID   K7R3U7
Length   1752 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1752 a.a.        Molecular weight: 190318.03 Da        Isoelectric Point: 6.2890

>WP_015065542.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacterales]
MLSFSQVKSAGSAGNYYTEKDNYYVIGSMEERWQGKGAELLGLEGKVDKQVFTELLQGKLPDGSDLTRIQ
DGVNKHRPGYDLTFSAPKSVSMLAMLGGDKRLIDAHNRAVTVALNQVESLASTRVKKDGVSETVLTGNLI
IARFNHDTSRAQDPQIHTHSVVINATQNGDKWQTLASDTVGKTGFSETILANRIAFGKIYQNSLRADVES
MGYKTVDAGRNGMWEMEGVPVESFSTRSQELREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMNT
LKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLEA
KDGVFELARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVPF
SDAVSVLAQDRPVMGIVSGQGGATGQRERVAELTLMSREQGRDVHILAADNRSRDFLAGDVRLAGETVTG
KSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALAVLKDSGVNTYR
WQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKDT
TITALTPVWLDSKSRGVRDYYREGMVMERWDPENRTHDRFVIDRVTASSNMLTLKDREGGRLDLKVSAVD
SQWTLFRADTLPVAEGERLAVLGKIPDTRLKGGESITVMKVEEGQLTVQRPGQKTTQTLAAGAGVFDGIK
VGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSEQ
LKSRSGETDLDTAIAQQKAGLHTPAEQAIHLAIPLLESQDLTFSRPQLLATAMETGGGKVSMADIDTTIQ
AQIRSGQLLNVPVAHGYGNDLLISRQTWDAEKSILTHVLEGKGAVAPLMDRVPASLMTDLTAGQRAATRM
ILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLHD
TQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIAAGGGRAVPSGDTDQLPPIASGQPFRLTQQRS
AADVAIMKEIVRQMPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGAWAPGSSVVEFTPKQEKAIEK
ALSEGKTLPEGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITLP
VLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSEGKERFISPREASAEGVTLY
RQEKITVSQGDRMRFSKSDPERGYVANSIWEVQSVSGDSVTLSDGKLTRTLTPKAEQAQQHIDLAYAITA
HGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDSREGWIKAIKHSPEKATAHDILEP
RNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGSSPGKFISPGKKYPQPHVALPAFDKNGKAAGIW
LSPLTDRDGRLEAIGGGGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDRP
WNPGAMTGGRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEPA
DRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEAAIQQVASERLQRERLQAVERDMVRDLNREKTLG
GD

  Protein domains


Predicted by InterproScan.

single-stranded DNA binding TraI N-terminal subdomain (ssDNA_TraI_N)

(576-628)

DNA helicase TraI (TraI_C)

(1432-1554)

TrwC relaxase (TrwC)

(11-283)

DNA relaxase TraI 2B/2B-like domain (TraI_2B)

(634-713)

AAA domain (AAA_30)

(970-1156)


  Protein structure



No available structure.




T4CP

ID   4201 GenBank   WP_015065541
Name   traD_LR951_RS26820_pKP102-1 insolico UniProt ID   _
Length   770 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 770 a.a.        Molecular weight: 86025.00 Da        Isoelectric Point: 5.0577

>WP_015065541.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacterales]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTSFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDDDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSREIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDAPASGPADTNSHAGEQPEPVSQPA
PADMTVSPEPVKAPPTIKRPAAEPSVRTTEPSVLRVTTVPLIKPKAAAAAAAASTASSSGAPATAAGGTQ
QELAQQSAEQGQDMLPAGMNEDGVIEDMQAYDAWLADEQTQRDMQRREEVNINHSHRHDEQDDVEIGGNF

  Protein domains


Predicted by InterproScan.

F sex factor protein N terminal (TraD_N)

(32-128)

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

(172-560)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 122727..152741

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
LR951_RS26820 (LR951_26765) 122727..125039 - 2313 WP_015065541 type IV conjugative transfer system coupling protein TraD virb4
LR951_RS26825 (LR951_26770) 125168..125857 - 690 WP_015065540 hypothetical protein -
LR951_RS26830 (LR951_26775) 126049..126780 - 732 WP_032329926 conjugal transfer complement resistance protein TraT -
LR951_RS26835 (LR951_26780) 127089..127613 - 525 WP_015065538 hypothetical protein -
LR951_RS26840 (LR951_26785) 127624..130467 - 2844 WP_023157999 conjugal transfer mating-pair stabilization protein TraG traG
LR951_RS26845 (LR951_26790) 130467..131846 - 1380 WP_023158000 conjugal transfer pilus assembly protein TraH traH
LR951_RS26850 (LR951_26795) 131824..132267 - 444 WP_023158001 F-type conjugal transfer protein TrbF -
LR951_RS26855 (LR951_26800) 132313..132870 - 558 WP_023158002 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
LR951_RS26860 (LR951_26805) 132842..133081 - 240 WP_023158003 type-F conjugative transfer system pilin chaperone TraQ -
LR951_RS26865 (LR951_26810) 133092..133844 - 753 WP_015065535 type-F conjugative transfer system pilin assembly protein TraF traF
LR951_RS26870 (LR951_26815) 133865..134191 - 327 WP_015065534 hypothetical protein -
LR951_RS26875 (LR951_26820) 134204..134452 - 249 WP_004152675 hypothetical protein -
LR951_RS26880 (LR951_26825) 134430..134684 - 255 WP_015065558 conjugal transfer protein TrbE -
LR951_RS26885 (LR951_26830) 134716..136671 - 1956 WP_015065533 type-F conjugative transfer system mating-pair stabilization protein TraN traN
LR951_RS26890 (LR951_26835) 136730..137377 - 648 WP_015632510 type-F conjugative transfer system pilin assembly protein TrbC trbC
LR951_RS26895 (LR951_26840) 137456..137632 - 177 WP_162866177 hypothetical protein -
LR951_RS26900 (LR951_26845) 137653..138642 - 990 WP_015632509 conjugal transfer pilus assembly protein TraU traU
LR951_RS26905 (LR951_26850) 138639..139040 - 402 WP_023158005 hypothetical protein -
LR951_RS26910 (LR951_26855) 139075..139710 - 636 WP_023158006 type-F conjugative transfer system protein TraW traW
LR951_RS26915 (LR951_26860) 139710..140099 - 390 WP_004167468 type-F conjugative transfer system protein TrbI -
LR951_RS26920 (LR951_26865) 140099..142738 - 2640 WP_023158007 type IV secretion system protein TraC virb4
LR951_RS26925 (LR951_26870) 142810..143208 - 399 WP_277696331 hypothetical protein -
LR951_RS26930 (LR951_26875) 143216..143605 - 390 WP_023158009 hypothetical protein -
LR951_RS26935 (LR951_26880) 143648..144052 - 405 WP_016831042 hypothetical protein -
LR951_RS26940 (LR951_26885) 144119..144430 - 312 WP_014386200 hypothetical protein -
LR951_RS26945 (LR951_26890) 144431..144649 - 219 WP_014386199 hypothetical protein -
LR951_RS26950 (LR951_26895) 144673..144962 - 290 Protein_153 hypothetical protein -
LR951_RS26955 (LR951_26900) 144967..145377 - 411 WP_016831039 hypothetical protein -
LR951_RS26960 (LR951_26905) 145509..146093 - 585 WP_014386196 type IV conjugative transfer system lipoprotein TraV traV
LR951_RS26965 (LR951_26910) 146116..146712 - 597 Protein_156 conjugal transfer pilus-stabilizing protein TraP -
LR951_RS26970 (LR951_26915) 146705..148129 - 1425 WP_023158013 F-type conjugal transfer pilus assembly protein TraB traB
LR951_RS26975 (LR951_26920) 148129..148869 - 741 WP_014386193 type-F conjugative transfer system secretin TraK traK
LR951_RS26980 (LR951_26925) 148856..149422 - 567 WP_016831035 type IV conjugative transfer system protein TraE traE
LR951_RS26985 (LR951_26930) 149442..149747 - 306 WP_004144424 type IV conjugative transfer system protein TraL traL
LR951_RS26990 (LR951_26935) 149761..150129 - 369 WP_004194426 type IV conjugative transfer system pilin TraA -
LR951_RS26995 (LR951_26940) 150191..150397 - 207 WP_171773970 TraY domain-containing protein -
LR951_RS27000 (LR951_26945) 150530..151249 - 720 WP_016831034 conjugal transfer protein TrbJ -
LR951_RS27005 (LR951_26950) 151449..151865 - 417 WP_072145360 conjugal transfer relaxosome DNA-binding protein TraM -
LR951_RS27010 (LR951_26955) 152256..152741 + 486 WP_004178063 transglycosylase SLT domain-containing protein virB1
LR951_RS27015 (LR951_26960) 152774..153103 - 330 WP_011977736 DUF5983 family protein -
LR951_RS27020 (LR951_26965) 153136..153957 - 822 WP_004182076 DUF932 domain-containing protein -
LR951_RS27025 (LR951_26970) 154785..155348 - 564 WP_004182054 methyltransferase -
LR951_RS27030 (LR951_26975) 155396..156751 - 1356 WP_004182052 DUF3560 domain-containing protein -
LR951_RS27035 (LR951_26980) 156803..157033 - 231 WP_001568051 hypothetical protein -
LR951_RS27040 (LR951_26985) 157125..157352 - 228 WP_004182050 hypothetical protein -

Host bacterium

ID   6678 GenBank   NZ_CP089885
Plasmid name   pKP102-1 Incompatibility group   IncFII
Plasmid size   247180 bp Coordinate of oriT [Strand]   152134..152183 [+]
Host baterium   Klebsiella pneumoniae strain KP102

Cargo genes

Drug resistance gene   sul2, aph(3'')-Ib, aph(6)-Id, blaTEM-1B, blaCTX-M-15, aac(3)-IIa, blaOXA-1, aac(6')-Ib-cr, tet(A), qnrB1, dfrA14
Virulence gene   -
Metal resistance gene   fecD, fecE, silE, silS, silR, silC, silF, silB, silA, silP, pcoA, pcoB, pcoC, pcoD, pcoR, pcoS, pcoE, arsH, arsC, arsB, arsA, arsD, arsR
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -