Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   102468
Name   oriT_pEW1149-1 in_silico
Organism   Klebsiella pneumoniae strain EW1149
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_JARVRB010000001 (223540..223589 [+], 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_pEW1149-1
AAATCTGCAAAATTTTAATTTTGCGTAGTGTGTGGTCATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1840 GenBank   WP_015065542
Name   traI_QCF24_RS01010_pEW1149-1 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   1429 GenBank   WP_015065541
Name   traD_QCF24_RS01015_pEW1149-1 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: 194133..224147

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
QCF24_RS01015 (QCF24_01015) 194133..196445 - 2313 WP_015065541 type IV conjugative transfer system coupling protein TraD virb4
QCF24_RS01020 (QCF24_01020) 196574..197263 - 690 WP_015065540 hypothetical protein -
QCF24_RS01025 (QCF24_01025) 197455..198186 - 732 WP_032329926 conjugal transfer complement resistance protein TraT -
QCF24_RS01030 (QCF24_01030) 198495..199019 - 525 WP_015065538 hypothetical protein -
QCF24_RS01035 (QCF24_01035) 199030..201873 - 2844 WP_023157999 conjugal transfer mating-pair stabilization protein TraG traG
QCF24_RS01040 (QCF24_01040) 201873..203252 - 1380 WP_023158000 conjugal transfer pilus assembly protein TraH traH
QCF24_RS01045 (QCF24_01045) 203230..203673 - 444 WP_023158001 F-type conjugal transfer protein TrbF -
QCF24_RS01050 (QCF24_01050) 203719..204276 - 558 WP_023158002 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
QCF24_RS01055 (QCF24_01055) 204248..204487 - 240 WP_023158003 type-F conjugative transfer system pilin chaperone TraQ -
QCF24_RS01060 (QCF24_01060) 204498..205250 - 753 WP_015065535 type-F conjugative transfer system pilin assembly protein TraF traF
QCF24_RS01065 (QCF24_01065) 205271..205597 - 327 WP_015065534 hypothetical protein -
QCF24_RS01070 (QCF24_01070) 205610..205858 - 249 WP_004152675 hypothetical protein -
QCF24_RS01075 (QCF24_01075) 205836..206090 - 255 WP_015065558 conjugal transfer protein TrbE -
QCF24_RS01080 (QCF24_01080) 206122..208077 - 1956 WP_015065533 type-F conjugative transfer system mating-pair stabilization protein TraN traN
QCF24_RS01085 (QCF24_01085) 208136..208783 - 648 WP_015632510 type-F conjugative transfer system pilin assembly protein TrbC trbC
QCF24_RS01090 (QCF24_01090) 208862..209038 - 177 WP_162866177 hypothetical protein -
QCF24_RS01095 (QCF24_01095) 209059..210048 - 990 WP_015632509 conjugal transfer pilus assembly protein TraU traU
QCF24_RS01100 (QCF24_01100) 210045..210446 - 402 WP_023158005 hypothetical protein -
QCF24_RS01105 (QCF24_01105) 210481..211116 - 636 WP_023158006 type-F conjugative transfer system protein TraW traW
QCF24_RS01110 (QCF24_01110) 211116..211505 - 390 WP_004167468 type-F conjugative transfer system protein TrbI -
QCF24_RS01115 (QCF24_01115) 211505..214144 - 2640 WP_023158007 type IV secretion system protein TraC virb4
QCF24_RS01120 (QCF24_01120) 214216..214614 - 399 WP_023158008 hypothetical protein -
QCF24_RS01125 (QCF24_01125) 214622..215011 - 390 WP_023158009 hypothetical protein -
QCF24_RS01130 (QCF24_01130) 215054..215458 - 405 WP_016831042 hypothetical protein -
QCF24_RS01135 (QCF24_01135) 215525..215836 - 312 WP_014386200 hypothetical protein -
QCF24_RS01140 (QCF24_01140) 215837..216055 - 219 WP_014386199 hypothetical protein -
QCF24_RS01145 (QCF24_01145) 216079..216368 - 290 Protein_231 hypothetical protein -
QCF24_RS01150 (QCF24_01150) 216373..216783 - 411 WP_016831039 hypothetical protein -
QCF24_RS01155 (QCF24_01155) 216915..217499 - 585 WP_014386196 type IV conjugative transfer system lipoprotein TraV traV
QCF24_RS01160 (QCF24_01160) 217522..218118 - 597 Protein_234 conjugal transfer pilus-stabilizing protein TraP -
QCF24_RS01165 (QCF24_01165) 218111..219535 - 1425 WP_023158013 F-type conjugal transfer pilus assembly protein TraB traB
QCF24_RS01170 (QCF24_01170) 219535..220275 - 741 WP_014386193 type-F conjugative transfer system secretin TraK traK
QCF24_RS01175 (QCF24_01175) 220262..220828 - 567 WP_016831035 type IV conjugative transfer system protein TraE traE
QCF24_RS01180 (QCF24_01180) 220848..221153 - 306 WP_004144424 type IV conjugative transfer system protein TraL traL
QCF24_RS01185 (QCF24_01185) 221167..221535 - 369 WP_004194426 type IV conjugative transfer system pilin TraA -
QCF24_RS01190 (QCF24_01190) 221597..221803 - 207 WP_171773970 TraY domain-containing protein -
QCF24_RS01195 (QCF24_01195) 221936..222655 - 720 WP_016831034 conjugal transfer protein TrbJ -
QCF24_RS01200 (QCF24_01200) 222855..223271 - 417 WP_072145360 conjugal transfer relaxosome DNA-binding protein TraM -
QCF24_RS01205 (QCF24_01205) 223662..224147 + 486 WP_004178063 transglycosylase SLT domain-containing protein virB1
QCF24_RS01210 (QCF24_01210) 224180..224509 - 330 WP_011977736 DUF5983 family protein -
QCF24_RS01215 (QCF24_01215) 224542..225363 - 822 WP_004182076 DUF932 domain-containing protein -
QCF24_RS01220 (QCF24_01220) 226191..226754 - 564 WP_004182054 methyltransferase -
QCF24_RS01225 (QCF24_01225) 226802..228157 - 1356 WP_004182052 DUF3560 domain-containing protein -
QCF24_RS01230 (QCF24_01230) 228209..228439 - 231 WP_001568051 hypothetical protein -
QCF24_RS01235 (QCF24_01235) 228531..228758 - 228 WP_004182050 hypothetical protein -

Host bacterium

ID   2912 GenBank   NZ_JARVRB010000001
Plasmid name   pEW1149-1 Incompatibility group   IncFIB
Plasmid size   247863 bp Coordinate of oriT [Strand]   223540..223589 [+]
Host baterium   Klebsiella pneumoniae strain EW1149

Cargo genes

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