Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   102699
Name   oriT_INF277|2 in_silico
Organism   Klebsiella pneumoniae strain INF277 isolate INF277
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_LR890205 (236270..236319 [+], 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_INF277|2
AAATCTGCAAAATTTTAATTTTGCGTAGTGTGTGGTCATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1987 GenBank   WP_015065542
Name   traI_JMW21_RS26275_INF277|2 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   1629 GenBank   WP_015065541
Name   traD_JMW21_RS26280_INF277|2 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: 206863..236877

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
JMW21_RS26280 206863..209175 - 2313 WP_015065541 type IV conjugative transfer system coupling protein TraD virb4
JMW21_RS26285 209304..209993 - 690 WP_015065540 hypothetical protein -
JMW21_RS26290 210185..210916 - 732 WP_032329926 conjugal transfer complement resistance protein TraT -
JMW21_RS26295 211225..211749 - 525 WP_015065538 hypothetical protein -
JMW21_RS26300 211760..214603 - 2844 WP_023157999 conjugal transfer mating-pair stabilization protein TraG traG
JMW21_RS26305 214603..215982 - 1380 WP_023158000 conjugal transfer pilus assembly protein TraH traH
JMW21_RS26310 215960..216403 - 444 WP_023158001 F-type conjugal transfer protein TrbF -
JMW21_RS26315 216449..217006 - 558 WP_023158002 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
JMW21_RS26320 216978..217217 - 240 WP_023158003 type-F conjugative transfer system pilin chaperone TraQ -
JMW21_RS26325 217228..217980 - 753 WP_015065535 type-F conjugative transfer system pilin assembly protein TraF traF
JMW21_RS26330 218001..218327 - 327 WP_015065534 hypothetical protein -
JMW21_RS26335 218340..218588 - 249 WP_004152675 hypothetical protein -
JMW21_RS26340 218566..218820 - 255 WP_015065558 conjugal transfer protein TrbE -
JMW21_RS26345 218852..220807 - 1956 WP_015065533 type-F conjugative transfer system mating-pair stabilization protein TraN traN
JMW21_RS26350 220866..221513 - 648 WP_015632510 type-F conjugative transfer system pilin assembly protein TrbC trbC
JMW21_RS26355 221592..221768 - 177 WP_162866177 hypothetical protein -
JMW21_RS26360 221789..222778 - 990 WP_015632509 conjugal transfer pilus assembly protein TraU traU
JMW21_RS26365 222775..223176 - 402 WP_023158005 hypothetical protein -
JMW21_RS26370 223211..223846 - 636 WP_023158006 type-F conjugative transfer system protein TraW traW
JMW21_RS26375 223846..224235 - 390 WP_004167468 type-F conjugative transfer system protein TrbI -
JMW21_RS26380 224235..226874 - 2640 WP_023158007 type IV secretion system protein TraC virb4
JMW21_RS26385 226946..227344 - 399 WP_023158008 hypothetical protein -
JMW21_RS26390 227352..227741 - 390 WP_023158009 hypothetical protein -
JMW21_RS26395 227784..228188 - 405 WP_016831042 hypothetical protein -
JMW21_RS26400 228255..228566 - 312 WP_014386200 hypothetical protein -
JMW21_RS26405 228567..228785 - 219 WP_014386199 hypothetical protein -
JMW21_RS26410 228809..229098 - 290 Protein_241 hypothetical protein -
JMW21_RS26415 229103..229513 - 411 WP_016831039 hypothetical protein -
JMW21_RS26420 229645..230229 - 585 WP_014386196 type IV conjugative transfer system lipoprotein TraV traV
JMW21_RS26425 230252..230848 - 597 Protein_244 conjugal transfer protein TraP -
JMW21_RS26430 230841..232265 - 1425 WP_023158013 F-type conjugal transfer pilus assembly protein TraB traB
JMW21_RS26435 232265..233005 - 741 WP_014386193 type-F conjugative transfer system secretin TraK traK
JMW21_RS26440 232992..233558 - 567 WP_016831035 type IV conjugative transfer system protein TraE traE
JMW21_RS26445 233578..233883 - 306 WP_004144424 type IV conjugative transfer system protein TraL traL
JMW21_RS26450 233897..234265 - 369 WP_004194426 type IV conjugative transfer system pilin TraA -
JMW21_RS26455 234327..234533 - 207 WP_171773970 TraY domain-containing protein -
JMW21_RS26460 234666..235385 - 720 WP_016831034 conjugal transfer protein TrbJ -
JMW21_RS26465 235585..236001 - 417 WP_072145360 conjugal transfer relaxosome DNA-binding protein TraM -
JMW21_RS26470 236392..236877 + 486 WP_004178063 transglycosylase SLT domain-containing protein virB1
JMW21_RS26475 236910..237239 - 330 WP_011977736 DUF5983 family protein -
JMW21_RS26480 237272..238093 - 822 WP_004182076 DUF932 domain-containing protein -
JMW21_RS26485 238921..239484 - 564 WP_004182054 methyltransferase -
JMW21_RS26490 239532..240887 - 1356 WP_004182052 DUF3560 domain-containing protein -
JMW21_RS26495 240939..241169 - 231 WP_001568051 hypothetical protein -
JMW21_RS26500 241261..241488 - 228 WP_004182050 hypothetical protein -

Host bacterium

ID   3142 GenBank   NZ_LR890205
Plasmid name   INF277|2 Incompatibility group   IncFIB
Plasmid size   259454 bp Coordinate of oriT [Strand]   236270..236319 [+]
Host baterium   Klebsiella pneumoniae strain INF277 isolate INF277

Cargo genes

Drug resistance gene   sul2, aph(3'')-Ib, aph(6)-Id, blaTEM-1B, tet(A), qnrB1, dfrA14, blaCTX-M-15, aac(6')-Ib-cr, blaOXA-1
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   -