Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   103821
Name   oriT_pR886_2 in_silico
Organism   Klebsiella pneumoniae strain Nord77_R886
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP091599 (101978..102027 [+], 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_pR886_2
AAATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTCATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2836 GenBank   WP_043907038
Name   traI_L5469_RS00305_pR886_2 insolico UniProt ID   A0A0S1TKY9
Length   1752 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1752 a.a.        Molecular weight: 190458.19 Da        Isoelectric Point: 6.0263

>WP_043907038.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacteriaceae]
MLSLSQVKSAGSAGNYYTEKDNYYVIGSMEERWQGKGAELLGLEGKVDKQVFTELLQGKLPDGSDLTRIQ
DGVNKHRPGYDLTFSAPKSVSMLAMLGGDKRLIDAHNRAVTVALNQVESLASTRVKKDGVSETVLTGNLI
IARFNHDTSRAQDPQIHTHSVVINATQNGDKWLTLASDTVGKTGFSETILANRIAFGKIYQNSLRADVES
MGYKTVDAGRNGMWEMEGVPVESFSTRSQELREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMNT
LKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLEA
KDGVFELARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVPF
SDAVSVLAQDRPVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVTG
KSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTYR
WQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKDT
TITALTPVWLDSKSRGVRDYYREGMVMERWDPETRTHDRFVIDRVTASSNMLTLKDREGDRLDLKVSAVD
SQWTLFRADTLPVAEGERLAVLGKIPDTRLKGGESVTVMKVEDGQLTVQRPGQKTTQTLAVGAGVFDGIK
VGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSEQ
LKSRSGETDLDAAIAQQKAGLHTPAEQAIHLAIPLLESQDLTFSRPQLLATAMETGGGKVSMADIDTTIQ
AQIRSGQLLNVPVAPGRGNDLLISRQAWDAEKSILTRVLEGKDAVAPLMDRVPDSLMTELTAGQRAATRM
ILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLHD
TQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIAAGGGRAVPSGDTDQLPPIASGQPFRLTQQRS
AADVAIMKEIVRQVPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGAWAPGSSVVEFTPKQEKAIEK
ALSEGKTLPEGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITLP
VLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSEGKERFISPREASAEGVTLY
RQEKITVSQGDRMRFSKSDPERGYVANSIWEVQSVSGDSVTLSDGKITRTLTPKAEQAQQHIDLAYAITA
HGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDNREGWIKAIKNSPEKATAHDILEP
RNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGSSPGKFISPGKKYPQPHVALPAFDKNGKAAGIW
LSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDRP
WNPGAMTGGRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEPA
DRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEEAIQQVASERLQRERLQAVERDMVRDLNREKTLG
GD

  Protein domains


Predicted by InterproScan.

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

(576-628)

AAA domain (AAA_30)

(969-1156)

TrwC relaxase (TrwC)

(11-283)

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

(634-713)

DNA helicase TraI (TraI_C)

(1432-1554)


  Protein structure



No available structure.




T4CP

ID   2660 GenBank   WP_043907039
Name   traD_L5469_RS00310_pR886_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: 85906.85 Da        Isoelectric Point: 5.0577

>WP_043907039.1 type IV conjugative transfer system coupling protein TraD [Klebsiella pneumoniae]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTGFAFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGVASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDDDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
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: 73423..99474

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
L5469_RS00310 (L5469_00310) 73423..75735 - 2313 WP_043907039 type IV conjugative transfer system coupling protein TraD virb4
L5469_RS00315 (L5469_00315) 75864..76553 - 690 WP_004198206 hypothetical protein -
L5469_RS00320 (L5469_00320) 76745..77476 - 732 WP_004152622 conjugal transfer complement resistance protein TraT -
L5469_RS00325 (L5469_00325) 77660..78208 - 549 WP_004152623 conjugal transfer entry exclusion protein TraS -
L5469_RS00330 (L5469_00330) 78221..81070 - 2850 WP_004152624 conjugal transfer mating-pair stabilization protein TraG traG
L5469_RS00335 (L5469_00335) 81070..82449 - 1380 WP_011977731 conjugal transfer pilus assembly protein TraH traH
L5469_RS00340 (L5469_00340) 82427..82870 - 444 WP_030003485 F-type conjugal transfer protein TrbF -
L5469_RS00345 (L5469_00345) 82916..83473 - 558 WP_013214031 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
L5469_RS00350 (L5469_00350) 83445..83684 - 240 WP_004144400 type-F conjugative transfer system pilin chaperone TraQ -
L5469_RS00355 (L5469_00355) 83695..84447 - 753 WP_004152677 type-F conjugative transfer system pilin assembly protein TraF traF
L5469_RS00360 (L5469_00360) 84468..84794 - 327 WP_013214030 hypothetical protein -
L5469_RS00365 (L5469_00365) 84807..85055 - 249 WP_013214029 hypothetical protein -
L5469_RS00370 (L5469_00370) 85033..85287 - 255 WP_004152674 conjugal transfer protein TrbE -
L5469_RS00375 (L5469_00375) 85319..87274 - 1956 WP_040145764 type-F conjugative transfer system mating-pair stabilization protein TraN traN
L5469_RS00380 (L5469_00380) 87322..87960 - 639 WP_004152682 type-F conjugative transfer system pilin assembly protein TrbC trbC
L5469_RS00385 (L5469_00385) 87973..88932 - 960 WP_015065634 conjugal transfer pilus assembly protein TraU traU
L5469_RS00390 (L5469_00390) 88976..89602 - 627 WP_004152590 type-F conjugative transfer system protein TraW traW
L5469_RS00395 (L5469_00395) 89602..89980 - 379 Protein_79 type-F conjugative transfer system protein TrbI -
L5469_RS00400 (L5469_00400) 89980..92619 - 2640 WP_004152592 type IV secretion system protein TraC virb4
L5469_RS00405 (L5469_00405) 92691..93089 - 399 WP_004153071 hypothetical protein -
L5469_RS00410 (L5469_00410) 93097..93387 - 291 WP_004162890 hypothetical protein -
L5469_RS00415 (L5469_00415) 93384..93788 - 405 WP_004152594 hypothetical protein -
L5469_RS00420 (L5469_00420) 93855..94172 - 318 WP_004152595 hypothetical protein -
L5469_RS00425 (L5469_00425) 94173..94391 - 219 WP_004171484 hypothetical protein -
L5469_RS00430 (L5469_00430) 94415..94705 - 291 WP_004152596 hypothetical protein -
L5469_RS00435 (L5469_00435) 94710..95120 - 411 WP_004152597 lipase chaperone -
L5469_RS00440 (L5469_00440) 95252..95821 - 570 WP_004152598 type IV conjugative transfer system lipoprotein TraV traV
L5469_RS00445 (L5469_00445) 95844..96440 - 597 WP_004152599 conjugal transfer pilus-stabilizing protein TraP -
L5469_RS00450 (L5469_00450) 96433..97857 - 1425 WP_004152600 F-type conjugal transfer pilus assembly protein TraB traB
L5469_RS00455 (L5469_00455) 97857..98603 - 747 WP_032447836 type-F conjugative transfer system secretin TraK traK
L5469_RS00460 (L5469_00460) 98589..99149 - 561 Protein_92 type IV conjugative transfer system protein TraE -
L5469_RS00465 (L5469_00465) 99169..99474 - 306 WP_004144424 type IV conjugative transfer system protein TraL traL
L5469_RS00470 (L5469_00470) 99488..99856 - 369 WP_004152496 type IV conjugative transfer system pilin TraA -
L5469_RS00475 (L5469_00475) 99910..100281 - 372 WP_004208838 TraY domain-containing protein -
L5469_RS00480 (L5469_00480) 100365..101060 - 696 WP_004178061 transcriptional regulator TraJ family protein -
L5469_RS00485 (L5469_00485) 101274..101666 - 393 WP_004178062 conjugal transfer relaxosome DNA-binding protein TraM -
L5469_RS00490 (L5469_00490) 102100..102586 + 487 Protein_98 transglycosylase SLT domain-containing protein -
L5469_RS00495 (L5469_00495) 102619..102948 - 330 WP_011977736 DUF5983 family protein -
L5469_RS00500 (L5469_00500) 102981..103802 - 822 WP_004178064 DUF932 domain-containing protein -

Host bacterium

ID   4261 GenBank   NZ_CP091599
Plasmid name   pR886_2 Incompatibility group   IncFII
Plasmid size   211798 bp Coordinate of oriT [Strand]   101978..102027 [+]
Host baterium   Klebsiella pneumoniae strain Nord77_R886

Cargo genes

Drug resistance gene   catA1
Virulence gene   -
Metal resistance gene   fecD, fecE, silE, silR, silC, silF, silB, silA, silP, pcoA, pcoB, pcoC, pcoD, pcoR, pcoE, arsH, arsC, arsB, arsA, arsD, arsR
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIE9