Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   119560
Name   oriT_FDAARGOS_628|unnamed1 in_silico
Organism   Klebsiella variicola strain FDAARGOS_628
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP050957 (73381..73430 [-], 50 nt)
oriT length   50 nt
IRs (inverted repeats)      7..14, 17..24  (GCAAAATT..AATTTTGC)
Location of nic site      33..34
Conserved sequence flanking the
  nic site    		  GGTGTGGTGA
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 50 nt

>oriT_FDAARGOS_628|unnamed1
AAATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   12360 GenBank   WP_023340924
Name   traI_FOB36_RS00610_FDAARGOS_628|unnamed1 insolico UniProt ID   _
Length   1753 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1753 a.a.        Molecular weight: 190576.73 Da        Isoelectric Point: 6.5084

>WP_023340924.1 conjugative transfer relaxase/helicase TraI [Klebsiella variicola]
MMSIGSVKSADKAADYYTNKDNYYVIGSMDERWQGKGAEALGIDGKAVDKALFTELLKGKLPDGSDLTRI
QDGANKHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVTEAVRQLETLAATRVMTDGKSETVLTGNL
IVAKFNHDTNRNQEPQIHTHAVVINATQNGDKWQSLGTDKIGKTGFIENVYANQIAFGKLYREAFKPLVE
KLGYETEVVGKHGMWEMKGVPVEPFSTRTQELREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMN
TLKETGFDIRGYREAADARAAERARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLE
AKDGVFELARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVP
FSDAVSVLAQDRPVMGIVSGQGGAAGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVT
GKSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTY
RWQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGLESVAQISGTREQSVLNGLIRDSLRQEGVLGEKD
TTITALTPVWLDSKSRGVRDYYREGMVMERWDPETRTHDRFVIDRVTASSNMLTLKDREGGRLDLKVSAV
DSQWTLFRADTLPVAEGERLAVLGKIPDTRLKGGESITVMKVEDGQLTVQRPGQKTTQTLAVGAGVFDGI
KIGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSE
QLKTRSGETDLDAAIAQQKAGLRTPAEQAIHLAIPLLESEKLTFSRPQLLGTALETGGGKVPMADIDTTI
QAQIRSGQLLNVPVAHGYGNDLLISRQTWDAEKSILTRVLEGKDAVAPLMDRVPASLMTDLTSGQRAATR
MILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLH
DTQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIVAGGGRAVSSGDNDQLQPIAPGQPFRLMQQR
SAADIAIMKEIVRQVPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGVWAPGSSVVEFTPKQEKAIQ
KALSEGKTLPAGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITL
PVLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSDGKERYISPREASAEGVTL
YRQEKITVSQGDRMRFSKSDPERGYVANSIWEVQSVAGDSVTLSDGKTTRTLTPKADQAQQHIDLAYAIT
AHGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDSREGWIKAIKHSPEKATAHDILE
PRNDRAVKSADLLFGRARPLDETAAGRAALQQSGLAQGNSPGKFISPGKKYPQPHVALPAFDKNGKAAGI
WLSPLTDRDGRLEAIGGEGRIMGNDAARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDR
PWNPGAITGGRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEP
ADRVKEVIGDVIRGLERDRAGTEKTTLPDDPQFRRQEAAIQQVASESLQRERLQAVERDMVRDLNREKTL
GGD

  Protein domains


Predicted by InterproScan.

DNA helicase TraI (TraI_C)

(1433-1555)

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

(577-629)

AAA domain (AAA_30)

(971-1157)

TrwC relaxase (TrwC)

(11-284)

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

(635-714)


  Protein structure



No available structure.




T4CP

ID   14510 GenBank   WP_023340925
Name   traD_FOB36_RS00605_FDAARGOS_628|unnamed1 insolico UniProt ID   _
Length   769 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 769 a.a.        Molecular weight: 85524.32 Da        Isoelectric Point: 5.0065

>WP_023340925.1 type IV conjugative transfer system coupling protein TraD [Klebsiella variicola]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTGFAFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGVASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKESLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDDDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDAPASGPDDAGSHAGEQPEPVSQPA
PAEVTVSPAPVKAPATTKMPAAESSARTAEPPVLRVTTVPLIKPKAATAATAASTASSAGTPAAAAGGTE
QELAQQSAEQGQGMLPAGMNEDGVIEDMQAYDAWADEQTQRDMQRREEVNINHSHRHDEQDDVEIGGNF

  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: 75928..102001

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
FOB36_RS00420 (FOB36_00450) 72261..72791 + 531 WP_023340949 antirestriction protein -
FOB36_RS00425 (FOB36_00455) 72829..73236 - 408 WP_020805750 transglycosylase SLT domain-containing protein -
FOB36_RS00430 (FOB36_00460) 73743..74135 + 393 WP_023340948 conjugal transfer relaxosome DNA-binding protein TraM -
FOB36_RS00435 (FOB36_00465) 74342..75037 + 696 WP_023340947 transcriptional regulator TraJ family protein -
FOB36_RS00440 (FOB36_00470) 75121..75492 + 372 WP_071787545 TraY domain-containing protein -
FOB36_RS00445 (FOB36_00475) 75546..75914 + 369 WP_023340946 type IV conjugative transfer system pilin TraA -
FOB36_RS00450 (FOB36_00480) 75928..76233 + 306 WP_004178059 type IV conjugative transfer system protein TraL traL
FOB36_RS00455 (FOB36_00485) 76253..76819 + 567 WP_020316627 type IV conjugative transfer system protein TraE traE
FOB36_RS00460 (FOB36_00490) 76806..77546 + 741 WP_023340945 type-F conjugative transfer system secretin TraK traK
FOB36_RS00465 (FOB36_00495) 77546..78970 + 1425 WP_042946342 F-type conjugal transfer pilus assembly protein TraB traB
FOB36_RS00470 (FOB36_00500) 78963..79559 + 597 WP_023340943 conjugal transfer pilus-stabilizing protein TraP -
FOB36_RS00475 (FOB36_00505) 79582..80151 + 570 WP_023340942 type IV conjugative transfer system lipoprotein TraV traV
FOB36_RS00480 (FOB36_00510) 80283..80693 + 411 WP_020805613 hypothetical protein -
FOB36_RS00485 (FOB36_00515) 80698..80982 + 285 WP_023316401 hypothetical protein -
FOB36_RS00490 (FOB36_00520) 81006..81224 + 219 WP_023316402 hypothetical protein -
FOB36_RS00495 (FOB36_00525) 81225..81537 + 313 Protein_100 hypothetical protein -
FOB36_RS00500 (FOB36_00530) 81604..82008 + 405 WP_023340941 hypothetical protein -
FOB36_RS00505 (FOB36_00535) 82005..82295 + 291 WP_023340940 hypothetical protein -
FOB36_RS00510 (FOB36_00540) 82303..82701 + 399 WP_074186017 hypothetical protein -
FOB36_RS00515 (FOB36_00545) 82773..85412 + 2640 WP_023340938 type IV secretion system protein TraC virb4
FOB36_RS00520 (FOB36_00550) 85412..85801 + 390 WP_172491210 type-F conjugative transfer system protein TrbI -
FOB36_RS00525 (FOB36_00555) 85801..86427 + 627 WP_023340937 type-F conjugative transfer system protein TraW traW
FOB36_RS00530 (FOB36_00560) 86471..87430 + 960 WP_202386622 conjugal transfer pilus assembly protein TraU traU
FOB36_RS00535 (FOB36_00565) 87443..88081 + 639 WP_023340936 type-F conjugative transfer system pilin assembly protein TrbC trbC
FOB36_RS00540 (FOB36_00570) 88078..88461 + 384 WP_023340935 hypothetical protein -
FOB36_RS00545 (FOB36_00575) 88458..90413 + 1956 WP_023340934 type-F conjugative transfer system mating-pair stabilization protein TraN traN
FOB36_RS00550 (FOB36_00580) 90717..90944 + 228 WP_012540032 conjugal transfer protein TrbE -
FOB36_RS00555 (FOB36_00585) 90955..91281 + 327 WP_020323521 hypothetical protein -
FOB36_RS00560 (FOB36_00590) 91302..92054 + 753 WP_023340932 type-F conjugative transfer system pilin assembly protein TraF traF
FOB36_RS00565 (FOB36_00595) 92065..92304 + 240 WP_023340931 type-F conjugative transfer system pilin chaperone TraQ -
FOB36_RS00570 (FOB36_00600) 92276..92833 + 558 WP_023340930 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
FOB36_RS00575 (FOB36_00605) 92879..93322 + 444 WP_023340929 F-type conjugal transfer protein TrbF -
FOB36_RS00580 (FOB36_00610) 93300..94679 + 1380 WP_072198238 conjugal transfer pilus assembly protein TraH traH
FOB36_RS00585 (FOB36_00615) 94679..97528 + 2850 WP_101862635 conjugal transfer mating-pair stabilization protein TraG traG
FOB36_RS00590 (FOB36_00620) 97534..98061 + 528 WP_032747204 conjugal transfer protein TraS -
FOB36_RS00595 (FOB36_00625) 98251..98982 + 732 WP_004152629 conjugal transfer complement resistance protein TraT -
FOB36_RS00600 (FOB36_00630) 99357..99620 + 264 WP_135183185 hypothetical protein -
FOB36_RS00605 (FOB36_00635) 99692..102001 + 2310 WP_023340925 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   19990 GenBank   NZ_CP050957
Plasmid name   FDAARGOS_628|unnamed1 Incompatibility group   IncFIA
Plasmid size   122496 bp Coordinate of oriT [Strand]   73381..73430 [-]
Host baterium   Klebsiella variicola strain FDAARGOS_628

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIE9