Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   117975
Name   oriT_FDAARGOS_1334|unnamed1 in_silico
Organism   Klebsiella oxytoca strain FDAARGOS_1334
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP069912 (48552..48601 [-], 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    		  TGTGTGGTGA
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 50 nt

>oriT_FDAARGOS_1334|unnamed1
AAATCTGCAAAATTTTAATTTTGCGTAGTGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   11403 GenBank   WP_047066489
Name   traI_I6K64_RS27715_FDAARGOS_1334|unnamed1 insolico UniProt ID   A0A2P9E096
Length   1752 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1752 a.a.        Molecular weight: 190642.38 Da        Isoelectric Point: 6.1560

>WP_047066489.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacteriaceae]
MLSFSQVKSAGSAGNYYTEKDNYYVIGSMEERWQGKGAELLGLEGKVDKQVFTELLQGKLPDGSDLTRIQ
DGVNKHRPGYDLTFSAPKSVSMLAMLGGDKRLIDAHNRAVTVALNQVESLASTRVKKDGVSETVLTGNLI
IARFNHDTSRAQDPQIHTHSVVINATQNGDKWQTLASDTVGKTGFSETILANRIAFGKIYQNSLRADVES
MGYKTVDAGRNGMWEMEGVPVESFSTRSQELREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMNT
LKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLEA
KDGVFELARKGINAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVPF
SDAVSVLAQDRPVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVTG
KSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTYR
WQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKDT
TITALTPVWLDSKSRGVRDYYREGMVMERWDPETRTHDRFVIDRVTASSNMLTLKDREGDRLDLKVSAVD
SQWTLFRADTLPVAEGERLAVLGKIPDTRLKGGESVTVMKVEDGQLTVQRPGQKTTQTLAVGAGVFDGIK
VGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSEQ
LKSRSGETDLDAAIAQQKAGLHTPAEQAIHLAIPLLESQDLTFSRPQLLATAMETGGGKVSMADIDTTIQ
TQIRSGQLLNVPVAHGYGNDLLISRQTWDAEKSILTHVLEGKDAVAPLMDRVPASLMTDLTAGQRAATRM
ILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVEARTTASFLHD
TQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIVAGGGRAVSSGDNDQLQPIAPGQPFRLMQQRS
AADVAIMKEIVRQMPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGSWAPGSSVVEFTPKQEKAIEK
ALSEGKTLPEGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITLP
VLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSEGKERFISPREASAEGVTLY
RQEKITVSQGDRMRFSKSDPERGYVANSIWEVQSVSGDSVTLSDGKITRTLTPKAEQAQQHIDLAYAITA
HGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDNREGWIKAIKNSPEKATAHDILEP
RNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGSSPGKFISPGKKYPQPHVALPAFDKNGKAAGIW
LSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDRP
WNPGAMTGGRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEPA
DRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEAAIQQVASERLQRERLQAVERDMVRDLNREKTLG
GD

  Protein domains


Predicted by InterproScan.

DNA helicase TraI (TraI_C)

(1432-1554)

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

(576-628)

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   13325 GenBank   WP_020277955
Name   traD_I6K64_RS27710_FDAARGOS_1334|unnamed1 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: 85894.89 Da        Isoelectric Point: 5.1129

>WP_020277955.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTSFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDAPASGPADTNSHAGEQPEPVSQPA
PADMTVSPEPVKAPPTTKSPAAEPSVRTTEPSVLRVTTVPLIKPKAAAAAAAASTASSSGAPATAAGGTQ
QELAQQSAEQGQDMLPAGMNEDGVIEDMQAYDAWLADEQTQRDMQRREEVNINHSHRHDEQDDVEIGGNI

  Protein domains


Predicted by InterproScan.

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

(172-560)

F sex factor protein N terminal (TraD_N)

(32-128)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 47994..77039

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
I6K64_RS27500 (I6K64_27500) 44003..44359 + 357 WP_019706019 hypothetical protein -
I6K64_RS27505 (I6K64_27505) 44420..44632 + 213 WP_019706020 hypothetical protein -
I6K64_RS27510 (I6K64_27510) 44643..44867 + 225 WP_014343499 hypothetical protein -
I6K64_RS27515 (I6K64_27515) 44948..45268 + 321 WP_004152720 type II toxin-antitoxin system RelE/ParE family toxin -
I6K64_RS27520 (I6K64_27520) 45258..45536 + 279 WP_004152721 helix-turn-helix transcriptional regulator -
I6K64_RS27525 (I6K64_27525) 45537..45950 + 414 WP_021312979 type II toxin-antitoxin system HigA family antitoxin -
I6K64_RS27530 (I6K64_27530) 46778..47599 + 822 WP_023316395 DUF932 domain-containing protein -
I6K64_RS27535 (I6K64_27535) 47632..47961 + 330 WP_011977736 DUF5983 family protein -
I6K64_RS27540 (I6K64_27540) 47994..48479 - 486 WP_001568108 transglycosylase SLT domain-containing protein virB1
I6K64_RS27545 (I6K64_27545) 48870..49286 + 417 WP_072145360 conjugal transfer relaxosome DNA-binding protein TraM -
I6K64_RS27550 (I6K64_27550) 49486..50205 + 720 WP_015065526 hypothetical protein -
I6K64_RS27555 (I6K64_27555) 50338..50541 + 204 WP_171486139 TraY domain-containing protein -
I6K64_RS27560 (I6K64_27560) 50606..50974 + 369 WP_004194426 type IV conjugative transfer system pilin TraA -
I6K64_RS27565 (I6K64_27565) 50988..51293 + 306 WP_004144424 type IV conjugative transfer system protein TraL traL
I6K64_RS27570 (I6K64_27570) 51313..51879 + 567 WP_004144423 type IV conjugative transfer system protein TraE traE
I6K64_RS27575 (I6K64_27575) 51866..52606 + 741 WP_004152497 type-F conjugative transfer system secretin TraK traK
I6K64_RS27580 (I6K64_27580) 52606..54030 + 1425 WP_015065626 F-type conjugal transfer pilus assembly protein TraB traB
I6K64_RS27585 (I6K64_27585) 54104..54688 + 585 WP_020277945 type IV conjugative transfer system lipoprotein TraV traV
I6K64_RS29620 54843..55241 + 399 WP_020277946 hypothetical protein -
I6K64_RS29625 55312..55560 + 249 WP_223175793 hypothetical protein -
I6K64_RS27595 (I6K64_27595) 55584..55802 + 219 WP_004195468 hypothetical protein -
I6K64_RS27600 (I6K64_27600) 55803..56114 + 312 WP_047066479 hypothetical protein -
I6K64_RS27605 (I6K64_27605) 56181..56585 + 405 WP_004197817 hypothetical protein -
I6K64_RS27610 (I6K64_27610) 56961..57359 + 399 WP_023179972 hypothetical protein -
I6K64_RS27615 (I6K64_27615) 57431..60070 + 2640 WP_032431388 type IV secretion system protein TraC virb4
I6K64_RS27620 (I6K64_27620) 60070..60459 + 390 WP_032736784 type-F conjugative transfer system protein TrbI -
I6K64_RS27625 (I6K64_27625) 60459..61085 + 627 WP_020277949 type-F conjugative transfer system protein TraW traW
I6K64_RS27630 (I6K64_27630) 61127..61516 + 390 WP_020277950 hypothetical protein -
I6K64_RS27635 (I6K64_27635) 61513..62502 + 990 WP_009309872 conjugal transfer pilus assembly protein TraU traU
I6K64_RS27640 (I6K64_27640) 62515..63153 + 639 WP_015065635 type-F conjugative transfer system pilin assembly protein TrbC trbC
I6K64_RS27645 (I6K64_27645) 63212..65167 + 1956 WP_020277951 type-F conjugative transfer system mating-pair stabilization protein TraN traN
I6K64_RS27650 (I6K64_27650) 65199..65453 + 255 WP_049194392 conjugal transfer protein TrbE -
I6K64_RS27655 (I6K64_27655) 65431..65679 + 249 WP_004152675 hypothetical protein -
I6K64_RS27660 (I6K64_27660) 65692..66018 + 327 WP_004144402 hypothetical protein -
I6K64_RS27665 (I6K64_27665) 66039..66791 + 753 WP_004152677 type-F conjugative transfer system pilin assembly protein TraF traF
I6K64_RS27670 (I6K64_27670) 66802..67041 + 240 WP_004144400 type-F conjugative transfer system pilin chaperone TraQ -
I6K64_RS27675 (I6K64_27675) 67013..67570 + 558 WP_032736782 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
I6K64_RS27680 (I6K64_27680) 67616..68059 + 444 WP_020277953 F-type conjugal transfer protein TrbF -
I6K64_RS27685 (I6K64_27685) 68037..69416 + 1380 WP_014343487 conjugal transfer pilus assembly protein TraH traH
I6K64_RS27690 (I6K64_27690) 69416..72265 + 2850 WP_020277954 conjugal transfer mating-pair stabilization protein TraG traG
I6K64_RS27695 (I6K64_27695) 72268..72801 + 534 WP_014343486 conjugal transfer protein TraS -
I6K64_RS27700 (I6K64_27700) 72987..73718 + 732 WP_004152629 conjugal transfer complement resistance protein TraT -
I6K64_RS27705 (I6K64_27705) 73911..74600 + 690 WP_014343485 hypothetical protein -
I6K64_RS27710 (I6K64_27710) 74727..77039 + 2313 WP_020277955 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   18408 GenBank   NZ_CP069912
Plasmid name   FDAARGOS_1334|unnamed1 Incompatibility group   IncFII
Plasmid size   141778 bp Coordinate of oriT [Strand]   48552..48601 [-]
Host baterium   Klebsiella oxytoca strain FDAARGOS_1334

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   ncrY, ncrC, ncrB, ncrA
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIE9