Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   105485
Name   oriT_pPSKoxy4_1 in_silico
Organism   Klebsiella michiganensis strain PS_Koxy4
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP113905 (91302..91351 [-], 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_pPSKoxy4_1
AAATCTGCAAAATTTTAATTTTGCGTAGTGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3737 GenBank   WP_015065542
Name   traI_F0A14_RS29530_pPSKoxy4_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   3731 GenBank   WP_015065541
Name   traD_F0A14_RS29525_pPSKoxy4_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: 90744..119711

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
F0A14_RS29310 (F0A14_029305) 86763..87119 + 357 WP_019706019 hypothetical protein -
F0A14_RS29315 (F0A14_029310) 87180..87392 + 213 WP_019706020 hypothetical protein -
F0A14_RS29320 (F0A14_029315) 87403..87627 + 225 WP_014343499 hypothetical protein -
F0A14_RS29325 (F0A14_029320) 87708..88028 + 321 WP_015065521 type II toxin-antitoxin system RelE/ParE family toxin -
F0A14_RS29330 (F0A14_029325) 88018..88296 + 279 WP_020801586 helix-turn-helix transcriptional regulator -
F0A14_RS29335 (F0A14_029330) 88297..88698 + 402 WP_015065522 helix-turn-helix domain-containing protein -
F0A14_RS29340 (F0A14_029335) 89527..90349 + 823 Protein_117 DUF932 domain-containing protein -
F0A14_RS29345 (F0A14_029340) 90382..90711 + 330 WP_015065524 DUF5983 family protein -
F0A14_RS29350 (F0A14_029345) 90744..91229 - 486 WP_015065525 transglycosylase SLT domain-containing protein virB1
F0A14_RS29355 (F0A14_029350) 91620..92036 + 417 WP_072145360 conjugal transfer relaxosome DNA-binding protein TraM -
F0A14_RS29360 (F0A14_029355) 92236..92955 + 720 WP_015065526 hypothetical protein -
F0A14_RS29365 (F0A14_029360) 93088..93291 + 204 WP_171486139 TraY domain-containing protein -
F0A14_RS29370 (F0A14_029365) 93356..93724 + 369 WP_004194426 type IV conjugative transfer system pilin TraA -
F0A14_RS29375 (F0A14_029370) 93738..94043 + 306 WP_004144424 type IV conjugative transfer system protein TraL traL
F0A14_RS29380 (F0A14_029375) 94063..94629 + 567 WP_004144423 type IV conjugative transfer system protein TraE traE
F0A14_RS29385 (F0A14_029380) 94616..95356 + 741 WP_015065528 type-F conjugative transfer system secretin TraK traK
F0A14_RS29390 (F0A14_029385) 95356..96780 + 1425 WP_004194260 F-type conjugal transfer pilus assembly protein TraB traB
F0A14_RS29395 (F0A14_029390) 96894..97478 + 585 WP_015065529 type IV conjugative transfer system lipoprotein TraV traV
F0A14_RS29400 (F0A14_029395) 97610..98020 + 411 WP_032329942 hypothetical protein -
F0A14_RS29405 (F0A14_029400) 98126..98344 + 219 WP_004152501 hypothetical protein -
F0A14_RS29410 (F0A14_029405) 98345..98656 + 312 WP_004152502 hypothetical protein -
F0A14_RS29415 (F0A14_029410) 98723..99127 + 405 WP_004152503 hypothetical protein -
F0A14_RS29420 (F0A14_029415) 99319..99561 + 243 WP_004158946 hypothetical protein -
F0A14_RS29425 (F0A14_029420) 99569..99967 + 399 WP_011977783 hypothetical protein -
F0A14_RS29430 (F0A14_029425) 100039..102678 + 2640 WP_004152505 type IV secretion system protein TraC virb4
F0A14_RS29435 (F0A14_029430) 102678..103067 + 390 WP_004152506 type-F conjugative transfer system protein TrbI -
F0A14_RS29440 (F0A14_029435) 103067..103693 + 627 WP_009309871 type-F conjugative transfer system protein TraW traW
F0A14_RS29445 (F0A14_029440) 103735..104124 + 390 WP_015065532 hypothetical protein -
F0A14_RS29450 (F0A14_029445) 104121..105110 + 990 WP_011977785 conjugal transfer pilus assembly protein TraU traU
F0A14_RS29455 (F0A14_029450) 105123..105761 + 639 WP_015065635 type-F conjugative transfer system pilin assembly protein TrbC trbC
F0A14_RS29460 (F0A14_029455) 105820..107775 + 1956 WP_030003482 type-F conjugative transfer system mating-pair stabilization protein TraN traN
F0A14_RS29465 (F0A14_029460) 107807..108061 + 255 WP_004152674 conjugal transfer protein TrbE -
F0A14_RS29470 (F0A14_029465) 108039..108287 + 249 WP_004152675 hypothetical protein -
F0A14_RS29475 (F0A14_029470) 108300..108626 + 327 WP_004144402 hypothetical protein -
F0A14_RS29480 (F0A14_029475) 108647..109399 + 753 WP_020803149 type-F conjugative transfer system pilin assembly protein TraF traF
F0A14_RS29485 (F0A14_029480) 109410..109649 + 240 WP_004152687 type-F conjugative transfer system pilin chaperone TraQ -
F0A14_RS29490 (F0A14_029485) 109621..110193 + 573 WP_023292147 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
F0A14_RS29495 (F0A14_029490) 110186..110614 + 429 WP_015065560 hypothetical protein -
F0A14_RS29500 (F0A14_029495) 110601..111971 + 1371 WP_004159274 conjugal transfer pilus assembly protein TraH traH
F0A14_RS29505 (F0A14_029500) 111971..114814 + 2844 WP_015065537 conjugal transfer mating-pair stabilization protein TraG traG
F0A14_RS29510 (F0A14_029505) 114825..115349 + 525 WP_015065538 hypothetical protein -
F0A14_RS29515 (F0A14_029510) 115658..116389 + 732 WP_032329926 conjugal transfer complement resistance protein TraT -
F0A14_RS29520 (F0A14_029515) 116581..117270 + 690 WP_015065540 hypothetical protein -
F0A14_RS29525 (F0A14_029520) 117399..119711 + 2313 WP_015065541 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   5923 GenBank   NZ_CP113905
Plasmid name   pPSKoxy4_1 Incompatibility group   IncFII
Plasmid size   130876 bp Coordinate of oriT [Strand]   91302..91351 [-]
Host baterium   Klebsiella michiganensis strain PS_Koxy4

Cargo genes

Drug resistance gene   qnrB1, aac(6')-Ib-cr, blaOXA-1, aac(3)-IIa, dfrA14, blaCTX-M-15, blaTEM-1B, aph(6)-Id, aph(3'')-Ib, sul2
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIE9