Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   117340
Name   oriT_pG4584_136.4Kb in_silico
Organism   Klebsiella quasipneumoniae strain G4584
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP034131 (97338..97387 [-], 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_pG4584_136.4Kb
AAATCTGCAAAATTTTAATTTTGCGTAGTGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   11049 GenBank   WP_015065542
Name   traI_BME54_RS29790_pG4584_136.4Kb 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   12902 GenBank   WP_015065541
Name   traD_BME54_RS29785_pG4584_136.4Kb 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: 96780..125747

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
BME54_RS29560 (BME54_29560) 92799..93155 + 357 WP_019706019 hypothetical protein -
BME54_RS29565 (BME54_29565) 93216..93428 + 213 WP_019706020 hypothetical protein -
BME54_RS29570 (BME54_29570) 93439..93663 + 225 WP_014343499 hypothetical protein -
BME54_RS29575 (BME54_29575) 93744..94064 + 321 WP_015065521 type II toxin-antitoxin system RelE/ParE family toxin -
BME54_RS29580 (BME54_29580) 94054..94332 + 279 WP_020801586 helix-turn-helix transcriptional regulator -
BME54_RS29585 (BME54_29585) 94333..94734 + 402 WP_015065522 type II toxin-antitoxin system HigA family antitoxin -
BME54_RS29600 (BME54_29600) 95563..96385 + 823 Protein_123 DUF932 domain-containing protein -
BME54_RS29605 (BME54_29605) 96418..96747 + 330 WP_015065524 DUF5983 family protein -
BME54_RS29610 (BME54_29610) 96780..97265 - 486 WP_015065525 transglycosylase SLT domain-containing protein virB1
BME54_RS29615 (BME54_29615) 97656..98072 + 417 WP_072145360 conjugal transfer relaxosome DNA-binding protein TraM -
BME54_RS29620 (BME54_29620) 98272..98991 + 720 WP_015065526 hypothetical protein -
BME54_RS29625 (BME54_29625) 99124..99327 + 204 WP_171486139 TraY domain-containing protein -
BME54_RS29630 (BME54_29630) 99392..99760 + 369 WP_004194426 type IV conjugative transfer system pilin TraA -
BME54_RS29635 (BME54_29635) 99774..100079 + 306 WP_004144424 type IV conjugative transfer system protein TraL traL
BME54_RS29640 (BME54_29640) 100099..100665 + 567 WP_004144423 type IV conjugative transfer system protein TraE traE
BME54_RS29645 (BME54_29645) 100652..101392 + 741 WP_015065528 type-F conjugative transfer system secretin TraK traK
BME54_RS29650 (BME54_29650) 101392..102816 + 1425 WP_004194260 F-type conjugal transfer pilus assembly protein TraB traB
BME54_RS29655 (BME54_29655) 102930..103514 + 585 WP_015065529 type IV conjugative transfer system lipoprotein TraV traV
BME54_RS29660 (BME54_29660) 103646..104056 + 411 WP_032329942 hypothetical protein -
BME54_RS29665 (BME54_29665) 104162..104380 + 219 WP_004152501 hypothetical protein -
BME54_RS29670 (BME54_29670) 104381..104692 + 312 WP_004152502 hypothetical protein -
BME54_RS29675 (BME54_29675) 104759..105163 + 405 WP_004152503 hypothetical protein -
BME54_RS31990 105355..105597 + 243 WP_004158946 hypothetical protein -
BME54_RS29685 (BME54_29685) 105605..106003 + 399 WP_011977783 hypothetical protein -
BME54_RS29690 (BME54_29690) 106075..108714 + 2640 WP_004152505 type IV secretion system protein TraC virb4
BME54_RS29695 (BME54_29695) 108714..109103 + 390 WP_004152506 type-F conjugative transfer system protein TrbI -
BME54_RS29700 (BME54_29700) 109103..109729 + 627 WP_009309871 type-F conjugative transfer system protein TraW traW
BME54_RS29705 (BME54_29705) 109771..110160 + 390 WP_015065532 hypothetical protein -
BME54_RS29710 (BME54_29710) 110157..111146 + 990 WP_011977785 conjugal transfer pilus assembly protein TraU traU
BME54_RS29715 (BME54_29715) 111159..111797 + 639 WP_015065635 type-F conjugative transfer system pilin assembly protein TrbC trbC
BME54_RS29720 (BME54_29720) 111856..113811 + 1956 WP_030003482 type-F conjugative transfer system mating-pair stabilization protein TraN traN
BME54_RS29725 (BME54_29725) 113843..114097 + 255 WP_004152674 conjugal transfer protein TrbE -
BME54_RS29730 (BME54_29730) 114075..114323 + 249 WP_004152675 hypothetical protein -
BME54_RS29735 (BME54_29735) 114336..114662 + 327 WP_004144402 hypothetical protein -
BME54_RS29740 (BME54_29740) 114683..115435 + 753 WP_020803149 type-F conjugative transfer system pilin assembly protein TraF traF
BME54_RS29745 (BME54_29745) 115446..115685 + 240 WP_004152687 type-F conjugative transfer system pilin chaperone TraQ -
BME54_RS29750 (BME54_29750) 115657..116229 + 573 WP_023292147 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
BME54_RS29755 (BME54_29755) 116222..116650 + 429 WP_015065560 hypothetical protein -
BME54_RS29760 (BME54_29760) 116637..118007 + 1371 WP_004159274 conjugal transfer pilus assembly protein TraH traH
BME54_RS29765 (BME54_29765) 118007..120850 + 2844 WP_015065537 conjugal transfer mating-pair stabilization protein TraG traG
BME54_RS29770 (BME54_29770) 120861..121385 + 525 WP_015065538 hypothetical protein -
BME54_RS29775 (BME54_29775) 121694..122425 + 732 WP_032329926 conjugal transfer complement resistance protein TraT -
BME54_RS31505 122617..123306 + 690 WP_015065540 hypothetical protein -
BME54_RS29785 (BME54_29785) 123435..125747 + 2313 WP_015065541 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   17773 GenBank   NZ_CP034131
Plasmid name   pG4584_136.4Kb Incompatibility group   IncFII
Plasmid size   136368 bp Coordinate of oriT [Strand]   97338..97387 [-]
Host baterium   Klebsiella quasipneumoniae strain G4584

Cargo genes

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