Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   109741
Name   oriT_145|P1 in_silico
Organism   Klebsiella oxytoca isolate 145
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_OW967375 (230172..230221 [+], 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_145|P1
AAATCTGCAAAATTTTAATTTTGCGTAGTGTGTGGTCATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   6448 GenBank   WP_015065542
Name   traI_LQ212_RS29375_145|P1 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   7074 GenBank   WP_015065541
Name   traD_LQ212_RS29380_145|P1 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: 200765..230779

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
LQ212_RS29380 (AI2623V1_5722) 200765..203077 - 2313 WP_015065541 type IV conjugative transfer system coupling protein TraD virb4
LQ212_RS29385 (AI2623V1_5723) 203206..203895 - 690 WP_015065540 hypothetical protein -
LQ212_RS29390 (AI2623V1_5724) 204087..204818 - 732 WP_032329926 conjugal transfer complement resistance protein TraT -
LQ212_RS29395 (AI2623V1_5725) 205127..205651 - 525 WP_015065538 hypothetical protein -
LQ212_RS29400 (AI2623V1_5726) 205662..208505 - 2844 WP_023157999 conjugal transfer mating-pair stabilization protein TraG traG
LQ212_RS29405 (AI2623V1_5727) 208505..209884 - 1380 WP_023158000 conjugal transfer pilus assembly protein TraH traH
LQ212_RS29410 (AI2623V1_5728) 209862..210305 - 444 WP_023158001 F-type conjugal transfer protein TrbF -
LQ212_RS29415 (AI2623V1_5729) 210351..210908 - 558 WP_023158002 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
LQ212_RS29420 (AI2623V1_5730) 210880..211119 - 240 WP_023158003 type-F conjugative transfer system pilin chaperone TraQ -
LQ212_RS29425 (AI2623V1_5731) 211130..211882 - 753 WP_015065535 type-F conjugative transfer system pilin assembly protein TraF traF
LQ212_RS29430 (AI2623V1_5732) 211903..212229 - 327 WP_015065534 hypothetical protein -
LQ212_RS29435 (AI2623V1_5733) 212242..212490 - 249 WP_004152675 hypothetical protein -
LQ212_RS29440 (AI2623V1_5734) 212468..212722 - 255 WP_015065558 conjugal transfer protein TrbE -
LQ212_RS29445 (AI2623V1_5735) 212754..214709 - 1956 WP_015065533 type-F conjugative transfer system mating-pair stabilization protein TraN traN
LQ212_RS29450 (AI2623V1_5736) 214768..215415 - 648 WP_015632510 type-F conjugative transfer system pilin assembly protein TrbC trbC
LQ212_RS29455 (AI2623V1_5737) 215494..215670 - 177 WP_162866177 hypothetical protein -
LQ212_RS29460 (AI2623V1_5738) 215691..216680 - 990 WP_015632509 conjugal transfer pilus assembly protein TraU traU
LQ212_RS29465 (AI2623V1_5739) 216677..217078 - 402 WP_023158005 hypothetical protein -
LQ212_RS29470 (AI2623V1_5740) 217113..217748 - 636 WP_023158006 type-F conjugative transfer system protein TraW traW
LQ212_RS29475 (AI2623V1_5741) 217748..218137 - 390 WP_004167468 type-F conjugative transfer system protein TrbI -
LQ212_RS29480 (AI2623V1_5742) 218137..220776 - 2640 WP_023158007 type IV secretion system protein TraC virb4
LQ212_RS29485 (AI2623V1_5743) 220848..221246 - 399 WP_023158008 hypothetical protein -
LQ212_RS29490 (AI2623V1_5744) 221254..221643 - 390 WP_023158009 hypothetical protein -
LQ212_RS29495 (AI2623V1_5745) 221686..222090 - 405 WP_016831042 hypothetical protein -
LQ212_RS29500 (AI2623V1_5746) 222157..222468 - 312 WP_014386200 hypothetical protein -
LQ212_RS29505 (AI2623V1_5747) 222469..222687 - 219 WP_014386199 hypothetical protein -
LQ212_RS29510 (AI2623V1_5748) 222711..223000 - 290 Protein_238 hypothetical protein -
LQ212_RS29515 223005..223415 - 411 WP_016831039 hypothetical protein -
LQ212_RS29520 (AI2623V1_5749) 223547..224131 - 585 WP_014386196 type IV conjugative transfer system lipoprotein TraV traV
LQ212_RS29525 224154..224750 - 597 Protein_241 conjugal transfer pilus-stabilizing protein TraP -
LQ212_RS29530 (AI2623V1_5751) 224743..226167 - 1425 WP_023158013 F-type conjugal transfer pilus assembly protein TraB traB
LQ212_RS29535 (AI2623V1_5752) 226167..226907 - 741 WP_014386193 type-F conjugative transfer system secretin TraK traK
LQ212_RS29540 (AI2623V1_5753) 226894..227460 - 567 WP_016831035 type IV conjugative transfer system protein TraE traE
LQ212_RS29545 (AI2623V1_5754) 227480..227785 - 306 WP_004144424 type IV conjugative transfer system protein TraL traL
LQ212_RS29550 (AI2623V1_5755) 227799..228167 - 369 WP_004194426 type IV conjugative transfer system pilin TraA -
LQ212_RS29555 228229..228435 - 207 WP_171773970 TraY domain-containing protein -
LQ212_RS29560 (AI2623V1_5756) 228568..229287 - 720 WP_016831034 conjugal transfer protein TrbJ -
LQ212_RS29565 (AI2623V1_5757) 229487..229903 - 417 WP_072145360 conjugal transfer relaxosome DNA-binding protein TraM -
LQ212_RS29570 (AI2623V1_5758) 230294..230779 + 486 WP_004178063 transglycosylase SLT domain-containing protein virB1
LQ212_RS29575 230812..231141 - 330 WP_011977736 DUF5983 family protein -
LQ212_RS29580 (AI2623V1_5759) 231174..231995 - 822 WP_004182076 DUF932 domain-containing protein -
LQ212_RS29585 (AI2623V1_5760) 232823..233386 - 564 WP_004182054 methyltransferase -
LQ212_RS29590 (AI2623V1_5761) 233434..234789 - 1356 WP_004182052 DUF3560 domain-containing protein -
LQ212_RS29595 (AI2623V1_5762) 234841..235071 - 231 WP_001568051 hypothetical protein -
LQ212_RS29600 (AI2623V1_5763) 235163..235390 - 228 WP_004182050 hypothetical protein -

Host bacterium

ID   10176 GenBank   NZ_OW967375
Plasmid name   145|P1 Incompatibility group   IncFIB
Plasmid size   253358 bp Coordinate of oriT [Strand]   230172..230221 [+]
Host baterium   Klebsiella oxytoca isolate 145

Cargo genes

Drug resistance gene   sul2, aph(3'')-Ib, aph(6)-Id, blaTEM-1B, blaCTX-M-15, dfrA14, qnrB1, tet(A), aac(6')-Ib-cr, blaOXA-1, aac(3)-IIa
Virulence gene   -
Metal resistance gene   silE, silS, silR, silC, silF, silB, silA, silP, pcoA, pcoB, pcoC, pcoD, pcoR, pcoS, pcoE, arsH, arsC, arsB, arsA, arsD, arsR, fecD, fecE
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -