Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   106451
Name   oriT_pESBL-PH-58 in_silico
Organism   Klebsiella pneumoniae strain UHD-58_PH
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP121142 (49899..49948 [+], 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_pESBL-PH-58
AAATCTGCAAAATTTTAATTTTGCGTAGTGTGTGGTCATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   4300 GenBank   WP_015065542
Name   traI_P8T47_RS25865_pESBL-PH-58 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   4329 GenBank   WP_015065541
Name   traD_P8T47_RS25870_pESBL-PH-58 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: 20492..50506

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
P8T47_RS25870 (P8T47_25870) 20492..22804 - 2313 WP_015065541 type IV conjugative transfer system coupling protein TraD virb4
P8T47_RS25875 (P8T47_25875) 22933..23622 - 690 WP_015065540 hypothetical protein -
P8T47_RS25880 (P8T47_25880) 23814..24545 - 732 WP_032329926 conjugal transfer complement resistance protein TraT -
P8T47_RS25885 (P8T47_25885) 24854..25378 - 525 WP_015065538 hypothetical protein -
P8T47_RS25890 (P8T47_25890) 25389..28232 - 2844 WP_023157999 conjugal transfer mating-pair stabilization protein TraG traG
P8T47_RS25895 (P8T47_25895) 28232..29611 - 1380 WP_023158000 conjugal transfer pilus assembly protein TraH traH
P8T47_RS25900 (P8T47_25900) 29589..30032 - 444 WP_023158001 F-type conjugal transfer protein TrbF -
P8T47_RS25905 (P8T47_25905) 30078..30635 - 558 WP_023158002 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
P8T47_RS25910 (P8T47_25910) 30607..30846 - 240 WP_023158003 type-F conjugative transfer system pilin chaperone TraQ -
P8T47_RS25915 (P8T47_25915) 30857..31609 - 753 WP_015065535 type-F conjugative transfer system pilin assembly protein TraF traF
P8T47_RS25920 (P8T47_25920) 31630..31956 - 327 WP_015065534 hypothetical protein -
P8T47_RS25925 (P8T47_25925) 31969..32217 - 249 WP_004152675 hypothetical protein -
P8T47_RS25930 (P8T47_25930) 32195..32449 - 255 WP_015065558 conjugal transfer protein TrbE -
P8T47_RS25935 (P8T47_25935) 32481..34436 - 1956 WP_015065533 type-F conjugative transfer system mating-pair stabilization protein TraN traN
P8T47_RS25940 (P8T47_25940) 34495..35142 - 648 WP_015632510 type-F conjugative transfer system pilin assembly protein TrbC trbC
P8T47_RS25945 (P8T47_25945) 35221..35397 - 177 WP_162866177 hypothetical protein -
P8T47_RS25950 (P8T47_25950) 35418..36407 - 990 WP_015632509 conjugal transfer pilus assembly protein TraU traU
P8T47_RS25955 (P8T47_25955) 36404..36805 - 402 WP_023158005 hypothetical protein -
P8T47_RS25960 (P8T47_25960) 36840..37475 - 636 WP_023158006 type-F conjugative transfer system protein TraW traW
P8T47_RS25965 (P8T47_25965) 37475..37864 - 390 WP_004167468 type-F conjugative transfer system protein TrbI -
P8T47_RS25970 (P8T47_25970) 37864..40503 - 2640 WP_023158007 type IV secretion system protein TraC virb4
P8T47_RS25975 (P8T47_25975) 40575..40973 - 399 WP_023158008 hypothetical protein -
P8T47_RS25980 (P8T47_25980) 40981..41370 - 390 WP_023158009 hypothetical protein -
P8T47_RS25985 (P8T47_25985) 41413..41817 - 405 WP_016831042 hypothetical protein -
P8T47_RS25990 (P8T47_25990) 41884..42195 - 312 WP_014386200 hypothetical protein -
P8T47_RS25995 (P8T47_25995) 42196..42414 - 219 WP_014386199 hypothetical protein -
P8T47_RS26000 (P8T47_26000) 42438..42727 - 290 Protein_47 hypothetical protein -
P8T47_RS26005 (P8T47_26005) 42732..43142 - 411 WP_016831039 hypothetical protein -
P8T47_RS26010 (P8T47_26010) 43274..43858 - 585 WP_014386196 type IV conjugative transfer system lipoprotein TraV traV
P8T47_RS26015 (P8T47_26015) 43881..44477 - 597 Protein_50 conjugal transfer pilus-stabilizing protein TraP -
P8T47_RS26020 (P8T47_26020) 44470..45894 - 1425 WP_023158013 F-type conjugal transfer pilus assembly protein TraB traB
P8T47_RS26025 (P8T47_26025) 45894..46634 - 741 WP_014386193 type-F conjugative transfer system secretin TraK traK
P8T47_RS26030 (P8T47_26030) 46621..47187 - 567 WP_016831035 type IV conjugative transfer system protein TraE traE
P8T47_RS26035 (P8T47_26035) 47207..47512 - 306 WP_004144424 type IV conjugative transfer system protein TraL traL
P8T47_RS26040 (P8T47_26040) 47526..47894 - 369 WP_004194426 type IV conjugative transfer system pilin TraA -
P8T47_RS26045 (P8T47_26045) 47956..48162 - 207 WP_171773970 TraY domain-containing protein -
P8T47_RS26050 (P8T47_26050) 48295..49014 - 720 WP_016831034 conjugal transfer protein TrbJ -
P8T47_RS26055 (P8T47_26055) 49214..49630 - 417 WP_278030427 conjugal transfer relaxosome DNA-binding protein TraM -
P8T47_RS26060 (P8T47_26060) 50021..50506 + 486 WP_004178063 transglycosylase SLT domain-containing protein virB1
P8T47_RS26065 (P8T47_26065) 50539..50868 - 330 WP_011977736 DUF5983 family protein -
P8T47_RS26070 (P8T47_26070) 50901..51722 - 822 WP_004182076 DUF932 domain-containing protein -
P8T47_RS26075 (P8T47_26075) 52550..53113 - 564 WP_004182054 methyltransferase -
P8T47_RS26080 (P8T47_26080) 53161..54516 - 1356 WP_004182052 DUF3560 domain-containing protein -
P8T47_RS26085 (P8T47_26085) 54568..54798 - 231 WP_001568051 hypothetical protein -
P8T47_RS26090 (P8T47_26090) 54890..55117 - 228 WP_004182050 hypothetical protein -

Host bacterium

ID   6888 GenBank   NZ_CP121142
Plasmid name   pESBL-PH-58 Incompatibility group   IncFII
Plasmid size   247179 bp Coordinate of oriT [Strand]   49899..49948 [+]
Host baterium   Klebsiella pneumoniae strain UHD-58_PH

Cargo genes

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