Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   105443
Name   oriT_pfekpn2511-1 in_silico
Organism   Klebsiella pneumoniae strain fekpn2511
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP068973 (72349..72398 [+], 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_pfekpn2511-1
AAATCTGCAAAATTTTAATTTTGCGTAGTGTGTGGTCATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3710 GenBank   WP_032448280
Name   traI_JN237_RS25505_pfekpn2511-1 insolico UniProt ID   _
Length   1752 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1752 a.a.        Molecular weight: 190581.22 Da        Isoelectric Point: 5.9995

>WP_032448280.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacteriaceae]
MLSFSQVKSAGSAGNYYTEKDNYYVIGSMEERWQGKGAELLGLEGKVDKQVFTELLQGKLPDGSDLTRIQ
DGVNKHRPGYDLTFSAPKSVSMLAMLGGDKRLIDAHNRAVTVALNQVESLASTRVKKDGVSETVLTGNLI
IARFNHDTSRAQDPQIHTHSVVINATQNGDKWLTLASDTVGKTGFSETILANRIAFGKIYQNSLRADVES
MGYKTVDAGRNGMWEMEGVPVESFSTRSQELREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMNT
LKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLEA
KDGVFELARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVPF
SDAVSVLAQDRPVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVTG
KSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTYR
WQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKDT
TITALTPVWLDSKSRGVRDYYREGMVMERWDPETRTHDRFVIDRVTASSNMLTLKDREGDRLDLKVSAVD
SQWTLFRADTLPVAEGERLAVLGKIPDTRLKGGESVTVMKVEDGQLTVQRPGQKTTQTLAVGAGVFDGIK
VGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSEQ
LKSRSGETDLDAAIAQQKAGLHTPAEQAIHLAIPLLESQDLTFSRPQLLATAMETGGGKVSMADIDTTIQ
AQIRSGQLLNVPVAHGYGNDLLISRQTWDAEKSILTHVLEGKDAVAPLMDRVPASLMTDLTAGQRAATRM
ILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLHD
TQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIAAGGGRAVPSGDTDQLPPIASGQPFRLTQQRS
AADVAIMKEIVRQVPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGAWAPGSSVVEFTQKQEKEIEK
ALSEGKTLPEGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITLP
VLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSEGKERFISPREASAEGVTLY
RQEKITVSQGDRMRFSKSDPERGYVANSIWEVQSVSGDSVTLSDGKITRTLTPKAEQAQQHIDLAYAITA
HGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDNREGWIKAIKNSPEKATAHDILEP
RNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGSSPGKFISPGKKYPQPHVALPAFDKNGKAAGIW
LSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDRP
WNPGAMTGGRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEPA
DRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEEAIQQVASERLQRERLQAVERDMVRDLNREKTLG
GD

  Protein domains


Predicted by InterproScan.

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

(576-628)

TrwC relaxase (TrwC)

(11-283)

AAA domain (AAA_30)

(970-1156)

DNA relaxase TraI 2B/2B-like domain (TraI_2B)

(634-713)

DNA helicase TraI (TraI_C)

(1432-1554)


  Protein structure



No available structure.




T4CP

ID   3698 GenBank   WP_013214038
Name   traD_JN237_RS25510_pfekpn2511-1 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: 86010.07 Da        Isoelectric Point: 5.1787

>WP_013214038.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacterales]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTSFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDAPASGPADTNSHAGEQPEPVSQPA
PADMTVSPEPVKAPPTIKRPAAEPSVRTTEPSVLRVTTVPLIKPKAAAAAAAASTASSSGAPATAAGGTQ
QELAQQSAEQGQDMLPAGMNEDGVIEDMQAYDAWLADEQTQRDMQRREEVNINHSHRHDEQDDVEIGGNF

  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: 42977..72956

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
JN237_RS25510 (JN237_25510) 42977..45289 - 2313 WP_013214038 type IV conjugative transfer system coupling protein TraD virb4
JN237_RS25515 (JN237_25515) 45416..46105 - 690 WP_014343485 hypothetical protein -
JN237_RS25520 (JN237_25520) 46298..47029 - 732 WP_013214036 conjugal transfer complement resistance protein TraT -
JN237_RS25525 (JN237_25525) 47281..47883 - 603 WP_013214035 conjugal transfer protein TraS -
JN237_RS25530 (JN237_25530) 47906..50728 - 2823 WP_013214034 conjugal transfer mating-pair stabilization protein TraG traG
JN237_RS25535 (JN237_25535) 50728..52107 - 1380 WP_074160414 conjugal transfer pilus assembly protein TraH traH
JN237_RS25540 (JN237_25540) 52085..52528 - 444 WP_013214032 F-type conjugal transfer protein TrbF -
JN237_RS25545 (JN237_25545) 52574..53131 - 558 WP_013214031 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
JN237_RS25550 (JN237_25550) 53103..53342 - 240 WP_004144400 type-F conjugative transfer system pilin chaperone TraQ -
JN237_RS25555 (JN237_25555) 53353..54105 - 753 WP_004152677 type-F conjugative transfer system pilin assembly protein TraF traF
JN237_RS25560 (JN237_25560) 54126..54452 - 327 WP_013214030 hypothetical protein -
JN237_RS25565 (JN237_25565) 54465..54713 - 249 WP_013214029 hypothetical protein -
JN237_RS25570 (JN237_25570) 54691..54945 - 255 WP_004152674 conjugal transfer protein TrbE -
JN237_RS25575 (JN237_25575) 54977..56932 - 1956 WP_032448279 type-F conjugative transfer system mating-pair stabilization protein TraN traN
JN237_RS25580 (JN237_25580) 56991..57638 - 648 WP_015632510 type-F conjugative transfer system pilin assembly protein TrbC trbC
JN237_RS25585 (JN237_25585) 57914..58903 - 990 WP_032439620 conjugal transfer pilus assembly protein TraU traU
JN237_RS25590 (JN237_25590) 58900..59301 - 402 WP_016831047 hypothetical protein -
JN237_RS25595 (JN237_25595) 59336..59971 - 636 WP_020325113 type-F conjugative transfer system protein TraW traW
JN237_RS25600 (JN237_25600) 59971..60360 - 390 WP_004167468 type-F conjugative transfer system protein TrbI -
JN237_RS25605 (JN237_25605) 60360..62999 - 2640 WP_032448278 type IV secretion system protein TraC virb4
JN237_RS25610 (JN237_25610) 63071..63469 - 399 WP_023158008 hypothetical protein -
JN237_RS25615 (JN237_25615) 63477..63866 - 390 WP_065799586 hypothetical protein -
JN237_RS25620 (JN237_25620) 63909..64313 - 405 WP_016831042 hypothetical protein -
JN237_RS25625 (JN237_25625) 64380..64692 - 313 Protein_65 hypothetical protein -
JN237_RS25630 (JN237_25630) 64693..64911 - 219 WP_014386199 hypothetical protein -
JN237_RS25635 (JN237_25635) 64871..65185 - 315 WP_032448277 hypothetical protein -
JN237_RS25640 (JN237_25640) 65190..65600 - 411 WP_014386197 hypothetical protein -
JN237_RS25645 (JN237_25645) 65731..66315 - 585 WP_014386196 type IV conjugative transfer system lipoprotein TraV traV
JN237_RS25650 (JN237_25650) 66362..66934 - 573 WP_014386195 conjugal transfer pilus-stabilizing protein TraP -
JN237_RS25655 (JN237_25655) 66927..68351 - 1425 WP_014386194 F-type conjugal transfer pilus assembly protein TraB traB
JN237_RS25660 (JN237_25660) 68351..69091 - 741 WP_014386193 type-F conjugative transfer system secretin TraK traK
JN237_RS25665 (JN237_25665) 69078..69644 - 567 WP_004152602 type IV conjugative transfer system protein TraE traE
JN237_RS25670 (JN237_25670) 69664..69969 - 306 WP_004144424 type IV conjugative transfer system protein TraL traL
JN237_RS25675 (JN237_25675) 69983..70351 - 369 WP_004194426 type IV conjugative transfer system pilin TraA -
JN237_RS25680 (JN237_25680) 70413..70619 - 207 WP_171773970 TraY domain-containing protein -
JN237_RS25685 (JN237_25685) 70752..71471 - 720 WP_014386192 conjugal transfer protein -
JN237_RS25690 (JN237_25690) 71664..72080 - 417 WP_072145360 conjugal transfer relaxosome DNA-binding protein TraM -
JN237_RS25695 (JN237_25695) 72471..72956 + 486 WP_004178063 transglycosylase SLT domain-containing protein virB1
JN237_RS25700 (JN237_25700) 72989..73318 - 330 WP_014386191 DUF5983 family protein -
JN237_RS25705 (JN237_25705) 73351..74172 - 822 WP_004182076 DUF932 domain-containing protein -
JN237_RS25710 (JN237_25710) 75005..75418 - 414 WP_013023817 helix-turn-helix domain-containing protein -
JN237_RS25715 (JN237_25715) 75419..75697 - 279 WP_004152721 helix-turn-helix transcriptional regulator -
JN237_RS25720 (JN237_25720) 75687..76007 - 321 WP_004152720 type II toxin-antitoxin system RelE/ParE family toxin -
JN237_RS25725 (JN237_25725) 76088..76312 - 225 WP_014386189 hypothetical protein -
JN237_RS25730 (JN237_25730) 76323..76535 - 213 WP_014386188 hypothetical protein -
JN237_RS25735 (JN237_25735) 76597..76923 - 327 WP_014386187 hypothetical protein -

Host bacterium

ID   5881 GenBank   NZ_CP068973
Plasmid name   pfekpn2511-1 Incompatibility group   IncFII
Plasmid size   200198 bp Coordinate of oriT [Strand]   72349..72398 [+]
Host baterium   Klebsiella pneumoniae strain fekpn2511

Cargo genes

Drug resistance gene   blaLAP-2, qnrS1, floR, tet(A), aph(6)-Id, aph(3'')-Ib, sul2
Virulence gene   iutA, iucD, iucC, iucB, iucA
Metal resistance gene   fecE, fecD, arsC, arsB, arsA, arsD, arsR, pcoE
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -