Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101614
Name   oriT_pIEC48020-3 in_silico
Organism   Klebsiella pneumoniae strain KP_IEC48020
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_JAQLSH010000476 (158794..158845 [+], 52 nt)
oriT length   52 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: 52 nt

>oriT_pIEC48020-3
AAATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTTATTTTTAGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1427 GenBank   WP_004153029
Name   traI_O9C21_RS28460_pIEC48020-3 insolico UniProt ID   A0A422WEA5
Length   1753 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1753 a.a.        Molecular weight: 190808.90 Da        Isoelectric Point: 6.2081

>WP_004153029.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacteriaceae]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMDERWQGKGAEALGIDGKAVDKALFTELLKGKLPDGSDLTRI
QDGANRHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVTEAVRQLETLAATRVMTDGKSETVLTGNL
IVAKFNHDTNRNQEPQIHTHAVVINATQNGDKWQSLGTDKIGKTGFIENVYANQIAFGKLYREAFKPLVE
KLGYETEVVGKHGMWEMKGVPVEPFSTRSQEVREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMN
TLKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLE
AKDGVFDLARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVP
FSDAVSVLAQDRLVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVT
GKSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTY
RWQGGQQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKD
TTITALTPVWLDSKSRGVRDYYREGMVMERWDPENRTHDRFVIDRVTASSNMLTLKDRDGVRLDLKVSAV
DSQWTLFRAETLPVAEGERLAVLGKIPDTRLKGGESITVMKVEEGQLTVQRPGQKTTQTLAVGAGVFDGI
KIGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSE
QLKSRSGETDLDAAIAQQKAGLHTPAEQAIHLAIPLLESQDLTFSRPQLLATAMETGGGKVSMADIDTTI
QAQIRSGQLLNVPVAHGYGNDLLISRQTWDAEKSILTHVLEGKDAVAPLMDRVPASLMTDLTAGQRAATR
MILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLH
DTQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIVAGGGRAVSSGDNDQLQPIAPGQPFRLMQQR
SAADVAIMKEIVRQMPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGAWAPGSSVVEFTPKQEKAIE
KALSEGKTLPEGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITL
PVLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSEGKERFISPREASAEGVTL
YRQEKITVSQGDRMRFSKSDPERGYVANSIWEVQSVSGDSVTLSDGKITRTLTPKAEQAQQHIDLAYAIT
AHGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDNREGWIKAIKNSPEKATAHDILE
PRNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGSSPGKFISPGKKYPQPHVALPAFDKNGKAAGI
WLSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDR
PWNPGAMTGGRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKKAEQTAREMAGEARKAGEP
ADRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEEAIQQVASERLQRERLQAVERDMVRDLNREKTL
GGD

  Protein domains


Predicted by InterproScan.

DNA helicase TraI (TraI_C)

(1433-1555)

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

(577-629)

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

(635-714)

AAA domain (AAA_30)

(971-1157)

TrwC relaxase (TrwC)

(10-284)


  Protein structure



No available structure.




T4CP

ID   1088 GenBank   WP_004152630
Name   traD_O9C21_RS28465_pIEC48020-3 insolico UniProt ID   _
Length   769 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 769 a.a.        Molecular weight: 85951.02 Da        Isoelectric Point: 5.0632

>WP_004152630.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTGFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSREIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKITEGFIPRRLDTRVDARLSALLEEREAEGSLARALFTPDAPASGPADTDSHAGEQPEPVSQPA
PADMTVSPAPVKAPPTTKMPAAEPSVRATEPPVLRVTTVPLIKPKAAAAAAAASTASSAGIPAAAAGGTE
QELAQQSAEQGQDMLPAGMNEDGVIEDMQAYDAWADEQTQRDMQRREEVNINHSHRHDEQDDVEIGGNF

  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: 130983..159403

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
O9C21_RS28465 (O9C21_28465) 130983..133292 - 2310 WP_004152630 type IV conjugative transfer system coupling protein TraD virb4
O9C21_RS28470 (O9C21_28470) 133652..134383 - 732 WP_004152629 conjugal transfer complement resistance protein TraT -
O9C21_RS28475 (O9C21_28475) 134573..135100 - 528 WP_004153030 hypothetical protein -
O9C21_RS28480 (O9C21_28480) 135106..137955 - 2850 WP_004178054 conjugal transfer mating-pair stabilization protein TraG traG
O9C21_RS28485 (O9C21_28485) 137955..139325 - 1371 WP_004178055 conjugal transfer pilus assembly protein TraH traH
O9C21_RS28490 (O9C21_28490) 139312..139740 - 429 WP_004152689 hypothetical protein -
O9C21_RS28495 (O9C21_28495) 139733..140305 - 573 WP_004152688 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
O9C21_RS28500 (O9C21_28500) 140277..140516 - 240 WP_004152687 type-F conjugative transfer system pilin chaperone TraQ -
O9C21_RS28505 (O9C21_28505) 140527..141279 - 753 WP_004152686 type-F conjugative transfer system pilin assembly protein TraF traF
O9C21_RS28510 (O9C21_28510) 141300..141626 - 327 WP_004152685 hypothetical protein -
O9C21_RS29970 141672..141857 - 186 WP_004152684 hypothetical protein -
O9C21_RS28515 (O9C21_28515) 141854..142090 - 237 WP_004152683 conjugal transfer protein TrbE -
O9C21_RS28520 (O9C21_28520) 142122..144077 - 1956 WP_272050850 type-F conjugative transfer system mating-pair stabilization protein TraN traN
O9C21_RS28525 (O9C21_28525) 144125..144763 - 639 WP_004152682 type-F conjugative transfer system pilin assembly protein TrbC trbC
O9C21_RS28530 (O9C21_28530) 144776..145735 - 960 WP_015065634 conjugal transfer pilus assembly protein TraU traU
O9C21_RS28535 (O9C21_28535) 145779..146405 - 627 WP_004152590 type-F conjugative transfer system protein TraW traW
O9C21_RS28540 (O9C21_28540) 146405..146794 - 390 WP_004152591 type-F conjugative transfer system protein TrbI -
O9C21_RS28545 (O9C21_28545) 146794..149433 - 2640 WP_004152592 type IV secretion system protein TraC virb4
O9C21_RS28550 (O9C21_28550) 149505..149903 - 399 WP_004153071 hypothetical protein -
O9C21_RS28555 (O9C21_28555) 150199..150603 - 405 WP_004152594 hypothetical protein -
O9C21_RS28560 (O9C21_28560) 150670..150987 - 318 WP_004152595 hypothetical protein -
O9C21_RS28565 (O9C21_28565) 150988..151206 - 219 WP_004171484 hypothetical protein -
O9C21_RS28570 (O9C21_28570) 151230..151520 - 291 WP_004152596 hypothetical protein -
O9C21_RS28575 (O9C21_28575) 151525..151935 - 411 WP_004152597 lipase chaperone -
O9C21_RS28580 (O9C21_28580) 152067..152636 - 570 WP_004152598 type IV conjugative transfer system lipoprotein TraV traV
O9C21_RS28585 (O9C21_28585) 152659..153255 - 597 WP_004152599 conjugal transfer pilus-stabilizing protein TraP -
O9C21_RS28590 (O9C21_28590) 153248..154672 - 1425 WP_004152600 F-type conjugal transfer pilus assembly protein TraB traB
O9C21_RS28595 (O9C21_28595) 154672..155412 - 741 WP_004152601 type-F conjugative transfer system secretin TraK traK
O9C21_RS28600 (O9C21_28600) 155399..155965 - 567 WP_004152602 type IV conjugative transfer system protein TraE traE
O9C21_RS28605 (O9C21_28605) 155985..156290 - 306 WP_004178059 type IV conjugative transfer system protein TraL traL
O9C21_RS28610 (O9C21_28610) 156304..156672 - 369 WP_004178060 type IV conjugative transfer system pilin TraA -
O9C21_RS28615 (O9C21_28615) 156726..157097 - 372 WP_004208838 TraY domain-containing protein -
O9C21_RS28620 (O9C21_28620) 157181..157876 - 696 WP_272050831 transcriptional regulator TraJ family protein -
O9C21_RS28625 (O9C21_28625) 158090..158482 - 393 WP_004178062 conjugal transfer relaxosome DNA-binding protein TraM -
O9C21_RS28630 (O9C21_28630) 158918..159403 + 486 WP_004178063 transglycosylase SLT domain-containing protein virB1
O9C21_RS28635 (O9C21_28635) 159436..159765 - 330 WP_011977736 DUF5983 family protein -
O9C21_RS28640 (O9C21_28640) 159798..160619 - 822 WP_004178064 DUF932 domain-containing protein -
O9C21_RS28645 (O9C21_28645) 161453..161866 - 414 WP_004152722 helix-turn-helix domain-containing protein -
O9C21_RS28650 (O9C21_28650) 161867..162145 - 279 WP_004152721 helix-turn-helix transcriptional regulator -
O9C21_RS28655 (O9C21_28655) 162135..162455 - 321 WP_004152720 type II toxin-antitoxin system RelE/ParE family toxin -
O9C21_RS28660 (O9C21_28660) 162536..162760 - 225 WP_004152719 hypothetical protein -
O9C21_RS28665 (O9C21_28665) 162771..162983 - 213 WP_004152718 hypothetical protein -
O9C21_RS28670 (O9C21_28670) 163044..163400 - 357 WP_004152717 hypothetical protein -
O9C21_RS28675 (O9C21_28675) 164036..164386 - 351 WP_004152758 hypothetical protein -

Host bacterium

ID   2058 GenBank   NZ_JAQLSH010000476
Plasmid name   pIEC48020-3 Incompatibility group   IncFIB
Plasmid size   187649 bp Coordinate of oriT [Strand]   158794..158845 [+]
Host baterium   Klebsiella pneumoniae strain KP_IEC48020

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   silE, silS, silR, silC, silF, silB, silA, silP, arsC, arsB, arsA, arsD, arsR
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIE9