Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   102806
Name   oriT_p35657-1 in_silico
Organism   Klebsiella pneumoniae strain ATCC 35657
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP015135 (111157..111206 [+], 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_p35657-1
AAATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTCATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2079 GenBank   WP_075395165
Name   traI_WM93_RS27375_p35657-1 insolico UniProt ID   _
Length   1753 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1753 a.a.        Molecular weight: 190466.62 Da        Isoelectric Point: 6.4600

>WP_075395165.1 conjugative transfer relaxase/helicase TraI [Klebsiella pneumoniae]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMDERWQGKGAEALGIDGKAVDKALFTELLKGKLPDGSDLTRI
QDGANKHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVTEAVRQLETLAATRAMTDGKSETVLTGNL
IVAKFNHDTNRNQEPQIHTHAVVINATQNGDKWQSLGTDKIGKTGFIENVYANQIAFGKLYREAFKPLVE
KLGYETEVVGKHGMWEMKGVPVEPFSTRSQEVREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMN
TLKETGFDIRGYREAADARAAELACAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLE
AKDGVFELARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRHNHVSVTPDASVVRQVP
FSDAVSVLAQDRPVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVT
GKSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTY
RWQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKD
TTITALTPVWLDSKSRGVRDYYREGMVMERWDPETRTHDRFVIDRVTASSNMLTLKDREGGRLDLKVSAV
DSQWTLFRAETLPVAEGERLAVLGKIPDTRLKGGESITVMKVEEGQLTVQRPGQKTTQTLAVGAGVFDGI
KIGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSE
QLKTRSGETDLDAAIAQQKAGLRTPAEQAIHLAIPLLESEKLTFSRPQLLATALETGGGKVPMADIDTTI
QTQIRSGQLLNVPVAHGYGNDLLISRQTWDAEKSILTHVLEGKGAVAPLMDRVPASLMTDLTAGQRAATR
MILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVEARTTASFLH
DTQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIVAGGGRAVSSGDNDQLQPIAPGQPFRLMQQR
SAADVAIMKEIVRQVPELRPAVYSLIERDVHRALITIEQVTPEQVPRKEGVWAPGSSVVEFTPKQEKAIE
KALSEGKTLPAGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRTLNGMIHDARRENGETGKEEITL
PVLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKANQLITLTDSDGKERYISPREASAEGVTL
YRQEKITVSQGDRMRFSKSDPERGYVANSIWEVQSVSGDSVTLSDGKLTRTLTPKADQAQQHIDLAYAIT
AHGAQGASERYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDSREGWIKAIQHSPEKATAHDILE
PRNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGNSPGKFISPGKKYPQPHVALPAFDKNGKAAGI
WLSPLTDRDGRLEAIGGEGRIMGNDAARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDR
PWNSGAMTGGRIWADPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEP
ADRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEAAIQQVASESLQRERLQAVERDMVRDLNREKTL
GGD

  Protein domains


Predicted by InterproScan.

DNA helicase TraI (TraI_C)

(1433-1555)

TrwC relaxase (TrwC)

(10-284)

AAA domain (AAA_30)

(971-1154)

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

(635-714)

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

(577-629)


  Protein structure



No available structure.




T4CP

ID   1737 GenBank   WP_065803682
Name   traD_WM93_RS27380_p35657-1 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: 85823.79 Da        Isoelectric Point: 5.0577

>WP_065803682.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Klebsiella]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFANGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTVWCGEQLWTSIVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDDDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIQRRLDTRVDARLSALLEAREAEGSLARTLFMPDAPASGPADTNSHAGEQPEPISQPA
PADMTVSPAPVKAPPTTKSPAAEPSVRATEPPVLRVTTVPLIKPKAAAAATAASTASSAGAPAAAAGGTE
QELAQQSAEQGQDMLPAGMNEDGVIEDMQAYDAWADEQTQRDMQRREEVNINHSHRHDEQDDVEIGGNF

  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: 83516..111764

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
WM93_RS27380 (WM93_26260) 83516..85825 - 2310 WP_065803682 type IV conjugative transfer system coupling protein TraD virb4
WM93_RS27385 (WM93_26265) 86187..86918 - 732 Protein_89 conjugal transfer complement resistance protein TraT -
WM93_RS27390 (WM93_26270) 87108..87635 - 528 WP_024623127 conjugal transfer protein TraS -
WM93_RS27395 (WM93_26275) 87641..90490 - 2850 WP_015065640 conjugal transfer mating-pair stabilization protein TraG traG
WM93_RS27400 (WM93_26280) 90490..91869 - 1380 WP_011977731 conjugal transfer pilus assembly protein TraH traH
WM93_RS27405 (WM93_26285) 91847..92290 - 444 WP_015065638 F-type conjugal transfer protein TrbF -
WM93_RS27410 (WM93_26290) 92335..92892 - 558 WP_004152678 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
WM93_RS27415 (WM93_26295) 92864..93103 - 240 WP_004144400 type-F conjugative transfer system pilin chaperone TraQ -
WM93_RS27420 (WM93_26300) 93114..93866 - 753 WP_015065637 type-F conjugative transfer system pilin assembly protein TraF traF
WM93_RS27425 (WM93_26305) 93887..94213 - 327 WP_004152685 hypothetical protein -
WM93_RS29575 (WM93_26310) 94259..94444 - 186 WP_023307535 hypothetical protein -
WM93_RS27435 (WM93_26315) 94441..94677 - 237 WP_023307536 conjugal transfer protein TrbE -
WM93_RS27440 (WM93_26320) 94709..96664 - 1956 WP_015065636 type-F conjugative transfer system mating-pair stabilization protein TraN traN
WM93_RS27445 (WM93_26325) 96723..97361 - 639 WP_015065635 type-F conjugative transfer system pilin assembly protein TrbC trbC
WM93_RS27450 (WM93_26330) 97374..98333 - 960 WP_015065634 conjugal transfer pilus assembly protein TraU traU
WM93_RS27455 (WM93_26335) 98377..99003 - 627 WP_015065633 type-F conjugative transfer system protein TraW traW
WM93_RS27460 (WM93_26340) 99003..99392 - 390 WP_004152506 type-F conjugative transfer system protein TrbI -
WM93_RS27465 (WM93_26345) 99392..102031 - 2640 WP_016528865 type IV secretion system protein TraC virb4
WM93_RS27470 (WM93_26350) 102103..102501 - 399 WP_015065631 hypothetical protein -
WM93_RS27475 (WM93_26355) 102526..102930 - 405 WP_023320104 hypothetical protein -
WM93_RS27480 (WM93_26360) 102997..103314 - 318 WP_015065629 hypothetical protein -
WM93_RS27485 (WM93_26365) 103315..103533 - 219 WP_004171484 hypothetical protein -
WM93_RS27490 (WM93_26370) 103557..103847 - 291 WP_032426790 hypothetical protein -
WM93_RS29420 103876..104274 - 399 WP_223177007 hypothetical protein -
WM93_RS27500 (WM93_26375) 104430..104999 - 570 WP_015065628 type IV conjugative transfer system lipoprotein TraV traV
WM93_RS29235 105019..105174 - 156 WP_153587559 hypothetical protein -
WM93_RS27505 (WM93_26380) 105205..105624 - 420 Protein_114 conjugal transfer pilus-stabilizing protein TraP -
WM93_RS27510 (WM93_26385) 105617..107041 - 1425 WP_040228261 F-type conjugal transfer pilus assembly protein TraB traB
WM93_RS27515 (WM93_26390) 107041..107781 - 741 WP_004152497 type-F conjugative transfer system secretin TraK traK
WM93_RS27520 (WM93_26395) 107768..108334 - 567 WP_004152602 type IV conjugative transfer system protein TraE traE
WM93_RS27525 (WM93_26400) 108354..108659 - 306 WP_015065625 type IV conjugative transfer system protein TraL traL
WM93_RS27530 (WM93_26405) 108673..109041 - 369 WP_004178060 type IV conjugative transfer system pilin TraA -
WM93_RS27535 (WM93_26410) 109095..109466 - 372 WP_004208838 TraY domain-containing protein -
WM93_RS27540 109550..110245 - 696 WP_015065624 transcriptional regulator TraJ family protein -
WM93_RS27545 (WM93_26420) 110452..110844 - 393 WP_004206766 conjugal transfer relaxosome DNA-binding protein TraM -
WM93_RS27550 (WM93_26425) 111279..111764 + 486 WP_001568108 transglycosylase SLT domain-containing protein virB1
WM93_RS28720 111797..112111 - 315 WP_001568110 DUF5983 family protein -
WM93_RS27560 (WM93_26430) 112159..112980 - 822 WP_015065622 DUF932 domain-containing protein -
WM93_RS27580 (WM93_26445) 113814..114227 - 414 WP_004182074 helix-turn-helix domain-containing protein -
WM93_RS27585 (WM93_26450) 114228..114506 - 279 WP_004152721 helix-turn-helix transcriptional regulator -
WM93_RS27590 (WM93_26455) 114496..114816 - 321 WP_004152720 type II toxin-antitoxin system RelE/ParE family toxin -
WM93_RS27595 (WM93_26460) 114897..115121 - 225 WP_004152719 hypothetical protein -
WM93_RS27600 (WM93_26465) 115132..115344 - 213 WP_021313197 hypothetical protein -
WM93_RS27605 (WM93_26470) 115405..115761 - 357 WP_004152717 hypothetical protein -
WM93_RS27620 (WM93_26475) 116397..116747 - 351 WP_015065620 hypothetical protein -

Host bacterium

ID   3249 GenBank   NZ_CP015135
Plasmid name   p35657-1 Incompatibility group   IncFII
Plasmid size   158741 bp Coordinate of oriT [Strand]   111157..111206 [+]
Host baterium   Klebsiella pneumoniae strain ATCC 35657

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   silA, silP, pcoA, pcoB, pcoC, pcoD, pcoR, pcoS, pcoE, arsR, arsD, arsA, arsB, arsC, fecD, fecE, silE, silS, silR, silC, silF, silB
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIE9