Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101609
Name   oriT_pEW666 in_silico
Organism   Klebsiella pneumoniae strain EW666
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_JAQIIP010000001 (89128..89177 [+], 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_pEW666
AAATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTCATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1424 GenBank   WP_271074259
Name   traI_PGH02_RS00310_pEW666 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: 190801.82 Da        Isoelectric Point: 6.1913

>WP_271074259.1 conjugative transfer relaxase/helicase TraI [Klebsiella pneumoniae]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMDERWQGKGAEALGIDGKAVDKALFTELLKGKLPDGSDLTRI
QDGANRHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVTEAVRQLETLAATRVMTDGKSETVLTGNL
IVAKFNHDTNRNQEPQIHTHAVVINATQNGDKWQSLGTDKIGKTGFIENVYANQIAFGKLYREAFKPLVE
KLGYETEVVGKHGMWEMKGVPVEPFSTRSQEVREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMN
TLKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLE
AKDGMFELARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRHNHVSVTPDASVVRQVP
FSDAVSVLAQDRPVMGIVSGQGGASGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVT
GKSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTY
RWQGGQQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKD
TTITALTPVWLDSKSRGVRDYYREGMVMERWDPENRTHDRFVIDRVTASSNMLTLKDRDGVRLDLKVSAV
DSQWTLFRAETLPVAEGERLAVLGKIPDTRLKGGESITVMKVEEGQLTVQRPGQKTTQTLAVGAGVFDGI
KIGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSE
QLKSRSGETDLDAAIAQQKAGLHTPAEQAIHLAIPLLESQDLTFSRPQLLATAMETGGGKVSMADIDTTI
QAQIRSGQLLNVPVAHGYGNDLLISRQTWDAEKSILTHVLEGKDAVAPLMDRVPASLMTDLTAGQRAATR
MILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLH
DTQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIVAGGGRAVSSGDNDQLQPIAPGQPFRLMQQR
SAADVAIMKEIVRQMPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGAWAPGSSVVEFTPKQEKAIE
KALSEGKTLPEGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITL
PVLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSEGKERFISPREASAEGVTL
YRQEKITVSQGDRMRFSKSDPERGYVANSIWEVQSVSGDSVTLSDGKITRTLTPKAEQAQQHIDLAYAIT
AHGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDNREGWIKAIKNSPEKATAHDILE
PRNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGSSPGKFISPGKKYPQPHVALPAFDKNGKAAGI
WLSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDR
PWNPGAMTGGRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEP
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   1083 GenBank   WP_004152630
Name   traD_PGH02_RS00315_pEW666 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: 61316..89735

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
PGH02_RS00315 (PGH02_00310) 61316..63625 - 2310 WP_004152630 type IV conjugative transfer system coupling protein TraD virb4
PGH02_RS00320 (PGH02_00315) 63985..64716 - 732 WP_004152629 conjugal transfer complement resistance protein TraT -
PGH02_RS00325 (PGH02_00320) 64906..65433 - 528 WP_004153030 hypothetical protein -
PGH02_RS00330 (PGH02_00325) 65439..68288 - 2850 WP_271074145 conjugal transfer mating-pair stabilization protein TraG traG
PGH02_RS00335 (PGH02_00330) 68288..69658 - 1371 WP_004159274 conjugal transfer pilus assembly protein TraH traH
PGH02_RS00340 (PGH02_00335) 69645..70073 - 429 WP_004152689 hypothetical protein -
PGH02_RS00345 (PGH02_00340) 70066..70638 - 573 WP_004152688 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
PGH02_RS00350 (PGH02_00345) 70610..70849 - 240 WP_004152687 type-F conjugative transfer system pilin chaperone TraQ -
PGH02_RS00355 (PGH02_00350) 70860..71612 - 753 WP_004152686 type-F conjugative transfer system pilin assembly protein TraF traF
PGH02_RS00360 (PGH02_00355) 71633..71959 - 327 WP_004152685 hypothetical protein -
PGH02_RS29440 72005..72190 - 186 WP_004152684 hypothetical protein -
PGH02_RS00365 (PGH02_00360) 72187..72423 - 237 WP_004152683 conjugal transfer protein TrbE -
PGH02_RS00370 (PGH02_00365) 72455..74410 - 1956 WP_004153093 type-F conjugative transfer system mating-pair stabilization protein TraN traN
PGH02_RS00375 (PGH02_00370) 74458..75096 - 639 WP_004152682 type-F conjugative transfer system pilin assembly protein TrbC trbC
PGH02_RS00380 (PGH02_00375) 75109..76068 - 960 WP_015065634 conjugal transfer pilus assembly protein TraU traU
PGH02_RS00385 (PGH02_00380) 76112..76738 - 627 WP_004152590 type-F conjugative transfer system protein TraW traW
PGH02_RS00390 (PGH02_00385) 76738..77127 - 390 WP_004152506 type-F conjugative transfer system protein TrbI -
PGH02_RS00395 (PGH02_00390) 77127..79766 - 2640 WP_040188631 type IV secretion system protein TraC virb4
PGH02_RS00400 (PGH02_00395) 79838..80236 - 399 WP_004153071 hypothetical protein -
PGH02_RS00405 (PGH02_00400) 80532..80936 - 405 WP_004152594 hypothetical protein -
PGH02_RS00410 (PGH02_00405) 81003..81320 - 318 WP_004152595 hypothetical protein -
PGH02_RS00415 (PGH02_00410) 81321..81539 - 219 WP_004171484 hypothetical protein -
PGH02_RS00420 (PGH02_00415) 81563..81853 - 291 WP_004152596 hypothetical protein -
PGH02_RS00425 (PGH02_00420) 81858..82268 - 411 WP_004152597 lipase chaperone -
PGH02_RS00430 (PGH02_00425) 82400..82969 - 570 WP_004152598 type IV conjugative transfer system lipoprotein TraV traV
PGH02_RS00435 (PGH02_00430) 82992..83588 - 597 WP_004152599 conjugal transfer pilus-stabilizing protein TraP -
PGH02_RS00440 (PGH02_00435) 83581..85005 - 1425 WP_004152600 F-type conjugal transfer pilus assembly protein TraB traB
PGH02_RS00445 (PGH02_00440) 85005..85745 - 741 WP_004152497 type-F conjugative transfer system secretin TraK traK
PGH02_RS00450 (PGH02_00445) 85732..86298 - 567 WP_004144423 type IV conjugative transfer system protein TraE traE
PGH02_RS00455 (PGH02_00450) 86318..86623 - 306 WP_004178059 type IV conjugative transfer system protein TraL traL
PGH02_RS00460 (PGH02_00455) 86637..87006 - 370 Protein_95 type IV conjugative transfer system pilin TraA -
PGH02_RS00465 (PGH02_00460) 87060..87431 - 372 WP_004208838 TraY domain-containing protein -
PGH02_RS00470 (PGH02_00465) 87515..88210 - 696 WP_004178061 transcriptional regulator TraJ family protein -
PGH02_RS00475 (PGH02_00470) 88424..88816 - 393 WP_240264609 conjugal transfer relaxosome DNA-binding protein TraM -
PGH02_RS00480 (PGH02_00475) 89250..89735 + 486 WP_004178063 transglycosylase SLT domain-containing protein virB1
PGH02_RS00485 (PGH02_00480) 89768..90097 - 330 WP_011977736 DUF5983 family protein -
PGH02_RS00490 (PGH02_00485) 90130..90951 - 822 WP_004178064 DUF932 domain-containing protein -
PGH02_RS00495 (PGH02_00490) 91788..92201 - 414 WP_004152722 helix-turn-helix domain-containing protein -
PGH02_RS00500 (PGH02_00495) 92202..92480 - 279 WP_004152721 helix-turn-helix transcriptional regulator -
PGH02_RS00505 (PGH02_00500) 92470..92790 - 321 WP_004152720 type II toxin-antitoxin system RelE/ParE family toxin -
PGH02_RS00510 (PGH02_00505) 92871..93095 - 225 WP_004152719 hypothetical protein -
PGH02_RS00515 (PGH02_00510) 93106..93318 - 213 WP_004152718 hypothetical protein -
PGH02_RS00520 (PGH02_00515) 93379..93735 - 357 WP_004152717 hypothetical protein -
PGH02_RS00525 (PGH02_00520) 94371..94721 - 351 WP_004152758 hypothetical protein -

Host bacterium

ID   2053 GenBank   NZ_JAQIIP010000001
Plasmid name   pEW666 Incompatibility group   IncFIB
Plasmid size   115791 bp Coordinate of oriT [Strand]   89128..89177 [+]
Host baterium   Klebsiella pneumoniae strain EW666

Cargo genes

Drug resistance gene   blaOXA-9, blaKPC-2
Virulence gene   -
Metal resistance gene   merA, merD, merE
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIE9