Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   117590
Name   oriT_pWP7-S17-ESBL-08_2 in_silico
Organism   Klebsiella quasipneumoniae strain WP7-S17-ESBL-08
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_AP022185 (41848..41899 [+], 52 nt)
oriT length   52 nt
IRs (inverted repeats)      7..14, 17..24  (GCAAAATT..AATTTTGC)
Location of nic site      33..34
Conserved sequence flanking the
  nic site    		  GGTGTGGTGA
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 52 nt

>oriT_pWP7-S17-ESBL-08_2
AAATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTGATTTTTAGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   11211 GenBank   WP_015632521
Name   traI_H7R75_RS25870_pWP7-S17-ESBL-08_2 insolico UniProt ID   R4WBT4
Length   1753 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1753 a.a.        Molecular weight: 190594.70 Da        Isoelectric Point: 6.4838

>WP_015632521.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacteriaceae]
MMSIGSVKSADKAADYYTNKDNYYVIGSMDERWQGKGAEALGIDGKAVDKALFTELLKGKLPDGSDLTRI
QDGANKHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVTEAVRQLETLAATRVMTDGKSETVLTGNL
IVAKFNHDTNRNQEPQIHTHAVVINATQNGDKWQSLGTDKIGKTGFIENVYANQIAFGKLYREAFKPLVE
KLGYETEVVGKHGMWEMKGVPVEPFSTRTQELREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMN
TLKETGFDIRGYREAADARAAERARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLE
AKDGVFELARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTSDASVVRQAP
FSDAVSVLAQDRPVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVT
GKSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTY
RWQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGLESVAQISGTREQSVLNGLIRDSLRNEGVLGEKD
TTITALTPVWLDSKSRGVRDYYREGMVMERWDPETRTHDRFVIDRVTASSNMLTLKDREGGRLDLKVSAV
DSQWTLFRADTLPVAEGERLAVLGKIPDTRLKGGESITVMKVEDGQLTVQRPGQKTTQTLAVGAGVFDGI
KIGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSE
QLKTRSGETDLDAAIAQQKAGLRTPAEQAIHLAIPLLESEKLTFSRPQLLATALETGGGKVPMADIDTTI
QAQIRSGQLLNVPVAHGYGNDLLISRQTWDAEKSILTHVLEGKDAVAPLMDRVPASLMTDLTAGQRAATR
MILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLH
DTQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIVAGGGRAVSSGDNDQLQPIAPGQPFRLMQQR
SAADIAIMKEIVRQVPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGVWAPGSSVVEFTPKQEKAIQ
KALSEGKTLPAGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITL
PVLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSDGKERYISPREASAEGVTL
YRQEKITVSQGDRMRFSKSDLERGYVANSIWEVQSVAGDSVTLSDGKTTRTLTPKADQAQQHIDLAYAIT
AHGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDSREGWIKAIKHSPEKATAHDILE
PRNDRAVKSADLLFGRARPLDETAAGRAALQQSGLAQGNSPGKFISPGKKYPQPHVALPAFDKNGKAAGI
WLSPLTDRDGRLEAIGGEGRIMGNDAARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDR
PWNPGAITGGRVWAEQAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEP
AERVKEVIGDVIRGLERDRAGTEKTTLPDDPQFRRQEAAIQQVASESLQRERLQAVERDMVRDLNREKTL
GGD

  Protein domains


Predicted by InterproScan.

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

(635-714)

TrwC relaxase (TrwC)

(11-284)

AAA domain (AAA_30)

(971-1157)

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

(577-629)

DNA helicase TraI (TraI_C)

(1433-1555)


  Protein structure



No available structure.




T4CP

ID   13095 GenBank   WP_015632520
Name   traD_H7R75_RS25875_pWP7-S17-ESBL-08_2 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: 85676.62 Da        Isoelectric Point: 5.1149

>WP_015632520.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTVWCGEQLWTGFAFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGVASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDAPASGPADTNSHAGEQPEPISQPA
PADMTVSPAPVKAPPTTKSPAAEPSVRATEPPVLRVTTVPLIKPKAATAATAASTASSAGAPAAAAGGTE
QELAQQSAEQGQDMLPAGMNEDGVIEDMQAYDAWADEQTQRDMQRREEVNINHSHRHDEQEDVEIGGNF

  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: 12337..39350

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
H7R75_RS25875 (WP7S17E08_P20120) 12337..14646 - 2310 WP_015632520 type IV conjugative transfer system coupling protein TraD virb4
H7R75_RS25880 (WP7S17E08_P20130) 14775..15464 - 690 WP_074186016 hypothetical protein -
H7R75_RS25885 (WP7S17E08_P20140) 15657..16388 - 732 WP_004152629 conjugal transfer complement resistance protein TraT -
H7R75_RS25890 (WP7S17E08_P20150) 16698..17222 - 525 WP_015632518 conjugal transfer entry exclusion protein -
H7R75_RS25895 (WP7S17E08_P20160) 17233..20076 - 2844 WP_015632517 conjugal transfer mating-pair stabilization protein TraG traG
H7R75_RS25900 (WP7S17E08_P20170) 20076..21455 - 1380 WP_072198238 conjugal transfer pilus assembly protein TraH traH
H7R75_RS25905 (WP7S17E08_P20180) 21433..21876 - 444 WP_015632515 F-type conjugal transfer protein TrbF -
H7R75_RS25910 (WP7S17E08_P20190) 21921..22478 - 558 WP_032433944 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
H7R75_RS25915 (WP7S17E08_P20200) 22450..22689 - 240 WP_023340931 type-F conjugative transfer system pilin chaperone TraQ -
H7R75_RS25920 (WP7S17E08_P20210) 22700..23452 - 753 WP_015632513 type-F conjugative transfer system pilin assembly protein TraF traF
H7R75_RS25925 (WP7S17E08_P20220) 23473..23799 - 327 WP_015632512 hypothetical protein -
H7R75_RS25930 (WP7S17E08_P20230) 23812..24060 - 249 WP_004152675 hypothetical protein -
H7R75_RS25935 (WP7S17E08_P20240) 24038..24292 - 255 WP_032433943 conjugal transfer protein TrbE -
H7R75_RS25940 (WP7S17E08_P20250) 24324..26279 - 1956 WP_182963959 type-F conjugative transfer system mating-pair stabilization protein TraN traN
H7R75_RS25945 (WP7S17E08_P20260) 26338..26985 - 648 WP_015632510 type-F conjugative transfer system pilin assembly protein TrbC trbC
H7R75_RS25950 (WP7S17E08_P20280) 27261..28250 - 990 WP_015632509 conjugal transfer pilus assembly protein TraU traU
H7R75_RS25955 (WP7S17E08_P20290) 28247..28648 - 402 WP_004194979 hypothetical protein -
H7R75_RS25960 (WP7S17E08_P20300) 28683..29318 - 636 WP_015632508 type-F conjugative transfer system protein TraW traW
H7R75_RS25965 (WP7S17E08_P20310) 29318..29707 - 390 WP_015632507 type-F conjugative transfer system protein TrbI -
H7R75_RS25970 (WP7S17E08_P20320) 29707..32346 - 2640 WP_015632506 type IV secretion system protein TraC virb4
H7R75_RS25975 (WP7S17E08_P20330) 32418..32816 - 399 WP_015632505 hypothetical protein -
H7R75_RS25980 (WP7S17E08_P20340) 32824..33213 - 390 WP_015632504 hypothetical protein -
H7R75_RS25985 (WP7S17E08_P20350) 33256..33660 - 405 WP_032433941 hypothetical protein -
H7R75_RS25990 (WP7S17E08_P20360) 33727..34038 - 312 WP_015632502 hypothetical protein -
H7R75_RS25995 (WP7S17E08_P20370) 34039..34257 - 219 WP_004171484 hypothetical protein -
H7R75_RS26000 34296..34565 - 270 WP_032433956 hypothetical protein -
H7R75_RS26005 (WP7S17E08_P20380) 34570..34980 - 411 WP_015632501 hypothetical protein -
H7R75_RS26010 (WP7S17E08_P20390) 35112..35696 - 585 WP_015632500 type IV conjugative transfer system lipoprotein TraV traV
H7R75_RS26015 (WP7S17E08_P20400) 35719..36315 - 597 WP_015632499 conjugal transfer pilus-stabilizing protein TraP -
H7R75_RS26020 (WP7S17E08_P20410) 36308..37732 - 1425 WP_015632498 F-type conjugal transfer pilus assembly protein TraB traB
H7R75_RS26025 (WP7S17E08_P20420) 37732..38472 - 741 WP_015632497 type-F conjugative transfer system secretin TraK traK
H7R75_RS26030 (WP7S17E08_P20430) 38459..39025 - 567 WP_015632496 type IV conjugative transfer system protein TraE traE
H7R75_RS26035 (WP7S17E08_P20440) 39045..39350 - 306 WP_004178059 type IV conjugative transfer system protein TraL traL
H7R75_RS26040 (WP7S17E08_P20450) 39364..39732 - 369 WP_015632495 type IV conjugative transfer system pilin TraA -
H7R75_RS26045 39786..40157 - 372 WP_004208838 TraY domain-containing protein -
H7R75_RS26050 (WP7S17E08_P20460) 40241..40936 - 696 WP_015632494 transcriptional regulator TraJ family protein -
H7R75_RS26055 (WP7S17E08_P20470) 41143..41535 - 393 WP_032433939 conjugal transfer relaxosome DNA-binding protein TraM -
H7R75_RS26060 (WP7S17E08_P20480) 42014..42451 + 438 WP_015632492 transglycosylase SLT domain-containing protein -
H7R75_RS26065 (WP7S17E08_P20490) 42489..43019 - 531 WP_015632491 antirestriction protein -

Host bacterium

ID   18023 GenBank   NZ_AP022185
Plasmid name   pWP7-S17-ESBL-08_2 Incompatibility group   -
Plasmid size   118077 bp Coordinate of oriT [Strand]   41848..41899 [+]
Host baterium   Klebsiella quasipneumoniae strain WP7-S17-ESBL-08

Cargo genes

Drug resistance gene   tet(A), dfrA1, sul1, qnrS1, blaTEM-1B, blaCTX-M-15
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIE9