Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   104601
Name   oriT_SWHEFF_72|unnamed4 in_silico
Organism   Klebsiella quasipneumoniae strain SWHEFF_72
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP055014 (59619..59668 [-], 50 nt)
oriT length   50 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: 50 nt

>oriT_SWHEFF_72|unnamed4
AAATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3310 GenBank   WP_239605198
Name   traI_HUZ79_RS30535_SWHEFF_72|unnamed4 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: 190560.74 Da        Isoelectric Point: 6.4581

>WP_239605198.1 conjugative transfer relaxase/helicase TraI [Klebsiella quasipneumoniae]
MMSIGSVKSADKAADYYTNKDNYYVIGSMDERWQGKGAEALGIDGKAVDKALFTELLKGKLPDGSDLTRI
QDGANKHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVTEAVRQLETLAATRVMTDGKSETVLTGNL
IVAKFNHDTNRNQEPQIHTHAVVINATQNGDKWQSLGTDKIGKTGFIENVYANQIAFGKLYREAFKPLVE
KLGYETEVVGKHGMWEMKGVPVEPFSTRTQEVREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMN
TLKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLE
AKDGVFELARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVP
FSDAVSVLAQDRPVMGIVSGQGGAAGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVT
GKSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTY
RWQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRNEGVLGEKD
TTITALTPVWLDSKSRGVRDYYREGMVMERWDPETRTHDRFVIDRVTASSNMLTLKDREGGRLDLKVSAV
DSQWTLFRADTLPVAEGERLAVLGKIPDTRLKGGESITVMKVEDGQLTVQRPGQKTTQTLAVGAGVFDGI
KIGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSE
QLKTRSGETDLDAAIAQQKAGLRTPAEQAIHLAIPLLESEKLTFSRPQLLATALETGGGKVPMADIDTTI
QAQIRSGQLLNVPVAHGYGNDLLISRQTWDAEKSILTRVLEGKDAVAPLMDRVPASLMTDLTAGQRAATR
MILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLH
DTQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIVAGGGRAVSSGDNDQLQPIAPGQPFRLMQQR
SAADVAIMKEIVRQVPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGVWAPGSSVVEFTPKQEKAIQ
KALSEGKTLPAGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITL
PVLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSDGKERYISPREASAEGVTL
YRQEKITVSQGDRMRFSKSDLERGYVANSIWEVQSVAGDSVTLSDGKTTRTLTPKADQAQQHIDLAYAIT
AHGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDSREGWIKAIKHSPEKATAHDILE
PRNDRAVKSADLLFGRARPLDETAAGRAALQQSGLAQGNSPGKFISPGKKYPQPHVALPAFDKNGKAAGI
WLSPLTDRDGRLEAIGGEGRIMGNDAARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDR
PWNPGAMTGGRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEP
ADRVKEVIGDVIRGLERDRPGPEKTTLPDDPQFRRQEAAIQQVASESLQRERLQAVERDMVRDLNREKTL
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)

DNA helicase TraI (TraI_C)

(1433-1555)

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

(577-629)


  Protein structure



No available structure.




T4CP

ID   3253 GenBank   WP_239605197
Name   traD_HUZ79_RS30530_SWHEFF_72|unnamed4 insolico UniProt ID   _
Length   766 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 766 a.a.        Molecular weight: 85424.31 Da        Isoelectric Point: 5.0596

>WP_239605197.1 type IV conjugative transfer system coupling protein TraD [Klebsiella quasipneumoniae]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTVWCGEQLWTSFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDAPASGPDDAGSHAGERPELASQPA
PAEVTVSPAPVKAPATTTMPAAEPSARTAEPPVLRVTTVPLIKPKAAAAASTASSAGNPAAVAGGTEQEL
AQQSAEQGQDMLPAGMNEDGVIEDTQAYDAWADEQTQRDMQRREEVNINHSHRHDEQDDVEIGGNF

  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: 62127..87983

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HUZ79_RS30350 (HUZ79_30220) 58124..58294 - 171 WP_164876868 hypothetical protein -
HUZ79_RS30355 (HUZ79_30225) 58487..59029 + 543 WP_064343524 antirestriction protein -
HUZ79_RS30360 (HUZ79_30230) 59052..59474 - 423 WP_239605204 transglycosylase SLT domain-containing protein -
HUZ79_RS30365 (HUZ79_30235) 59968..60366 + 399 WP_004152493 conjugal transfer relaxosome DNA-binding protein TraM -
HUZ79_RS30370 (HUZ79_30240) 60540..61226 + 687 WP_004152494 transcriptional regulator TraJ family protein -
HUZ79_RS30375 (HUZ79_30245) 61305..61691 + 387 WP_004152495 TraY domain-containing protein -
HUZ79_RS30380 (HUZ79_30250) 61745..62113 + 369 WP_004152496 type IV conjugative transfer system pilin TraA -
HUZ79_RS30385 (HUZ79_30255) 62127..62432 + 306 WP_004144424 type IV conjugative transfer system protein TraL traL
HUZ79_RS30390 (HUZ79_30260) 62452..63018 + 567 WP_004194424 type IV conjugative transfer system protein TraE traE
HUZ79_RS30395 (HUZ79_30265) 63005..63745 + 741 WP_004152497 type-F conjugative transfer system secretin TraK traK
HUZ79_RS30400 (HUZ79_30270) 63745..65169 + 1425 WP_004233801 F-type conjugal transfer pilus assembly protein TraB traB
HUZ79_RS30405 (HUZ79_30275) 65283..65867 + 585 WP_013023822 type IV conjugative transfer system lipoprotein TraV traV
HUZ79_RS30410 (HUZ79_30280) 65999..66409 + 411 WP_009309869 hypothetical protein -
HUZ79_RS30415 (HUZ79_30285) 66515..66733 + 219 WP_004195468 hypothetical protein -
HUZ79_RS30420 (HUZ79_30290) 66734..67045 + 312 WP_239605195 hypothetical protein -
HUZ79_RS30425 (HUZ79_30295) 67112..67516 + 405 WP_004197817 hypothetical protein -
HUZ79_RS30430 (HUZ79_30300) 67893..68291 + 399 WP_023179972 hypothetical protein -
HUZ79_RS30435 (HUZ79_30305) 68363..71002 + 2640 WP_004197813 type IV secretion system protein TraC virb4
HUZ79_RS30440 (HUZ79_30310) 71002..71391 + 390 WP_004197815 type-F conjugative transfer system protein TrbI -
HUZ79_RS30445 (HUZ79_30315) 71391..72017 + 627 WP_009309871 type-F conjugative transfer system protein TraW traW
HUZ79_RS30450 (HUZ79_30320) 72059..72448 + 390 WP_004194992 hypothetical protein -
HUZ79_RS30455 (HUZ79_30325) 72445..73434 + 990 WP_239605196 conjugal transfer pilus assembly protein TraU traU
HUZ79_RS30460 (HUZ79_30330) 73447..74085 + 639 WP_022644933 type-F conjugative transfer system pilin assembly protein TrbC trbC
HUZ79_RS30465 (HUZ79_30335) 74144..76099 + 1956 WP_025712707 type-F conjugative transfer system mating-pair stabilization protein TraN traN
HUZ79_RS30470 (HUZ79_30340) 76131..76385 + 255 WP_020804203 conjugal transfer protein TrbE -
HUZ79_RS30475 (HUZ79_30345) 76363..76611 + 249 WP_004152675 hypothetical protein -
HUZ79_RS30480 (HUZ79_30350) 76624..76950 + 327 WP_032436744 hypothetical protein -
HUZ79_RS30485 (HUZ79_30355) 76971..77723 + 753 WP_015065637 type-F conjugative transfer system pilin assembly protein TraF traF
HUZ79_RS30490 (HUZ79_30360) 77734..77973 + 240 WP_004144400 type-F conjugative transfer system pilin chaperone TraQ -
HUZ79_RS30495 (HUZ79_30365) 77945..78502 + 558 WP_004152678 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
HUZ79_RS30500 (HUZ79_30370) 78548..78991 + 444 WP_032436741 F-type conjugal transfer protein TrbF -
HUZ79_RS30505 (HUZ79_30375) 78969..80348 + 1380 WP_011977731 conjugal transfer pilus assembly protein TraH traH
HUZ79_RS30510 (HUZ79_30380) 80348..83197 + 2850 WP_004152624 conjugal transfer mating-pair stabilization protein TraG traG
HUZ79_RS30515 (HUZ79_30385) 83210..83758 + 549 WP_004152623 conjugal transfer entry exclusion protein TraS -
HUZ79_RS30520 (HUZ79_30390) 83942..84673 + 732 WP_004152622 conjugal transfer complement resistance protein TraT -
HUZ79_RS30525 (HUZ79_30395) 84865..85554 + 690 WP_022644928 hypothetical protein -
HUZ79_RS30530 (HUZ79_30400) 85683..87983 + 2301 WP_239605197 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   5040 GenBank   NZ_CP055014
Plasmid name   SWHEFF_72|unnamed4 Incompatibility group   -
Plasmid size   99172 bp Coordinate of oriT [Strand]   59619..59668 [-]
Host baterium   Klebsiella quasipneumoniae strain SWHEFF_72

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   arsR, arsD
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -