Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   117180
Name   oriT_pKV1 in_silico
Organism   Klebsiella variicola strain DX120E
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP009275 (84891..84940 [-], 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_pKV1
AAATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   10945 GenBank   WP_040107951
Name   traI_KR75_RS26420_pKV1 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: 190319.40 Da        Isoelectric Point: 6.4385

>WP_040107951.1 conjugative transfer relaxase/helicase TraI [Klebsiella variicola]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMDERWQGKGAEALGIDGKAVDKALFTELLKGKLPDGSDLTRI
QDGANKHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVTEAVRQLETLAATRVMTDGKSETVLTGNL
VVAKFNHDTNRNQEPQIHTHAVVINATQNGDKWQSLGTDKIGKTGFIENVYASQLAFGKIYREVLKPLTE
KLGYETEVTGKHGMWEFKGVPVEPFSTRTKEVREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMN
TLKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLE
AKDGVFELARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVARQVP
FSDAVSVLAQDRPVIGIVSGQGGATGQRERVAELTLMAREQGRDVHILAANNRSRDFLAGDVRLAGETVT
GKSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTY
RWQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRHEGVLGEKD
TTITALTPVWLDSKSRGVRDYYREGMVMERWDPETRTHDRFVIDRVTASSNMLTLKDREGVRLDLKVSAV
DSQWTLFRAETLPVAEGERLAVLGKIPDTRLKGGESITVMKVEDGLLTVQRPGQKTTQTLAVGAGVFDGI
KIGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSE
QLKTRSGETDLDAAIAQQKAGLRTPAEQAIHLAIPLLESEKLTFSRPQLLATALETGGGKVPMADIDTTI
QAQIRSGQLLNVPVAHGHGNDLLISRQTWDAEKSILTHVLEGKDAVAPLMDRVPASLMTDLTAGQRAATR
MILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLH
DTQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIVAGGGRAVSSGDNDQLQPIAPGQPFRLMQQR
SAADVAIMKEIVRQVPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGAWAPGSSVVEFTPAQEKAIE
KALSEGETLPAGQPATLYEALVKDYTGRTPEAQSQTLIITHLNKDRRALNSLIHDARRENGETGKEEITL
PVLVTSNIRDGELRKLSTWTVHKEAVALVDNVYHRISKVDKANQLITLTDSEGKERFISPREASAEGVTL
YRQEKITVSQGDRMRFSKSDPERGYVANSIWEVQSVSGDSVTLSDGKLTRTLTPKADQAQQHIDLAYAIT
AHGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDSREGWIKAIKHSPEKATAHDILE
PRNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGNSPGKFISPGKKYPQPHVALPAFDKNGKAAGI
WLSPLTDRDGRLEAIGGEGRIMGNDAARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDR
PWNPGAITGGRVWADPAPVGPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEP
ADRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEAAIQQVASESLQRERLQAVERDMVRDLNREKTL
GGD

  Protein domains


Predicted by InterproScan.

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

(635-714)

DNA helicase TraI (TraI_C)

(1433-1555)

TrwC relaxase (TrwC)

(10-284)

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

(577-629)

AAA domain (AAA_30)

(971-1157)


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 87327..109689

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
KR75_RS26250 (KR75_26785) 83771..84301 + 531 WP_040107921 antirestriction protein -
KR75_RS26255 (KR75_26790) 84339..84746 - 408 WP_223170089 transglycosylase SLT domain-containing protein -
KR75_RS26260 (KR75_26795) 85209..85625 + 417 WP_074181767 conjugal transfer relaxosome DNA-binding protein TraM -
KR75_RS26265 (KR75_26800) 85825..86544 + 720 WP_158514514 conjugal transfer protein TrbJ -
KR75_RS28215 86677..86883 + 207 WP_172412524 TraY domain-containing protein -
KR75_RS26270 (KR75_26805) 86945..87313 + 369 WP_040107923 type IV conjugative transfer system pilin TraA -
KR75_RS26275 (KR75_26810) 87327..87632 + 306 WP_004178059 type IV conjugative transfer system protein TraL traL
KR75_RS26280 (KR75_26815) 87652..88218 + 567 WP_040107924 type IV conjugative transfer system protein TraE traE
KR75_RS26285 (KR75_26820) 88205..88945 + 741 WP_040107925 type-F conjugative transfer system secretin TraK traK
KR75_RS26290 (KR75_26825) 88945..90369 + 1425 WP_040107926 F-type conjugal transfer pilus assembly protein TraB traB
KR75_RS26295 (KR75_26830) 90362..90775 + 414 Protein_90 conjugal transfer pilus-stabilizing protein TraP -
KR75_RS29255 90812..90973 + 162 WP_158514515 hypothetical protein -
KR75_RS28220 90993..91562 + 570 WP_071983369 type IV conjugative transfer system lipoprotein TraV traV
KR75_RS30365 91717..92115 + 399 WP_227514785 hypothetical protein -
KR75_RS26300 (KR75_26840) 92144..92434 + 291 WP_040107928 hypothetical protein -
KR75_RS28230 92458..92676 + 219 WP_004195468 hypothetical protein -
KR75_RS26305 (KR75_26845) 92677..92988 + 312 WP_040107929 hypothetical protein -
KR75_RS26310 (KR75_26850) 93055..93459 + 405 WP_032740694 hypothetical protein -
KR75_RS30075 (KR75_26855) 93502..93825 + 324 WP_040107930 hypothetical protein -
KR75_RS26320 (KR75_26860) 93833..94231 + 399 WP_162493351 hypothetical protein -
KR75_RS26325 (KR75_26865) 94303..96942 + 2640 WP_040107932 type IV secretion system protein TraC virb4
KR75_RS26330 (KR75_26870) 96942..97331 + 390 WP_040107933 type-F conjugative transfer system protein TrbI -
KR75_RS26335 (KR75_26875) 97331..97957 + 627 WP_040107934 type-F conjugative transfer system protein TraW traW
KR75_RS26340 (KR75_26880) 97999..98388 + 390 WP_040107935 hypothetical protein -
KR75_RS26345 (KR75_26885) 98385..99374 + 990 WP_040107936 conjugal transfer pilus assembly protein TraU traU
KR75_RS26350 (KR75_26890) 99387..100025 + 639 WP_040107937 type-F conjugative transfer system pilin assembly protein TrbC trbC
KR75_RS26355 (KR75_26895) 100091..102046 + 1956 WP_040107938 type-F conjugative transfer system mating-pair stabilization protein TraN traN
KR75_RS26360 (KR75_26900) 102079..102360 + 282 WP_040107939 hypothetical protein -
KR75_RS26365 (KR75_26905) 102350..102577 + 228 WP_040107941 conjugal transfer protein TrbE -
KR75_RS26370 (KR75_26910) 102588..102914 + 327 WP_040107943 hypothetical protein -
KR75_RS26375 (KR75_26915) 102935..103687 + 753 WP_040107944 type-F conjugative transfer system pilin assembly protein TraF traF
KR75_RS26380 (KR75_26920) 103698..103937 + 240 WP_004152687 type-F conjugative transfer system pilin chaperone TraQ -
KR75_RS26385 (KR75_26925) 103909..104484 + 576 WP_040107945 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
KR75_RS26390 (KR75_26930) 104474..105022 + 549 WP_040107946 hypothetical protein -
KR75_RS26400 (KR75_26940) 105488..106837 + 1350 WP_040107994 conjugal transfer pilus assembly protein TraH traH
KR75_RS26405 (KR75_26945) 106837..109689 + 2853 WP_040107948 conjugal transfer mating-pair stabilization protein TraG traG
KR75_RS29120 109714..110352 + 639 WP_145940811 hypothetical protein -
KR75_RS26410 (KR75_26950) 110385..111071 + 687 WP_145940812 tetratricopeptide repeat protein -
KR75_RS26415 (KR75_26955) 111294..112804 + 1511 Protein_118 TraD N-terminal domain-containing protein -

Host bacterium

ID   17613 GenBank   NZ_CP009275
Plasmid name   pKV1 Incompatibility group   IncFIB
Plasmid size   162706 bp Coordinate of oriT [Strand]   84891..84940 [-]
Host baterium   Klebsiella variicola strain DX120E

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   arsR, arsD, arsA, arsB, arsC, arsH
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -