Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   106277
Name   oriT_KP015|unnamed1 in_silico
Organism   Klebsiella pneumoniae strain KP015
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP088979 (91527..91576 [-], 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_KP015|unnamed1
AAATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   4202 GenBank   WP_101975970
Name   traI_LST75_RS26495_KP015|unnamed1 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: 190829.94 Da        Isoelectric Point: 6.1914

>WP_101975970.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Klebsiella]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMDERWQGKGAEALGIDGKAVDKALFTELLKGKLPDGSDLTRI
QDGANRHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVTEAVRQLETLAATRVMTDGKSETVLTGNL
IVAKFNHDTNRNQEPQIHTHAVVINATQNGDKWQSLGTDKIGKTGFIENVYANQIAFGKLYREAFKPLVE
KLGYETEVVGKHGMWEMKGVPVEPFSTRSQEVREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMN
TLKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFSYADLLARTVGQLE
AKDGVFDLARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVP
FSDAVSVLAQDRLVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVT
GKSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTY
RWQGGQQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKD
TTITALTPVWLDSKSRGVRDYYREGMVMERWDPENRTHDRFVIDRVTASSNMLTLKDRDGVRLDLKVSAV
DSQWTLFRAETLPVAEGERLAVLGKIPDTRLKGGESITVMKVEEGQLTVQRPGQKTMQTLAVGAGVFDGI
KIGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSE
QLKSRSGETDLDAAIAQQKAGLHTPAEQAIHLAIPLLESQDLTFSRPQLLATAMETGGGKVSMADIDTTI
QAQIRSGQLLNVPVAHGYGSDLLISRQTWDAEKSILTHVLEGKDAVAPLMDRVPASLMTDLTAGQRAATR
MILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLH
DTQLLQRNDQTPDFSNTLFLLDESSMVGLADMAKAHSLIVAGGGRAVSSGDNDQLQPIAPGQPFRLMQQR
SAADVAIMKEIVRQMPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGAWAPGSSVVEFTPKQEKAIE
KALSEGKTLPEGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITL
PVLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSEGKERFISPREASAEGVTL
HRQEKITVSQGDRMRFSKSDPERGYVANSIWEVQSVSGDSVTLSDGKITRTLTPKAEQAQQHIDLAYAIT
AHGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDNREGWIKAIKNSPEKATAHDILE
PRNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGSSPGKFISPGKKYPQPHVALPAFDKNGKAAGI
WLSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDR
PWNPGAMTGGRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKKAEQTAREMAGEARKAGEP
ADRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEEAIQQVASERLQRERLQAVERDMVRDLNREKTL
GGD

  Protein domains


Predicted by InterproScan.

DNA helicase TraI (TraI_C)

(1433-1555)

AAA domain (AAA_30)

(971-1157)

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

(577-629)

TrwC relaxase (TrwC)

(10-284)

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

(635-714)


  Protein structure



No available structure.




T4CP

ID   4227 GenBank   WP_040196205
Name   traD_LST75_RS26490_KP015|unnamed1 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: 85965.05 Da        Isoelectric Point: 5.0632

>WP_040196205.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Klebsiella]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTGFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPIISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSREIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKITEGFIPRRLDTRVDARLSALLEEREAEGSLARALFTPDAPASGPADTDSHAGEQPEPVSQPA
PADMTVSPAPVKAPPTTKMPAAEPSVRATEPPVLRVTTVPLIKPKAAAAAAAASTASSAGIPAAAAGGTE
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: 90975..119378

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
LST75_RS26280 (LST75_26230) 86184..86510 + 327 WP_038992719 hypothetical protein -
LST75_RS26285 (LST75_26235) 86669..86821 + 153 WP_224230667 DUF5431 family protein -
LST75_RS26290 (LST75_26240) 86766..86885 + 120 WP_223156217 type I toxin-antitoxin system Hok family toxin -
LST75_RS26295 (LST75_26245) 87790..88170 + 381 WP_038990973 hypothetical protein -
LST75_RS26300 (LST75_26250) 88237..88584 + 348 WP_038990975 hypothetical protein -
LST75_RS26305 (LST75_26255) 88672..88902 + 231 WP_038990977 hypothetical protein -
LST75_RS26310 (LST75_26260) 88949..89782 + 834 WP_038990979 N-6 DNA methylase -
LST75_RS26315 (LST75_26265) 90407..90937 + 531 WP_023292160 antirestriction protein -
LST75_RS26320 (LST75_26270) 90975..91382 - 408 WP_225375048 transglycosylase SLT domain-containing protein virB1
LST75_RS26325 (LST75_26275) 91888..92280 + 393 WP_004178062 conjugal transfer relaxosome DNA-binding protein TraM -
LST75_RS26330 (LST75_26280) 92487..93182 + 696 WP_023292158 transcriptional regulator TraJ family protein -
LST75_RS26335 (LST75_26285) 93266..93637 + 372 WP_004208838 TraY domain-containing protein -
LST75_RS26340 (LST75_26290) 93691..94059 + 369 WP_277738756 type IV conjugative transfer system pilin TraA -
LST75_RS26345 (LST75_26295) 94073..94378 + 306 WP_004178059 type IV conjugative transfer system protein TraL traL
LST75_RS26350 (LST75_26300) 94398..94964 + 567 WP_004152602 type IV conjugative transfer system protein TraE traE
LST75_RS26355 (LST75_26305) 94951..95691 + 741 WP_020804840 type-F conjugative transfer system secretin TraK traK
LST75_RS26360 (LST75_26310) 95691..97115 + 1425 WP_023316397 F-type conjugal transfer pilus assembly protein TraB traB
LST75_RS26365 (LST75_26315) 97108..97704 + 597 WP_023316398 conjugal transfer pilus-stabilizing protein TraP -
LST75_RS26370 (LST75_26320) 97727..98296 + 570 WP_023316399 type IV conjugative transfer system lipoprotein TraV traV
LST75_RS26375 (LST75_26325) 98428..98838 + 411 WP_023316400 hypothetical protein -
LST75_RS26380 (LST75_26330) 98843..99127 + 285 WP_023316401 hypothetical protein -
LST75_RS26385 (LST75_26335) 99151..99369 + 219 WP_023316402 hypothetical protein -
LST75_RS26390 (LST75_26340) 99370..99681 + 312 WP_023316403 hypothetical protein -
LST75_RS26395 (LST75_26345) 99748..100152 + 405 WP_023316404 hypothetical protein -
LST75_RS26400 (LST75_26350) 100149..100439 + 291 WP_101975967 hypothetical protein -
LST75_RS26405 (LST75_26355) 100447..100845 + 399 WP_072156904 hypothetical protein -
LST75_RS26410 (LST75_26360) 100917..103556 + 2640 WP_020323518 type IV secretion system protein TraC virb4
LST75_RS26415 (LST75_26365) 103556..103945 + 390 WP_020314627 type-F conjugative transfer system protein TrbI -
LST75_RS26420 (LST75_26370) 103945..104571 + 627 WP_020314628 type-F conjugative transfer system protein TraW traW
LST75_RS26425 (LST75_26375) 104615..105574 + 960 WP_029497356 conjugal transfer pilus assembly protein TraU traU
LST75_RS26430 (LST75_26380) 105587..106225 + 639 WP_064182677 type-F conjugative transfer system pilin assembly protein TrbC trbC
LST75_RS26435 (LST75_26385) 106284..108239 + 1956 WP_101975968 type-F conjugative transfer system mating-pair stabilization protein TraN traN
LST75_RS26440 (LST75_26390) 108271..108507 + 237 WP_023292149 conjugal transfer protein TrbE -
LST75_RS26645 108504..108689 + 186 WP_004152684 hypothetical protein -
LST75_RS26445 (LST75_26395) 108735..109061 + 327 WP_004152685 hypothetical protein -
LST75_RS26450 (LST75_26400) 109082..109834 + 753 WP_004152686 type-F conjugative transfer system pilin assembly protein TraF traF
LST75_RS26455 (LST75_26405) 109845..110084 + 240 WP_023292148 type-F conjugative transfer system pilin chaperone TraQ -
LST75_RS26460 (LST75_26410) 110056..110628 + 573 WP_023292147 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
LST75_RS26465 (LST75_26415) 110621..111049 + 429 WP_023292146 hypothetical protein -
LST75_RS26470 (LST75_26420) 111036..112406 + 1371 WP_277738757 conjugal transfer pilus assembly protein TraH traH
LST75_RS26475 (LST75_26425) 112406..115255 + 2850 WP_101975969 conjugal transfer mating-pair stabilization protein TraG traG
LST75_RS26480 (LST75_26430) 115261..115788 + 528 WP_040196211 conjugal transfer protein TraS -
LST75_RS26485 (LST75_26435) 115978..116709 + 732 WP_004152629 conjugal transfer complement resistance protein TraT -
LST75_RS26490 (LST75_26440) 117069..119378 + 2310 WP_040196205 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   6714 GenBank   NZ_CP088979
Plasmid name   KP015|unnamed1 Incompatibility group   IncFIB
Plasmid size   144296 bp Coordinate of oriT [Strand]   91527..91576 [-]
Host baterium   Klebsiella pneumoniae strain KP015

Cargo genes

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