Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   104412
Name   oriT_pRHBSTW-00062_2 in_silico
Organism   Klebsiella pneumoniae strain RHBSTW-00062
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP056884 (146795..146844 [+], 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_pRHBSTW-00062_2
AAATCTGCAAAATTTTAATTTTGCGTAGTGTGTGGTCATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3214 GenBank   WP_181575849
Name   traI_HV049_RS26230_pRHBSTW-00062_2 insolico UniProt ID   _
Length   1752 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1752 a.a.        Molecular weight: 190454.16 Da        Isoelectric Point: 6.1897

>WP_181575849.1 conjugative transfer relaxase/helicase TraI [Klebsiella pneumoniae]
MLSFSQVKSAGSAGNYYTEKDNYYVIGSMEERWQGKGAELLGLEGKVDKQVFTELLQGKLPDGSDLTRIQ
DGVNKHRPGYDLTFSAPKSVSMLAMLGGDKRLIDAHNRAVTVALNQVESLASTRVKKDGVSETVLTGNLI
IARFNHDTSRAQDPQIHTHSVVINATQNGDKWQTLASDTVGKTGFSETILANRIAFGKIYQNSLRADVES
MGYKTVDAGRNGMWEMEGVPVESFSTRSQELREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMNT
LKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLEA
KDGVFELARKGINAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVPF
SDAVSVLAQDRPVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVTG
KSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTYR
WQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKDT
TITALAPVWLDSKSRGVRDYYREGMVMERWDPETRTHDRFVIDRVTASSNMLTLKDREGDRLDLKVSAVD
SQWTLFRADTLPVAEGERLAVLGKIPDTRLKGGESVTVMKVEDGQLTVQRPGQKTTQTLAVGAGVFDGIK
VGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSEQ
LKSRSGETDLDAAIAQQKAGLHTPAEQAIHLAIPLLESQDLTFSRPQLLATAMETGGGKVSMADIDTTIQ
AQIRSGRLLNVPVAPGRGNDLLISRQAWDAEKSILTRVLEGKDAVAPLMDRVPASLMTDLTAGQRASTRM
ILETPDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPHVIGLGPTHRAVGEMQSAGVDARTTASFLHD
TQLLQRNGQTPDFSNTLFLLDESSMVGLSDTAKALSLIAAGGGRAVLSGDTDQLQSISPGQPFRLMQQRS
AADVAIMKEIVRQVPELRPAVYSQIERDVHRALTTIEQVTPEQVPRKEGAWAPGSSVVEFTPKQEKAIEK
ALSEGKTLPEGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITLP
VLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSEGKERFISPREASAEGVTLY
RQEKITVSQGDRMRFSKSDPERGYVANSIWEVQSVSGDSVTLSDGKITRTLTPKAEQAQQHIDLAYAITA
HGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDSREGWIKAIKNSPEKATAHDILEP
RNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGSSPGKFISPGKKYPQPHVALPAFDKNGKAAGIW
LSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDRP
WNPGAMTGGRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEPA
DRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEAAIQQVTSERLQRERLQAVERDMVRDLNREKTLG
GD

  Protein domains


Predicted by InterproScan.

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

(576-628)

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

(634-713)

DNA helicase TraI (TraI_C)

(1432-1554)

TrwC relaxase (TrwC)

(11-283)

AAA domain (AAA_30)

(970-1144)


  Protein structure



No available structure.




T4CP

ID   3128 GenBank   WP_228725417
Name   traD_HV049_RS26235_pRHBSTW-00062_2 insolico UniProt ID   _
Length   760 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 760 a.a.        Molecular weight: 84917.00 Da        Isoelectric Point: 5.1110

>WP_228725417.1 type IV conjugative transfer system coupling protein TraD [Klebsiella pneumoniae]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTSFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSREIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDAPEPGPADTDSHAGEQPEPVSPPA
PAEMTVSPAPVKAPPTTKRPAAEPPVLPVTPIPLLKPKAAAAAATASSAGTPAAAAGGTEQELAQQSAEQ
GQDMLPAGMNEDGVIEDMQAYDAWLADDQTQRDMQRREEVNINHSHRHDKQDDVEIGGNI

  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: 118825..147402

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HV049_RS26235 (HV049_26245) 118825..121107 - 2283 WP_228725417 type IV conjugative transfer system coupling protein TraD virb4
HV049_RS26240 (HV049_26250) 121234..121923 - 690 WP_181575850 hypothetical protein -
HV049_RS26245 (HV049_26255) 122116..122847 - 732 WP_181575851 conjugal transfer complement resistance protein TraT -
HV049_RS26250 (HV049_26260) 123098..123700 - 603 WP_181575852 hypothetical protein -
HV049_RS26255 (HV049_26265) 123723..126545 - 2823 WP_101455613 conjugal transfer mating-pair stabilization protein TraG traG
HV049_RS26260 (HV049_26270) 126545..127924 - 1380 WP_181575853 conjugal transfer pilus assembly protein TraH traH
HV049_RS26265 (HV049_26275) 127902..128345 - 444 WP_014343488 F-type conjugal transfer protein TrbF -
HV049_RS26270 (HV049_26280) 128391..128948 - 558 WP_013214031 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
HV049_RS26275 (HV049_26285) 128920..129159 - 240 WP_004144400 type-F conjugative transfer system pilin chaperone TraQ -
HV049_RS26280 (HV049_26290) 129170..129922 - 753 WP_004152677 type-F conjugative transfer system pilin assembly protein TraF traF
HV049_RS26285 (HV049_26295) 129943..130269 - 327 WP_004152676 hypothetical protein -
HV049_RS26290 (HV049_26300) 130282..130530 - 249 WP_004152675 hypothetical protein -
HV049_RS26295 (HV049_26305) 130508..130762 - 255 WP_004152674 conjugal transfer protein TrbE -
HV049_RS26300 (HV049_26310) 130794..132749 - 1956 WP_181575854 type-F conjugative transfer system mating-pair stabilization protein TraN traN
HV049_RS26305 (HV049_26315) 132808..133446 - 639 WP_004193871 type-F conjugative transfer system pilin assembly protein TrbC trbC
HV049_RS26310 (HV049_26320) 133459..134448 - 990 WP_032408909 conjugal transfer pilus assembly protein TraU traU
HV049_RS26315 (HV049_26325) 134445..134846 - 402 WP_004194979 hypothetical protein -
HV049_RS26320 (HV049_26330) 134881..135516 - 636 WP_181575855 type-F conjugative transfer system protein TraW traW
HV049_RS26325 (HV049_26335) 135516..135905 - 390 WP_117046014 type-F conjugative transfer system protein TrbI -
HV049_RS26330 (HV049_26340) 135905..138544 - 2640 WP_032431388 type IV secretion system protein TraC virb4
HV049_RS26335 (HV049_26345) 138616..139014 - 399 WP_074188112 hypothetical protein -
HV049_RS26340 (HV049_26350) 139022..139267 - 246 WP_228725418 hypothetical protein -
HV049_RS26345 (HV049_26355) 139392..139796 - 405 WP_181575856 hypothetical protein -
HV049_RS26350 (HV049_26360) 139863..140174 - 312 WP_181575857 hypothetical protein -
HV049_RS26355 (HV049_26365) 140175..140393 - 219 WP_004195468 hypothetical protein -
HV049_RS26360 (HV049_26370) 140716..141300 - 585 WP_032440547 type IV conjugative transfer system lipoprotein TraV traV
HV049_RS26365 (HV049_26375) 141373..142797 - 1425 WP_004233801 F-type conjugal transfer pilus assembly protein TraB traB
HV049_RS26370 (HV049_26380) 142797..143537 - 741 WP_014386193 type-F conjugative transfer system secretin TraK traK
HV049_RS26375 (HV049_26385) 143524..144090 - 567 WP_004152602 type IV conjugative transfer system protein TraE traE
HV049_RS26380 (HV049_26390) 144110..144415 - 306 WP_004144424 type IV conjugative transfer system protein TraL traL
HV049_RS26385 (HV049_26395) 144429..144797 - 369 WP_004194426 type IV conjugative transfer system pilin TraA -
HV049_RS26390 (HV049_26400) 144859..145065 - 207 WP_171773970 TraY domain-containing protein -
HV049_RS26395 (HV049_26405) 145198..145917 - 720 WP_014386192 conjugal transfer protein -
HV049_RS26400 (HV049_26410) 146110..146526 - 417 WP_072145360 conjugal transfer relaxosome DNA-binding protein TraM -
HV049_RS26405 (HV049_26415) 146917..147402 + 486 WP_004178063 transglycosylase SLT domain-containing protein virB1
HV049_RS26410 (HV049_26420) 147435..147764 - 330 WP_014386191 DUF5983 family protein -
HV049_RS26415 (HV049_26425) 147797..148618 - 822 WP_004182076 DUF932 domain-containing protein -
HV049_RS26420 (HV049_26430) 149451..149864 - 414 WP_013023817 helix-turn-helix domain-containing protein -
HV049_RS26425 (HV049_26435) 149865..150143 - 279 WP_004152721 helix-turn-helix transcriptional regulator -
HV049_RS26430 (HV049_26440) 150133..150452 - 320 Protein_163 type II toxin-antitoxin system RelE/ParE family toxin -
HV049_RS26435 (HV049_26445) 150533..150757 - 225 WP_014386189 hypothetical protein -
HV049_RS26440 (HV049_26450) 150768..150980 - 213 WP_014386188 hypothetical protein -
HV049_RS26445 (HV049_26455) 151042..151368 - 327 WP_014386187 hypothetical protein -
HV049_RS26450 (HV049_26460) 152005..152355 - 351 WP_014386186 hypothetical protein -

Host bacterium

ID   4851 GenBank   NZ_CP056884
Plasmid name   pRHBSTW-00062_2 Incompatibility group   IncFIB
Plasmid size   198658 bp Coordinate of oriT [Strand]   146795..146844 [+]
Host baterium   Klebsiella pneumoniae strain RHBSTW-00062

Cargo genes

Drug resistance gene   tet(D), blaSHV-12
Virulence gene   -
Metal resistance gene   silE, silS, silR, silC, silF, silB, silA, silP, pcoA, pcoB, pcoC, pcoD, pcoR, pcoS, pcoE, arsH, arsC, arsB, arsA, arsD, arsR
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIE9