Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   105318
Name   oriT_pRHBSTW-00268_3 in_silico
Organism   Klebsiella quasipneumoniae strain RHBSTW-00268
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP055332 (105828..105876 [-], 49 nt)
oriT length   49 nt
IRs (inverted repeats)      6..13, 16..23  (GCAAAATT..AATTTTGC)
Location of nic site      32..33
Conserved sequence flanking the
  nic site    		  TGTGTGGTGA
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 49 nt

>oriT_pRHBSTW-00268_3
AATCTGCAAAATTTTAATTTTGCGTAGTGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3632 GenBank   WP_181479919
Name   traI_HV140_RS26155_pRHBSTW-00268_3 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: 190412.08 Da        Isoelectric Point: 6.1182

>WP_181479919.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Klebsiella]
MLSFSQVKSAGSAGNYYTDKDNYYVIGSMDERWQGKGAEALGLEGKVDKQVFTELLQGKLPDGSDLTRIQ
DGVNKHRPGYDLTFSAPKSVSMLAMLGGDKRLIDAHNRAVTVALNQVESLASTRVKRDGVSETVLTGNLI
IARFNHDTSRAQDPQIHTHSVVINATQNGDKWQTLASDTVGKTGFSENILANRIALGKIYQNSLRADVES
MGYKTVDAGKNGMWEMEGVPVESFSTRSQELREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMNT
LKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLEA
KDGVFELARAGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVPF
SDAVSVLAQDRPVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVTG
KSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTYR
WQGGQQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKDT
TITALTPVWLDSKSRGVRDYYREGMVMESWDPETRTHDRFVIDRVTASSNMLTLKDREGGRLDLKVSAVD
SQWTLFRAETLPVAEGERLAVLGKIPDTRLKGGESITVMKVEDGQLTVQRPGQKTTQTLAVGAGVFDGIK
IGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSEQ
LKTRSGETDLDAAIAQQKAGLRTPAEQAIHLAIPLLESEKLTFSRPQLLATALETGGGKVSMADIDTTIQ
AQIWSGQLLNVPVAHGYGNDLLISRQTWDAEKSILTHVLEGKDAVAPLMDRVPASLMTDLTAGQRAATRM
ILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLHD
TQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIVAGGGRAVSSGDNDQLQPIAPGQPFRLMQQRS
AADIAIMKEIVRQVPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGVWAPGSSVVEFTPKQEKAIQK
ALSEGKTLPAGQPATLYEALVKDYTGRTPEAQSQTVVITHLNKDRRALNSLIHDARRENGETGKEEITLP
VLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSDGKERYISPREASAEGVTLY
RQEKITVSQGDRMRFSKSDLERGYVANSIWEVQSVSGDSVTLSDGKTTRTLTPKADQAQQHIDLAYAITA
HGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDSREGWIKAIKHSPEKATAHDILEP
RNDRAVKSADLLFGRARPLDETAAGRAALQQSGLAQGNSPGKFISPGKKYPQPHVALPAFDKNGKAAGIW
LSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDRP
WNPGAMTGGRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGESRKAGEPA
DRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEEAIQQVASERLQRERLQAVERDMVRDLNREKTLG
GD

  Protein domains


Predicted by InterproScan.

TrwC relaxase (TrwC)

(10-283)

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

(576-628)

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

(634-713)

AAA domain (AAA_30)

(970-1156)

DNA helicase TraI (TraI_C)

(1432-1554)


  Protein structure



No available structure.




Auxiliary protein

ID   1632 GenBank   WP_087829209
Name   WP_087829209_pRHBSTW-00268_3 insolico UniProt ID   _
Length   129 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 129 a.a.        Molecular weight: 14907.97 Da        Isoelectric Point: 4.5248

>WP_087829209.1 MULTISPECIES: conjugal transfer relaxosome DNA-binding protein TraM [Enterobacteriaceae]
MGKVQAYPSDEVCEKINAIVEKRRMEGAKDKDVSFSSISTMLLELGLRVYEAQMERKESGFNQMAFNRAL
LESVVKTQFSVNKILGIECLSPHVKDDPRWQWKSMVLNIQEDVQEAMRNFFPDEDAEEE

  Protein domains


Predicted by InterproScan.

TraM protein, DNA-binding (Tra_M)

(1-124)


  Protein structure



No available structure.




T4CP

ID   3603 GenBank   WP_087829319
Name   traD_HV140_RS26150_pRHBSTW-00268_3 insolico UniProt ID   _
Length   761 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 761 a.a.        Molecular weight: 85294.30 Da        Isoelectric Point: 4.9677

>WP_087829319.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTSFIFAAVVSLVICIVTFFVASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILLNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLSLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDQPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRSLDARVDARLSALLEAREAEGSLARALFTPDAPEPGPADTDSHAGEQPEPAEVTV
SPAPVKATQTTKMPAEEPSVRATEPPVLRVTTVPLIKPKAAGTAATASSAGTPVAPAGGTEQELVQHSTE
QGRDMLPAGMNEDGVIEDMQAYDAWLADEQTLRDMQRREEVNINHSHRHDEQDDVEIGGNF

  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: 105276..134040

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HV140_RS25940 (HV140_25955) 100922..101083 + 162 WP_181479918 type I toxin-antitoxin system Hok family toxin -
HV140_RS25945 (HV140_25960) 102091..102471 + 381 WP_004197740 hypothetical protein -
HV140_RS25950 (HV140_25965) 102538..102885 + 348 WP_004197735 hypothetical protein -
HV140_RS25955 (HV140_25970) 102973..103203 + 231 WP_004197732 hypothetical protein -
HV140_RS25960 (HV140_25975) 103250..104083 + 834 WP_004197739 N-6 DNA methylase -
HV140_RS25965 (HV140_25980) 104708..105238 + 531 WP_004197734 antirestriction protein -
HV140_RS25970 (HV140_25985) 105276..105683 - 408 WP_009309864 transglycosylase SLT domain-containing protein virB1
HV140_RS25975 (HV140_25990) 106188..106577 + 390 WP_087829209 conjugal transfer relaxosome DNA-binding protein TraM -
HV140_RS25980 (HV140_25995) 106816..107490 + 675 WP_095033684 hypothetical protein -
HV140_RS25985 (HV140_26000) 107682..107846 + 165 WP_032444506 TraY domain-containing protein -
HV140_RS25990 (HV140_26005) 107908..108276 + 369 WP_087829211 type IV conjugative transfer system pilin TraA -
HV140_RS25995 (HV140_26010) 108290..108595 + 306 WP_087829212 type IV conjugative transfer system protein TraL traL
HV140_RS26000 (HV140_26015) 108615..109181 + 567 WP_064373744 type IV conjugative transfer system protein TraE traE
HV140_RS26005 (HV140_26020) 109168..109908 + 741 WP_020804840 type-F conjugative transfer system secretin TraK traK
HV140_RS26010 (HV140_26025) 109908..111332 + 1425 WP_023316397 F-type conjugal transfer pilus assembly protein TraB traB
HV140_RS26015 (HV140_26030) 111325..111921 + 597 WP_023316398 conjugal transfer pilus-stabilizing protein TraP -
HV140_RS26020 (HV140_26035) 111944..112513 + 570 WP_023316399 type IV conjugative transfer system lipoprotein TraV traV
HV140_RS26025 (HV140_26040) 112645..113055 + 411 WP_023316400 hypothetical protein -
HV140_RS26030 (HV140_26045) 113060..113344 + 285 WP_023316401 hypothetical protein -
HV140_RS26035 (HV140_26050) 113368..113586 + 219 WP_023316402 hypothetical protein -
HV140_RS26040 (HV140_26055) 113587..113898 + 312 WP_023316403 hypothetical protein -
HV140_RS26045 (HV140_26060) 113965..114369 + 405 WP_023316404 hypothetical protein -
HV140_RS26050 (HV140_26065) 114366..114656 + 291 WP_020323516 hypothetical protein -
HV140_RS26055 (HV140_26070) 114664..115062 + 399 WP_072156904 hypothetical protein -
HV140_RS26060 (HV140_26075) 115134..117773 + 2640 WP_020323518 type IV secretion system protein TraC virb4
HV140_RS26065 (HV140_26080) 117773..118162 + 390 WP_020314627 type-F conjugative transfer system protein TrbI -
HV140_RS26070 (HV140_26085) 118162..118788 + 627 WP_020314628 type-F conjugative transfer system protein TraW traW
HV140_RS26075 (HV140_26090) 118832..119791 + 960 WP_029497356 conjugal transfer pilus assembly protein TraU traU
HV140_RS26080 (HV140_26095) 119804..120442 + 639 WP_064182677 type-F conjugative transfer system pilin assembly protein TrbC trbC
HV140_RS26085 (HV140_26100) 120501..122456 + 1956 WP_020803160 type-F conjugative transfer system mating-pair stabilization protein TraN traN
HV140_RS26090 (HV140_26105) 122489..122770 + 282 WP_022644736 hypothetical protein -
HV140_RS26095 (HV140_26110) 122760..122987 + 228 WP_012540032 conjugal transfer protein TrbE -
HV140_RS26100 (HV140_26115) 122998..123324 + 327 WP_020323521 hypothetical protein -
HV140_RS26105 (HV140_26120) 123345..124097 + 753 WP_023316406 type-F conjugative transfer system pilin assembly protein TraF traF
HV140_RS26110 (HV140_26125) 124552..124791 + 240 WP_023316407 type-F conjugative transfer system pilin chaperone TraQ -
HV140_RS26115 (HV140_26130) 124763..125320 + 558 WP_020804677 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
HV140_RS26120 (HV140_26135) 125366..125809 + 444 WP_020804675 F-type conjugal transfer protein TrbF -
HV140_RS26125 (HV140_26140) 125787..127166 + 1380 WP_162495503 conjugal transfer pilus assembly protein TraH traH
HV140_RS26130 (HV140_26145) 127166..130015 + 2850 WP_032744228 conjugal transfer mating-pair stabilization protein TraG traG
HV140_RS26135 (HV140_26150) 130021..130548 + 528 WP_020803849 hypothetical protein -
HV140_RS27905 130731..131399 + 669 WP_020803846 hypothetical protein -
HV140_RS26145 (HV140_26160) 131423..131683 + 261 WP_020803850 hypothetical protein -
HV140_RS26150 (HV140_26165) 131755..134040 + 2286 WP_087829319 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   5756 GenBank   NZ_CP055332
Plasmid name   pRHBSTW-00268_3 Incompatibility group   IncFIB
Plasmid size   144822 bp Coordinate of oriT [Strand]   105828..105876 [-]
Host baterium   Klebsiella quasipneumoniae strain RHBSTW-00268

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -