Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   105996
Name   oriT_pRHB39-C10_3 in_silico
Organism   Klebsiella pneumoniae strain RHB39-C10
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP057068 (185269..185318 [+], 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    		  TGTGTGGTGA
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 50 nt

>oriT_pRHB39-C10_3
AAATCTGCAAAATTTTAATTTTGCGTAGTGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   4031 GenBank   WP_102787785
Name   traI_HVZ82_RS27025_pRHB39-C10_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: 190743.43 Da        Isoelectric Point: 5.8581

>WP_102787785.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Klebsiella]
MLSFSQVKSAGSAGNYYTEKDNYYVIGSMEERWQGKGAELLGLEGKVDKQVFTELLQGKLPDGSDLTRIQ
DGVNKHRPGYDLTFSAPKSVSMLAMLGGDKRLIDAHNRAVTVALNQVESLASTRVKKDGVSETVLTGNLI
IARFNHDTSRAQDPQIHTHSVVINATQYGDKWQTLASDTVGKTGFSETILANRIALGKIYQNSLRADVES
MGYKTVDAGRNGMWEMEGVPVESFSTRSQELREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMNT
LKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLEA
KDGVFDLARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVPF
SDAVSVLAQDRPVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVTG
KSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTYR
WQGGQQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRHEGVLGEKDT
TITALTPVWLDSKSRGVRDYYREGMVMERWDPENRTHDRFVIDRVTASSNMLTLKDRDGVRLDLKVSAVD
SQWTLFRADTLPVAEGERLAVLGKIPDTRLKGGESITVMKVEEGQLTVQRPGQKTTQTLAVGAGVFDGIK
IGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSEQ
LKTRSGETDLDAAIAQQKAGLRTPAEQAIHLAIPLLESQDLTFTRPQLLATALETGGDKVPMWSIEMTIK
KQIKSGQLLNVGVSPGHGNDLMISRQTWDAEKSILTRVLEGKDAVAPLMDRVPASLMTDLTAGQRAATRM
ILETPDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPHVIGLGPTHRAVGEMQSAGVDARTTASFLHD
TQLLQRNGQTPDFSNTLFLLDESSMVGLSDTAKALSLIAAGGGRAVLSGDTDQLQSISPGQPFRLMQQRS
AADVAIMKEIVRQVPELRPAVYSLIDRDIDRALATIEQVTPERVPRKEGAWVPGSSVVEFTPTQEEEIRK
ALSKGESLPAGQPATLYEALVKDYTGRTPEAQSQTLIITHLNNDRRALNGLIHDARRENGETGREEITLP
VLVTSNIRDGELRKLSTWTAHKGAVALVDNVYHRIDNVDKDNQLITLTDSEGKERYISPREASAEGVTLY
RQEEITVSQGDRMRFSKSDPERGYVANSVWEVQSVSGDSVTLSDGKTTRTLTPKADEAQQHIDLAYAITA
HGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDRREGWIKAIQHSPEKATAHDILEP
RNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGSSPGKFISPGKKYPQPHVALPAFDKNGKAAGIW
LSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDRP
WNPGAMTGGRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEPA
DRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEEAIQQVASERLQRERLQAVERDMVRDLNREKTLG
GD

  Protein domains


Predicted by InterproScan.

TrwC relaxase (TrwC)

(11-283)

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

(576-628)

DNA helicase TraI (TraI_C)

(1432-1554)

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

(634-713)

AAA domain (AAA_30)

(970-1157)


  Protein structure



No available structure.




T4CP

ID   4043 GenBank   WP_029497425
Name   traD_HVZ82_RS27030_pRHB39-C10_3 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: 84944.96 Da        Isoelectric Point: 4.9615

>WP_029497425.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Klebsiella]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTSFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSREIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDAPEPGPADTDSHAGEQPEPVSPPA
PEEMTVSPAPVKAPPTTKRPAAEPPVLPVTPIPLLKPKAAAAAATASSAGTPAAAAGGTEQELAQQSAEQ
GPDMLPAGMNEDGVIEDMQAYDAWLADDQTQRDMQRREEVNINHSHRHDEQDDVEIGGNI

  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: 156765..185870

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HVZ82_RS27030 (HVZ82_27045) 156765..159047 - 2283 WP_029497425 type IV conjugative transfer system coupling protein TraD virb4
HVZ82_RS27035 (HVZ82_27050) 159174..159863 - 690 Protein_157 hypothetical protein -
HVZ82_RS27040 (HVZ82_27055) 160056..160787 - 732 WP_013023830 conjugal transfer complement resistance protein TraT -
HVZ82_RS27045 (HVZ82_27060) 161096..161620 - 525 WP_015065538 hypothetical protein -
HVZ82_RS27050 (HVZ82_27065) 161631..164474 - 2844 WP_029497424 conjugal transfer mating-pair stabilization protein TraG traG
HVZ82_RS27055 (HVZ82_27070) 164474..165853 - 1380 WP_075253037 conjugal transfer pilus assembly protein TraH traH
HVZ82_RS27060 (HVZ82_27075) 165831..166274 - 444 WP_014343488 F-type conjugal transfer protein TrbF -
HVZ82_RS27065 (HVZ82_27080) 166320..166877 - 558 WP_013214031 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
HVZ82_RS27070 (HVZ82_27085) 166849..167088 - 240 WP_004144400 type-F conjugative transfer system pilin chaperone TraQ -
HVZ82_RS27075 (HVZ82_27090) 167099..167851 - 753 WP_029497422 type-F conjugative transfer system pilin assembly protein TraF traF
HVZ82_RS27080 (HVZ82_27095) 167872..168198 - 327 WP_004144402 hypothetical protein -
HVZ82_RS27085 (HVZ82_27100) 168211..168459 - 249 WP_004152675 hypothetical protein -
HVZ82_RS27090 (HVZ82_27105) 168437..168691 - 255 WP_004152674 conjugal transfer protein TrbE -
HVZ82_RS27095 (HVZ82_27110) 168723..170678 - 1956 WP_075253038 type-F conjugative transfer system mating-pair stabilization protein TraN traN
HVZ82_RS27100 (HVZ82_27115) 170737..171375 - 639 WP_015065635 type-F conjugative transfer system pilin assembly protein TrbC trbC
HVZ82_RS27105 (HVZ82_27120) 171388..172377 - 990 WP_029497420 conjugal transfer pilus assembly protein TraU traU
HVZ82_RS27110 (HVZ82_27125) 172374..172775 - 402 WP_004194979 hypothetical protein -
HVZ82_RS27115 (HVZ82_27130) 172810..173445 - 636 WP_029497419 type-F conjugative transfer system protein TraW traW
HVZ82_RS27120 (HVZ82_27135) 173445..173834 - 390 WP_004167468 type-F conjugative transfer system protein TrbI -
HVZ82_RS27125 (HVZ82_27140) 173834..176473 - 2640 WP_013214024 type IV secretion system protein TraC virb4
HVZ82_RS27130 (HVZ82_27145) 176545..176943 - 399 WP_023179972 hypothetical protein -
HVZ82_RS27685 177125..177277 - 153 WP_224518895 hypothetical protein -
HVZ82_RS27140 (HVZ82_27155) 177320..177724 - 405 WP_004197817 hypothetical protein -
HVZ82_RS27145 (HVZ82_27160) 177791..178102 - 312 WP_029497417 hypothetical protein -
HVZ82_RS27150 (HVZ82_27165) 178103..178321 - 219 WP_004195468 hypothetical protein -
HVZ82_RS27155 (HVZ82_27170) 178644..179228 - 585 WP_020277945 type IV conjugative transfer system lipoprotein TraV traV
HVZ82_RS27160 (HVZ82_27175) 179251..179847 - 597 WP_029497416 conjugal transfer pilus-stabilizing protein TraP -
HVZ82_RS27165 (HVZ82_27180) 179840..181264 - 1425 WP_004233801 F-type conjugal transfer pilus assembly protein TraB traB
HVZ82_RS27170 (HVZ82_27185) 181264..182004 - 741 WP_014386193 type-F conjugative transfer system secretin TraK traK
HVZ82_RS27175 (HVZ82_27190) 181991..182557 - 567 WP_004152602 type IV conjugative transfer system protein TraE traE
HVZ82_RS27180 (HVZ82_27195) 182577..182882 - 306 WP_004144424 type IV conjugative transfer system protein TraL traL
HVZ82_RS27185 (HVZ82_27200) 182896..183264 - 369 WP_004194426 type IV conjugative transfer system pilin TraA -
HVZ82_RS27190 (HVZ82_27205) 183326..183532 - 207 WP_171773970 TraY domain-containing protein -
HVZ82_RS27195 (HVZ82_27210) 183665..184384 - 720 WP_075253039 conjugal transfer protein TrbJ -
HVZ82_RS27200 (HVZ82_27215) 184584..185000 - 417 WP_072145360 conjugal transfer relaxosome DNA-binding protein TraM -
HVZ82_RS27205 (HVZ82_27220) 185463..185870 + 408 WP_228728786 transglycosylase SLT domain-containing protein virB1
HVZ82_RS27210 (HVZ82_27225) 185908..186438 - 531 WP_049070338 antirestriction protein -
HVZ82_RS27215 (HVZ82_27230) 186630..186860 + 231 WP_049070336 hypothetical protein -
HVZ82_RS27220 (HVZ82_27235) 186979..187683 - 705 WP_075253041 IS6-like element IS26 family transposase -
HVZ82_RS27225 (HVZ82_27240) 187760..188686 - 927 WP_001554380 LysR family transcriptional regulator -
HVZ82_RS27230 (HVZ82_27245) 188816..189604 + 789 WP_001554379 alpha/beta hydrolase -
HVZ82_RS27235 (HVZ82_27250) 189796..189975 + 180 Protein_197 hypothetical protein -

Host bacterium

ID   6433 GenBank   NZ_CP057068
Plasmid name   pRHB39-C10_3 Incompatibility group   IncFIB
Plasmid size   217189 bp Coordinate of oriT [Strand]   185269..185318 [+]
Host baterium   Klebsiella pneumoniae strain RHB39-C10

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   arsR, arsD, arsA, arsB, arsC
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIE9