Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   102065
Name   oriT_ARPG-489|unnamed56 in_silico
Organism   Klebsiella pneumoniae strain ARPG-489
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_NBOP01000105 (42161..42210 [+], 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_ARPG-489|unnamed56
AAATCTGCAAAATTTTAATTTTGCGTAGTGTGTGGTCATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1648 GenBank   WP_015065542
Name   traI_B7D72_RS27690_ARPG-489|unnamed56 insolico UniProt ID   K7R3U7
Length   1752 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1752 a.a.        Molecular weight: 190318.03 Da        Isoelectric Point: 6.2890

>WP_015065542.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacterales]
MLSFSQVKSAGSAGNYYTEKDNYYVIGSMEERWQGKGAELLGLEGKVDKQVFTELLQGKLPDGSDLTRIQ
DGVNKHRPGYDLTFSAPKSVSMLAMLGGDKRLIDAHNRAVTVALNQVESLASTRVKKDGVSETVLTGNLI
IARFNHDTSRAQDPQIHTHSVVINATQNGDKWQTLASDTVGKTGFSETILANRIAFGKIYQNSLRADVES
MGYKTVDAGRNGMWEMEGVPVESFSTRSQELREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMNT
LKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLEA
KDGVFELARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVPF
SDAVSVLAQDRPVMGIVSGQGGATGQRERVAELTLMSREQGRDVHILAADNRSRDFLAGDVRLAGETVTG
KSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALAVLKDSGVNTYR
WQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKDT
TITALTPVWLDSKSRGVRDYYREGMVMERWDPENRTHDRFVIDRVTASSNMLTLKDREGGRLDLKVSAVD
SQWTLFRADTLPVAEGERLAVLGKIPDTRLKGGESITVMKVEEGQLTVQRPGQKTTQTLAAGAGVFDGIK
VGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSEQ
LKSRSGETDLDTAIAQQKAGLHTPAEQAIHLAIPLLESQDLTFSRPQLLATAMETGGGKVSMADIDTTIQ
AQIRSGQLLNVPVAHGYGNDLLISRQTWDAEKSILTHVLEGKGAVAPLMDRVPASLMTDLTAGQRAATRM
ILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLHD
TQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIAAGGGRAVPSGDTDQLPPIASGQPFRLTQQRS
AADVAIMKEIVRQMPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGAWAPGSSVVEFTPKQEKAIEK
ALSEGKTLPEGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITLP
VLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSEGKERFISPREASAEGVTLY
RQEKITVSQGDRMRFSKSDPERGYVANSIWEVQSVSGDSVTLSDGKLTRTLTPKAEQAQQHIDLAYAITA
HGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDSREGWIKAIKHSPEKATAHDILEP
RNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGSSPGKFISPGKKYPQPHVALPAFDKNGKAAGIW
LSPLTDRDGRLEAIGGGGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDRP
WNPGAMTGGRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEPA
DRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEAAIQQVASERLQRERLQAVERDMVRDLNREKTLG
GD

  Protein domains


Predicted by InterproScan.

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

(576-628)

DNA helicase TraI (TraI_C)

(1432-1554)

TrwC relaxase (TrwC)

(11-283)

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

(634-713)

AAA domain (AAA_30)

(970-1156)


  Protein structure



No available structure.




T4CP

ID   1277 GenBank   WP_015065541
Name   traD_B7D72_RS27695_ARPG-489|unnamed56 insolico UniProt ID   _
Length   770 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 770 a.a.        Molecular weight: 86025.00 Da        Isoelectric Point: 5.0577

>WP_015065541.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacterales]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTSFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDDDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSREIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDAPASGPADTNSHAGEQPEPVSQPA
PADMTVSPEPVKAPPTIKRPAAEPSVRTTEPSVLRVTTVPLIKPKAAAAAAAASTASSSGAPATAAGGTQ
QELAQQSAEQGQDMLPAGMNEDGVIEDMQAYDAWLADEQTQRDMQRREEVNINHSHRHDEQDDVEIGGNF

  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: 12741..42768

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
B7D72_RS27695 (B7D72_27585) 12741..15053 - 2313 WP_015065541 type IV conjugative transfer system coupling protein TraD virb4
B7D72_RS29455 15182..15871 - 690 WP_072198073 hypothetical protein -
B7D72_RS27705 (B7D72_27595) 16064..16795 - 732 WP_016831056 conjugal transfer complement resistance protein TraT -
B7D72_RS27710 (B7D72_27600) 17046..17648 - 603 WP_071604857 hypothetical protein -
B7D72_RS27715 (B7D72_27605) 17671..20493 - 2823 WP_016831055 conjugal transfer mating-pair stabilization protein TraG traG
B7D72_RS27720 (B7D72_27610) 20493..21872 - 1380 WP_072159542 conjugal transfer pilus assembly protein TraH traH
B7D72_RS27725 (B7D72_27615) 21850..22293 - 444 WP_016831053 F-type conjugal transfer protein TrbF -
B7D72_RS27730 (B7D72_27620) 22339..22896 - 558 WP_004152678 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
B7D72_RS27735 (B7D72_27625) 22868..23107 - 240 WP_004144400 type-F conjugative transfer system pilin chaperone TraQ -
B7D72_RS27740 (B7D72_27630) 23118..23870 - 753 WP_004152677 type-F conjugative transfer system pilin assembly protein TraF traF
B7D72_RS27745 (B7D72_27635) 23891..24217 - 327 WP_016831051 hypothetical protein -
B7D72_RS27750 (B7D72_27640) 24230..24478 - 249 WP_004152675 hypothetical protein -
B7D72_RS27755 (B7D72_27645) 24456..24710 - 255 WP_015065558 conjugal transfer protein TrbE -
B7D72_RS27760 (B7D72_27650) 24742..26697 - 1956 WP_023313940 type-F conjugative transfer system mating-pair stabilization protein TraN traN
B7D72_RS27765 (B7D72_27655) 26756..27403 - 648 WP_039109927 type-F conjugative transfer system pilin assembly protein TrbC trbC
B7D72_RS27770 (B7D72_27660) 27679..28668 - 990 WP_015632509 conjugal transfer pilus assembly protein TraU traU
B7D72_RS27775 (B7D72_27665) 28665..29066 - 402 WP_016831047 hypothetical protein -
B7D72_RS27780 (B7D72_27670) 29101..29736 - 636 WP_016831046 type-F conjugative transfer system protein TraW traW
B7D72_RS27785 (B7D72_27675) 29736..30125 - 390 WP_004167468 type-F conjugative transfer system protein TrbI -
B7D72_RS27790 (B7D72_27680) 30125..32764 - 2640 WP_016831045 type IV secretion system protein TraC virb4
B7D72_RS27795 (B7D72_27685) 32836..33234 - 399 WP_023158008 hypothetical protein -
B7D72_RS29925 33242..33460 - 219 WP_072196435 hypothetical protein -
B7D72_RS29930 33474..33632 - 159 WP_223178560 hypothetical protein -
B7D72_RS27805 (B7D72_27695) 33675..34079 - 405 WP_016831042 hypothetical protein -
B7D72_RS27810 (B7D72_27700) 34146..34457 - 312 WP_016831041 hypothetical protein -
B7D72_RS27815 (B7D72_27705) 34458..34676 - 219 WP_014386199 hypothetical protein -
B7D72_RS27820 (B7D72_27710) 34700..34989 - 290 Protein_38 hypothetical protein -
B7D72_RS27825 (B7D72_27715) 34994..35404 - 411 WP_032409654 hypothetical protein -
B7D72_RS27830 (B7D72_27720) 35536..36120 - 585 WP_014386196 type IV conjugative transfer system lipoprotein TraV traV
B7D72_RS28705 36143..36739 - 597 Protein_41 conjugal transfer pilus-stabilizing protein TraP -
B7D72_RS27845 (B7D72_27735) 36732..38156 - 1425 WP_016831036 F-type conjugal transfer pilus assembly protein TraB traB
B7D72_RS27850 (B7D72_27740) 38156..38896 - 741 WP_032408905 type-F conjugative transfer system secretin TraK traK
B7D72_RS27855 (B7D72_27745) 38883..39449 - 567 WP_016831035 type IV conjugative transfer system protein TraE traE
B7D72_RS27860 (B7D72_27750) 39469..39774 - 306 WP_004144424 type IV conjugative transfer system protein TraL traL
B7D72_RS27865 (B7D72_27755) 39788..40156 - 369 WP_004194426 type IV conjugative transfer system pilin TraA -
B7D72_RS27870 (B7D72_27760) 40218..40424 - 207 WP_171773970 TraY domain-containing protein -
B7D72_RS27875 (B7D72_27765) 40557..41276 - 720 WP_016831034 conjugal transfer protein TrbJ -
B7D72_RS27880 (B7D72_27770) 41476..41892 - 417 WP_072145360 conjugal transfer relaxosome DNA-binding protein TraM -
B7D72_RS27885 (B7D72_27775) 42283..42768 + 486 WP_004178063 transglycosylase SLT domain-containing protein virB1
B7D72_RS27890 (B7D72_27780) 42801..43130 - 330 WP_011977736 DUF5983 family protein -
B7D72_RS27895 (B7D72_27785) 43163..43984 - 822 WP_004182076 DUF932 domain-containing protein -

Host bacterium

ID   2509 GenBank   NZ_NBOP01000105
Plasmid name   ARPG-489|unnamed56 Incompatibility group   IncFII
Plasmid size   44421 bp Coordinate of oriT [Strand]   42161..42210 [+]
Host baterium   Klebsiella pneumoniae strain ARPG-489

Cargo genes

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