Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   119444
Name   oriT_pA708-3 in_silico
Organism   Klebsiella quasipneumoniae strain A708
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP026371 (65447..65495 [-], 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_pA708-3
AATCTGCAAAATTTTAATTTTGCGTAGTGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   12285 GenBank   WP_151114803
Name   traI_C2767_RS29950_pA708-3 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: 190312.95 Da        Isoelectric Point: 6.1899

>WP_151114803.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Klebsiella]
MLSFSQVKSAGSAGNYYTEKDNYYVIGSMEERWQGKGAEALGLEGKVDKQIFTELLQGKLPDGSDLTRIQ
DGVNKHRPGYDLTFSAPKSVSMLAMLGGDKRLIDAHNRAVTVALNQVESLASTRVQKDGVSETVLTGNLI
IARFNHDTSRAQDPQIHTHSVVINATQNGDKWQTLASDTVGKTGFSENILANRIAFGKIYQNTLRADVES
LGYRTVDAGKNGMWEMEGVPVESFSTRSQELREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMNT
LKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLEA
KDGVFELARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVPF
SDAVSVLAQDRPVMGIVSGQGGATGQRERVAELTLMSREQGRDVHILAADNRSRDFLAGDVRLAGETVTG
KSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTYR
WQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKDT
TITALTPVWLDSKSRGVRDYYREGMVMERWDPENRTHDRFVIDRVTASSNMLTLKDREGGRLDLKVSAVD
SQWTLFRADTLPVAEGERLAVLGKIPDTRLKGGESITVMKVEEGQLTVQRPGQKTTQTLAAGAGVFDGIK
VGHGWVESPGRSVSETATVFASVTQLELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSEQ
LKSRSGETDLDTAIAQQKAGLHTPAEQAIHLAIPLLESQDLTFSRPQLLATAMETGGGKVSMADIDTTIQ
AQIRSGQLLNVPVAHGYGNDLLISRQTWDAEKSILTHVLEGKGAVAPLMDRVPASLMTDLTAGQRAATRM
ILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLHD
TQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIAAGGGRAVPSGDTDQLPPIASGQPFRLTQQRS
AADVAIMKEIVRQMPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGAWAPGSSVVEFTPKQEKAIEK
ALSEGKTLPEGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITLP
VLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSEGKERFISPREASAEGVTLY
RQEKITVSQGDRMRFSKSDPERGYVANSIWEVQSVSGDSVTLSDGKLTRTLTPKAEQAQQHIDLAYAITA
HGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDNREGWIKAIKHSPEKATAHDILEP
RNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGSSPGKFISPGKKYPQPHVALPAFDKNGKAAGIW
LSPLTDRDGRLEAIGGGGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDRP
WNPGAMTGGRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEPA
DRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEAAIQQVASERLQRERLQAVERDMVRDLNREKTLG
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)

AAA domain (AAA_30)

(970-1156)

TrwC relaxase (TrwC)

(11-283)


  Protein structure



No available structure.




Auxiliary protein

ID   7004 GenBank   WP_004197733
Name   WP_004197733_pA708-3 insolico UniProt ID   A0A0E3KB00
Length   129 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 129 a.a.        Molecular weight: 14835.90 Da        Isoelectric Point: 4.6012

>WP_004197733.1 MULTISPECIES: conjugal transfer relaxosome DNA-binding protein TraM [Bacteria]
MGKVQAYPSDEVCEKINAIVEKRRMEGAKDKDVSFSSISTMLLELGLRVYEAQMERKESGFNQMAFNRAL
LESVVKTQFSVNKILGIECLSPHVKDDPRWQWKSMVLNIQEDVQEAMRNFFPDEDAEGE

  Protein domains


Predicted by InterproScan.

TraM protein, DNA-binding (Tra_M)

(1-124)


  Protein structure


Source ID Structure
AlphaFold DB A0A0E3KB00


T4CP

ID   14416 GenBank   WP_022631526
Name   traD_C2767_RS29945_pA708-3 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: 85555.58 Da        Isoelectric Point: 5.1733

>WP_022631526.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Klebsiella]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTGFAFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGVASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDDDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDAPASGPDDAGSHAGEQPEPVSQPA
PAVMTVTPAPVKAPPTTKRPAAEPSARTAEPPVLRVTTVPLIKPKAAAAAGTAATASSAGTPAAAAGGTE
QVLAQQSAEQGQAMLPAGMNEDGVIEDMQAYDAWADEQTQRDMQRREEVNINHSHRHDEQDDLEIGGNF

  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: 67916..94432

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
C2767_RS29760 (C2767_30270) 64315..64857 + 543 WP_150073636 antirestriction protein -
C2767_RS29765 (C2767_30275) 64880..65302 - 423 WP_077268549 transglycosylase SLT domain-containing protein -
C2767_RS29770 (C2767_30280) 65807..66196 + 390 WP_004197733 conjugal transfer relaxosome DNA-binding protein TraM -
C2767_RS29775 (C2767_30285) 66439..67116 + 678 WP_225319986 hypothetical protein -
C2767_RS29780 (C2767_30290) 67308..67472 + 165 WP_032444506 TraY domain-containing protein -
C2767_RS29785 (C2767_30295) 67534..67902 + 369 WP_004194426 type IV conjugative transfer system pilin TraA -
C2767_RS29790 (C2767_30300) 67916..68221 + 306 WP_004144424 type IV conjugative transfer system protein TraL traL
C2767_RS29795 (C2767_30305) 68241..68807 + 567 WP_022631515 type IV conjugative transfer system protein TraE traE
C2767_RS29800 (C2767_30310) 68794..69534 + 741 WP_013214019 type-F conjugative transfer system secretin TraK traK
C2767_RS29805 (C2767_30315) 69534..70958 + 1425 WP_004233801 F-type conjugal transfer pilus assembly protein TraB traB
C2767_RS29810 (C2767_30320) 71072..71656 + 585 WP_009309868 type IV conjugative transfer system lipoprotein TraV traV
C2767_RS29815 (C2767_30325) 71788..72198 + 411 WP_009309869 hypothetical protein -
C2767_RS29820 (C2767_30330) 72304..72522 + 219 WP_004195468 hypothetical protein -
C2767_RS29825 (C2767_30335) 72523..72834 + 312 WP_004195465 hypothetical protein -
C2767_RS29830 (C2767_30340) 72901..73305 + 405 WP_004197817 hypothetical protein -
C2767_RS29845 (C2767_30355) 73682..74080 + 399 WP_023179972 hypothetical protein -
C2767_RS29850 (C2767_30360) 74152..76791 + 2640 WP_151114798 type IV secretion system protein TraC virb4
C2767_RS29855 (C2767_30365) 76791..77180 + 390 WP_004152506 type-F conjugative transfer system protein TrbI -
C2767_RS29860 (C2767_30370) 77180..77806 + 627 WP_015065633 type-F conjugative transfer system protein TraW traW
C2767_RS29865 (C2767_30375) 77826..78809 + 984 WP_223176982 conjugal transfer pilus assembly protein TraU traU
C2767_RS29870 (C2767_30380) 78824..79372 + 549 WP_022631518 hypothetical protein -
C2767_RS29875 (C2767_30390) 80093..80695 + 603 WP_022631520 hypothetical protein -
C2767_RS29880 (C2767_30395) 80840..81487 + 648 WP_022631521 type-F conjugative transfer system pilin assembly protein TrbC trbC
C2767_RS29885 (C2767_30400) 81546..83501 + 1956 WP_022631522 type-F conjugative transfer system mating-pair stabilization protein TraN traN
C2767_RS29890 (C2767_30405) 83533..83787 + 255 WP_004152674 conjugal transfer protein TrbE -
C2767_RS29895 (C2767_30410) 83765..84013 + 249 WP_004152675 hypothetical protein -
C2767_RS29900 (C2767_30415) 84026..84352 + 327 WP_004152676 hypothetical protein -
C2767_RS29905 (C2767_30420) 84373..85125 + 753 WP_004152677 type-F conjugative transfer system pilin assembly protein TraF traF
C2767_RS29910 (C2767_30425) 85136..85375 + 240 WP_004152687 type-F conjugative transfer system pilin chaperone TraQ -
C2767_RS29915 (C2767_30430) 85347..85919 + 573 WP_022631523 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
C2767_RS29920 (C2767_30435) 85912..86340 + 429 WP_015065560 hypothetical protein -
C2767_RS29925 (C2767_30440) 86327..87697 + 1371 WP_009309877 conjugal transfer pilus assembly protein TraH traH
C2767_RS29930 (C2767_30445) 87697..90570 + 2874 WP_009309878 conjugal transfer mating-pair stabilization protein TraG traG
C2767_RS30595 91305..91997 + 693 WP_009309879 hypothetical protein -
C2767_RS29945 (C2767_30460) 92123..94432 + 2310 WP_022631526 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   19874 GenBank   NZ_CP026371
Plasmid name   pA708-3 Incompatibility group   IncFII
Plasmid size   133085 bp Coordinate of oriT [Strand]   65447..65495 [-]
Host baterium   Klebsiella quasipneumoniae strain A708

Cargo genes

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