Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   120363
Name   oriT_pCMP234-2 in_silico
Organism   Klebsiella quasipneumoniae strain OSUCMP263AKPC
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP087582 (20048..20096 [-], 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_pCMP234-2
AATCTGCAAAATTTTAATTTTGCGTAGTGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   12813 GenBank   WP_032426769
Name   traI_LO541_RS26115_pCMP234-2 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: 190629.30 Da        Isoelectric Point: 6.1046

>WP_032426769.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacterales]
MLSFSQVKSAGSAGNYYTEKDNYYVIGSMEERWQGKGAEALGLEGKVDKQIFTELLQGKLPDGSDLTRIQ
DGVNKHRPGYDLTFSAPKSVSMLAMLGGDKRLIDAHNRAVTVALNQVESLASTRVQKDGVSETVLTGNLI
IARFNHDTSRAQDPQIHTHSVVINATQNGDKWQTLASDTVGKTGFSENILANRIAFGKIYQNTLRADVES
LGYRTVDAGKNGMWEMEGVPVESFSTRSQELREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMNT
LKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLEA
KDGVFELARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTSDASVVRQAPF
SDAVSVLAQDRPVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVTG
KSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTYR
WQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKDT
TITALTPVWLDSKSRGVRDYYREGMVMERWDPETRTHDRFVIDRVTASSNMLTLKDREGDRLDLKVSAVD
SQWTLFRAETLPVAEGERLAVLGKIPDTRLKGGESITVMKVEDGQLTVQRPGQKTTQTLAVGAGVFDGIK
IGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGNHLRLYSAQDAARTTEKLSRHTAFSVVSEQ
LKTRSGETDLDAAIAQQKAGLRTPAEQAIHLAIPLLESEKLTFSRPQLLATALETGGGKVSMADIDTTIQ
AQIRSGQLLNVPVAHGYGNDLLISRQTWDAEKSILTHVLEGKGAVAPLMDRVPDSLMTDLTAGQRAATRM
ILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVEARTTASFLHD
TQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIVAGGGRAVSSGDNDQLQPIAPGQPFRLMQQRS
AADVAIMKEIVRQVPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGVWAPGSSVVEFTPKQEKAIEK
ALSEGKTLPEGQPASLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITLP
VLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSEGKERFISPREASAEGVTLY
RQEKITVSQGDRMRFSKSDPERGYVANSIWEVQSVSGDSVTLSDGKLTRTLTPKAEQAQQHIDLAYAITA
HGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDNREGWIKAIQHSPEKATAHDILEP
RNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGSSPGKFISPGKKYPQPHVALPAFDKNGKAAGIW
LSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDRP
WNPGAMTGGRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEPA
DRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEAAIQQVASERLQRERLQAVERDMVRDLNREKTLG
GD

  Protein domains


Predicted by InterproScan.

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

(634-713)

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

(576-628)

AAA domain (AAA_30)

(970-1156)

TrwC relaxase (TrwC)

(11-283)

DNA helicase TraI (TraI_C)

(1432-1554)


  Protein structure



No available structure.




Auxiliary protein

ID   7228 GenBank   WP_032426796
Name   WP_032426796_pCMP234-2 insolico UniProt ID   _
Length   130 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 130 a.a.        Molecular weight: 15036.10 Da        Isoelectric Point: 4.5326

>WP_032426796.1 MULTISPECIES: conjugal transfer relaxosome DNA-binding protein TraM [Enterobacterales]
MGKVQAYPSDEVCEKINAIVEKRRMEGAKEKDVSFSSISTMLLELGLRVYEAQMERKESGFNQMAFNRAL
LESVVKTQFSVNKVLGIECLSPHVKDDPRWQWKGMVQNIQEDVQEVMRTFFPDEQEEADE

  Protein domains


Predicted by InterproScan.

TraM protein, DNA-binding (Tra_M)

(1-125)


  Protein structure



No available structure.




T4CP

ID   15054 GenBank   WP_020805031
Name   traD_LO541_RS26110_pCMP234-2 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: 85603.64 Da        Isoelectric Point: 5.1733

>WP_020805031.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTGFAFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDDDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDAPASGPDDAGSHAGEQPEPVSQPA
PAVMTVTPAPVKSPPTTKRPAAEPSARTAEPPVLRVTTVPLIKPKAAAAAGTAATASSAGTPAAAAGGTE
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: 22517..47805

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
LO541_RS25920 (LO541_25920) 17724..17954 + 231 WP_020314756 hypothetical protein -
LO541_RS25925 (LO541_25925) 18052..18267 + 216 Protein_29 SAM-dependent DNA methyltransferase -
LO541_RS25930 (LO541_25930) 18916..19458 + 543 WP_032426797 antirestriction protein -
LO541_RS25935 (LO541_25935) 19481..19903 - 423 WP_020315406 transglycosylase SLT domain-containing protein -
LO541_RS25940 (LO541_25940) 20409..20801 + 393 WP_032426796 conjugal transfer relaxosome DNA-binding protein TraM -
LO541_RS25945 (LO541_25945) 21039..21731 + 693 WP_032426795 conjugal transfer protein TrbJ -
LO541_RS25950 (LO541_25950) 21907..22071 + 165 WP_032426810 TraY domain-containing protein -
LO541_RS25955 (LO541_25955) 22135..22503 + 369 WP_032426794 type IV conjugative transfer system pilin TraA -
LO541_RS25960 (LO541_25960) 22517..22822 + 306 WP_004144424 type IV conjugative transfer system protein TraL traL
LO541_RS25965 (LO541_25965) 22842..23408 + 567 WP_004144423 type IV conjugative transfer system protein TraE traE
LO541_RS25970 (LO541_25970) 23395..24135 + 741 WP_013214019 type-F conjugative transfer system secretin TraK traK
LO541_RS25975 (LO541_25975) 24135..25559 + 1425 WP_032426793 F-type conjugal transfer pilus assembly protein TraB traB
LO541_RS25980 (LO541_25980) 25673..26242 + 570 WP_032426791 type IV conjugative transfer system lipoprotein TraV traV
LO541_RS25985 (LO541_25985) 26397..26795 + 399 WP_223294961 hypothetical protein -
LO541_RS25990 (LO541_25990) 26824..27114 + 291 WP_032426790 hypothetical protein -
LO541_RS25995 (LO541_25995) 27138..27356 + 219 WP_004171484 hypothetical protein -
LO541_RS26000 (LO541_26000) 27357..27695 + 339 WP_032426789 hypothetical protein -
LO541_RS26005 (LO541_26005) 27740..28144 + 405 WP_023320104 hypothetical protein -
LO541_RS26010 (LO541_26010) 28169..28567 + 399 WP_015065631 hypothetical protein -
LO541_RS26015 (LO541_26015) 28639..31278 + 2640 WP_032426788 type IV secretion system protein TraC virb4
LO541_RS26020 (LO541_26020) 31278..31667 + 390 WP_032426787 type-F conjugative transfer system protein TrbI -
LO541_RS26025 (LO541_26025) 31667..32293 + 627 WP_009309871 type-F conjugative transfer system protein TraW traW
LO541_RS26030 (LO541_26030) 32335..32724 + 390 WP_004194992 hypothetical protein -
LO541_RS26035 (LO541_26035) 32721..33710 + 990 WP_009309872 conjugal transfer pilus assembly protein TraU traU
LO541_RS26040 (LO541_26040) 33723..34361 + 639 WP_004193871 type-F conjugative transfer system pilin assembly protein TrbC trbC
LO541_RS26045 (LO541_26045) 34420..36375 + 1956 WP_032426778 type-F conjugative transfer system mating-pair stabilization protein TraN traN
LO541_RS26050 (LO541_26050) 36407..36661 + 255 WP_004195500 conjugal transfer protein TrbE -
LO541_RS26055 (LO541_26055) 36639..36887 + 249 WP_004152675 hypothetical protein -
LO541_RS26060 (LO541_26060) 36900..37226 + 327 WP_004144402 hypothetical protein -
LO541_RS26065 (LO541_26065) 37247..37999 + 753 WP_004152677 type-F conjugative transfer system pilin assembly protein TraF traF
LO541_RS26070 (LO541_26070) 38010..38249 + 240 WP_004144400 type-F conjugative transfer system pilin chaperone TraQ -
LO541_RS26075 (LO541_26075) 38221..38778 + 558 WP_013214031 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
LO541_RS26080 (LO541_26080) 38824..39267 + 444 WP_023287131 F-type conjugal transfer protein TrbF -
LO541_RS26085 (LO541_26085) 39245..40624 + 1380 WP_072159474 conjugal transfer pilus assembly protein TraH traH
LO541_RS26090 (LO541_26090) 40624..43446 + 2823 WP_032426775 conjugal transfer mating-pair stabilization protein TraG traG
LO541_RS26095 (LO541_26095) 43469..44071 + 603 WP_013214035 conjugal transfer protein TraS -
LO541_RS26100 (LO541_26100) 44081..44485 + 405 Protein_64 complement resistance protein TraT -
LO541_RS26105 (LO541_26105) 44678..45367 + 690 WP_023316411 hypothetical protein -
LO541_RS26110 (LO541_26110) 45496..47805 + 2310 WP_020805031 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   20792 GenBank   NZ_CP087582
Plasmid name   pCMP234-2 Incompatibility group   -
Plasmid size   104872 bp Coordinate of oriT [Strand]   20048..20096 [-]
Host baterium   Klebsiella quasipneumoniae strain OSUCMP263AKPC

Cargo genes

Drug resistance gene   blaKPC-2
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -