Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   109735
Name   oriT_2|P1 in_silico
Organism   Klebsiella oxytoca isolate
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_OW967519 (172246..172294 [+], 49 nt)
oriT length   49 nt
IRs (inverted repeats)      6..13, 16..23  (GCAAAATT..AATTTTGC)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 49 nt

>oriT_2|P1
AATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTCATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   6444 GenBank   WP_064352027
Name   traI_LQ214_RS29345_2|P1 insolico UniProt ID   _
Length   1753 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1753 a.a.        Molecular weight: 190278.04 Da        Isoelectric Point: 6.1200

>WP_064352027.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Klebsiella]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMEERWQGKGAEALGLDGKAVDKAVFTELLKGKLPDGSDLTRM
QDGANKHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVTVAVKQLETLAATRVMTDGKSETVLTGNL
IVAKFNHDTNRNQEPQLHTHAVVINATQNGDKWQSLGTDTVGKTGFIENVYANQIAFGKLYREALKPLVE
KLGYETEVVGKHGMWEMKDVLVEPFSTRSQELREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMN
TLKETGFDIQGYREAADTRAEEIARAPAAPVQTDGLDIADVVTKAIAGLSDRKVQFTYADVLARTVGQLE
AKPGVFELARTGIDAAIEREQLIPLDREKGLFTSNIHVLDELSVKALSQEIQRQNHVSVTPDAGVVREKP
FSDAVSVLAQDRPAMGIVAGQGGAAGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDARLAGETVT
GKSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTY
RWQGGKQATADIISEPDKSARYSRLAQEFAVSVREGQESVAQISGTREQNVLNSVIRDTLKNEGALGSRD
MTVTALTPVWLDSKSRGVRDYYREGMVMERWDPEARKHDRFVIDRVTASSNMLTLKDREGERLDLKVSVV
DSQWTLFRTDKLPVAEGERLAVLGKIPDTRLKGGESVTVLKAEAGQLTVQRPGQKTTQTLLVGSSPFDGI
KVGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHIRLYSAQDKARTTEKLARHTAFSVVSE
QLKARSGEADLEAAIAQQKAGLHTPAEQAIHLSIPLLESNSLTFTRPQLLATALETGGGKVPMKDIEATI
QAQIKAGSLLNVPVASGHGNDMLISRQTWDAEKSVLTRVLEGKDAVAPLMDRVPGSLMTDLTAGQRAATR
MILETPDRFTVVQGYAGVGKTTQFKAVMSAINLLPEETRPRVIGLGPTHRAVGEMQSAGVDAQTTASFLH
DTQLQQRNGQTPDFSNTLFLLDESSMVGLADTAKALSLIAAGGGRAVLSGDTDQLQSIAPGQPFRLMQQR
SAADVAIMKEIVRQVPELRPAVYSLIDRDVSRALSTIEQVTPEQVPRKDGAWVPENSVTEFTPAQEKAIQ
DALKEGKEIPPVTPVSLHDAIVKDYTGRTPAAQANTLIITHLNADRRALNGLIHDARVQNGEVSKDEVTL
PVLVTSNIRDGELRKLSTWSEHQGAVALLDNTYQRIESVDKENQLITLKDSEGNTRFLSPREASAEGVTL
YRPEHVTVSQGDRMRFSKSDPERGYVANSVWEVKAVSGDSVTLSDGKTTRTLNPKADEAQRHIDLAYAIT
AHGAQGASEPFAIALEGMEGRRKAMVSFESAYVALSRMKQHAQVYTDNREGWTTAVSRSQEKASAHDVLE
PQNARAVRNAGQLYGRAQPLDETAAGRAALQQSGLARGRSPGKFISPGKKYPQPHVALPAFDKNGKEAGI
WLSPLTDRDGRLEAIGGEGRIMGDETARFVALQNSRNGESLLAGNMGEGVRAARNHPDSGVIVRLAGDDR
PWNPEAITGGRIWAAPLPNLPLPDTGADTTPPPDVLAQRAAEEAQRRELERQTEQATREVAGEEKKAGEP
GERIKEVIGDVIRGLERDRPGEEKTPLPDDPQTRRQEAAIQQVASESLQRERLQQMERDMVRDLNREKTL
GGD

  Protein domains


Predicted by InterproScan.

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

(635-714)

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

(577-629)

TrwC relaxase (TrwC)

(10-284)

AAA domain (AAA_30)

(971-1158)

DNA helicase TraI (TraI_C)

(1433-1555)


  Protein structure



No available structure.




T4CP

ID   7065 GenBank   WP_064352026
Name   traD_LQ214_RS29350_2|P1 insolico UniProt ID   _
Length   759 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 759 a.a.        Molecular weight: 84981.63 Da        Isoelectric Point: 4.8119

>WP_064352026.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Klebsiella]
MSFNAKDMTQGGQIANMRFRMFGQIANIMLYVLFILFWGLCGLLLMFRLSWQTFVNGSVYWWCTTLAPMR
DIMRSQPVYTIQYYGHSLEFTAEQILSDKYTVWCGEQLWTSFVFAAVVSLIICIIAFFVASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILLNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLSLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDNDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIQRTLDTRVDARLSALLEAREAEGSLARALFTPDAPEPEQSDADSRTSPGQPEPESAP
VSPAPVKSASTAETLAAPPSVKASEAPQATVTTVPLTRPAPAATPAASSATASTTGGTEQELAQQPAEQG
QEMMPAGMNEDGEIEDMQVYDAWLADEQTQREMQRREEVNINHSHRRDEQDDIEIGGNF

  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: 147165..172852

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
LQ214_RS29350 (AI2744V1_5731) 147165..149444 - 2280 WP_064352026 type IV conjugative transfer system coupling protein TraD virb4
LQ214_RS29355 (AI2744V1_5732) 149681..150217 - 537 WP_064352025 hypothetical protein -
LQ214_RS29360 (AI2744V1_5733) 150228..153077 - 2850 WP_064352024 conjugal transfer mating-pair stabilization protein TraG traG
LQ214_RS29365 (AI2744V1_5734) 153077..154447 - 1371 WP_047722560 conjugal transfer pilus assembly protein TraH traH
LQ214_RS29370 (AI2744V1_5735) 154434..155012 - 579 WP_047722561 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
LQ214_RS29375 (AI2744V1_5736) 154984..155223 - 240 WP_047722563 type-F conjugative transfer system pilin chaperone TraQ -
LQ214_RS29380 (AI2744V1_5737) 155234..155986 - 753 WP_047722564 type-F conjugative transfer system pilin assembly protein TraF traF
LQ214_RS29385 (AI2744V1_5738) 156005..156331 - 327 WP_047722565 hypothetical protein -
LQ214_RS29390 (AI2744V1_5739) 156560..156790 - 231 WP_047722568 conjugal transfer protein TrbE -
LQ214_RS29395 (AI2744V1_5740) 156780..157061 - 282 WP_064352023 hypothetical protein -
LQ214_RS29400 (AI2744V1_5741) 157094..158968 - 1875 WP_047722571 type-F conjugative transfer system mating-pair stabilization protein TraN traN
LQ214_RS29405 (AI2744V1_5742) 158965..159582 - 618 WP_064352022 type-F conjugative transfer system pilin assembly protein TrbC trbC
LQ214_RS29410 (AI2744V1_5743) 159595..160578 - 984 WP_160887030 conjugal transfer pilus assembly protein TraU traU
LQ214_RS29415 (AI2744V1_5744) 160598..161224 - 627 WP_047722574 type-F conjugative transfer system protein TraW traW
LQ214_RS29420 (AI2744V1_5745) 161221..161661 - 441 WP_101836779 type-F conjugative transfer system protein TrbI -
LQ214_RS29425 (AI2744V1_5746) 161661..164300 - 2640 WP_047722575 type IV secretion system protein TraC virb4
LQ214_RS29430 164424..164750 - 327 WP_052958980 hypothetical protein -
LQ214_RS29435 (AI2744V1_5747) 164747..165151 - 405 WP_047722576 hypothetical protein -
LQ214_RS29440 (AI2744V1_5748) 165148..165369 - 222 WP_047722577 hypothetical protein -
LQ214_RS29445 (AI2744V1_5749) 165393..165686 - 294 WP_047722579 hypothetical protein -
LQ214_RS29450 (AI2744V1_5750) 165831..166034 - 204 WP_047722580 hypothetical protein -
LQ214_RS29455 (AI2744V1_5751) 166181..166750 - 570 WP_047722665 type IV conjugative transfer system lipoprotein TraV traV
LQ214_RS29460 (AI2744V1_5752) 166845..168260 - 1416 WP_047722582 F-type conjugal transfer pilus assembly protein TraB traB
LQ214_RS29465 (AI2744V1_5753) 168260..169000 - 741 WP_047722583 type-F conjugative transfer system secretin TraK traK
LQ214_RS29470 (AI2744V1_5754) 168987..169553 - 567 WP_047722585 type IV conjugative transfer system protein TraE traE
LQ214_RS29475 (AI2744V1_5755) 169573..169878 - 306 WP_047722586 type IV conjugative transfer system protein TraL traL
LQ214_RS29480 (AI2744V1_5756) 169892..170254 - 363 WP_047722588 type IV conjugative transfer system pilin TraA -
LQ214_RS29485 170315..170518 - 204 WP_171972759 TraY domain-containing protein -
LQ214_RS29490 (AI2744V1_5757) 170673..171347 - 675 WP_047722589 hypothetical protein -
LQ214_RS29495 (AI2744V1_5758) 171548..171943 - 396 WP_047722590 conjugal transfer relaxosome DNA-binding protein TraM -
LQ214_RS29500 (AI2744V1_5759) 172367..172852 + 486 WP_004178063 transglycosylase SLT domain-containing protein virB1
LQ214_RS29505 172885..173214 - 330 WP_011977736 DUF5983 family protein -
LQ214_RS29510 (AI2744V1_5760) 173247..174068 - 822 WP_004182076 DUF932 domain-containing protein -
LQ214_RS29515 (AI2744V1_5761) 174896..175459 - 564 WP_004182054 methyltransferase -
LQ214_RS29520 (AI2744V1_5762) 175507..176862 - 1356 WP_004182052 DUF3560 domain-containing protein -
LQ214_RS29525 (AI2744V1_5763) 176914..177144 - 231 WP_064352021 hypothetical protein -
LQ214_RS29530 (AI2744V1_5764) 177236..177463 - 228 WP_004182050 hypothetical protein -

Host bacterium

ID   10170 GenBank   NZ_OW967519
Plasmid name   2|P1 Incompatibility group   IncFIB
Plasmid size   195319 bp Coordinate of oriT [Strand]   172246..172294 [+]
Host baterium   Klebsiella oxytoca isolate

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   silE, silS, silR, silC, silF, silB, silA, silP, pcoA, pcoB, pcoC, pcoD, pcoR, pcoS, pcoE, arsR, arsD, arsA, arsB, arsC, fecD, fecE
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -