Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   119236
Name   oriT_FDAARGOS_511|unnamed1 in_silico
Organism   Klebsiella sp. FDAARGOS_511
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP033823 (121932..121980 [+], 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_FDAARGOS_511|unnamed1
AATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTCATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   12173 GenBank   WP_064352027
Name   traI_EGY08_RS00500_FDAARGOS_511|unnamed1 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   14256 GenBank   WP_064352026
Name   traD_EGY08_RS00505_FDAARGOS_511|unnamed1 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: 96851..122538

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
EGY08_RS00505 (EGY08_00500) 96851..99130 - 2280 WP_064352026 type IV conjugative transfer system coupling protein TraD virb4
EGY08_RS00510 (EGY08_00505) 99367..99903 - 537 WP_064352025 hypothetical protein -
EGY08_RS00515 (EGY08_00510) 99914..102763 - 2850 WP_064352024 conjugal transfer mating-pair stabilization protein TraG traG
EGY08_RS00520 (EGY08_00515) 102763..104133 - 1371 WP_047722560 conjugal transfer pilus assembly protein TraH traH
EGY08_RS00525 (EGY08_00520) 104120..104698 - 579 WP_047722561 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
EGY08_RS00530 (EGY08_00525) 104670..104909 - 240 WP_047722563 type-F conjugative transfer system pilin chaperone TraQ -
EGY08_RS00535 (EGY08_00530) 104920..105672 - 753 WP_047722564 type-F conjugative transfer system pilin assembly protein TraF traF
EGY08_RS00540 (EGY08_00535) 105691..106017 - 327 WP_047722565 hypothetical protein -
EGY08_RS00550 (EGY08_00545) 106246..106476 - 231 WP_047722568 conjugal transfer protein TrbE -
EGY08_RS00555 (EGY08_00550) 106466..106747 - 282 WP_064352023 hypothetical protein -
EGY08_RS00560 (EGY08_00555) 106780..108654 - 1875 WP_047722571 type-F conjugative transfer system mating-pair stabilization protein TraN traN
EGY08_RS00565 (EGY08_00560) 108651..109268 - 618 WP_064352022 type-F conjugative transfer system pilin assembly protein TrbC trbC
EGY08_RS00570 (EGY08_00565) 109281..110264 - 984 WP_160887030 conjugal transfer pilus assembly protein TraU traU
EGY08_RS00575 (EGY08_00570) 110284..110910 - 627 WP_047722574 type-F conjugative transfer system protein TraW traW
EGY08_RS00580 (EGY08_00575) 110907..111347 - 441 WP_101836779 type-F conjugative transfer system protein TrbI -
EGY08_RS00585 (EGY08_00580) 111347..113986 - 2640 WP_047722575 type IV secretion system protein TraC virb4
EGY08_RS00590 (EGY08_00585) 114110..114436 - 327 WP_052958980 hypothetical protein -
EGY08_RS00595 (EGY08_00590) 114433..114837 - 405 WP_047722576 hypothetical protein -
EGY08_RS00600 (EGY08_00595) 114834..115055 - 222 WP_047722577 hypothetical protein -
EGY08_RS00605 (EGY08_00600) 115079..115372 - 294 WP_047722579 hypothetical protein -
EGY08_RS00610 (EGY08_00605) 115517..115720 - 204 WP_047722580 hypothetical protein -
EGY08_RS00615 (EGY08_00610) 115867..116436 - 570 WP_047722665 type IV conjugative transfer system lipoprotein TraV traV
EGY08_RS00620 (EGY08_00615) 116531..117946 - 1416 WP_047722582 F-type conjugal transfer pilus assembly protein TraB traB
EGY08_RS00625 (EGY08_00620) 117946..118686 - 741 WP_047722583 type-F conjugative transfer system secretin TraK traK
EGY08_RS00630 (EGY08_00625) 118673..119239 - 567 WP_047722585 type IV conjugative transfer system protein TraE traE
EGY08_RS00635 (EGY08_00630) 119259..119564 - 306 WP_047722586 type IV conjugative transfer system protein TraL traL
EGY08_RS00640 (EGY08_00635) 119578..119940 - 363 WP_047722588 type IV conjugative transfer system pilin TraA -
EGY08_RS00645 (EGY08_00640) 120001..120204 - 204 WP_171972759 TraY domain-containing protein -
EGY08_RS00650 (EGY08_00645) 120359..121033 - 675 WP_047722589 hypothetical protein -
EGY08_RS00655 (EGY08_00650) 121234..121629 - 396 WP_047722590 conjugal transfer relaxosome DNA-binding protein TraM -
EGY08_RS00660 (EGY08_00655) 122053..122538 + 486 WP_004178063 transglycosylase SLT domain-containing protein virB1
EGY08_RS00665 (EGY08_00660) 122571..122900 - 330 WP_011977736 DUF5983 family protein -
EGY08_RS00670 (EGY08_00665) 122933..123754 - 822 WP_004182076 DUF932 domain-containing protein -
EGY08_RS00685 (EGY08_00680) 124582..125145 - 564 WP_004182054 methyltransferase -
EGY08_RS00690 (EGY08_00685) 125193..126548 - 1356 WP_004182052 DUF3560 domain-containing protein -
EGY08_RS00695 (EGY08_00690) 126600..126830 - 231 WP_064352021 hypothetical protein -
EGY08_RS00700 (EGY08_00695) 126922..127149 - 228 WP_004182050 hypothetical protein -

Host bacterium

ID   19666 GenBank   NZ_CP033823
Plasmid name   FDAARGOS_511|unnamed1 Incompatibility group   IncFII
Plasmid size   186836 bp Coordinate of oriT [Strand]   121932..121980 [+]
Host baterium   Klebsiella sp. FDAARGOS_511

Cargo genes

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