Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   102436
Name   oriT_p45182_IncR_IncFII in_silico
Organism   Klebsiella michiganensis strain KO45182
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_JAFIQE010000009 (68767..68815 [+], 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_p45182_IncR_IncFII
AATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTCATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1822 GenBank   WP_064352027
Name   traI_JYQ94_RS31210_p45182_IncR_IncFII 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   1410 GenBank   WP_064352026
Name   traD_JYQ94_RS31215_p45182_IncR_IncFII 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: 43686..69373

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
JYQ94_RS31215 (JYQ94_31215) 43686..45965 - 2280 WP_064352026 type IV conjugative transfer system coupling protein TraD virb4
JYQ94_RS31220 (JYQ94_31220) 46202..46738 - 537 WP_064352025 hypothetical protein -
JYQ94_RS31225 (JYQ94_31225) 46749..49598 - 2850 WP_064352024 conjugal transfer mating-pair stabilization protein TraG traG
JYQ94_RS31230 (JYQ94_31230) 49598..50968 - 1371 WP_047722560 conjugal transfer pilus assembly protein TraH traH
JYQ94_RS31235 (JYQ94_31235) 50955..51533 - 579 WP_047722561 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
JYQ94_RS31240 (JYQ94_31240) 51505..51744 - 240 WP_047722563 type-F conjugative transfer system pilin chaperone TraQ -
JYQ94_RS31245 (JYQ94_31245) 51755..52507 - 753 WP_047722564 type-F conjugative transfer system pilin assembly protein TraF traF
JYQ94_RS31250 (JYQ94_31250) 52526..52852 - 327 WP_047722565 hypothetical protein -
JYQ94_RS31255 (JYQ94_31255) 53081..53311 - 231 WP_047722568 conjugal transfer protein TrbE -
JYQ94_RS31260 (JYQ94_31260) 53301..53582 - 282 WP_064352023 hypothetical protein -
JYQ94_RS31265 (JYQ94_31265) 53615..55489 - 1875 WP_047722571 type-F conjugative transfer system mating-pair stabilization protein TraN traN
JYQ94_RS31270 (JYQ94_31270) 55486..56103 - 618 WP_064352022 type-F conjugative transfer system pilin assembly protein TrbC trbC
JYQ94_RS31275 (JYQ94_31275) 56116..57099 - 984 WP_160887030 conjugal transfer pilus assembly protein TraU traU
JYQ94_RS31280 (JYQ94_31280) 57119..57745 - 627 WP_047722574 type-F conjugative transfer system protein TraW traW
JYQ94_RS31285 (JYQ94_31285) 57742..58182 - 441 WP_101836779 type-F conjugative transfer system protein TrbI -
JYQ94_RS31290 (JYQ94_31290) 58182..60821 - 2640 WP_047722575 type IV secretion system protein TraC virb4
JYQ94_RS31295 (JYQ94_31295) 60945..61271 - 327 WP_052958980 hypothetical protein -
JYQ94_RS31300 (JYQ94_31300) 61268..61672 - 405 WP_047722576 hypothetical protein -
JYQ94_RS31305 (JYQ94_31305) 61669..61890 - 222 WP_047722577 hypothetical protein -
JYQ94_RS31310 (JYQ94_31310) 61914..62207 - 294 WP_047722579 hypothetical protein -
JYQ94_RS31315 (JYQ94_31315) 62352..62555 - 204 WP_047722580 hypothetical protein -
JYQ94_RS31320 (JYQ94_31320) 62702..63271 - 570 WP_047722665 type IV conjugative transfer system lipoprotein TraV traV
JYQ94_RS31325 (JYQ94_31325) 63366..64781 - 1416 WP_047722582 F-type conjugal transfer pilus assembly protein TraB traB
JYQ94_RS31330 (JYQ94_31330) 64781..65521 - 741 WP_047722583 type-F conjugative transfer system secretin TraK traK
JYQ94_RS31335 (JYQ94_31335) 65508..66074 - 567 WP_047722585 type IV conjugative transfer system protein TraE traE
JYQ94_RS31340 (JYQ94_31340) 66094..66399 - 306 WP_047722586 type IV conjugative transfer system protein TraL traL
JYQ94_RS31345 (JYQ94_31345) 66413..66775 - 363 WP_047722588 type IV conjugative transfer system pilin TraA -
JYQ94_RS31350 (JYQ94_31350) 66836..67039 - 204 WP_171972759 TraY domain-containing protein -
JYQ94_RS31355 (JYQ94_31355) 67194..67868 - 675 WP_047722589 hypothetical protein -
JYQ94_RS31360 (JYQ94_31360) 68069..68464 - 396 WP_047722590 conjugal transfer relaxosome DNA-binding protein TraM -
JYQ94_RS31365 (JYQ94_31365) 68888..69373 + 486 WP_004178063 transglycosylase SLT domain-containing protein virB1
JYQ94_RS31370 (JYQ94_31370) 69406..69735 - 330 WP_011977736 DUF5983 family protein -
JYQ94_RS31375 (JYQ94_31375) 69768..70589 - 822 WP_004182076 DUF932 domain-containing protein -
JYQ94_RS31380 (JYQ94_31380) 71417..71980 - 564 WP_004182054 methyltransferase -
JYQ94_RS31385 (JYQ94_31385) 72028..73383 - 1356 WP_040120295 DUF3560 domain-containing protein -
JYQ94_RS31390 (JYQ94_31390) 73435..73665 - 231 WP_001568051 hypothetical protein -
JYQ94_RS31395 (JYQ94_31395) 73757..73984 - 228 WP_001568050 hypothetical protein -

Host bacterium

ID   2880 GenBank   NZ_JAFIQE010000009
Plasmid name   p45182_IncR_IncFII Incompatibility group   IncFII
Plasmid size   132939 bp Coordinate of oriT [Strand]   68767..68815 [+]
Host baterium   Klebsiella michiganensis strain KO45182

Cargo genes

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