Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   117939
Name   oriT_pHH15_1 in_silico
Organism   Raoultella planticola strain HH15
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP069816 (44196..44245 [-], 50 nt)
oriT length   50 nt
IRs (inverted repeats)      7..14, 17..24  (GCAAAATT..AATTTTGC)
Location of nic site      33..34
Conserved sequence flanking the
  nic site    		  GGTGTGGTGA
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 50 nt

>oriT_pHH15_1
AAATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   11389 GenBank   WP_032744041
Name   traI_G9395_RS27635_pHH15_1 insolico UniProt ID   A0A855EZP6
Length   1753 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1753 a.a.        Molecular weight: 190171.89 Da        Isoelectric Point: 6.0668

>WP_032744041.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacterales]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMDERWQGKGAEALGLDGKVDKQVFTDLLKGKLPDGSDLTRMQ
DGVNKHRPGYDLTFSAPKSVSVMAMIGGDKRLIDAHNQAVTEAVKQIETLAATRVMTDGKSETVLTGNLI
VAKFNHDTNRNQEPQLHTHAVVINATQNGDKWQSLGTDTVGKTGFIENVYANQLAFGKIYREVLKPLVEK
LGYETEVVGKHGMWEMKEVPVEPFSTRTQEVREAAGPDASLKSRDVAALDTRKSKETLDPAEKMVEWVNT
LKETGFDMRGYREDADKRATEIASAPVSPVKTDAPDISDVVTKAIAGLSDRKVQFTYADLLARTVSQLEA
KPGVFEQARTGIDAAIEREQLIPLDREKGLFTSNIHVLDELSVKALSQEVQRQNHVSVTPDTSVVRQSPF
SDAVSVLAQDLPTMGIVSGQGGAAGQRERVAELTLMAREQGRDVHIVAADNRSREFLSADARLAGETVTG
KSALQDGTAFIPGGTLIVDQAEKLSLKETISMLDGAMRHNVQVLLSDSGKRSGTGSALTVLKESGVNTYR
WQGGKQATADIISEPDKGARYSRLAQEFSVSVREGQESVAQISGTREQGVLNGIIRDTLKNEGVLGTKEM
AVTALTPVWLDSKSRGVRDYYREGMVVERWDPNARKHDRFVIDRVTASSNMLTLRDKEGERLDMKVSAVD
SQWTLFRADKLPVAEGERLAVLGKIPETRLKGGEGVTVLKAEAGHLTVQRPGQKTTQTLAVGAGPFDGIK
VGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHIRLYSAQDADRTTEKLARHTAFSVVSEQ
LKARSGETELDAAIAQQKAGLHSPAEQAIHLSIPLLESNNLTFTRPQLLSTAMEFDGGGKVPMADIDRSI
QAQIKAGSLLSVPVAPGHGNDLLISRQTWDAEKSVLTRVLEGKAAMQPLMDRVPASLMTDLTSGQRAATR
MILETSDRFTVVQGYAGVGKTTQFRAVTGAIDLLPEETRPRVIGLGPTHRAVGEMQSAGVDAQTTASFLH
DTQLLQRNGQTPDFSNTLFLLDESSMVGLADTAKALSLIAAGGGRAVLSGDTDQLQSIAPGQPFRLMQQR
SAADVAIMKEIVRQVPELRPAVYSLIDRDVNSALATIEQVTPEQVPRKEGAWAPGSSVVEFTRAQEKAIQ
EALKKGESVPAGQPATLYEALVKDYAGRTPEAQSQTLVITHLNKDRRALNGLIHDARRENGETGKEEITL
PVLVTSNIRDGELRRLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSEGKERFISPREASAEGVTL
YRREDITVSEGDRMRFSKSDPERGYVANSVWEVKSVSGDSVTLSDGKTSRTLNPKADEAQRHIDLAYAIT
AHGAQGASEPFAIALEGVAEGRKAMASFESAYVGLSRMKQHVQVYTDSREGWIKAINASPSKATAHDILA
PRNDRAVHTAEQLFSRARPMNETAAGRAALQQSGLAKGISPGKFISPGKQYPQPHVALPVYDKNGKEAGI
WLSSLTDSDGRLQVMGGEGRVMGNEDARFVALQGSRNGESLLAGNMGEGVRVARDNPDSGVVVRLAGDDR
PWNPGAITGGRVWADPIPVVSPEAAGTDIPLPPEVLAQRAAEEAQRQNMEKQAEQTAREVAGDGRKAGES
EDRVKEVIGDVIRGLEREKPGEEKMTLPDDPQTRKQEAAVQQVAQESLQRERLQQMERDMVRDLNREKTL
GGD

  Protein domains


Predicted by InterproScan.

TrwC relaxase (TrwC)

(10-283)

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

(634-713)

AAA domain (AAA_30)

(971-1157)

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

(576-628)

DNA helicase TraI (TraI_C)

(1433-1552)


  Protein structure



No available structure.




T4CP

ID   13307 GenBank   WP_032744044
Name   traD_G9395_RS27630_pHH15_1 insolico UniProt ID   _
Length   765 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 765 a.a.        Molecular weight: 85286.01 Da        Isoelectric Point: 5.1167

>WP_032744044.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacterales]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFIIFWVLCGLILMYRLSWQTFVNGCVYWWCTTLAPMR
DIIRSQPVYTINYYGKSLEYNSEQILADKYTIWCGEQLWTSFVCAAIVSLTVCIVTFFVASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGVASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDIWRECLTLPDFDNVSNTLIPMGTKEDPFWQG
SGRTIFSEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLKNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDQPNGWLFISSNADTHASLKPVISMWLSIAIRGLLGMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKSRPKIAEGFILRNLDTRTDARLDTLLEAREAESSHARMLFTPDEATGMPEGGETATDTSGAPAEVAP
IKASPAAEKQPAQSVPVKAPSASQPVSPERHVTTVPLTVTRPAAATTGAAAAASTSGATAVPAGGTEQAL
EQQPAEQGQNMLPAGVNDAGEIEDMDAYDAWLATEQTQRDMQRREEVNINHSRSEHDDIEVGGNF

  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: 43643..71456

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
G9395_RS27430 (G9395_027430) 38745..39473 + 729 WP_004118966 plasmid SOS inhibition protein A -
G9395_RS28540 39470..39557 + 88 Protein_55 theronine dehydrogenase -
G9395_RS27435 (G9395_027435) 39877..40206 + 330 WP_004118963 type II toxin-antitoxin system RelE/ParE family toxin -
G9395_RS27440 (G9395_027440) 40187..40468 + 282 WP_004118961 helix-turn-helix transcriptional regulator -
G9395_RS27445 (G9395_027445) 41287..41562 + 276 WP_032700867 hypothetical protein -
G9395_RS27450 (G9395_027450) 41619..41777 + 159 WP_162180130 hypothetical protein -
G9395_RS27455 (G9395_027455) 41803..42150 + 348 WP_032700835 hypothetical protein -
G9395_RS27460 (G9395_027460) 42244..42390 + 147 WP_032700834 hypothetical protein -
G9395_RS27465 (G9395_027465) 43075..43605 + 531 WP_032716647 antirestriction protein -
G9395_RS27470 (G9395_027470) 43643..44122 - 480 WP_032732069 transglycosylase SLT domain-containing protein virB1
G9395_RS27475 (G9395_027475) 44547..44933 + 387 WP_032744117 conjugal transfer relaxosome DNA-binding protein TraM -
G9395_RS27480 (G9395_027480) 45122..45796 + 675 WP_077254474 hypothetical protein -
G9395_RS27485 (G9395_027485) 45993..46148 + 156 WP_071995759 TraY domain-containing protein -
G9395_RS27490 (G9395_027490) 46222..46590 + 369 WP_032744115 type IV conjugative transfer system pilin TraA -
G9395_RS27495 (G9395_027495) 46604..46909 + 306 WP_032744112 type IV conjugative transfer system protein TraL traL
G9395_RS27500 (G9395_027500) 46928..47494 + 567 WP_032744110 type IV conjugative transfer system protein TraE traE
G9395_RS27505 (G9395_027505) 47481..48215 + 735 WP_032744107 type-F conjugative transfer system secretin TraK traK
G9395_RS27510 (G9395_027510) 48215..49639 + 1425 WP_032744104 F-type conjugal transfer pilus assembly protein TraB traB
G9395_RS27515 (G9395_027515) 49702..50271 + 570 WP_071995755 type IV conjugative transfer system lipoprotein TraV traV
G9395_RS27520 (G9395_027520) 50882..51133 + 252 WP_048252518 hypothetical protein -
G9395_RS27525 (G9395_027525) 51133..51537 + 405 WP_032744097 hypothetical protein -
G9395_RS27530 (G9395_027530) 51534..51878 + 345 WP_032744094 hypothetical protein -
G9395_RS27535 (G9395_027535) 51875..52273 + 399 WP_227502459 hypothetical protein -
G9395_RS27540 (G9395_027540) 52358..54997 + 2640 WP_032744091 type IV secretion system protein TraC virb4
G9395_RS27545 (G9395_027545) 54997..55386 + 390 WP_032744089 type-F conjugative transfer system protein TrbI -
G9395_RS27550 (G9395_027550) 55383..56018 + 636 WP_032744087 type-F conjugative transfer system protein TraW traW
G9395_RS27555 (G9395_027555) 56119..56454 + 336 WP_227517248 hypothetical protein -
G9395_RS27560 (G9395_027560) 56451..57440 + 990 WP_032744082 conjugal transfer pilus assembly protein TraU traU
G9395_RS27565 (G9395_027565) 57453..58082 + 630 WP_032744080 type-F conjugative transfer system pilin assembly protein TrbC trbC
G9395_RS27570 (G9395_027570) 58082..60037 + 1956 WP_032744076 type-F conjugative transfer system mating-pair stabilization protein TraN traN
G9395_RS27575 (G9395_027575) 60152..60763 + 612 WP_032744074 hypothetical protein -
G9395_RS27580 (G9395_027580) 60753..60980 + 228 WP_032744071 conjugal transfer protein TrbE -
G9395_RS27585 (G9395_027585) 60990..61316 + 327 WP_032744069 hypothetical protein -
G9395_RS27590 (G9395_027590) 61339..62091 + 753 WP_032744065 type-F conjugative transfer system pilin assembly protein TraF traF
G9395_RS27595 (G9395_027595) 62102..62338 + 237 WP_032744062 type-F conjugative transfer system pilin chaperone TraQ -
G9395_RS27600 (G9395_027600) 62313..62879 + 567 WP_032744059 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
G9395_RS27605 (G9395_027605) 62872..63300 + 429 WP_032744057 conjugal transfer protein TrbF -
G9395_RS27610 (G9395_027610) 63287..64657 + 1371 WP_032744054 conjugal transfer pilus assembly protein TraH traH
G9395_RS27615 (G9395_027615) 64657..67506 + 2850 WP_032744052 conjugal transfer mating-pair stabilization protein TraG traG
G9395_RS27620 (G9395_027620) 67512..68039 + 528 WP_032744049 conjugal transfer protein TraS -
G9395_RS27625 (G9395_027625) 68233..68964 + 732 WP_032744047 conjugal transfer complement resistance protein TraT -
G9395_RS27630 (G9395_027630) 69159..71456 + 2298 WP_032744044 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   18372 GenBank   NZ_CP069816
Plasmid name   pHH15_1 Incompatibility group   IncFIA
Plasmid size   172460 bp Coordinate of oriT [Strand]   44196..44245 [-]
Host baterium   Raoultella planticola strain HH15

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   silA, silB, silF, silC, silR, silS, silE, merR, merT, merP, merC, merA, merD, merE, arsB, arsC, arsR, arsD, arsA, terW, terZ, terA, terB, terC, terD, terE, pcoE, pcoS, pcoR, pcoD, pcoC, pcoB, pcoA, silP
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -