Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   118122
Name   oriT_pC222139-1 in_silico
Organism   Klebsiella aerogenes strain C222139
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP139401 (153284..153333 [+], 50 nt)
oriT length   50 nt
IRs (inverted repeats)      7..14, 17..24  (GCAAAATT..AATTTTGC)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 50 nt

>oriT_pC222139-1
AAATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTCATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   11500 GenBank   WP_321141035
Name   traI_SM913_RS25220_pC222139-1 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: 190807.92 Da        Isoelectric Point: 6.2778

>WP_321141035.1 conjugative transfer relaxase/helicase TraI [Klebsiella aerogenes]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMDERWQGKGAEALGIDGKAVDKALFTELLKGKLPDGSDLTRI
QDGANRHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVTEAVRQLETLAATRVMTDGKSETVLTGNL
IVAKFNHDTNRNQEPQIHTHAVVINATQNGDKWQSLGTDKIGKTGFIENVYANQIAFGKLYREAFKPLVE
KLGYETEVVGKHGMWEMKGVPVEPFSTRSQEVREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMN
TLKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLE
AKDGVFDLARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVP
FSDAVSVLAQDRLVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVT
GKSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTY
RWQGGQQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKD
TTITALTPVWLDSKSRGVRDYYREGMVMERWDPENRTHDRFVIDRVTASSNMLTLKDRDGVRLDLKVSAV
DSQWTLFRAETLPVAEGERLAVLGKIPDTRLKGGESITVMKVEEGQLTVQRPGQKTTQTLAVGAGVFDGI
KIGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSE
QLKTRSGETDLDAAIAQQKAGLRTPAEQAIHLAIPLLESEKLTFSRPQLLATALETGGGKVSMADIDTTI
QAQIRSGQLLNVPVAHGYGNDLLISRQTWDAEKSILTHVLEGKDAVAPLMDRVPASLMTDLTAGQRAATR
MILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLH
DTQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIVAGGGRAVSSGDNDQLQPIAPGQPFRLTQQR
SAADVAIMKEIVRQMPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGAWAPGSSVVEFTPKQEKAIE
KALSEGKTLPEGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITL
PVLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSEGKERFISPREASAEGVTL
YRQEKITVSQGDRMRFSKSDPERGYVANSIWEVQSVSGDSVTLSDGKITRTLTPKAEQAQQHIDLAYAIT
AHGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDNREGWIKAIKNSPEKATAHDILE
PRNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGSSPGKFISPGKKYPQPHVALPAFDKNGKAAGI
WLSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDR
PWNPGAMTGGRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKKAEQTAREMAGEARKAGEP
ADRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEEAIQQVASERLQRERLQAVERDMVRDLNREKTL
GGD

  Protein domains


Predicted by InterproScan.

TrwC relaxase (TrwC)

(10-284)

DNA helicase TraI (TraI_C)

(1433-1555)

AAA domain (AAA_30)

(971-1157)

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

(577-629)

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

(635-714)


  Protein structure



No available structure.




T4CP

ID   13437 GenBank   WP_004152630
Name   traD_SM913_RS25225_pC222139-1 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: 85951.02 Da        Isoelectric Point: 5.0632

>WP_004152630.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTGFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSREIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKITEGFIPRRLDTRVDARLSALLEEREAEGSLARALFTPDAPASGPADTDSHAGEQPEPVSQPA
PADMTVSPAPVKAPPTTKMPAAEPSVRATEPPVLRVTTVPLIKPKAAAAAAAASTASSAGIPAAAAGGTE
QELAQQSAEQGQDMLPAGMNEDGVIEDMQAYDAWADEQTQRDMQRREEVNINHSHRHDEQDDVEIGGNF

  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: 125466..153891

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
SM913_RS25225 (SM913_25225) 125466..127775 - 2310 WP_004152630 type IV conjugative transfer system coupling protein TraD virb4
SM913_RS25230 (SM913_25230) 128135..128866 - 732 WP_004152629 conjugal transfer complement resistance protein TraT -
SM913_RS25235 (SM913_25235) 129056..129583 - 528 WP_004153030 hypothetical protein -
SM913_RS25240 (SM913_25240) 129589..132438 - 2850 WP_108479757 conjugal transfer mating-pair stabilization protein TraG traG
SM913_RS25245 (SM913_25245) 132438..133808 - 1371 WP_004178055 conjugal transfer pilus assembly protein TraH traH
SM913_RS25250 (SM913_25250) 133795..134223 - 429 WP_004152689 hypothetical protein -
SM913_RS25255 (SM913_25255) 134216..134788 - 573 WP_004152688 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
SM913_RS25260 (SM913_25260) 134760..134999 - 240 WP_004152687 type-F conjugative transfer system pilin chaperone TraQ -
SM913_RS25265 (SM913_25265) 135010..135762 - 753 WP_004152686 type-F conjugative transfer system pilin assembly protein TraF traF
SM913_RS25270 (SM913_25270) 135783..136109 - 327 WP_004152685 hypothetical protein -
SM913_RS25275 (SM913_25275) 136155..136340 - 186 WP_004152684 hypothetical protein -
SM913_RS25280 (SM913_25280) 136337..136573 - 237 WP_004152683 conjugal transfer protein TrbE -
SM913_RS25285 (SM913_25285) 136605..138560 - 1956 WP_004153093 type-F conjugative transfer system mating-pair stabilization protein TraN traN
SM913_RS25290 (SM913_25290) 138608..139246 - 639 WP_004152682 type-F conjugative transfer system pilin assembly protein TrbC trbC
SM913_RS25295 (SM913_25295) 139259..140218 - 960 WP_015065634 conjugal transfer pilus assembly protein TraU traU
SM913_RS25300 (SM913_25300) 140262..140888 - 627 WP_004152590 type-F conjugative transfer system protein TraW traW
SM913_RS25305 (SM913_25305) 140888..141277 - 390 WP_004152591 type-F conjugative transfer system protein TrbI -
SM913_RS25310 (SM913_25310) 141277..143916 - 2640 WP_085903552 type IV secretion system protein TraC virb4
SM913_RS25315 (SM913_25315) 143988..144386 - 399 WP_004153071 hypothetical protein -
SM913_RS25320 (SM913_25320) 144682..145086 - 405 WP_004152594 hypothetical protein -
SM913_RS25325 (SM913_25325) 145153..145470 - 318 WP_004152595 hypothetical protein -
SM913_RS25330 (SM913_25330) 145471..145689 - 219 WP_004171484 hypothetical protein -
SM913_RS25335 (SM913_25335) 145713..146003 - 291 WP_004152596 hypothetical protein -
SM913_RS25340 (SM913_25340) 146008..146418 - 411 WP_004152597 lipase chaperone -
SM913_RS25345 (SM913_25345) 146550..147119 - 570 WP_004152598 type IV conjugative transfer system lipoprotein TraV traV
SM913_RS25350 (SM913_25350) 147142..147738 - 597 WP_004152599 conjugal transfer pilus-stabilizing protein TraP -
SM913_RS25355 (SM913_25355) 147731..149155 - 1425 WP_085903551 F-type conjugal transfer pilus assembly protein TraB traB
SM913_RS25360 (SM913_25360) 149155..149895 - 741 WP_004152601 type-F conjugative transfer system secretin TraK traK
SM913_RS25365 (SM913_25365) 149882..150448 - 567 WP_004152602 type IV conjugative transfer system protein TraE traE
SM913_RS25370 (SM913_25370) 150468..150773 - 306 WP_004144424 type IV conjugative transfer system protein TraL traL
SM913_RS25375 (SM913_25375) 150787..151155 - 369 WP_004178060 type IV conjugative transfer system pilin TraA -
SM913_RS25380 (SM913_25380) 151209..151580 - 372 WP_004208838 TraY domain-containing protein -
SM913_RS25385 (SM913_25385) 151664..152359 - 696 WP_004178061 transcriptional regulator TraJ family protein -
SM913_RS25390 (SM913_25390) 152580..152972 - 393 WP_004178062 conjugal transfer relaxosome DNA-binding protein TraM -
SM913_RS25395 (SM913_25395) 153406..153891 + 486 WP_004178063 transglycosylase SLT domain-containing protein virB1
SM913_RS25400 (SM913_25400) 153924..154253 - 330 WP_011977736 DUF5983 family protein -
SM913_RS25405 (SM913_25405) 154286..155107 - 822 WP_004178064 DUF932 domain-containing protein -
SM913_RS25410 (SM913_25410) 155942..156355 - 414 WP_004152722 type II toxin-antitoxin system HigA family antitoxin -
SM913_RS25415 (SM913_25415) 156356..156634 - 279 WP_004152721 helix-turn-helix transcriptional regulator -
SM913_RS25420 (SM913_25420) 156624..156944 - 321 WP_004152720 type II toxin-antitoxin system RelE/ParE family toxin -
SM913_RS25425 (SM913_25425) 157025..157249 - 225 WP_004152719 hypothetical protein -
SM913_RS25430 (SM913_25430) 157260..157472 - 213 WP_004152718 hypothetical protein -
SM913_RS25435 (SM913_25435) 157533..157889 - 357 WP_004152717 hypothetical protein -
SM913_RS25440 (SM913_25440) 158525..158875 - 351 WP_004182068 hypothetical protein -

Host bacterium

ID   18555 GenBank   NZ_CP139401
Plasmid name   pC222139-1 Incompatibility group   IncFIB
Plasmid size   180926 bp Coordinate of oriT [Strand]   153284..153333 [+]
Host baterium   Klebsiella aerogenes strain C222139

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   silE, silS, silR, silC, silF, silB, silA, silP, pcoA, pcoB, pcoC, fecD, fecE, arsB, arsC, arsH
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIE9