Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101878
Name   oriT_IncFII(K) in_silico
Organism   Klebsiella pneumoniae subsp. pneumoniae strain HGRS058
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_JAJPGK010000054 (42139..42188 [+], 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_IncFII(K)
AAATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTCATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1544 GenBank   WP_004153029
Name   traI_LTX92_RS04225_IncFII(K) insolico UniProt ID   A0A422WEA5
Length   1753 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1753 a.a.        Molecular weight: 190808.90 Da        Isoelectric Point: 6.2081

>WP_004153029.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacteriaceae]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMDERWQGKGAEALGIDGKAVDKALFTELLKGKLPDGSDLTRI
QDGANRHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVTEAVRQLETLAATRVMTDGKSETVLTGNL
IVAKFNHDTNRNQEPQIHTHAVVINATQNGDKWQSLGTDKIGKTGFIENVYANQIAFGKLYREAFKPLVE
KLGYETEVVGKHGMWEMKGVPVEPFSTRSQEVREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMN
TLKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLE
AKDGVFDLARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVP
FSDAVSVLAQDRLVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVT
GKSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTY
RWQGGQQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKD
TTITALTPVWLDSKSRGVRDYYREGMVMERWDPENRTHDRFVIDRVTASSNMLTLKDRDGVRLDLKVSAV
DSQWTLFRAETLPVAEGERLAVLGKIPDTRLKGGESITVMKVEEGQLTVQRPGQKTTQTLAVGAGVFDGI
KIGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSE
QLKSRSGETDLDAAIAQQKAGLHTPAEQAIHLAIPLLESQDLTFSRPQLLATAMETGGGKVSMADIDTTI
QAQIRSGQLLNVPVAHGYGNDLLISRQTWDAEKSILTHVLEGKDAVAPLMDRVPASLMTDLTAGQRAATR
MILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLH
DTQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIVAGGGRAVSSGDNDQLQPIAPGQPFRLMQQR
SAADVAIMKEIVRQMPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGAWAPGSSVVEFTPKQEKAIE
KALSEGKTLPEGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITL
PVLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSEGKERFISPREASAEGVTL
YRQEKITVSQGDRMRFSKSDPERGYVANSIWEVQSVSGDSVTLSDGKITRTLTPKAEQAQQHIDLAYAIT
AHGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDNREGWIKAIKNSPEKATAHDILE
PRNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGSSPGKFISPGKKYPQPHVALPAFDKNGKAAGI
WLSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDR
PWNPGAMTGGRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKKAEQTAREMAGEARKAGEP
ADRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEEAIQQVASERLQRERLQAVERDMVRDLNREKTL
GGD

  Protein domains


Predicted by InterproScan.

DNA helicase TraI (TraI_C)

(1433-1555)

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

(577-629)

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

(635-714)

AAA domain (AAA_30)

(971-1157)

TrwC relaxase (TrwC)

(10-284)


  Protein structure



No available structure.




T4CP

ID   1215 GenBank   WP_004152630
Name   traD_LTX92_RS04230_IncFII(K) 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: 14328..42746

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
LTX92_RS04230 (LTX92_04230) 14328..16637 - 2310 WP_004152630 type IV conjugative transfer system coupling protein TraD virb4
LTX92_RS04235 (LTX92_04235) 16997..17728 - 732 WP_004152629 conjugal transfer complement resistance protein TraT -
LTX92_RS04240 (LTX92_04240) 17918..18445 - 528 WP_004153030 hypothetical protein -
LTX92_RS04245 (LTX92_04245) 18451..21300 - 2850 WP_004178054 conjugal transfer mating-pair stabilization protein TraG traG
LTX92_RS04250 (LTX92_04250) 21300..22670 - 1371 WP_004178055 conjugal transfer pilus assembly protein TraH traH
LTX92_RS04255 (LTX92_04255) 22657..23085 - 429 WP_004152689 hypothetical protein -
LTX92_RS04260 (LTX92_04260) 23078..23650 - 573 WP_004152688 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
LTX92_RS04265 (LTX92_04265) 23622..23861 - 240 WP_004152687 type-F conjugative transfer system pilin chaperone TraQ -
LTX92_RS04270 (LTX92_04270) 23872..24624 - 753 WP_004152686 type-F conjugative transfer system pilin assembly protein TraF traF
LTX92_RS04275 (LTX92_04275) 24645..24971 - 327 WP_004152685 hypothetical protein -
LTX92_RS28485 25017..25202 - 186 WP_004152684 hypothetical protein -
LTX92_RS04280 (LTX92_04280) 25199..25435 - 237 WP_004152683 conjugal transfer protein TrbE -
LTX92_RS04285 (LTX92_04285) 25467..27422 - 1956 WP_004153093 type-F conjugative transfer system mating-pair stabilization protein TraN traN
LTX92_RS04290 (LTX92_04290) 27470..28108 - 639 WP_004152682 type-F conjugative transfer system pilin assembly protein TrbC trbC
LTX92_RS04295 (LTX92_04295) 28121..29080 - 960 WP_015065634 conjugal transfer pilus assembly protein TraU traU
LTX92_RS04300 (LTX92_04300) 29124..29750 - 627 WP_004152590 type-F conjugative transfer system protein TraW traW
LTX92_RS04305 (LTX92_04305) 29750..30139 - 390 WP_004152591 type-F conjugative transfer system protein TrbI -
LTX92_RS04310 (LTX92_04310) 30139..32778 - 2640 WP_004152592 type IV secretion system protein TraC virb4
LTX92_RS04315 (LTX92_04315) 32850..33248 - 399 WP_004153071 hypothetical protein -
LTX92_RS04320 (LTX92_04320) 33544..33948 - 405 WP_004152594 hypothetical protein -
LTX92_RS04325 (LTX92_04325) 34015..34332 - 318 WP_004152595 hypothetical protein -
LTX92_RS04330 (LTX92_04330) 34333..34551 - 219 WP_004171484 hypothetical protein -
LTX92_RS04335 (LTX92_04335) 34575..34865 - 291 WP_004152596 hypothetical protein -
LTX92_RS04340 (LTX92_04340) 34870..35280 - 411 WP_004152597 lipase chaperone -
LTX92_RS04345 (LTX92_04345) 35412..35981 - 570 WP_004152598 type IV conjugative transfer system lipoprotein TraV traV
LTX92_RS04350 (LTX92_04350) 36004..36600 - 597 WP_004152599 conjugal transfer pilus-stabilizing protein TraP -
LTX92_RS04355 (LTX92_04355) 36593..38017 - 1425 WP_004152600 F-type conjugal transfer pilus assembly protein TraB traB
LTX92_RS04360 (LTX92_04360) 38017..38757 - 741 WP_004152601 type-F conjugative transfer system secretin TraK traK
LTX92_RS04365 (LTX92_04365) 38744..39310 - 567 WP_004152602 type IV conjugative transfer system protein TraE traE
LTX92_RS04370 (LTX92_04370) 39330..39635 - 306 WP_004178059 type IV conjugative transfer system protein TraL traL
LTX92_RS04375 (LTX92_04375) 39649..40017 - 369 WP_004178060 type IV conjugative transfer system pilin TraA -
LTX92_RS04380 (LTX92_04380) 40071..40442 - 372 WP_004208838 TraY domain-containing protein -
LTX92_RS04385 (LTX92_04385) 40526..41221 - 696 WP_004178061 transcriptional regulator TraJ family protein -
LTX92_RS04390 (LTX92_04390) 41435..41827 - 393 WP_004178062 conjugal transfer relaxosome DNA-binding protein TraM -
LTX92_RS04395 (LTX92_04395) 42261..42746 + 486 WP_004178063 transglycosylase SLT domain-containing protein virB1
LTX92_RS04400 (LTX92_04400) 42779..43108 - 330 WP_011977736 DUF5983 family protein -
LTX92_RS04405 (LTX92_04405) 43141..43962 - 822 WP_004178064 DUF932 domain-containing protein -
LTX92_RS04410 (LTX92_04410) 44796..45209 - 414 WP_004152722 helix-turn-helix domain-containing protein -
LTX92_RS04415 (LTX92_04415) 45210..45488 - 279 WP_004152721 helix-turn-helix transcriptional regulator -
LTX92_RS04420 (LTX92_04420) 45478..45798 - 321 WP_004152720 type II toxin-antitoxin system RelE/ParE family toxin -
LTX92_RS04425 (LTX92_04425) 45879..46103 - 225 WP_004152719 hypothetical protein -
LTX92_RS04430 (LTX92_04430) 46114..46326 - 213 WP_004152718 hypothetical protein -
LTX92_RS04435 (LTX92_04435) 46387..46743 - 357 WP_004152717 hypothetical protein -
LTX92_RS04440 (LTX92_04440) 47379..47729 - 351 WP_004152758 hypothetical protein -

Host bacterium

ID   2322 GenBank   NZ_JAJPGK010000054
Plasmid name   IncFII(K) Incompatibility group   IncFII
Plasmid size   58535 bp Coordinate of oriT [Strand]   42139..42188 [+]
Host baterium   Klebsiella pneumoniae subsp. pneumoniae strain HGRS058

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIE9