Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   103546
Name   oriT_395|P2 in_silico
Organism   Klebsiella pneumoniae isolate 395
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_OW970502 (45334..45383 [-], 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    		  TGTGTGGTGA
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 50 nt

>oriT_395|P2
AAATCTGCAAAATTTTAATTTTGCGTAGTGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2654 GenBank   WP_114499715
Name   traI_LQV51_RS29070_395|P2 insolico UniProt ID   _
Length   1752 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1752 a.a.        Molecular weight: 190444.17 Da        Isoelectric Point: 6.1196

>WP_114499715.1 conjugative transfer relaxase/helicase TraI [Klebsiella pneumoniae]
MLSFSQVKSAGSAGNYYTEKDNYYVIGSMEERWQGKGAELLGLEGKVDKQVFTELLQGKLPDGSDLTRIQ
DGVNKHRPGYDLTFSAPKSVSMLAMLGGDKRLIDAHNRAVTVALNQVESLASTRVKKDGVSETVLTGNLI
IARFNHDTSRAQDPQIHTHSVVINATQNGDKWQTLASDTVGKTGFSETILANRIAFGKIYQNSLRADVES
MGYKTVDAGRNGMWEMEGVPVESFSTRSQELREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMNT
LKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLEA
KDGVFDLARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVPF
SDAVSVLAQDRPVMGIVSGQGGATGQRERVAELTLMVREQGRDVHILAADNRSRDFLAGDVRLAGETVTG
KSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTYR
WQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKDT
TITALTPVWLDSKSRGVRDYYREGMVMERWDPETRTHDRFVIDRVTASSNMLTLKDRDGVRLDLKVSAVD
SQWTLFRADTLPVAEGERLAVLGKIPDTRLKGGESVTVMKVEDGQLTVQRPGQKTTQTLAVGAGVFDGIK
VGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAERTTEKLSRHTAFSVVSEQ
LKARSGETDLDAAIAQQKAGLHTPAEQAIHLAIPLLESQDLTFSRPKLLAAAMETGGGKVSMADIDTTIQ
AQIRSGQLLNVPVAPGRGNDLLISRQAWDAEKSILTRVLEGKDAVAPLMDRVPDSLMTDLTAGQRAATRM
ILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLHD
TQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIAAGGGRAVPSGDTDQLPPIASGLPFRLTQQRS
AADVAIMKEIVRQVPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGAWAPGSSVVEFTQKQEKEIEK
ALSEGKTLPAGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITLP
VLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSEGKERFISPREASAEGVTLY
RQENITVSQGDRMRFSKSDPERGYVANSIWEVQSVSGDSVTLSDGKTTRTLTPKAEQAQQHIDLAYAITA
HGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDNREGWIKAIKHSPEKATAHDILEP
RNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGSSPGKFISPGKKYPQPHVALPAFDKNGKAAGIW
LSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDRP
WNPGAMTGGRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEPA
DRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEAAIQQVASERLQRERLQAVERDMVRDLNREKTLG
GD

  Protein domains


Predicted by InterproScan.

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

(576-628)

AAA domain (AAA_30)

(970-1156)

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

(634-713)

TrwC relaxase (TrwC)

(11-283)

DNA helicase TraI (TraI_C)

(1432-1554)


  Protein structure



No available structure.




T4CP

ID   2469 GenBank   WP_114499716
Name   traD_LQV51_RS29065_395|P2 insolico UniProt ID   _
Length   762 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 762 a.a.        Molecular weight: 84997.04 Da        Isoelectric Point: 5.1129

>WP_114499716.1 type IV conjugative transfer system coupling protein TraD [Klebsiella pneumoniae]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTSFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDAPASGPADTDSHAGEQPEPVSPPA
PAEMTVSPAPVKAPPTKKRPAAEPPVLPVTPIPLIKPKAAAAAAAAATASSAGTPAAAAGGTEQELAQQS
AEQGQDMLPAGMNEDGVIEDMQAYDAWADEQTQRDMQRREEVNINHSHRHDEQDDVEIGGNF

  Protein domains


Predicted by InterproScan.

Type IV secretion-system coupling protein DNA-binding domain (TrwB_AAD_bind)

(172-560)

F sex factor protein N terminal (TraD_N)

(32-128)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 44782..74327

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
LQV51_RS28835 (AI2934V1_5461) 39828..40052 + 225 WP_064148026 hypothetical protein -
LQV51_RS28840 (AI2934V1_5462) 40133..40453 + 321 WP_114499753 type II toxin-antitoxin system RelE/ParE family toxin -
LQV51_RS28845 (AI2934V1_5463) 40443..40721 + 279 WP_004152721 helix-turn-helix transcriptional regulator -
LQV51_RS28850 (AI2934V1_5465) 41707..42060 + 354 WP_023317817 hypothetical protein -
LQV51_RS28855 (AI2934V1_5466) 42117..42464 + 348 WP_023317818 hypothetical protein -
LQV51_RS28860 (AI2934V1_5467) 42559..42705 + 147 WP_004152750 hypothetical protein -
LQV51_RS28865 (AI2934V1_5468) 42756..43589 + 834 WP_088365332 N-6 DNA methylase -
LQV51_RS28870 (AI2934V1_5469) 43792..44022 - 231 WP_049070336 hypothetical protein -
LQV51_RS28875 (AI2934V1_5470) 44214..44744 + 531 WP_049070338 antirestriction protein -
LQV51_RS28880 (AI2934V1_5471) 44782..45189 - 408 WP_227538382 transglycosylase SLT domain-containing protein virB1
LQV51_RS28885 (AI2934V1_5472) 45696..46088 + 393 WP_032441878 conjugal transfer relaxosome DNA-binding protein TraM -
LQV51_RS28890 (AI2934V1_5473) 46304..46990 + 687 WP_227538381 transcriptional regulator TraJ family protein -
LQV51_RS28895 47074..47445 + 372 WP_004208838 TraY domain-containing protein -
LQV51_RS28900 (AI2934V1_5474) 47499..47867 + 369 WP_114499727 type IV conjugative transfer system pilin TraA -
LQV51_RS28905 (AI2934V1_5475) 47881..48186 + 306 WP_004144424 type IV conjugative transfer system protein TraL traL
LQV51_RS28910 (AI2934V1_5476) 48206..48772 + 567 WP_004144423 type IV conjugative transfer system protein TraE traE
LQV51_RS28915 (AI2934V1_5477) 48759..49499 + 741 WP_013214019 type-F conjugative transfer system secretin TraK traK
LQV51_RS28920 (AI2934V1_5478) 49499..50923 + 1425 WP_004233801 F-type conjugal transfer pilus assembly protein TraB traB
LQV51_RS28925 (AI2934V1_5479) 50916..51329 + 414 Protein_73 conjugal transfer pilus-stabilizing protein TraP -
LQV51_RS28930 51367..51522 + 156 WP_153587559 hypothetical protein -
LQV51_RS28935 (AI2934V1_5480) 51542..52126 + 585 WP_114499726 type IV conjugative transfer system lipoprotein TraV traV
LQV51_RS28940 (AI2934V1_5481) 52258..52668 + 411 WP_114499725 hypothetical protein -
LQV51_RS28945 52673..52963 + 291 WP_048993668 hypothetical protein -
LQV51_RS28950 (AI2934V1_5482) 52987..53205 + 219 WP_004171484 hypothetical protein -
LQV51_RS28955 (AI2934V1_5483) 53206..53523 + 318 WP_064291691 hypothetical protein -
LQV51_RS28960 (AI2934V1_5484) 53590..53994 + 405 WP_114499724 hypothetical protein -
LQV51_RS28965 (AI2934V1_5485) 53991..54281 + 291 WP_114499723 hypothetical protein -
LQV51_RS28970 (AI2934V1_5486) 54289..54687 + 399 WP_162786285 hypothetical protein -
LQV51_RS28975 (AI2934V1_5487) 54759..57398 + 2640 WP_114499721 type IV secretion system protein TraC virb4
LQV51_RS28980 (AI2934V1_5488) 57398..57787 + 390 WP_004167468 type-F conjugative transfer system protein TrbI -
LQV51_RS28985 (AI2934V1_5489) 57787..58422 + 636 WP_020325113 type-F conjugative transfer system protein TraW traW
LQV51_RS28990 (AI2934V1_5490) 58457..58858 + 402 WP_004194979 hypothetical protein -
LQV51_RS28995 (AI2934V1_5491) 58855..59844 + 990 WP_046664201 conjugal transfer pilus assembly protein TraU traU
LQV51_RS29000 (AI2934V1_5492) 59857..60495 + 639 WP_046664202 type-F conjugative transfer system pilin assembly protein TrbC trbC
LQV51_RS29005 (AI2934V1_5493) 60554..62509 + 1956 WP_046664203 type-F conjugative transfer system mating-pair stabilization protein TraN traN
LQV51_RS29010 (AI2934V1_5494) 62541..62777 + 237 WP_114499720 conjugal transfer protein TrbE -
LQV51_RS29235 (AI2934V1_5495) 62774..62959 + 186 WP_114499719 hypothetical protein -
LQV51_RS29015 (AI2934V1_5496) 63005..63331 + 327 WP_004144402 hypothetical protein -
LQV51_RS29020 (AI2934V1_5497) 63352..64104 + 753 WP_004152677 type-F conjugative transfer system pilin assembly protein TraF traF
LQV51_RS29025 (AI2934V1_5498) 64115..64354 + 240 WP_032442642 type-F conjugative transfer system pilin chaperone TraQ -
LQV51_RS29030 (AI2934V1_5499) 64326..64883 + 558 WP_004152678 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
LQV51_RS29035 (AI2934V1_5500) 64929..65372 + 444 WP_114499718 F-type conjugal transfer protein TrbF -
LQV51_RS29040 (AI2934V1_5501) 65350..66729 + 1380 WP_074194517 conjugal transfer pilus assembly protein TraH traH
LQV51_RS29045 (AI2934V1_5502) 66729..69578 + 2850 WP_114499717 conjugal transfer mating-pair stabilization protein TraG traG
LQV51_RS29050 (AI2934V1_5503) 69584..70111 + 528 WP_114499732 conjugal transfer protein TraS -
LQV51_RS29055 (AI2934V1_5504) 70300..71031 + 732 WP_004152629 conjugal transfer complement resistance protein TraT -
LQV51_RS29060 (AI2934V1_5505) 71223..71912 + 690 WP_162786284 hypothetical protein -
LQV51_RS29065 (AI2934V1_5506) 72039..74327 + 2289 WP_114499716 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   3989 GenBank   NZ_OW970502
Plasmid name   395|P2 Incompatibility group   -
Plasmid size   84622 bp Coordinate of oriT [Strand]   45334..45383 [-]
Host baterium   Klebsiella pneumoniae isolate 395

Cargo genes

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