Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   103174
Name   oriT_p1220-CTXM in_silico
Organism   Klebsiella pneumoniae strain 1220
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_KY174332 (78298..78347 [-], 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_p1220-CTXM
AAATCTGCAAAATTTTAATTTTGCGTAGTGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2375 GenBank   WP_043907038
Name   traI_HTL29_RS00665_p1220-CTXM insolico UniProt ID   A0A0S1TKY9
Length   1752 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1752 a.a.        Molecular weight: 190458.19 Da        Isoelectric Point: 6.0263

>WP_043907038.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacteriaceae]
MLSLSQVKSAGSAGNYYTEKDNYYVIGSMEERWQGKGAELLGLEGKVDKQVFTELLQGKLPDGSDLTRIQ
DGVNKHRPGYDLTFSAPKSVSMLAMLGGDKRLIDAHNRAVTVALNQVESLASTRVKKDGVSETVLTGNLI
IARFNHDTSRAQDPQIHTHSVVINATQNGDKWLTLASDTVGKTGFSETILANRIAFGKIYQNSLRADVES
MGYKTVDAGRNGMWEMEGVPVESFSTRSQELREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMNT
LKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLEA
KDGVFELARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVPF
SDAVSVLAQDRPVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVTG
KSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTYR
WQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKDT
TITALTPVWLDSKSRGVRDYYREGMVMERWDPETRTHDRFVIDRVTASSNMLTLKDREGDRLDLKVSAVD
SQWTLFRADTLPVAEGERLAVLGKIPDTRLKGGESVTVMKVEDGQLTVQRPGQKTTQTLAVGAGVFDGIK
VGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSEQ
LKSRSGETDLDAAIAQQKAGLHTPAEQAIHLAIPLLESQDLTFSRPQLLATAMETGGGKVSMADIDTTIQ
AQIRSGQLLNVPVAPGRGNDLLISRQAWDAEKSILTRVLEGKDAVAPLMDRVPDSLMTELTAGQRAATRM
ILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLHD
TQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIAAGGGRAVPSGDTDQLPPIASGQPFRLTQQRS
AADVAIMKEIVRQVPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGAWAPGSSVVEFTPKQEKAIEK
ALSEGKTLPEGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITLP
VLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSEGKERFISPREASAEGVTLY
RQEKITVSQGDRMRFSKSDPERGYVANSIWEVQSVSGDSVTLSDGKITRTLTPKAEQAQQHIDLAYAITA
HGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDNREGWIKAIKNSPEKATAHDILEP
RNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGSSPGKFISPGKKYPQPHVALPAFDKNGKAAGIW
LSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDRP
WNPGAMTGGRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEPA
DRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEEAIQQVASERLQRERLQAVERDMVRDLNREKTLG
GD

  Protein domains


Predicted by InterproScan.

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

(576-628)

AAA domain (AAA_30)

(969-1156)

TrwC relaxase (TrwC)

(11-283)

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

(634-713)

DNA helicase TraI (TraI_C)

(1432-1554)


  Protein structure



No available structure.




T4CP

ID   2123 GenBank   WP_013214038
Name   traD_HTL29_RS00660_p1220-CTXM insolico UniProt ID   _
Length   770 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 770 a.a.        Molecular weight: 86010.07 Da        Isoelectric Point: 5.1787

>WP_013214038.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacterales]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTSFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDAPASGPADTNSHAGEQPEPVSQPA
PADMTVSPEPVKAPPTIKRPAAEPSVRTTEPSVLRVTTVPLIKPKAAAAAAAASTASSSGAPATAAGGTQ
QELAQQSAEQGQDMLPAGMNEDGVIEDMQAYDAWLADEQTQRDMQRREEVNINHSHRHDEQDDVEIGGNF

  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: 77740..106352

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HTL29_RS00465 73132..73359 + 228 WP_001568050 hypothetical protein -
HTL29_RS00470 73451..73681 + 231 WP_001568051 hypothetical protein -
HTL29_RS00475 73733..75088 + 1356 WP_014343515 DUF3560 domain-containing protein -
HTL29_RS00480 75136..75699 + 564 WP_014343514 methyltransferase -
HTL29_RS00485 76524..77345 + 822 WP_004152492 DUF932 domain-containing protein -
HTL29_RS00490 77378..77707 + 330 WP_013214015 DUF5983 family protein -
HTL29_RS00495 77740..78225 - 486 WP_014343495 transglycosylase SLT domain-containing protein virB1
HTL29_RS00500 78616..79032 + 417 WP_014343494 conjugal transfer relaxosome DNA-binding protein TraM -
HTL29_RS00505 79232..79969 + 738 WP_013214018 conjugal transfer protein TrbJ -
HTL29_RS00510 80084..80290 + 207 WP_171773970 TraY domain-containing protein -
HTL29_RS00515 80352..80720 + 369 WP_004194426 type IV conjugative transfer system pilin TraA -
HTL29_RS00520 80734..81039 + 306 WP_004144424 type IV conjugative transfer system protein TraL traL
HTL29_RS00525 81059..81625 + 567 WP_004144423 type IV conjugative transfer system protein TraE traE
HTL29_RS00530 81612..82352 + 741 WP_013214019 type-F conjugative transfer system secretin TraK traK
HTL29_RS00535 82352..83776 + 1425 WP_013214020 F-type conjugal transfer pilus assembly protein TraB traB
HTL29_RS00540 83848..84432 + 585 WP_014343493 type IV conjugative transfer system lipoprotein TraV traV
HTL29_RS00545 84755..84973 + 219 WP_004195468 hypothetical protein -
HTL29_RS00550 84974..85285 + 312 WP_013214022 hypothetical protein -
HTL29_RS00555 85352..85756 + 405 WP_004197817 hypothetical protein -
HTL29_RS00560 86133..86531 + 399 WP_014343490 hypothetical protein -
HTL29_RS00565 86603..89242 + 2640 WP_013214024 type IV secretion system protein TraC virb4
HTL29_RS00570 89242..89631 + 390 WP_013214025 type-F conjugative transfer system protein TrbI -
HTL29_RS00575 89631..90266 + 636 WP_013214026 type-F conjugative transfer system protein TraW traW
HTL29_RS00580 90301..90702 + 402 WP_004194979 hypothetical protein -
HTL29_RS00585 90699..91688 + 990 WP_013214027 conjugal transfer pilus assembly protein TraU traU
HTL29_RS00590 91701..92339 + 639 WP_004193871 type-F conjugative transfer system pilin assembly protein TrbC trbC
HTL29_RS00595 92398..94353 + 1956 WP_014343489 type-F conjugative transfer system mating-pair stabilization protein TraN traN
HTL29_RS00600 94385..94639 + 255 WP_004152674 conjugal transfer protein TrbE -
HTL29_RS00605 94617..94865 + 249 WP_013214029 hypothetical protein -
HTL29_RS00610 94878..95204 + 327 WP_013214030 hypothetical protein -
HTL29_RS00615 95225..95977 + 753 WP_004152677 type-F conjugative transfer system pilin assembly protein TraF traF
HTL29_RS00620 95988..96227 + 240 WP_004144400 type-F conjugative transfer system pilin chaperone TraQ -
HTL29_RS00625 96199..96756 + 558 WP_013214031 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
HTL29_RS00630 96802..97245 + 444 WP_013214032 F-type conjugal transfer protein TrbF -
HTL29_RS00635 97223..98602 + 1380 WP_074160414 conjugal transfer pilus assembly protein TraH traH
HTL29_RS00640 98602..101424 + 2823 WP_013214034 conjugal transfer mating-pair stabilization protein TraG traG
HTL29_RS00645 101447..102049 + 603 WP_013214035 conjugal transfer protein TraS -
HTL29_RS00650 102300..103031 + 732 WP_013214036 conjugal transfer complement resistance protein TraT -
HTL29_RS00655 103224..103913 + 690 WP_014343485 hypothetical protein -
HTL29_RS00660 104040..106352 + 2313 WP_013214038 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   3617 GenBank   NZ_KY174332
Plasmid name   p1220-CTXM Incompatibility group   IncFII
Plasmid size   137060 bp Coordinate of oriT [Strand]   78298..78347 [-]
Host baterium   Klebsiella pneumoniae strain 1220

Cargo genes

Drug resistance gene   blaCTX-M-14, sul1, blaDHA-1, qnrB4
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIE9