Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   103167
Name   oriT_p0716-KPC in_silico
Organism   Klebsiella pneumoniae strain 0716
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_KY270849 (63669..63718 [-], 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_p0716-KPC
AAATCTGCAAAATTTTAATTTTGCGTAGTGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2370 GenBank   WP_047665818
Name   traI_HTL20_RS00605_p0716-KPC insolico UniProt ID   A0A0S1TL23
Length   1753 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1753 a.a.        Molecular weight: 190754.90 Da        Isoelectric Point: 6.3385

>WP_047665818.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacterales]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMDERWQGKGAEALGIDGKAVDKALFTELLKGKLPDGSDLTRI
QDGANKHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVTEAVRQLETLAATRVMTDGKSETVLTGNL
IVAKFNHDTNRNQEPQIHTHAVVINATQNGDKWQSLGTDKIGKTGFIENVYANQIAFGKLYREAFKPLVE
KLGYETEVVGKHGMWEMKGVPVEPFSTRSQEVREAAGPDASLKSRDVAALDTRKSKDAIDPAEKMVEWMN
TLKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLE
AKDGVFELARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDAFVVRQVP
FSDAVSVLAQDRPVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVT
GKSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTY
RWQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKD
TTITALTPVWLDSKSRGVRDYYREGMVMERWDPETRTHDRFVIDRVTGSSNMLTLKDREGVRLDLKVSAV
DSQWTLFRADTLPVAEGERLAVLGKIPDTRLKGGESITVMKVEDGQLTVQRPGQKTTQTLAMGAGVFDGI
KIGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSE
QLKTRSGETDLDAAIAQQKAGLRTPAEQAIHLAIPLLESEKLTFSRPQLLATALETGGGKVSMADIDTTI
QAQIRSGQLLNVPVAHGYGNDLLISRQTWDAEKSILTHVLEGKDAVAPLMDRVPASLMTDLTAGQRAATR
MILESTDRFTVVQGYAGVGKTTQLRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLH
DTQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIVAGGGRAVSSGDNDQLQPIAPGQPFRLTQQR
SAADVAIMKEIVRQMPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGAWAPGSSVVEFTPKQEKAIE
KALSEGKTLPEGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITL
PVLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKANQLITLTDSEGKERYISPREASAEGVTL
YRQEKITVSQGDRMRFSKSDLERGYVANSIWEVQSVSGDSVTLSDGKLTRTLTPKADQAQQHIDLAYAIT
AHGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDNREGWIKAIKHSPEKATAHDILE
PRNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGSSPGKFISPGKKYPQPHVALPAFDKNGKAAGI
WLSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDR
PWNPGAMTGGRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEP
ADRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEEAIQQVASERLQRERLQAVERDMVRDLNREKTL
GGD

  Protein domains


Predicted by InterproScan.

TrwC relaxase (TrwC)

(10-284)

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

(577-629)

AAA domain (AAA_30)

(971-1157)

DNA helicase TraI (TraI_C)

(1433-1555)

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

(635-714)


  Protein structure



No available structure.




T4CP

ID   2113 GenBank   WP_013023832
Name   traD_HTL20_RS00600_p0716-KPC 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: 85974.10 Da        Isoelectric Point: 5.1149

>WP_013023832.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacterales]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTSFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDAPASGPADTNSHAGEQPEPVSQPA
PADMTVSPAPVKAPPTTKMPAEEPSVRATEPSVLRLTTVPLIKPKAAAAAAAAATASSAGTPAAAAGGTE
QELAQQSAEQGQDMLPAGMNEDGVIEDMQAYDAWLADEQTQRDMQRREEVNINHSHRHDEQDYVEIGGNF

  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: 63111..91596

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HTL20_RS00395 58267..58584 + 318 WP_014343505 hypothetical protein -
HTL20_RS00400 59425..59781 + 357 WP_014343501 hypothetical protein -
HTL20_RS00405 59842..60054 + 213 WP_014343500 hypothetical protein -
HTL20_RS00410 60065..60289 + 225 WP_014343499 hypothetical protein -
HTL20_RS00415 60370..60690 + 321 WP_014343498 type II toxin-antitoxin system RelE/ParE family toxin -
HTL20_RS00420 60680..60958 + 279 WP_004152721 helix-turn-helix transcriptional regulator -
HTL20_RS00945 60962..61066 + 105 Protein_86 transcriptional regulator -
HTL20_RS00425 61895..62716 + 822 WP_004152492 DUF932 domain-containing protein -
HTL20_RS00430 62749..63078 + 330 WP_013214015 DUF5983 family protein -
HTL20_RS00435 63111..63596 - 486 WP_014343495 transglycosylase SLT domain-containing protein virB1
HTL20_RS00440 63987..64403 + 417 WP_014343494 conjugal transfer relaxosome DNA-binding protein TraM -
HTL20_RS00445 64603..65340 + 738 WP_013214018 conjugal transfer protein TrbJ -
HTL20_RS00450 65455..65661 + 207 WP_171773970 TraY domain-containing protein -
HTL20_RS00455 65723..66091 + 369 WP_004194426 type IV conjugative transfer system pilin TraA -
HTL20_RS00460 66105..66410 + 306 WP_004144424 type IV conjugative transfer system protein TraL traL
HTL20_RS00465 66430..66996 + 567 WP_004144423 type IV conjugative transfer system protein TraE traE
HTL20_RS00470 66983..67723 + 741 WP_013214019 type-F conjugative transfer system secretin TraK traK
HTL20_RS00475 67723..69147 + 1425 WP_013214020 F-type conjugal transfer pilus assembly protein TraB traB
HTL20_RS00480 69219..69803 + 585 WP_014343493 type IV conjugative transfer system lipoprotein TraV traV
HTL20_RS00485 70126..70344 + 219 WP_004195468 hypothetical protein -
HTL20_RS00490 70345..70656 + 312 WP_013214022 hypothetical protein -
HTL20_RS00495 70723..71127 + 405 WP_004197817 hypothetical protein -
HTL20_RS00500 71504..71902 + 399 WP_014343490 hypothetical protein -
HTL20_RS00505 71974..74613 + 2640 WP_013214024 type IV secretion system protein TraC virb4
HTL20_RS00510 74613..75002 + 390 WP_013214025 type-F conjugative transfer system protein TrbI -
HTL20_RS00515 75002..75637 + 636 WP_013214026 type-F conjugative transfer system protein TraW traW
HTL20_RS00520 75672..76073 + 402 WP_004194979 hypothetical protein -
HTL20_RS00525 76070..77059 + 990 WP_013214027 conjugal transfer pilus assembly protein TraU traU
HTL20_RS00530 77072..77710 + 639 WP_004193871 type-F conjugative transfer system pilin assembly protein TrbC trbC
HTL20_RS00535 77769..79724 + 1956 WP_014343489 type-F conjugative transfer system mating-pair stabilization protein TraN traN
HTL20_RS00540 79756..80010 + 255 WP_004152674 conjugal transfer protein TrbE -
HTL20_RS00545 79988..80236 + 249 WP_013214029 hypothetical protein -
HTL20_RS00550 80249..80575 + 327 WP_004152676 hypothetical protein -
HTL20_RS00555 80596..81348 + 753 WP_004152677 type-F conjugative transfer system pilin assembly protein TraF traF
HTL20_RS00560 81359..81598 + 240 WP_004144400 type-F conjugative transfer system pilin chaperone TraQ -
HTL20_RS00565 81570..82127 + 558 WP_013214031 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
HTL20_RS00570 82173..82616 + 444 WP_013023828 F-type conjugal transfer protein TrbF -
HTL20_RS00575 82594..83973 + 1380 WP_014343487 conjugal transfer pilus assembly protein TraH traH
HTL20_RS00580 83973..86822 + 2850 WP_013609534 conjugal transfer mating-pair stabilization protein TraG traG
HTL20_RS00585 86825..87358 + 534 WP_014343486 conjugal transfer protein TraS -
HTL20_RS00590 87544..88275 + 732 WP_013023830 conjugal transfer complement resistance protein TraT -
HTL20_RS00595 88468..89157 + 690 WP_013023831 hypothetical protein -
HTL20_RS00600 89284..91596 + 2313 WP_013023832 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   3610 GenBank   NZ_KY270849
Plasmid name   p0716-KPC Incompatibility group   IncFII
Plasmid size   143538 bp Coordinate of oriT [Strand]   63669..63718 [-]
Host baterium   Klebsiella pneumoniae strain 0716

Cargo genes

Drug resistance gene   aph(3')-Ia, aac(3)-IId, mph(A), sul1, qacE, dfrA25, blaTEM-1C, blaKPC-2, aph(6)-Id, aph(3'')-Ib, sul2
Virulence gene   -
Metal resistance gene   merD, merA, merP, merT, merR
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIE9