Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   102808
Name   oriT_pKp_Goe_917-1 in_silico
Organism   Klebsiella pneumoniae strain Kp_Goe_822917
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP018441 (132938..132987 [+], 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_pKp_Goe_917-1
AAATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTCATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2080 GenBank   WP_004153029
Name   traI_BB746_RS28430_pKp_Goe_917-1 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   1738 GenBank   WP_004152630
Name   traD_BB746_RS28435_pKp_Goe_917-1 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: 110926..133545

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
BB746_RS28435 (BB746_28250) 110926..113235 - 2310 WP_004152630 type IV conjugative transfer system coupling protein TraD virb4
BB746_RS28440 (BB746_28255) 113595..114326 - 732 WP_004152629 conjugal transfer complement resistance protein TraT -
BB746_RS28445 (BB746_28260) 114516..115043 - 528 WP_004153030 hypothetical protein -
BB746_RS28450 (BB746_28265) 115049..117898 - 2850 WP_004178054 conjugal transfer mating-pair stabilization protein TraG traG
BB746_RS28455 (BB746_28270) 117898..119268 - 1371 WP_004178055 conjugal transfer pilus assembly protein TraH traH
BB746_RS28460 (BB746_28275) 119255..119683 - 429 WP_004152689 hypothetical protein -
BB746_RS28465 (BB746_28280) 119676..120248 - 573 WP_004152688 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
BB746_RS28470 (BB746_28285) 120220..120459 - 240 WP_004152687 type-F conjugative transfer system pilin chaperone TraQ -
BB746_RS28475 (BB746_28290) 120470..121222 - 753 WP_004152686 type-F conjugative transfer system pilin assembly protein TraF traF
BB746_RS28480 (BB746_28295) 121243..121569 - 327 WP_004152685 hypothetical protein -
BB746_RS31720 (BB746_28300) 121615..121800 - 186 WP_004152684 hypothetical protein -
BB746_RS28490 (BB746_28305) 121797..122033 - 237 WP_004152683 conjugal transfer protein TrbE -
BB746_RS28495 (BB746_28310) 122065..124020 - 1956 WP_004153093 type-F conjugative transfer system mating-pair stabilization protein TraN traN
BB746_RS28500 (BB746_28315) 124068..124706 - 639 WP_004152682 type-F conjugative transfer system pilin assembly protein TrbC trbC
BB746_RS28505 (BB746_28320) 124719..125678 - 960 WP_015065634 conjugal transfer pilus assembly protein TraU traU
BB746_RS28510 (BB746_28325) 125722..126348 - 627 WP_004152590 type-F conjugative transfer system protein TraW traW
BB746_RS28515 (BB746_28330) 126348..126737 - 390 WP_004152591 type-F conjugative transfer system protein TrbI -
BB746_RS28520 (BB746_28335) 126737..129376 - 2640 WP_004152592 type IV secretion system protein TraC virb4
BB746_RS28525 (BB746_28340) 129448..129846 - 399 WP_004153071 hypothetical protein -
BB746_RS28535 (BB746_28350) 130142..130546 - 405 WP_004152594 hypothetical protein -
BB746_RS28540 (BB746_28355) 130613..130930 - 318 WP_004152595 hypothetical protein -
BB746_RS28545 (BB746_28360) 130931..131149 - 219 WP_004171484 hypothetical protein -
BB746_RS28555 (BB746_28365) 131360..132328 + 969 WP_072198477 IS5 family transposase -
BB746_RS28560 (BB746_28370) 132390..132632 - 243 Protein_147 conjugal transfer relaxosome DNA-binding protein TraM -
BB746_RS28565 (BB746_28375) 133060..133545 + 486 WP_004178063 transglycosylase SLT domain-containing protein virB1
BB746_RS28570 (BB746_28380) 133578..133907 - 330 WP_011977736 DUF5983 family protein -
BB746_RS28575 (BB746_28385) 133940..134761 - 822 WP_004178064 DUF932 domain-containing protein -
BB746_RS28595 (BB746_28405) 135595..136008 - 414 WP_004152722 helix-turn-helix domain-containing protein -
BB746_RS28600 (BB746_28410) 136009..136287 - 279 WP_004152721 helix-turn-helix transcriptional regulator -
BB746_RS28605 (BB746_28415) 136277..136597 - 321 WP_004152720 type II toxin-antitoxin system RelE/ParE family toxin -
BB746_RS28610 (BB746_28420) 136678..136902 - 225 WP_004152719 hypothetical protein -
BB746_RS28615 (BB746_28425) 136913..137125 - 213 WP_004152718 hypothetical protein -
BB746_RS28620 (BB746_28430) 137186..137542 - 357 WP_004152717 hypothetical protein -
BB746_RS28635 (BB746_28450) 138178..138528 - 351 WP_004152758 hypothetical protein -

Host bacterium

ID   3251 GenBank   NZ_CP018441
Plasmid name   pKp_Goe_917-1 Incompatibility group   IncFII
Plasmid size   180027 bp Coordinate of oriT [Strand]   132938..132987 [+]
Host baterium   Klebsiella pneumoniae strain Kp_Goe_822917

Cargo genes

Drug resistance gene   aph(3')-Ia, dfrA14, blaCTX-M-15, aac(3)-IIa, blaOXA-1, aac(6')-Ib-cr
Virulence gene   -
Metal resistance gene   silS, silR, silC, silF, silB, silA, silP, pcoA, pcoB, pcoC, pcoD, pcoR, pcoS, pcoE, arsH, arsC, arsB, arsA, arsD, arsR, silE
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIE9