Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   103646
Name   oriT_pKPC-063001 in_silico
Organism   Klebsiella pneumoniae strain KP63
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_MZ156798 (195821..195870 [+], 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_pKPC-063001
AAATCTGCAAAATTTTAATTTTGCGTAGTGTGTGGTCATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2716 GenBank   WP_032448280
Name   traI_KR465_RS00815_pKPC-063001 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: 190581.22 Da        Isoelectric Point: 5.9995

>WP_032448280.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacteriaceae]
MLSFSQVKSAGSAGNYYTEKDNYYVIGSMEERWQGKGAELLGLEGKVDKQVFTELLQGKLPDGSDLTRIQ
DGVNKHRPGYDLTFSAPKSVSMLAMLGGDKRLIDAHNRAVTVALNQVESLASTRVKKDGVSETVLTGNLI
IARFNHDTSRAQDPQIHTHSVVINATQNGDKWLTLASDTVGKTGFSETILANRIAFGKIYQNSLRADVES
MGYKTVDAGRNGMWEMEGVPVESFSTRSQELREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMNT
LKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLEA
KDGVFELARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVPF
SDAVSVLAQDRPVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVTG
KSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTYR
WQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKDT
TITALTPVWLDSKSRGVRDYYREGMVMERWDPETRTHDRFVIDRVTASSNMLTLKDREGDRLDLKVSAVD
SQWTLFRADTLPVAEGERLAVLGKIPDTRLKGGESVTVMKVEDGQLTVQRPGQKTTQTLAVGAGVFDGIK
VGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSEQ
LKSRSGETDLDAAIAQQKAGLHTPAEQAIHLAIPLLESQDLTFSRPQLLATAMETGGGKVSMADIDTTIQ
AQIRSGQLLNVPVAHGYGNDLLISRQTWDAEKSILTHVLEGKDAVAPLMDRVPASLMTDLTAGQRAATRM
ILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLHD
TQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIAAGGGRAVPSGDTDQLPPIASGQPFRLTQQRS
AADVAIMKEIVRQVPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGAWAPGSSVVEFTQKQEKEIEK
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)

TrwC relaxase (TrwC)

(11-283)

AAA domain (AAA_30)

(970-1156)

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   2544 GenBank   WP_013214038
Name   traD_KR465_RS00820_pKPC-063001 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: 166409..196428

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
KR465_RS00820 166409..168721 - 2313 WP_013214038 type IV conjugative transfer system coupling protein TraD virb4
KR465_RS00825 168848..169537 - 690 WP_014343485 hypothetical protein -
KR465_RS00830 169730..170461 - 732 WP_013214036 conjugal transfer complement resistance protein TraT -
KR465_RS00835 170713..171315 - 603 WP_013214035 conjugal transfer protein TraS -
KR465_RS00840 171338..174160 - 2823 WP_013214034 conjugal transfer mating-pair stabilization protein TraG traG
KR465_RS00845 174160..175539 - 1380 WP_074160414 conjugal transfer pilus assembly protein TraH traH
KR465_RS00850 175517..175960 - 444 WP_013214032 F-type conjugal transfer protein TrbF -
KR465_RS00855 176006..176563 - 558 WP_013214031 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
KR465_RS00860 176535..176774 - 240 WP_004144400 type-F conjugative transfer system pilin chaperone TraQ -
KR465_RS00865 176785..177537 - 753 WP_004152677 type-F conjugative transfer system pilin assembly protein TraF traF
KR465_RS00870 177558..177884 - 327 WP_013214030 hypothetical protein -
KR465_RS00875 177897..178145 - 249 WP_013214029 hypothetical protein -
KR465_RS00880 178123..178377 - 255 WP_004152674 conjugal transfer protein TrbE -
KR465_RS00885 178409..180364 - 1956 WP_032448279 type-F conjugative transfer system mating-pair stabilization protein TraN traN
KR465_RS00890 180423..181070 - 648 WP_015632510 type-F conjugative transfer system pilin assembly protein TrbC trbC
KR465_RS00895 181149..181325 - 177 WP_162866177 hypothetical protein -
KR465_RS00900 181346..182335 - 990 WP_032439620 conjugal transfer pilus assembly protein TraU traU
KR465_RS00905 182332..182733 - 402 WP_016831047 hypothetical protein -
KR465_RS00910 182768..183403 - 636 WP_020325113 type-F conjugative transfer system protein TraW traW
KR465_RS00915 183403..183792 - 390 WP_004167468 type-F conjugative transfer system protein TrbI -
KR465_RS00920 183792..186431 - 2640 WP_032448278 type IV secretion system protein TraC virb4
KR465_RS00925 186503..186901 - 399 WP_023158008 hypothetical protein -
KR465_RS00930 186909..187298 - 390 WP_065799586 hypothetical protein -
KR465_RS00935 187341..187745 - 405 WP_016831042 hypothetical protein -
KR465_RS00940 187812..188124 - 313 Protein_191 hypothetical protein -
KR465_RS00945 188125..188343 - 219 WP_014386199 hypothetical protein -
KR465_RS00950 188367..188657 - 291 WP_065799585 hypothetical protein -
KR465_RS00955 188662..189072 - 411 WP_014386197 hypothetical protein -
KR465_RS00960 189203..189787 - 585 WP_014386196 type IV conjugative transfer system lipoprotein TraV traV
KR465_RS00965 189834..190406 - 573 WP_014386195 conjugal transfer pilus-stabilizing protein TraP -
KR465_RS00970 190399..191823 - 1425 WP_014386194 F-type conjugal transfer pilus assembly protein TraB traB
KR465_RS00975 191823..192563 - 741 WP_014386193 type-F conjugative transfer system secretin TraK traK
KR465_RS00980 192550..193116 - 567 WP_004152602 type IV conjugative transfer system protein TraE traE
KR465_RS00985 193136..193441 - 306 WP_004144424 type IV conjugative transfer system protein TraL traL
KR465_RS00990 193455..193823 - 369 WP_004194426 type IV conjugative transfer system pilin TraA -
KR465_RS00995 193885..194091 - 207 WP_171773970 TraY domain-containing protein -
KR465_RS01000 194224..194943 - 720 WP_014386192 conjugal transfer protein -
KR465_RS01005 195136..195552 - 417 WP_072145360 conjugal transfer relaxosome DNA-binding protein TraM -
KR465_RS01010 195943..196428 + 486 WP_004178063 transglycosylase SLT domain-containing protein virB1
KR465_RS01015 196461..196790 - 330 WP_014386191 DUF5983 family protein -
KR465_RS01020 196823..197644 - 822 WP_004182076 DUF932 domain-containing protein -
KR465_RS01025 198477..198890 - 414 WP_013023817 helix-turn-helix domain-containing protein -
KR465_RS01030 198891..199169 - 279 WP_004152721 helix-turn-helix transcriptional regulator -
KR465_RS01035 199159..199479 - 321 WP_004152720 type II toxin-antitoxin system RelE/ParE family toxin -
KR465_RS01040 199560..199784 - 225 WP_014386189 hypothetical protein -
KR465_RS01045 199795..200007 - 213 WP_014386188 hypothetical protein -
KR465_RS01050 200069..200395 - 327 WP_014386187 hypothetical protein -

Host bacterium

ID   4089 GenBank   NZ_MZ156798
Plasmid name   pKPC-063001 Incompatibility group   IncFII
Plasmid size   359625 bp Coordinate of oriT [Strand]   195821..195870 [+]
Host baterium   Klebsiella pneumoniae strain KP63

Cargo genes

Drug resistance gene   blaKPC-2
Virulence gene   iutA, iucD, iucC, iucB, iucA
Metal resistance gene   silE, silS, silR, silC, silF, silB, silA, silP, pcoA, pcoB, pcoC, pcoD, pcoR, pcoS, pcoE, arsR, arsD, arsA, arsB, arsC, fecD, fecE
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIE9