Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   102505
Name   oriT_pCRKP-31-Other in_silico
Organism   Klebsiella pneumoniae strain CRKP-31
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_JANPXP010000007 (49547..49596 [+], 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_pCRKP-31-Other
AAATCTGCAAAATTTTAATTTTGCGTAGTGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1860 GenBank   WP_232199635
Name   traI_NVV53_RS28420_pCRKP-31-Other 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: 190391.12 Da        Isoelectric Point: 6.0260

>WP_232199635.1 conjugative transfer relaxase/helicase TraI [Klebsiella pneumoniae]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMEERWQGKGAELLGLEGKVDKQVFTELLQGKLPDGSDLTRIQ
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)

TrwC relaxase (TrwC)

(10-283)

AAA domain (AAA_30)

(969-1156)

DNA helicase TraI (TraI_C)

(1432-1554)

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

(634-713)


  Protein structure



No available structure.




T4CP

ID   1455 GenBank   WP_072101984
Name   traD_NVV53_RS28425_pCRKP-31-Other 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: 85967.95 Da        Isoelectric Point: 5.0577

>WP_072101984.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacterales]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTSFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDDDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSREIS
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDTPASGPADTDSHASEQPEPVSPPA
PAVMTVTPAPVKSPPTTKRPAAEPSVRATEPPVLRGTTVPLIKPKAAAAATAASTASSAGAPAAAAGGTE
QELAQQSAEQGQDMLPAGMNEDGVIEDMQAYDAWLTDEQTQRDMQRREEVNINHSHRHDEQDDVEIGGNF

  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: 21664..50154

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
NVV53_RS28425 (NVV53_28410) 21664..23976 - 2313 WP_072101984 type IV conjugative transfer system coupling protein TraD virb4
NVV53_RS28430 (NVV53_28415) 24105..24794 - 690 WP_072101983 hypothetical protein -
NVV53_RS28435 (NVV53_28420) 24987..25718 - 732 WP_085845728 conjugal transfer complement resistance protein TraT -
NVV53_RS28440 (NVV53_28425) 25904..26437 - 534 WP_014343486 conjugal transfer protein TraS -
NVV53_RS28445 (NVV53_28430) 26440..29289 - 2850 WP_013609534 conjugal transfer mating-pair stabilization protein TraG traG
NVV53_RS28450 (NVV53_28435) 29289..30668 - 1380 WP_074160414 conjugal transfer pilus assembly protein TraH traH
NVV53_RS28455 (NVV53_28440) 30646..31089 - 444 WP_013214032 F-type conjugal transfer protein TrbF -
NVV53_RS28460 (NVV53_28445) 31135..31692 - 558 WP_013214031 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
NVV53_RS28465 (NVV53_28450) 31664..31903 - 240 WP_004144400 type-F conjugative transfer system pilin chaperone TraQ -
NVV53_RS28470 (NVV53_28455) 31914..32666 - 753 WP_004152677 type-F conjugative transfer system pilin assembly protein TraF traF
NVV53_RS28475 (NVV53_28460) 32687..33013 - 327 WP_013214030 hypothetical protein -
NVV53_RS28480 (NVV53_28465) 33026..33274 - 249 WP_013214029 hypothetical protein -
NVV53_RS28485 (NVV53_28470) 33252..33506 - 255 WP_004152674 conjugal transfer protein TrbE -
NVV53_RS28490 (NVV53_28475) 33538..35493 - 1956 WP_065802630 type-F conjugative transfer system mating-pair stabilization protein TraN traN
NVV53_RS28495 (NVV53_28480) 35552..36190 - 639 WP_004193871 type-F conjugative transfer system pilin assembly protein TrbC trbC
NVV53_RS28500 (NVV53_28485) 36203..37192 - 990 WP_029497420 conjugal transfer pilus assembly protein TraU traU
NVV53_RS28505 (NVV53_28490) 37189..37590 - 402 WP_004194979 hypothetical protein -
NVV53_RS28510 (NVV53_28495) 37625..38260 - 636 WP_029497419 type-F conjugative transfer system protein TraW traW
NVV53_RS28515 (NVV53_28500) 38260..38649 - 390 WP_004167468 type-F conjugative transfer system protein TrbI -
NVV53_RS28520 (NVV53_28505) 38649..41288 - 2640 WP_013214024 type IV secretion system protein TraC virb4
NVV53_RS28525 (NVV53_28510) 41360..41758 - 399 WP_023179972 hypothetical protein -
NVV53_RS28530 (NVV53_28515) 42137..42541 - 405 WP_004197817 hypothetical protein -
NVV53_RS28535 (NVV53_28520) 42608..42919 - 312 WP_094965623 hypothetical protein -
NVV53_RS28540 (NVV53_28525) 42920..43138 - 219 WP_004195468 hypothetical protein -
NVV53_RS28545 (NVV53_28530) 43461..44045 - 585 WP_032440547 type IV conjugative transfer system lipoprotein TraV traV
NVV53_RS28550 (NVV53_28535) 44118..45542 - 1425 WP_004194260 F-type conjugal transfer pilus assembly protein TraB traB
NVV53_RS28555 (NVV53_28540) 45542..46282 - 741 WP_013023821 type-F conjugative transfer system secretin TraK traK
NVV53_RS28560 (NVV53_28545) 46269..46835 - 567 WP_004144423 type IV conjugative transfer system protein TraE traE
NVV53_RS28565 (NVV53_28550) 46855..47160 - 306 WP_004144424 type IV conjugative transfer system protein TraL traL
NVV53_RS28570 (NVV53_28555) 47174..47542 - 369 WP_004194426 type IV conjugative transfer system pilin TraA -
NVV53_RS28575 (NVV53_28560) 47604..47810 - 207 WP_171773970 TraY domain-containing protein -
NVV53_RS28580 (NVV53_28565) 47925..48662 - 738 WP_013214018 conjugal transfer protein TrbJ -
NVV53_RS28585 (NVV53_28570) 48862..49278 - 417 WP_014343494 conjugal transfer relaxosome DNA-binding protein TraM -
NVV53_RS28590 (NVV53_28575) 49669..50154 + 486 WP_032440470 transglycosylase SLT domain-containing protein virB1
NVV53_RS28595 (NVV53_28580) 50187..50516 - 330 WP_071994324 DUF5983 family protein -
NVV53_RS28600 (NVV53_28585) 50549..51370 - 822 WP_023287138 DUF932 domain-containing protein -
NVV53_RS28605 (NVV53_28590) 52200..52613 - 414 WP_069985713 helix-turn-helix domain-containing protein -
NVV53_RS28610 (NVV53_28595) 52614..52892 - 279 WP_004152721 helix-turn-helix transcriptional regulator -
NVV53_RS28615 (NVV53_28600) 52882..53202 - 321 WP_004152720 type II toxin-antitoxin system RelE/ParE family toxin -
NVV53_RS28620 (NVV53_28605) 53283..53507 - 225 WP_014343499 hypothetical protein -
NVV53_RS28625 (NVV53_28610) 53518..53730 - 213 WP_019706020 hypothetical protein -
NVV53_RS28630 (NVV53_28615) 53791..54147 - 357 WP_019706019 hypothetical protein -
NVV53_RS28635 (NVV53_28620) 54779..55129 - 351 WP_023287104 hypothetical protein -

Host bacterium

ID   2949 GenBank   NZ_JANPXP010000007
Plasmid name   pCRKP-31-Other Incompatibility group   IncFIB
Plasmid size   84751 bp Coordinate of oriT [Strand]   49547..49596 [+]
Host baterium   Klebsiella pneumoniae strain CRKP-31

Cargo genes

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