Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   102503
Name   oriT_pCRKP-31_KPC in_silico
Organism   Klebsiella pneumoniae strain CRKP-31
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_JANPXP010000002 (74396..74444 [+], 49 nt)
oriT length   49 nt
IRs (inverted repeats)      6..13, 16..23  (GCAAAATT..AATTTTGC)
Location of nic site      32..33
Conserved sequence flanking the
  nic site    		  GGTGTGGTGA
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 49 nt

>oriT_pCRKP-31_KPC
AATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1858 GenBank   WP_064291677
Name   traI_NVV53_RS00320_pCRKP-31_KPC insolico UniProt ID   A0A6I4Y321
Length   1753 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1753 a.a.        Molecular weight: 190676.77 Da        Isoelectric Point: 6.3386

>WP_064291677.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacterales]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMDERWQGKGAEALGIDGKAVDKALFTELLKGKLPDGSDLTRI
QDGANKHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVTEAVRQLETLAATRVMTDGKSETVLTGNL
IVAKFNHDTNRNQEPQIHTHAVVINATQNGDKWQSLGTDKIGKTGFIENVYANQIAFGKLYREAFKPLVE
KLGYETEVVGKHGMWEMKGVPVEPFSTRSQEVREAAGPDASLKSRDVAALDTRKSKDAIDPAEKMVEWMN
TLKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLE
AKDGVFELARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVP
FSDAVSVLAQDRPVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVT
GKSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTY
RWQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKD
TTITALTPVWLDSKSRGVRDYYREGMVMERWDPETRTHDRFVIDRVTGSSNMLTLKDREGVRLDLKVSAV
DSQWTLFRADTLPVAEGERLAVLGKIPDTRLKGGESITVMKVEEGQLTVQRPGQKTTQTLAVGAGVFDGI
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   1453 GenBank   WP_232152220
Name   traD_NVV53_RS00325_pCRKP-31_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: 85937.02 Da        Isoelectric Point: 5.1787

>WP_232152220.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Klebsiella]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTSFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDTPASGPADTDSHASEQPEPVSPPA
PAVMTVTPAPVKSPPTTKRPAAEPSVRATEPPVLRGTTVPLIKPKAAAAATAASTASSAGAPAAAAGGTE
QELAQQSAEQGQDMLPAGMNEDGVIEDMQAYDAWLTDEQTQRDMQRREEVNINHSHRHDEQDDVEIGGNF

  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: 45324..75002

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
NVV53_RS00325 (NVV53_00325) 45324..47636 - 2313 WP_232152220 type IV conjugative transfer system coupling protein TraD virb4
NVV53_RS00330 (NVV53_00330) 47763..48452 - 690 WP_014343485 hypothetical protein -
NVV53_RS00335 (NVV53_00335) 48645..49376 - 732 WP_013214036 conjugal transfer complement resistance protein TraT -
NVV53_RS00340 (NVV53_00340) 49627..50229 - 603 WP_013214035 conjugal transfer protein TraS -
NVV53_RS00345 (NVV53_00345) 50252..53074 - 2823 WP_013214034 conjugal transfer mating-pair stabilization protein TraG traG
NVV53_RS00350 (NVV53_00350) 53074..54453 - 1380 WP_074160414 conjugal transfer pilus assembly protein TraH traH
NVV53_RS00355 (NVV53_00355) 54431..54874 - 444 WP_013214032 F-type conjugal transfer protein TrbF -
NVV53_RS00360 (NVV53_00360) 54920..55477 - 558 WP_013214031 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
NVV53_RS00365 (NVV53_00365) 55449..55688 - 240 WP_004144400 type-F conjugative transfer system pilin chaperone TraQ -
NVV53_RS00370 (NVV53_00370) 55699..56451 - 753 WP_004152677 type-F conjugative transfer system pilin assembly protein TraF traF
NVV53_RS00375 (NVV53_00375) 56472..56798 - 327 WP_013214030 hypothetical protein -
NVV53_RS00380 (NVV53_00380) 56811..57059 - 249 WP_013214029 hypothetical protein -
NVV53_RS00385 (NVV53_00385) 57037..57261 - 225 WP_139615448 conjugal transfer protein TrbE -
NVV53_RS00390 (NVV53_00390) 57306..58286 + 981 WP_000019445 IS5-like element ISKpn26 family transposase -
NVV53_RS00395 (NVV53_00395) 58325..60358 - 2034 WP_258095984 type-F conjugative transfer system mating-pair stabilization protein TraN traN
NVV53_RS00400 (NVV53_00400) 60417..61055 - 639 WP_069985712 type-F conjugative transfer system pilin assembly protein TrbC trbC
NVV53_RS00405 (NVV53_00405) 61068..62057 - 990 WP_029497420 conjugal transfer pilus assembly protein TraU traU
NVV53_RS00410 (NVV53_00410) 62054..62455 - 402 WP_004194979 hypothetical protein -
NVV53_RS00415 (NVV53_00415) 62490..63125 - 636 WP_029497419 type-F conjugative transfer system protein TraW traW
NVV53_RS00420 (NVV53_00420) 63125..63514 - 390 WP_004167468 type-F conjugative transfer system protein TrbI -
NVV53_RS00425 (NVV53_00425) 63514..66153 - 2640 WP_013214024 type IV secretion system protein TraC virb4
NVV53_RS00430 (NVV53_00430) 66225..66623 - 399 WP_023179972 hypothetical protein -
NVV53_RS00435 (NVV53_00435) 67002..67406 - 405 WP_004197817 hypothetical protein -
NVV53_RS00440 (NVV53_00440) 67473..67784 - 312 WP_094965623 hypothetical protein -
NVV53_RS00445 (NVV53_00445) 67785..68003 - 219 WP_004195468 hypothetical protein -
NVV53_RS00450 (NVV53_00450) 68326..68910 - 585 WP_032440547 type IV conjugative transfer system lipoprotein TraV traV
NVV53_RS00455 (NVV53_00455) 68983..70407 - 1425 WP_004194260 F-type conjugal transfer pilus assembly protein TraB traB
NVV53_RS00460 (NVV53_00460) 70407..71147 - 741 WP_013023821 type-F conjugative transfer system secretin TraK traK
NVV53_RS00465 (NVV53_00465) 71134..71700 - 567 WP_004144423 type IV conjugative transfer system protein TraE traE
NVV53_RS00470 (NVV53_00470) 71720..72025 - 306 WP_004144424 type IV conjugative transfer system protein TraL traL
NVV53_RS00475 (NVV53_00475) 72039..72407 - 369 WP_004194426 type IV conjugative transfer system pilin TraA -
NVV53_RS00480 (NVV53_00480) 72476..72676 - 201 WP_004194116 TraY domain-containing protein -
NVV53_RS00485 (NVV53_00485) 72762..73463 - 702 WP_004194113 hypothetical protein -
NVV53_RS00490 (NVV53_00490) 73693..74085 - 393 WP_004194114 conjugal transfer relaxosome DNA-binding protein TraM -
NVV53_RS00495 (NVV53_00495) 74517..75002 + 486 WP_032440470 transglycosylase SLT domain-containing protein virB1
NVV53_RS00500 (NVV53_00500) 75035..75364 - 330 WP_071994324 DUF5983 family protein -
NVV53_RS00505 (NVV53_00505) 75397..76218 - 822 WP_023287138 DUF932 domain-containing protein -
NVV53_RS00510 (NVV53_00510) 77048..77461 - 414 WP_069985713 helix-turn-helix domain-containing protein -
NVV53_RS00515 (NVV53_00515) 77462..77740 - 279 WP_004152721 helix-turn-helix transcriptional regulator -
NVV53_RS00520 (NVV53_00520) 77730..78050 - 321 WP_004152720 type II toxin-antitoxin system RelE/ParE family toxin -
NVV53_RS00525 (NVV53_00525) 78131..78355 - 225 WP_014343499 hypothetical protein -
NVV53_RS00530 (NVV53_00530) 78366..78578 - 213 WP_019706020 hypothetical protein -
NVV53_RS00535 (NVV53_00535) 78639..78995 - 357 WP_019706019 hypothetical protein -
NVV53_RS00540 (NVV53_00540) 79627..79977 - 351 WP_023287104 hypothetical protein -

Host bacterium

ID   2947 GenBank   NZ_JANPXP010000002
Plasmid name   pCRKP-31_KPC Incompatibility group   -
Plasmid size   101046 bp Coordinate of oriT [Strand]   74396..74444 [+]
Host baterium   Klebsiella pneumoniae strain CRKP-31

Cargo genes

Drug resistance gene   blaKPC-2
Virulence gene   -
Metal resistance gene   merR, merT, merP, merA, merD, merE
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIE9