Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   106250
Name   oriT_pL4FAA5_2 in_silico
Organism   Klebsiella pneumoniae strain L4-FAA5
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP115833 (58619..58668 [-], 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_pL4FAA5_2
AAATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTCATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   4188 GenBank   WP_114269409
Name   traI_PGO70_RS26710_pL4FAA5_2 insolico UniProt ID   _
Length   1753 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1753 a.a.        Molecular weight: 190753.71 Da        Isoelectric Point: 6.0761

>WP_114269409.1 conjugative transfer relaxase/helicase TraI [Klebsiella pneumoniae]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMDERWQGKGAEALGIDGKAVDKALFTELLKGKLPDGSDLTRI
QDGANKHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVTEAVRQLETLAATRVMTDGKSETVLTGNL
IVAKFNHDTNRNQEPQIHTHAVVINATQNGDKWQSLGTDKIGKTGFIENVYANQIAFGKLYREAFKPLVE
KLGYETEVVGKHGMWEMKGVPVEPFSTRTQEVREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMN
TLKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLE
AKDGVFELARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVP
FSDAVSVLAQDHPVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVT
GKSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTY
RWQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRHEGVLGEKD
TTITALTPVWLDSKSRGVRDYYREGMVMERWDPENRTHDRFVIDRVTASSNMLTLKDREGVRLDLKVSAV
DSQWTLFRAETLPVAEGERLAVLGKIPDTRLKGGESITVMKVEDGQLTVQRPGQKTTQTLAVGAGVFDGI
KIGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSE
QLKTRSGETDLDAAIAQQKAGLHTPAEQAIHLSIPLLESQDLTFTRPQLLATALETGGDKVPMWSIEMTI
KKQIKSGQLLNVGVSPGHGNDLLISRQTWDAEKSILTRVLEGKDAVAPLMDRVPASLMTDLTAGQRAATR
MILETPDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPHVIGLGPTHRAVGEMQSAGVDARTTASFLH
DTQLLQRNGQTPDFSNTLFLLDESSMVGLSDTAKALSLIAAGGGRAVLSGDTDQLQSISPGQPFRLMQQR
SAADVAIMKEIVRQVPELRPAVYSLIDRDIDRALATIEQVTPERVPRKEGAWVPGSSVVEFTPTQEEEIR
KALSKGESLPAGQPATLYEALVKDYTGRTPEAQSQTLIITHLNNDRRALNGLIHEARRENGETGREEVTL
PVLVTSNIRDGELRKLSTWTAHKGAVALVDNVYHRIDNVDKDNQLITLTDSEGKERYISPREASAEGVTL
YRQEEITVSQGDRMRFSKSDPERGYVANSVWEVQSVSGDSVTLSDGKTTRTLTPKADEAQQHIDLAYAIT
AHGAQGASEPYAIALEGMVGARKLMASFESAYVGLSRMKQHVQVYTDRREGWIKAIQHSPEKATAHDILE
PRNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGSSPGKFISPGKKYPQPHVALPAFDKNGKTAGI
WLSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNIGEGVRMARDNPDTGVVVRLAGDDR
PWNPGAITGGRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEP
VDRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEAAIQQVASETLQRDRLQAVERDMVRDLNREKTL
GGD

  Protein domains


Predicted by InterproScan.

TrwC relaxase (TrwC)

(10-284)

DNA helicase TraI (TraI_C)

(1433-1555)

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

(577-629)

AAA domain (AAA_30)

(971-1158)

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

(635-714)


  Protein structure



No available structure.




T4CP

ID   4209 GenBank   WP_032437907
Name   traD_PGO70_RS26705_pL4FAA5_2 insolico UniProt ID   _
Length   768 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 768 a.a.        Molecular weight: 85773.76 Da        Isoelectric Point: 5.1854

>WP_032437907.1 type IV conjugative transfer system coupling protein TraD [Klebsiella pneumoniae]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTGFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAFLMRKDDDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRRLDTRVDARLSALLEEREAEGSLARALFTPDAPASGPADTDSHAGEQPEPVSQPA
PADMTVSPAPVKAPPTTKSPAAEPSARAAEPPVLRVTTVPLTKRKSAASAAAASTASSVGTPAAAAGGTE
QELAQQSAEQGQDMLPAGMNEDGVIEDMQAYDAWLADEQTQRDMQRREEVNINHSHRRDEQDEIGGNF

  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: 58061..86304

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
PGO70_RS26490 (PGO70_26485) 53239..53589 + 351 WP_016530674 hypothetical protein -
PGO70_RS26495 (PGO70_26490) 54065..54421 + 357 WP_004152717 hypothetical protein -
PGO70_RS26500 (PGO70_26495) 54482..54694 + 213 WP_004152718 hypothetical protein -
PGO70_RS26505 (PGO70_26500) 54705..54929 + 225 WP_016530399 hypothetical protein -
PGO70_RS26510 (PGO70_26505) 55010..55330 + 321 WP_004152720 type II toxin-antitoxin system RelE/ParE family toxin -
PGO70_RS26515 (PGO70_26510) 55320..55598 + 279 WP_004152721 helix-turn-helix transcriptional regulator -
PGO70_RS26520 (PGO70_26515) 55599..56012 + 414 WP_004182074 helix-turn-helix domain-containing protein -
PGO70_RS26525 (PGO70_26520) 56845..57666 + 822 WP_032104544 DUF932 domain-containing protein -
PGO70_RS26530 (PGO70_26525) 57699..58028 + 330 WP_011977736 DUF5983 family protein -
PGO70_RS26535 (PGO70_26530) 58061..58546 - 486 WP_004178063 transglycosylase SLT domain-containing protein virB1
PGO70_RS26540 (PGO70_26535) 58981..59373 + 393 WP_004206766 conjugal transfer relaxosome DNA-binding protein TraM -
PGO70_RS26545 (PGO70_26540) 59580..60275 + 696 WP_015065624 transcriptional regulator TraJ family protein -
PGO70_RS26550 (PGO70_26545) 60359..60730 + 372 WP_004208838 TraY domain-containing protein -
PGO70_RS26555 (PGO70_26550) 60784..61152 + 369 WP_004178060 type IV conjugative transfer system pilin TraA -
PGO70_RS26560 (PGO70_26555) 61166..61471 + 306 WP_087863372 type IV conjugative transfer system protein TraL traL
PGO70_RS26565 (PGO70_26560) 61491..62057 + 567 WP_004152602 type IV conjugative transfer system protein TraE traE
PGO70_RS26570 (PGO70_26565) 62044..62784 + 741 WP_109234324 type-F conjugative transfer system secretin TraK traK
PGO70_RS26575 (PGO70_26570) 62784..64208 + 1425 WP_016529134 F-type conjugal transfer pilus assembly protein TraB traB
PGO70_RS26580 (PGO70_26575) 64201..64614 + 414 Protein_76 conjugal transfer pilus-stabilizing protein TraP -
PGO70_RS26585 (PGO70_26580) 64651..64806 + 156 WP_161313321 hypothetical protein -
PGO70_RS26590 (PGO70_26585) 64826..65395 + 570 WP_016529136 type IV conjugative transfer system lipoprotein TraV traV
PGO70_RS26595 (PGO70_26590) 65551..65949 + 399 WP_223177007 hypothetical protein -
PGO70_RS26600 (PGO70_26595) 65978..66268 + 291 WP_032426790 hypothetical protein -
PGO70_RS26605 (PGO70_26600) 66292..66510 + 219 WP_004171484 hypothetical protein -
PGO70_RS26610 (PGO70_26605) 66511..66828 + 318 WP_016530481 hypothetical protein -
PGO70_RS26615 (PGO70_26610) 66895..67299 + 405 WP_023320104 hypothetical protein -
PGO70_RS26620 (PGO70_26615) 67324..67722 + 399 WP_015065631 hypothetical protein -
PGO70_RS26625 (PGO70_26620) 67794..70433 + 2640 WP_016528865 type IV secretion system protein TraC virb4
PGO70_RS26630 (PGO70_26625) 70433..70822 + 390 WP_004152591 type-F conjugative transfer system protein TrbI -
PGO70_RS26635 (PGO70_26630) 70822..71448 + 627 WP_016529743 type-F conjugative transfer system protein TraW traW
PGO70_RS26640 (PGO70_26635) 71492..72451 + 960 WP_015065634 conjugal transfer pilus assembly protein TraU traU
PGO70_RS26645 (PGO70_26640) 72464..73102 + 639 WP_015065635 type-F conjugative transfer system pilin assembly protein TrbC trbC
PGO70_RS26650 (PGO70_26645) 73161..75116 + 1956 WP_046041928 type-F conjugative transfer system mating-pair stabilization protein TraN traN
PGO70_RS26655 (PGO70_26650) 75148..75384 + 237 WP_016529263 conjugal transfer protein TrbE -
PGO70_RS26780 75381..75566 + 186 WP_032446653 hypothetical protein -
PGO70_RS26660 (PGO70_26655) 75612..75938 + 327 WP_016529362 hypothetical protein -
PGO70_RS26665 (PGO70_26660) 75959..76711 + 753 WP_015065637 type-F conjugative transfer system pilin assembly protein TraF traF
PGO70_RS26670 (PGO70_26665) 76722..76961 + 240 WP_004144400 type-F conjugative transfer system pilin chaperone TraQ -
PGO70_RS26675 (PGO70_26670) 76933..77490 + 558 WP_004152678 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
PGO70_RS26680 (PGO70_26675) 77535..77978 + 444 WP_015065638 F-type conjugal transfer protein TrbF -
PGO70_RS26685 (PGO70_26680) 77956..79335 + 1380 WP_011977731 conjugal transfer pilus assembly protein TraH traH
PGO70_RS26690 (PGO70_26685) 79335..82184 + 2850 WP_032437910 conjugal transfer mating-pair stabilization protein TraG traG
PGO70_RS26695 (PGO70_26690) 82190..82717 + 528 WP_016528837 conjugal transfer entry exclusion protein TraS -
PGO70_RS26700 (PGO70_26695) 82907..83638 + 732 WP_004152629 conjugal transfer complement resistance protein TraT -
PGO70_RS26705 (PGO70_26700) 83998..86304 + 2307 WP_032437907 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   6687 GenBank   NZ_CP115833
Plasmid name   pL4FAA5_2 Incompatibility group   IncFIA
Plasmid size   95204 bp Coordinate of oriT [Strand]   58619..58668 [-]
Host baterium   Klebsiella pneumoniae strain L4-FAA5

Cargo genes

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