Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101448
Name   oriT_pCRE36_1 in_silico
Organism   Klebsiella pneumoniae strain S35_CRE36
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_JAHBOB010000003 (104081..104130 [+], 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_pCRE36_1
AAATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTCATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1306 GenBank   WP_004153029
Name   traI_KIN43_RS27235_pCRE36_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   921 GenBank   WP_004152630
Name   traD_KIN43_RS27240_pCRE36_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: 76270..104688

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
KIN43_RS27240 (KIN43_27185) 76270..78579 - 2310 WP_004152630 type IV conjugative transfer system coupling protein TraD virb4
KIN43_RS27245 (KIN43_27190) 78939..79670 - 732 WP_004152629 conjugal transfer complement resistance protein TraT -
KIN43_RS27250 (KIN43_27195) 79860..80387 - 528 WP_004153030 hypothetical protein -
KIN43_RS27255 (KIN43_27200) 80393..83242 - 2850 WP_004178054 conjugal transfer mating-pair stabilization protein TraG traG
KIN43_RS27260 (KIN43_27205) 83242..84612 - 1371 WP_004178055 conjugal transfer pilus assembly protein TraH traH
KIN43_RS27265 (KIN43_27210) 84599..85027 - 429 WP_004152689 hypothetical protein -
KIN43_RS27270 (KIN43_27215) 85020..85592 - 573 WP_004152688 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
KIN43_RS27275 (KIN43_27220) 85564..85803 - 240 WP_004152687 type-F conjugative transfer system pilin chaperone TraQ -
KIN43_RS27280 (KIN43_27225) 85814..86566 - 753 WP_004152686 type-F conjugative transfer system pilin assembly protein TraF traF
KIN43_RS27285 (KIN43_27230) 86587..86913 - 327 WP_004152685 hypothetical protein -
KIN43_RS28760 86959..87144 - 186 WP_004152684 hypothetical protein -
KIN43_RS27290 (KIN43_27235) 87141..87377 - 237 WP_004152683 conjugal transfer protein TrbE -
KIN43_RS27295 (KIN43_27240) 87409..89364 - 1956 WP_004153093 type-F conjugative transfer system mating-pair stabilization protein TraN traN
KIN43_RS27300 (KIN43_27245) 89412..90050 - 639 WP_004152682 type-F conjugative transfer system pilin assembly protein TrbC trbC
KIN43_RS27305 (KIN43_27250) 90063..91022 - 960 WP_015065634 conjugal transfer pilus assembly protein TraU traU
KIN43_RS27310 (KIN43_27255) 91066..91692 - 627 WP_004152590 type-F conjugative transfer system protein TraW traW
KIN43_RS27315 (KIN43_27260) 91692..92081 - 390 WP_004152591 type-F conjugative transfer system protein TrbI -
KIN43_RS27320 (KIN43_27265) 92081..94720 - 2640 WP_004152592 type IV secretion system protein TraC virb4
KIN43_RS27325 (KIN43_27270) 94792..95190 - 399 WP_004153071 hypothetical protein -
KIN43_RS27330 (KIN43_27275) 95486..95890 - 405 WP_004152594 hypothetical protein -
KIN43_RS27335 (KIN43_27280) 95957..96274 - 318 WP_004152595 hypothetical protein -
KIN43_RS27340 (KIN43_27285) 96275..96493 - 219 WP_004171484 hypothetical protein -
KIN43_RS27345 (KIN43_27290) 96517..96807 - 291 WP_004152596 hypothetical protein -
KIN43_RS27350 (KIN43_27295) 96812..97222 - 411 WP_004152597 lipase chaperone -
KIN43_RS27355 (KIN43_27300) 97354..97923 - 570 WP_004152598 type IV conjugative transfer system lipoprotein TraV traV
KIN43_RS27360 (KIN43_27305) 97946..98542 - 597 WP_004152599 conjugal transfer pilus-stabilizing protein TraP -
KIN43_RS27365 (KIN43_27310) 98535..99959 - 1425 WP_004152600 F-type conjugal transfer pilus assembly protein TraB traB
KIN43_RS27370 (KIN43_27315) 99959..100699 - 741 WP_004152601 type-F conjugative transfer system secretin TraK traK
KIN43_RS27375 (KIN43_27320) 100686..101252 - 567 WP_004152602 type IV conjugative transfer system protein TraE traE
KIN43_RS27380 (KIN43_27325) 101272..101577 - 306 WP_004178059 type IV conjugative transfer system protein TraL traL
KIN43_RS27385 (KIN43_27330) 101591..101959 - 369 WP_004178060 type IV conjugative transfer system pilin TraA -
KIN43_RS27390 (KIN43_27335) 102013..102384 - 372 WP_004208838 TraY domain-containing protein -
KIN43_RS27395 (KIN43_27340) 102468..103163 - 696 WP_004178061 transcriptional regulator TraJ family protein -
KIN43_RS27400 (KIN43_27345) 103377..103769 - 393 WP_004178062 conjugal transfer relaxosome DNA-binding protein TraM -
KIN43_RS27405 (KIN43_27350) 104203..104688 + 486 WP_004178063 transglycosylase SLT domain-containing protein virB1
KIN43_RS27410 (KIN43_27355) 104721..105050 - 330 WP_011977736 DUF5983 family protein -
KIN43_RS27415 (KIN43_27360) 105083..105904 - 822 WP_004178064 DUF932 domain-containing protein -
KIN43_RS27420 (KIN43_27365) 106738..107151 - 414 WP_004152722 helix-turn-helix domain-containing protein -
KIN43_RS27425 (KIN43_27370) 107152..107430 - 279 WP_004152721 helix-turn-helix transcriptional regulator -
KIN43_RS27430 (KIN43_27375) 107420..107740 - 321 WP_004152720 type II toxin-antitoxin system RelE/ParE family toxin -
KIN43_RS27435 (KIN43_27380) 107821..108045 - 225 WP_004152719 hypothetical protein -
KIN43_RS27440 (KIN43_27385) 108056..108268 - 213 WP_004152718 hypothetical protein -
KIN43_RS27445 (KIN43_27390) 108329..108685 - 357 WP_004152717 hypothetical protein -
KIN43_RS27450 (KIN43_27395) 109321..109671 - 351 WP_004152758 hypothetical protein -

Host bacterium

ID   1892 GenBank   NZ_JAHBOB010000003
Plasmid name   pCRE36_1 Incompatibility group   IncFIB
Plasmid size   132855 bp Coordinate of oriT [Strand]   104081..104130 [+]
Host baterium   Klebsiella pneumoniae strain S35_CRE36

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   silE, silS, silR, silC, silF, silB, silA, silP, pcoA, pcoB, pcoC, pcoD, pcoR, pcoS, pcoE, arsH, arsC, arsB, arsA, arsD, arsR
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIE9