Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   103687
Name   oriT_pCRE5_2 in_silico
Organism   Klebsiella pneumoniae strain S5_CRE5a
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP074456 (114126..114175 [+], 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_pCRE5_2
AAATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTCATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2736 GenBank   WP_272836459
Name   traI_KHV92_RS29135_pCRE5_2 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: 190683.62 Da        Isoelectric Point: 6.2076

>WP_272836459.1 conjugative transfer relaxase/helicase TraI [Klebsiella pneumoniae]
MLSFSQVKSAGSAGNYYTEKDNYYVIGSMEERWQGKGAELLGLEGKVDKQVFTELLQGKLPDGSDLTRIQ
DGVNKHRPGYDLTFSAPKSVSMLAMLGGDKRLIDAHNRAVTVALNQVESLASTRVKKDGVSETVLTGNLI
IARFNHDTSRAQDPQIHTHSVVINATQNGDKWLTLASDTVGKTGFSETILANRIAFGKIYQNSLRADVES
MGYKTVDAGRNGMWEMEGVPVESFSTRSQELREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMNT
LKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLEA
KDGVFELARKGINAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVPF
SDAVSVLAQDRPVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVTG
KSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTYR
WQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKDT
TITALTPVWLDSKSRGVRDYYREGMVMERWDPETRTHDRFVIDRVTASSNMLTLKDRDGVRLDLKVSAVD
SQWTLFRAETLPVAEGERLAVLGKIPDTRLKGGESITVMKVEEGQLTVQRPGQKTTQTLAVGAGVFDGIK
IGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSEQ
LKSRSGETDLDAAIAQQKAGLHTPAEQAIHLAIPLLESQDLTFSRPQLLATAMETGGGKVSMADIDTTIQ
AQIRSGQLLNVPVAHGYGNDLLISRQTWDAEKSILTHVLEGKDAVAPLMDRVPASLMTDLTAGQRAATRM
ILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLHD
TQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIVAGGGRAVSSGDNDQLQPIAPGQPFRLMQQRS
AADVAIMKEIVRQMPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGAWAPGSSVVEFTPKQEKAIEK
ALSEGKTLPEGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITLP
VLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSEGKERFISPREASAEGVTLY
RQEKITVSQGDRMRFSKSDPERGYVANSIWEVQSVSGDSVTLSDGKITRTLTPKAEQAQQHIDLAYAITA
HGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDNREGWIKAIKNSPEKATAHDILEP
RNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGSSPGKFISPGKKYPQPHVALPAFDKNGKAAGIW
LSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDRP
WNPGAMTGGRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKKAEQTAREMAGEARKAGEPA
DRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEEAIQQVASERLQRERLQAVERDMVRDLNREKTLG
GD

  Protein domains


Predicted by InterproScan.

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

(576-628)

AAA domain (AAA_30)

(970-1156)

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

(634-713)

TrwC relaxase (TrwC)

(11-283)

DNA helicase TraI (TraI_C)

(1432-1554)


  Protein structure



No available structure.




T4CP

ID   2569 GenBank   WP_020277955
Name   traD_KHV92_RS29140_pCRE5_2 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: 85894.89 Da        Isoelectric Point: 5.1129

>WP_020277955.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTSFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDAPASGPADTNSHAGEQPEPVSQPA
PADMTVSPEPVKAPPTTKSPAAEPSVRTTEPSVLRVTTVPLIKPKAAAAAAAASTASSSGAPATAAGGTQ
QELAQQSAEQGQDMLPAGMNEDGVIEDMQAYDAWLADEQTQRDMQRREEVNINHSHRHDEQDDVEIGGNI

  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: 85571..111622

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
KHV92_RS29140 (KHV92_29030) 85571..87883 - 2313 WP_020277955 type IV conjugative transfer system coupling protein TraD virb4
KHV92_RS29145 (KHV92_29035) 88010..88699 - 690 WP_014343485 hypothetical protein -
KHV92_RS29150 (KHV92_29040) 88892..89623 - 732 WP_004152629 conjugal transfer complement resistance protein TraT -
KHV92_RS29155 (KHV92_29045) 89809..90342 - 534 WP_080748465 conjugal transfer protein TraS -
KHV92_RS29160 (KHV92_29050) 90345..93194 - 2850 WP_020277954 conjugal transfer mating-pair stabilization protein TraG traG
KHV92_RS29165 (KHV92_29055) 93194..94573 - 1380 WP_014343487 conjugal transfer pilus assembly protein TraH traH
KHV92_RS29170 (KHV92_29060) 94551..94994 - 444 WP_020277953 F-type conjugal transfer protein TrbF -
KHV92_RS29175 (KHV92_29065) 95040..95597 - 558 WP_032736782 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
KHV92_RS29180 (KHV92_29070) 95569..95808 - 240 WP_004144400 type-F conjugative transfer system pilin chaperone TraQ -
KHV92_RS29185 (KHV92_29075) 95819..96571 - 753 WP_020803149 type-F conjugative transfer system pilin assembly protein TraF traF
KHV92_RS29190 (KHV92_29080) 96592..96918 - 327 WP_004144402 hypothetical protein -
KHV92_RS29195 (KHV92_29085) 96931..97179 - 249 WP_004152675 hypothetical protein -
KHV92_RS29200 (KHV92_29090) 97157..97411 - 255 WP_049194392 conjugal transfer protein TrbE -
KHV92_RS29205 (KHV92_29095) 97443..99398 - 1956 WP_020277951 type-F conjugative transfer system mating-pair stabilization protein TraN traN
KHV92_RS29210 (KHV92_29100) 99457..100095 - 639 WP_015065635 type-F conjugative transfer system pilin assembly protein TrbC trbC
KHV92_RS29215 (KHV92_29105) 100108..101067 - 960 WP_015065634 conjugal transfer pilus assembly protein TraU traU
KHV92_RS29220 (KHV92_29110) 101111..101737 - 627 WP_004152590 type-F conjugative transfer system protein TraW traW
KHV92_RS29225 (KHV92_29115) 101737..102126 - 390 WP_004152591 type-F conjugative transfer system protein TrbI -
KHV92_RS29230 (KHV92_29120) 102126..104765 - 2640 WP_004152592 type IV secretion system protein TraC virb4
KHV92_RS29235 (KHV92_29125) 104837..105235 - 399 WP_004153071 hypothetical protein -
KHV92_RS29240 (KHV92_29130) 105531..105935 - 405 WP_004152594 hypothetical protein -
KHV92_RS29245 (KHV92_29135) 106002..106319 - 318 WP_004152595 hypothetical protein -
KHV92_RS29250 (KHV92_29140) 106320..106538 - 219 WP_004171484 hypothetical protein -
KHV92_RS29255 (KHV92_29145) 106562..106852 - 291 WP_004152596 hypothetical protein -
KHV92_RS29260 (KHV92_29150) 106857..107267 - 411 WP_004152597 lipase chaperone -
KHV92_RS29265 (KHV92_29155) 107399..107968 - 570 WP_004152598 type IV conjugative transfer system lipoprotein TraV traV
KHV92_RS29270 (KHV92_29160) 107991..108587 - 597 WP_004152599 conjugal transfer pilus-stabilizing protein TraP -
KHV92_RS29275 (KHV92_29165) 108580..110004 - 1425 WP_268102405 F-type conjugal transfer pilus assembly protein TraB traB
KHV92_RS29280 (KHV92_29170) 110004..110744 - 741 WP_004152601 type-F conjugative transfer system secretin TraK traK
KHV92_RS29285 (KHV92_29175) 110731..111297 - 567 WP_004152602 type IV conjugative transfer system protein TraE traE
KHV92_RS29290 (KHV92_29180) 111317..111622 - 306 WP_004144424 type IV conjugative transfer system protein TraL traL
KHV92_RS29295 (KHV92_29185) 111636..112004 - 369 WP_004178060 type IV conjugative transfer system pilin TraA -
KHV92_RS29300 (KHV92_29190) 112058..112429 - 372 WP_004208838 TraY domain-containing protein -
KHV92_RS29305 (KHV92_29195) 112513..113208 - 696 WP_004178061 transcriptional regulator TraJ family protein -
KHV92_RS29310 (KHV92_29200) 113422..113814 - 393 WP_004178062 conjugal transfer relaxosome DNA-binding protein TraM -

Host bacterium

ID   4130 GenBank   NZ_CP074456
Plasmid name   pCRE5_2 Incompatibility group   IncFII
Plasmid size   114258 bp Coordinate of oriT [Strand]   114126..114175 [+]
Host baterium   Klebsiella pneumoniae strain S5_CRE5a

Cargo genes

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