Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   102277
Name   oriT_pB04 P32 in_silico
Organism   Klebsiella pneumoniae strain B04
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_NTGK01000101 (34371..34420 [+], 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_pB04 P32
AAATCTGCAAAATTTTAATTTTGCGTAGTGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1749 GenBank   WP_095849273
Name   traI_CK495_RS28220_pB04 P32 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: 190481.06 Da        Isoelectric Point: 6.0893

>WP_095849273.1 conjugative transfer relaxase/helicase TraI [Klebsiella pneumoniae]
MLSFSQVKSAGSAGNYYTDKDNYYVIGSMDERWQGKGAELLGLEGKVDKQVFTELLQGKLPDGSDLTRIQ
DGVNKHRPGYDLTFSAPKSVSMLAMLGGDKRLIDAHNRAVTVALNQVESLASTRVKKDGVSETVLTGNLI
IARFNHDTSRAQDPQIHTHSVVINATQNGDKWLTLASDTVGKTGFSETILANRIAFGKIYQNSLRADVES
MGYKTVDAGRNGMWEMEGVPVESFSTRSQELREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMNT
LKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLEA
KDGVFELARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVPF
SDAVSVLAQDRPVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVTG
KSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTYR
WQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKDT
TITALTPVWLDSKSRGVRDYYREGMVMERWDPETRTHDRFVIDRVTASSNMLTLKDREGDRLDLKVSAVD
SQWTLFRADTLPVAEGERLAVLGKIPDTRLKGGESVTVMKVEDGQLTVQRPGQKTTQTLAVGAGVFDGIK
VGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSEQ
LKSRSGETDLDAAIAQQKAGLHTPAEQAIHLAIPLLESQDLTFSRPQLLATAMETGGGKVSMADIDTTIQ
AQIRSGQLLNVPVAHGYGNDLLISRQTWDAEKSILTHVLEGKDAVAPLMDRVPASLMTDLTAGQRAATRM
ILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLHD
TQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIAAGGGRAVPSGDTDQLPPIASGQPFRLTQQRS
AADVAIMKEIVRQVPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGAWAPGSSVVEFTQKQEKEIEK
ALSEGKTLPAGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITLP
VLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSEGKERFISPREASAEGVTLY
RQEKITVSQGDRMRFSKSDPERGYVANSIWEVQSVSGDSVTLSDGKTTRTLTPKADQAQQHIDLAYAITA
HGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDSREGWIKAIKHSPEKATAHDILEP
RNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGSSPGKFISPGKKYPQPHVALPAFDKNGKAAGIW
LSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMSRDNPDTGVVVRLAGDDRP
WNPGAMTGGRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEPA
DRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEEAIQQVASERLQRERLQAVERDMVRDLNREKTLG
GD

  Protein domains


Predicted by InterproScan.

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

(576-628)

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

(634-713)

TrwC relaxase (TrwC)

(10-283)

DNA helicase TraI (TraI_C)

(1432-1554)

AAA domain (AAA_30)

(970-1156)


  Protein structure



No available structure.




T4CP

ID   1338 GenBank   WP_095849274
Name   traD_CK495_RS28225_pB04 P32 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: 86057.13 Da        Isoelectric Point: 5.1819

>WP_095849274.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTSFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSREIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDAPASGPADTNSHAGEQPEPVSQPA
PADMTVSPEPVKAPPTIKRPAAEPSVRTTEPSVLRVTTVPLIKPKAAAAAAAASTASSSGAPATAAGGTQ
QELAQQSAEQGQDMLPAGMNEDGVIEDMQAYDAWLADEQTQRDMQRREEVNINHSHRRDEQDDVEIGGNF

  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: 6364..34978

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
CK495_RS28225 (CK495_28220) 6364..8676 - 2313 WP_095849274 type IV conjugative transfer system coupling protein TraD virb4
CK495_RS31590 8803..9492 - 690 WP_014343485 hypothetical protein -
CK495_RS28235 (CK495_28230) 9685..10416 - 732 WP_013214036 conjugal transfer complement resistance protein TraT -
CK495_RS28240 (CK495_28235) 10667..11269 - 603 WP_013214035 conjugal transfer protein TraS -
CK495_RS28245 (CK495_28240) 11292..14114 - 2823 WP_095849275 conjugal transfer mating-pair stabilization protein TraG traG
CK495_RS28250 (CK495_28245) 14114..15493 - 1380 WP_074160414 conjugal transfer pilus assembly protein TraH traH
CK495_RS28255 (CK495_28250) 15471..15914 - 444 WP_013214032 F-type conjugal transfer protein TrbF -
CK495_RS28260 (CK495_28255) 15960..16517 - 558 WP_013214031 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
CK495_RS28265 (CK495_28260) 16489..16728 - 240 WP_004144400 type-F conjugative transfer system pilin chaperone TraQ -
CK495_RS28270 (CK495_28265) 16739..17491 - 753 WP_004152677 type-F conjugative transfer system pilin assembly protein TraF traF
CK495_RS28275 (CK495_28270) 17512..17838 - 327 WP_004144402 hypothetical protein -
CK495_RS28280 (CK495_28275) 17851..18099 - 249 WP_004152675 hypothetical protein -
CK495_RS28285 (CK495_28280) 18077..18331 - 255 WP_004152674 conjugal transfer protein TrbE -
CK495_RS28290 (CK495_28285) 18363..20318 - 1956 WP_095849276 type-F conjugative transfer system mating-pair stabilization protein TraN traN
CK495_RS28295 (CK495_28290) 20377..21015 - 639 WP_004193871 type-F conjugative transfer system pilin assembly protein TrbC trbC
CK495_RS28300 (CK495_28295) 21028..22017 - 990 WP_013214027 conjugal transfer pilus assembly protein TraU traU
CK495_RS28305 (CK495_28300) 22014..22415 - 402 WP_004194979 hypothetical protein -
CK495_RS28310 (CK495_28305) 22450..23085 - 636 WP_013214026 type-F conjugative transfer system protein TraW traW
CK495_RS28315 (CK495_28310) 23085..23474 - 390 WP_013214025 type-F conjugative transfer system protein TrbI -
CK495_RS28320 (CK495_28315) 23474..26113 - 2640 WP_013214024 type IV secretion system protein TraC virb4
CK495_RS28325 (CK495_28320) 26185..26583 - 399 WP_014343490 hypothetical protein -
CK495_RS28335 (CK495_28330) 26961..27365 - 405 WP_004197817 hypothetical protein -
CK495_RS28340 (CK495_28335) 27432..27743 - 312 WP_013214022 hypothetical protein -
CK495_RS28345 (CK495_28340) 27744..27962 - 219 WP_004195468 hypothetical protein -
CK495_RS28350 (CK495_28345) 28285..28869 - 585 WP_023287136 type IV conjugative transfer system lipoprotein TraV traV
CK495_RS28355 (CK495_28350) 28942..30366 - 1425 WP_013214020 F-type conjugal transfer pilus assembly protein TraB traB
CK495_RS28360 (CK495_28355) 30366..31106 - 741 WP_013214019 type-F conjugative transfer system secretin TraK traK
CK495_RS28365 (CK495_28360) 31093..31659 - 567 WP_004144423 type IV conjugative transfer system protein TraE traE
CK495_RS28370 (CK495_28365) 31679..31984 - 306 WP_004144424 type IV conjugative transfer system protein TraL traL
CK495_RS28375 (CK495_28370) 31998..32366 - 369 WP_004194426 type IV conjugative transfer system pilin TraA -
CK495_RS28380 (CK495_28375) 32428..32634 - 207 WP_171773970 TraY domain-containing protein -
CK495_RS28385 (CK495_28380) 32749..33486 - 738 WP_013214018 conjugal transfer protein TrbJ -
CK495_RS28390 (CK495_28385) 33686..34102 - 417 WP_014343494 conjugal transfer relaxosome DNA-binding protein TraM -
CK495_RS28395 (CK495_28390) 34493..34978 + 486 WP_001568108 transglycosylase SLT domain-containing protein virB1
CK495_RS28400 (CK495_28395) 35011..35340 - 330 WP_053390269 DUF5983 family protein -
CK495_RS28405 (CK495_28400) 35373..36194 - 822 WP_023316395 DUF932 domain-containing protein -

Host bacterium

ID   2721 GenBank   NZ_NTGK01000101
Plasmid name   pB04 P32 Incompatibility group   -
Plasmid size   36389 bp Coordinate of oriT [Strand]   34371..34420 [+]
Host baterium   Klebsiella pneumoniae strain B04

Cargo genes

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