Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101518
Name   oriT_pKP190412_2 in_silico
Organism   Klebsiella pneumoniae strain KP190412
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_JAZBHI010000022 (77521..77569 [-], 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    		  TGTGTGGTGA
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 49 nt

>oriT_pKP190412_2
AATCTGCAAAATTTTAATTTTGCGTAGTGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1352 GenBank   WP_063160318
Name   traI_VZ385_RS30385_pKP190412_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: 190491.29 Da        Isoelectric Point: 6.2578

>WP_063160318.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacteriaceae]
MLSFSQVKSAGSAGNYYTEKDNYYVIGSMEERWQGKGAEALGLEGKVDKQIFTELLQGKLPDGSDLTRIQ
DGVNKHRPGYDLTFSAPKSVSMLAMLGGDKRLIDAHNRAVTVALNQVESLASTRVQKDGVSETVLTGNLI
IARFNHDTSRAQDPQIHTHSVVINATQNGDKWQTLASDTVGKTGFSENILANRIAFGKIYQNTLRADVES
LGYRTVDAGKNGMWEMEGVPVESFSTRSQELREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMNT
LKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLEA
KDGVFELARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTSDASVVRQAPF
SDAVSVLAQDRPVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVTG
KSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTYR
WQGGHKTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKDT
TITALTPVWLDSKSRGVRDYYREGMVMERWDPETRTHDRFVIDRVTASSNMLTLKDREGVRLDLKVSAVD
SQWTLFRAETLPVAEGERLAVLGKIPDTRLKGGESITVMKVEDGQLTVQRPGQKTTQTLAVGAGVFDGIK
VAHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSEQ
LKSRSGETDLDAAIAQQKAGLHTPAEQAIHLAIPLLESQDLTFSRPQLLATAMETGGGKVSMADIDTTIQ
AQIRSGQLLNVPVAPGRGNDLLISRQAWDAEKSILTRVLEGKDAVAPLMDRVPDSLMTDLTAGQRAATRM
ILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVEARTTASFLHD
TQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIVAGGGRAVSSGDNDQLQPIAPGQPFRLMQQRS
AADIAIMKEIVRQVPELRPAVYSLIERDVHHALTTIEQVTPEQVPRKEGVWAPGSSVVEFTPTQEKAIQK
ALSEGKTLPAGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITLP
VLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKANQLITLTDSEGKERYISPREASAEGVTLY
RQEKITVSQGDRMRFSKSDLERGYVANSIWEVQSVSGDSVTLSDGKTTRTLTPKADQAQQHIDLAYAITA
HGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDSREGWIKAIKHSPEKATAHDILEP
RNDRAVKSADLLFGRARPLDETAAGRAALQQSGLAQGSSPGKFISPGKKYPQPHVALPAFDKNGKAAGIW
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)

TrwC relaxase (TrwC)

(11-283)

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

(634-713)

DNA helicase TraI (TraI_C)

(1432-1554)


  Protein structure



No available structure.




Auxiliary protein

ID   481 GenBank   WP_004197733
Name   WP_004197733_pKP190412_2 insolico UniProt ID   A0A0E3KB00
Length   129 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 129 a.a.        Molecular weight: 14835.90 Da        Isoelectric Point: 4.6012

>WP_004197733.1 MULTISPECIES: conjugal transfer relaxosome DNA-binding protein TraM [Bacteria]
MGKVQAYPSDEVCEKINAIVEKRRMEGAKDKDVSFSSISTMLLELGLRVYEAQMERKESGFNQMAFNRAL
LESVVKTQFSVNKILGIECLSPHVKDDPRWQWKSMVLNIQEDVQEAMRNFFPDEDAEGE

  Protein domains


Predicted by InterproScan.

TraM protein, DNA-binding (Tra_M)

(1-124)


  Protein structure


Source ID Structure
AlphaFold DB A0A0E3KB00


T4CP

ID   983 GenBank   WP_009309880
Name   traD_VZ385_RS30380_pKP190412_2 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: 85571.58 Da        Isoelectric Point: 5.1733

>WP_009309880.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTGFAFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGVASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDDDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDAPASGPDDAGSHAGEQPEPVSQPA
PAVMTVTPAPVKSPPTTKRPAAEPSARTAEPPVLRVTTVPLIKPKAAAAAGTAATASSAGTPAAAAGGTE
QVLAQQSAEQGQAMLPAGMNEDGVIEDMQAYDAWADEQTQRDMQRREEVNINHSHRHDEQDDLEIGGNF

  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: 76969..104886

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
VZ385_RS30190 (VZ385_30200) 72615..72776 + 162 WP_004118124 type I toxin-antitoxin system Hok family toxin -
VZ385_RS30195 (VZ385_30205) 73784..74164 + 381 WP_004197740 hypothetical protein -
VZ385_RS30200 (VZ385_30210) 74231..74578 + 348 WP_004197735 hypothetical protein -
VZ385_RS30205 (VZ385_30215) 74666..74896 + 231 WP_004197732 hypothetical protein -
VZ385_RS30210 (VZ385_30220) 74943..75776 + 834 WP_004197739 N-6 DNA methylase -
VZ385_RS30215 (VZ385_30225) 76401..76931 + 531 WP_004197734 antirestriction protein -
VZ385_RS30220 (VZ385_30230) 76969..77376 - 408 WP_009309864 transglycosylase SLT domain-containing protein virB1
VZ385_RS30225 (VZ385_30235) 77881..78270 + 390 WP_004197733 conjugal transfer relaxosome DNA-binding protein TraM -
VZ385_RS30230 (VZ385_30240) 78509..79183 + 675 WP_004197737 hypothetical protein -
VZ385_RS30235 (VZ385_30245) 79375..79539 + 165 WP_032444506 TraY domain-containing protein -
VZ385_RS30240 (VZ385_30250) 79601..79969 + 369 WP_004194426 type IV conjugative transfer system pilin TraA -
VZ385_RS30245 (VZ385_30255) 79983..80288 + 306 WP_004178059 type IV conjugative transfer system protein TraL traL
VZ385_RS30250 (VZ385_30260) 80308..80874 + 567 WP_004194424 type IV conjugative transfer system protein TraE traE
VZ385_RS30255 (VZ385_30265) 80861..81601 + 741 WP_063160281 type-F conjugative transfer system secretin TraK traK
VZ385_RS30260 (VZ385_30270) 81601..83025 + 1425 WP_071001027 F-type conjugal transfer pilus assembly protein TraB traB
VZ385_RS30265 (VZ385_30275) 83139..83723 + 585 WP_009309868 type IV conjugative transfer system lipoprotein TraV traV
VZ385_RS30270 (VZ385_30280) 83855..84265 + 411 WP_009309869 hypothetical protein -
VZ385_RS30275 (VZ385_30285) 84371..84589 + 219 WP_004195468 hypothetical protein -
VZ385_RS30280 (VZ385_30290) 84590..84901 + 312 WP_004195465 hypothetical protein -
VZ385_RS30285 (VZ385_30295) 84968..85372 + 405 WP_004197817 hypothetical protein -
VZ385_RS30290 (VZ385_30300) 85749..86147 + 399 WP_023179972 hypothetical protein -
VZ385_RS30295 (VZ385_30305) 86219..88858 + 2640 WP_004197813 type IV secretion system protein TraC virb4
VZ385_RS30300 (VZ385_30310) 88858..89247 + 390 WP_004197815 type-F conjugative transfer system protein TrbI -
VZ385_RS30305 (VZ385_30315) 89247..89873 + 627 WP_009309871 type-F conjugative transfer system protein TraW traW
VZ385_RS30310 (VZ385_30320) 89915..90304 + 390 WP_004194992 hypothetical protein -
VZ385_RS30315 (VZ385_30325) 90301..91290 + 990 WP_009309872 conjugal transfer pilus assembly protein TraU traU
VZ385_RS30320 (VZ385_30330) 91303..91941 + 639 WP_004193871 type-F conjugative transfer system pilin assembly protein TrbC trbC
VZ385_RS30325 (VZ385_30335) 92000..93955 + 1956 WP_009309873 type-F conjugative transfer system mating-pair stabilization protein TraN traN
VZ385_RS30330 (VZ385_30340) 93987..94241 + 255 WP_004195500 conjugal transfer protein TrbE -
VZ385_RS30335 (VZ385_30345) 94219..94467 + 249 WP_004152675 hypothetical protein -
VZ385_RS30340 (VZ385_30350) 94480..94806 + 327 WP_004194451 hypothetical protein -
VZ385_RS30345 (VZ385_30355) 94827..95579 + 753 WP_063160289 type-F conjugative transfer system pilin assembly protein TraF traF
VZ385_RS30350 (VZ385_30360) 95590..95829 + 240 WP_009309875 type-F conjugative transfer system pilin chaperone TraQ -
VZ385_RS30355 (VZ385_30365) 95801..96373 + 573 WP_063160290 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
VZ385_RS30360 (VZ385_30370) 96366..96794 + 429 WP_004152689 hypothetical protein -
VZ385_RS30365 (VZ385_30375) 96781..98151 + 1371 WP_009309877 conjugal transfer pilus assembly protein TraH traH
VZ385_RS30370 (VZ385_30380) 98151..101024 + 2874 WP_009309878 conjugal transfer mating-pair stabilization protein TraG traG
VZ385_RS30375 (VZ385_30385) 101759..102451 + 693 WP_009309879 hypothetical protein -
VZ385_RS30380 (VZ385_30390) 102577..104886 + 2310 WP_009309880 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   1962 GenBank   NZ_JAZBHI010000022
Plasmid name   pKP190412_2 Incompatibility group   IncFII
Plasmid size   116052 bp Coordinate of oriT [Strand]   77521..77569 [-]
Host baterium   Klebsiella pneumoniae strain KP190412

Cargo genes

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