Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   117587
Name   oriT_pWP5-W18-ESBL-06_4 in_silico
Organism   Klebsiella quasipneumoniae strain WP5-W18-ESBL-06
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_AP022116 (19910..19958 [-], 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_pWP5-W18-ESBL-06_4
AATCTGCAAAATTTTAATTTTGCGTAGTGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   11209 GenBank   WP_182937559
Name   traI_H7R83_RS29205_pWP5-W18-ESBL-06_4 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: 190358.14 Da        Isoelectric Point: 6.3373

>WP_182937559.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Klebsiella]
MLSFSQVKSAGSAGNYYTEKDNYYVIGSMEERWQGKGAEALGLEGKVDKQIFTELLQGKLPDGSDLTRIQ
DGVNKHRPGYDLTFSAPKSVSMLAMLGGDKRLIDAHNRAVTVALNQVESLASTRVQKDGVSETVLTGNLI
IARFNHDTSRAQDPQIHTHSVVINATQNGDKWQTLASDTVGKTGFSENILANRIAFGKIYQNTLRADVES
LGYRTVDAGKNGMWEMEGVPVESFSTRSQELREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMNT
LKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLEA
KDGVFELARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTSDASVVRQAPF
SDAVSVLAQDRPVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVTG
KSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTYR
WQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKDT
TITALTPVWLDSKSRGVRDYYREGMVMERWDPETRTHDRFVIDRVTASSNMLTLKDREGVRLDLKVSAVD
SQWTLFRAETLPVAEGERLAVLGKIPDTRLKGGESITVMKVEDGQLTVQRPGQKTTQTLAVGAGVFDGIK
IGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGNHLRLYSAQDAARTTEKLSRHTAFSVVSEQ
LKTRSGETDLDAAIAQQKAGLRTPAEQAIHLAIPLLESEKLTFSRPQLLATALETGGGKVPMKDIEATIQ
AQIRSGQLLNVPVAHGYGNDLLISRQTWDAEKSILTHVLEGKDAVAPLMDRVPASLMTDLTAGQRAATRM
ILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLHD
TQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIVAGGGRAVSSGDNDQLQPIAPGQPFRLMQQRS
AADIAIMKEIVRQVPELRPAVYSLIERDVHHALTTIEQVTPEQVPRKEGVWAPGSSVVEFTPTQEKAIQK
ALSEGKTLPAGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITLP
VLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKANQLITLTDSEGKERYISPREASAEGVTLY
RQEKITVSQGDRMRFSKSDLERGYVANSIWEVQSVSGDSVTLSDGKTTRTLTPKADQAQQHIDLAYAITA
HGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDSREGWIKAIKHSPEKATAHDILEP
RNDRAVKSADLLFGRARPLDETAAGRAALQQSGLAQGNSPGKFISPGKKYPQPHVALPAFDKNGKAAGIW
LSPLTDRDGRLEAIGGEGRIMGNDAARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDRP
WNPGAITGGRVWADPAPVGPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEPA
DRVKEVIGDVIRGLERDRPGPEKTTLPDDPQFRRQEAAIQQVASESLQRERLQAVERDMVRDLNREKTLG
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)

AAA domain (AAA_30)

(970-1156)

TrwC relaxase (TrwC)

(11-283)

DNA helicase TraI (TraI_C)

(1432-1554)


  Protein structure



No available structure.




Auxiliary protein

ID   6482 GenBank   WP_004197733
Name   WP_004197733_pWP5-W18-ESBL-06_4 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   13092 GenBank   WP_009309880
Name   traD_H7R83_RS29200_pWP5-W18-ESBL-06_4 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: 22372..47275

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
H7R83_RS29020 (WP5W18E06_P40200) 17558..17905 + 348 WP_022644944 hypothetical protein -
H7R83_RS29025 (WP5W18E06_P40210) 17998..18144 + 147 WP_022644943 hypothetical protein -
H7R83_RS29915 18192..18428 + 237 Protein_22 SAM-dependent DNA methyltransferase -
H7R83_RS29035 (WP5W18E06_P40230) 18777..19319 + 543 WP_022644941 antirestriction protein -
H7R83_RS29040 (WP5W18E06_P40240) 19343..19765 - 423 WP_072205880 transglycosylase SLT domain-containing protein -
H7R83_RS29045 (WP5W18E06_P40250) 20270..20659 + 390 WP_004197733 conjugal transfer relaxosome DNA-binding protein TraM -
H7R83_RS29050 (WP5W18E06_P40260) 20898..21572 + 675 WP_004197737 hypothetical protein -
H7R83_RS29055 21764..21928 + 165 WP_032444506 TraY domain-containing protein -
H7R83_RS29060 (WP5W18E06_P40270) 21990..22358 + 369 WP_004194426 type IV conjugative transfer system pilin TraA -
H7R83_RS29065 (WP5W18E06_P40280) 22372..22677 + 306 WP_004178059 type IV conjugative transfer system protein TraL traL
H7R83_RS29070 (WP5W18E06_P40290) 22697..23263 + 567 WP_004194424 type IV conjugative transfer system protein TraE traE
H7R83_RS29075 (WP5W18E06_P40300) 23250..23990 + 741 WP_009309865 type-F conjugative transfer system secretin TraK traK
H7R83_RS29080 (WP5W18E06_P40310) 23990..25414 + 1425 WP_004194260 F-type conjugal transfer pilus assembly protein TraB traB
H7R83_RS29085 (WP5W18E06_P40320) 25528..26112 + 585 WP_009309868 type IV conjugative transfer system lipoprotein TraV traV
H7R83_RS29090 (WP5W18E06_P40330) 26244..26654 + 411 WP_009309869 hypothetical protein -
H7R83_RS29095 (WP5W18E06_P40340) 26760..26978 + 219 WP_004195468 hypothetical protein -
H7R83_RS29100 (WP5W18E06_P40350) 26979..27290 + 312 WP_004195465 hypothetical protein -
H7R83_RS29105 (WP5W18E06_P40360) 27357..27761 + 405 WP_004197817 hypothetical protein -
H7R83_RS29110 (WP5W18E06_P40370) 28138..28536 + 399 WP_023179972 hypothetical protein -
H7R83_RS29115 (WP5W18E06_P40380) 28608..31247 + 2640 WP_182937565 type IV secretion system protein TraC virb4
H7R83_RS29120 (WP5W18E06_P40390) 31247..31636 + 390 WP_004197815 type-F conjugative transfer system protein TrbI -
H7R83_RS29125 (WP5W18E06_P40400) 31636..32262 + 627 WP_009309871 type-F conjugative transfer system protein TraW traW
H7R83_RS29130 (WP5W18E06_P40410) 32304..32693 + 390 WP_004194992 hypothetical protein -
H7R83_RS29135 (WP5W18E06_P40420) 32690..33679 + 990 WP_009309872 conjugal transfer pilus assembly protein TraU traU
H7R83_RS29140 (WP5W18E06_P40430) 33692..34330 + 639 WP_004193871 type-F conjugative transfer system pilin assembly protein TrbC trbC
H7R83_RS29145 (WP5W18E06_P40440) 34389..36344 + 1956 WP_109043214 type-F conjugative transfer system mating-pair stabilization protein TraN traN
H7R83_RS29150 (WP5W18E06_P40450) 36376..36630 + 255 WP_004195500 conjugal transfer protein TrbE -
H7R83_RS29155 (WP5W18E06_P40460) 36608..36856 + 249 WP_004152675 hypothetical protein -
H7R83_RS29160 (WP5W18E06_P40470) 36869..37195 + 327 WP_004194451 hypothetical protein -
H7R83_RS29165 (WP5W18E06_P40480) 37216..37968 + 753 WP_182937567 type-F conjugative transfer system pilin assembly protein TraF traF
H7R83_RS29170 (WP5W18E06_P40490) 37979..38218 + 240 WP_009309875 type-F conjugative transfer system pilin chaperone TraQ -
H7R83_RS29175 (WP5W18E06_P40500) 38190..38762 + 573 WP_009309876 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
H7R83_RS29180 (WP5W18E06_P40510) 38755..39183 + 429 WP_004152689 hypothetical protein -
H7R83_RS29185 (WP5W18E06_P40520) 39170..40540 + 1371 WP_009309877 conjugal transfer pilus assembly protein TraH traH
H7R83_RS29190 (WP5W18E06_P40530) 40540..43413 + 2874 WP_009309878 conjugal transfer mating-pair stabilization protein TraG traG
H7R83_RS29195 (WP5W18E06_P40550) 44148..44840 + 693 WP_182937557 hypothetical protein -
H7R83_RS29200 (WP5W18E06_P40560) 44966..47275 + 2310 WP_009309880 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   18020 GenBank   NZ_AP022116
Plasmid name   pWP5-W18-ESBL-06_4 Incompatibility group   -
Plasmid size   82271 bp Coordinate of oriT [Strand]   19910..19958 [-]
Host baterium   Klebsiella quasipneumoniae strain WP5-W18-ESBL-06

Cargo genes

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