Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   106211
Name   oriT_pSW25tet_A in_silico
Organism   Klebsiella pneumoniae strain AHSWKP25
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP091051 (80918..80966 [-], 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_pSW25tet_A
AATCTGCAAAATTTTAATTTTGCGTAGTGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   4162 GenBank   WP_126291924
Name   traI_L1P15_RS28200_pSW25tet_A 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: 190438.05 Da        Isoelectric Point: 5.9442

>WP_126291924.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacteriaceae]
MLSFSQVKSAGSAGNYYTDKDNYYVIGSMDERWQGKGAEALGLEGKVDKQVFTELLQGKLPDGSDLTWIQ
DGVNKHRPGYDLTFSAPKSVSMLAMLGGDKRLIDAHNRAVTVALNQVESLASTRVKRDGVSETVLTGNLI
IARFNHDTSRAQDPQIHTHSVVINATQNGDKWQTLASDTVGKTGFSENILANRIAFGKIYQNSLRADVES
MGYKTVDAGKNGMWEMEGVPVESFSTRSQELREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMNT
LKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLEA
KDGVFELARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVPF
SDAVSVLAQDRPVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVTG
KSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTYR
WQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKDT
TITALTPVWLDSKSRGVRDYYREGMVMERWDPETRTHDRFVIDRVTASSNMLTLKDREGDRLDLKVSAVD
SQWTLFRAETLPVAEGERLAVLGKIPDTRLKGGESVTVMKVEDGQLTVQRPGQKTTQTLAVGAGVFDGIK
VGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSEQ
LKARSGETDLDAAIAQQKAGLHTPAEQAIHLAIPLLESQDLTFSRPQLLATAMETGGGKVSMADIDTTIQ
AQIRSGQLLNVPVAPGRGNDLLISRQAWDAEKSILTRVLEGKDAVAPLMDRVPDSLMTDLTAGQRAATRM
ILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLHD
MQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIAAGGGRAVPSGDTDQLPPIASGQPFRLTQQRS
AADVAIMKEIVRQIPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGAWAPGNSVVEFTPKQEKAIEK
ALSEGKTLPEGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRTLNGMIHDARRENGETGKEEITLP
VLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSEGKERYISPREASAEGVTLY
RQEKITVSQGDRMRFSKSDPERGYVANSIWEVQSVSGDSVTLSDGKLTRTLTPKAEQAQQHIDLAYAITA
HGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDNREGWIKAIQHSPEKATAHDILEP
RNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGSSPGKFISPGKKYPQPHVALPAFDKNGKAAGIW
LSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDRP
WNPGAITGGRVWADPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEPA
DRVKEVIGDVIRGLERDRPGPEKTTLPDDPQFRHQEAVIQQVASESLQRERLQAVERDMVRDLNREKTLG
GD

  Protein domains


Predicted by InterproScan.

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

(576-628)

TrwC relaxase (TrwC)

(10-283)

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

(634-713)

AAA domain (AAA_30)

(970-1156)

DNA helicase TraI (TraI_C)

(1432-1554)


  Protein structure



No available structure.




Auxiliary protein

ID   1856 GenBank   WP_020805752
Name   WP_020805752_pSW25tet_A insolico UniProt ID   A0A377TIM3
Length   130 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 130 a.a.        Molecular weight: 14772.81 Da        Isoelectric Point: 4.5715

>WP_020805752.1 MULTISPECIES: conjugal transfer relaxosome DNA-binding protein TraM [Gammaproteobacteria]
MAKIQVYVNDNVAEKINAIAVQRRAEGAKEKDISYSSIASMLLELGLRVYEAQMERKESGFNQMAFNRAL
LESMVKTQFTVNKVLGIECLSPHVNGNPKWEWSGLIENIRDDVSAVMEKFFPNESEIEDE

  Protein domains


Predicted by InterproScan.

TraM protein, DNA-binding (Tra_M)

(1-125)


  Protein structure


Source ID Structure
AlphaFold DB A0A377TIM3


T4CP

ID   4181 GenBank   WP_065808185
Name   traD_L1P15_RS28195_pSW25tet_A 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: 85734.63 Da        Isoelectric Point: 4.9615

>WP_065808185.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MSFNAKDMTQGGQIANMRFRMFGQIANIILYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTVWCGEQLWTSFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDDDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSREIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKITEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDAPASGPADTESHAGEQPEPVSQPA
PADMTVSPAPVKAPPTTKSPAAEPSVRATEPPVLRVTTVPLIKPKAAAAATAASTASSAGAPAAAAGGTE
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: 83345..110330

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
L1P15_RS28005 (L1P15_28005) 79798..80328 + 531 WP_023292160 antirestriction protein -
L1P15_RS28010 (L1P15_28010) 80366..80773 - 408 WP_223170089 transglycosylase SLT domain-containing protein -
L1P15_RS28015 (L1P15_28015) 81277..81669 + 393 WP_020805752 conjugal transfer relaxosome DNA-binding protein TraM -
L1P15_RS28020 (L1P15_28020) 81907..82608 + 702 WP_223367236 hypothetical protein -
L1P15_RS28025 (L1P15_28025) 82694..82894 + 201 WP_048289787 TraY domain-containing protein -
L1P15_RS28030 (L1P15_28030) 82963..83331 + 369 WP_020316649 type IV conjugative transfer system pilin TraA -
L1P15_RS28035 (L1P15_28035) 83345..83650 + 306 WP_004178059 type IV conjugative transfer system protein TraL traL
L1P15_RS28040 (L1P15_28040) 83670..84236 + 567 WP_020316627 type IV conjugative transfer system protein TraE traE
L1P15_RS28045 (L1P15_28045) 84223..84963 + 741 WP_013214019 type-F conjugative transfer system secretin TraK traK
L1P15_RS28050 (L1P15_28050) 84963..86387 + 1425 WP_126291926 F-type conjugal transfer pilus assembly protein TraB traB
L1P15_RS28055 (L1P15_28055) 86380..86976 + 597 WP_065808167 conjugal transfer pilus-stabilizing protein TraP -
L1P15_RS28060 (L1P15_28060) 86999..87568 + 570 WP_065808168 type IV conjugative transfer system lipoprotein TraV traV
L1P15_RS28065 (L1P15_28065) 87700..88110 + 411 WP_065808169 hypothetical protein -
L1P15_RS28070 (L1P15_28070) 88115..88405 + 291 WP_065808170 hypothetical protein -
L1P15_RS28075 (L1P15_28075) 88429..88647 + 219 WP_004171484 hypothetical protein -
L1P15_RS28080 (L1P15_28080) 88648..88965 + 318 WP_065808171 hypothetical protein -
L1P15_RS28085 (L1P15_28085) 89032..89436 + 405 WP_065808172 hypothetical protein -
L1P15_RS28090 (L1P15_28090) 89479..89880 + 402 WP_065808173 hypothetical protein -
L1P15_RS28095 (L1P15_28095) 89888..90286 + 399 WP_074423045 hypothetical protein -
L1P15_RS28100 (L1P15_28100) 90357..92996 + 2640 WP_065808175 type IV secretion system protein TraC virb4
L1P15_RS28105 (L1P15_28105) 92996..93385 + 390 WP_020326931 type-F conjugative transfer system protein TrbI -
L1P15_RS28110 (L1P15_28110) 93385..94011 + 627 WP_065808176 type-F conjugative transfer system protein TraW traW
L1P15_RS28115 (L1P15_28115) 94055..95014 + 960 WP_234833367 conjugal transfer pilus assembly protein TraU traU
L1P15_RS28120 (L1P15_28120) 95027..95665 + 639 WP_065808178 type-F conjugative transfer system pilin assembly protein TrbC trbC
L1P15_RS28125 (L1P15_28125) 95662..96045 + 384 WP_065808179 hypothetical protein -
L1P15_RS28130 (L1P15_28130) 96042..97997 + 1956 WP_065808195 type-F conjugative transfer system mating-pair stabilization protein TraN traN
L1P15_RS28135 (L1P15_28135) 98030..98311 + 282 WP_022644736 hypothetical protein -
L1P15_RS28140 (L1P15_28140) 98301..98528 + 228 WP_065808180 conjugal transfer protein TrbE -
L1P15_RS28145 (L1P15_28145) 98539..98865 + 327 WP_065808181 hypothetical protein -
L1P15_RS28150 (L1P15_28150) 98886..99638 + 753 WP_065808182 type-F conjugative transfer system pilin assembly protein TraF traF
L1P15_RS28155 (L1P15_28155) 100094..100333 + 240 WP_023316407 type-F conjugative transfer system pilin chaperone TraQ -
L1P15_RS28160 (L1P15_28160) 100305..100862 + 558 WP_020804677 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
L1P15_RS28165 (L1P15_28165) 100908..101351 + 444 WP_023340929 F-type conjugal transfer protein TrbF -
L1P15_RS28170 (L1P15_28170) 101329..102708 + 1380 WP_072198238 conjugal transfer pilus assembly protein TraH traH
L1P15_RS28175 (L1P15_28175) 102708..105557 + 2850 WP_065808184 conjugal transfer mating-pair stabilization protein TraG traG
L1P15_RS28180 (L1P15_28180) 105560..106090 + 531 WP_074423050 conjugal transfer protein TraS -
L1P15_RS28185 (L1P15_28185) 106280..107011 + 732 WP_032329926 conjugal transfer complement resistance protein TraT -
L1P15_RS28190 (L1P15_28190) 107203..107892 + 690 WP_074423046 hypothetical protein -
L1P15_RS28195 (L1P15_28195) 108021..110330 + 2310 WP_065808185 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   6648 GenBank   NZ_CP091051
Plasmid name   pSW25tet_A Incompatibility group   IncFIA
Plasmid size   120990 bp Coordinate of oriT [Strand]   80918..80966 [-]
Host baterium   Klebsiella pneumoniae strain AHSWKP25

Cargo genes

Drug resistance gene   qnrS1, blaLAP-2, tet(A), floR, sul2, dfrA14
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -