Detailed information of oriT

oriT


The information of the oriT region


oriTDB ID   120672
Name   oriT_pBSKP1 in_silico
Organism   Klebsiella variicola subsp. tropica strain BSK_177V2
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP113790 (128952..129000 [+], 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_pBSKP1
AATCTGCAAAATTTTAATTTTGCGTAGTGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase


ID   13028 GenBank   WP_040212835
Name   traI_OUI59_RS28065_pBSKP1 insolico UniProt ID   A0A509A0S3
Length   1752 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1752 a.a.        Molecular weight: 190231.91 Da        Isoelectric Point: 6.2218

>WP_040212835.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Klebsiella/Raoultella group]
MLSFSQVKSAGSAGNYYTDKDNYYVIGSMDERWQGKGAEALGLEGKVDKQVFTELLQGKLPDGSDLTRIQ
DGVNKHRPGYDLTFSAPKSVSMLAMLGGDKRLIDAHNRAVTVALNQVESLASTRVKRDGVSETVLTGNLI
IARFNHDTSRAQDPQIHTHSVVINTTQNGDKWQTLASDTVGKTGFSENILANRIALGKIYQNSLRADVES
MGYKTVDAGKNGMWEMEGVPVESFSTRSQELREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMNT
LKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLEA
KDGVFELARAGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVPF
SDAVSVLAQDRPVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVTG
KSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTYR
WQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRHEGVLGEKDT
TITALTPVWLDSKSRGVRDYYREGMVMERWDPETRTHDRFVIDRVTASSNMLTLKDRDGVRLDLKVSAVD
SQWTLFRAETLPVAEGERLAVLGKIPDTRLKGGESITVMKVEDGQLTVQRPGQKTTQTLAVGAGVFDGIK
IGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSEQ
LKTRSGETDLDAAIAQQKAGLRTPAEQAIHLAIPLLESEKLTFSRPQLLATALETGGGKVPMADIDTTIQ
AQIRSGQLLNVPVAHGHGNDLLISRQTWDAEKSILTHVLEGKDAVAPLMDRVPASLMTDLTAGQRAATRM
ILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLHD
TQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIVAGGGRAVSSGDNDQLQPIAPGQPFRLMQQRS
AADVAIMKEIVRQVPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGVWAPGSSVVEFTPAQEKAIQK
ALSEGETLPAGQPATLYEALVKDYTGRTPEAQSQTLIITHLNKDRRALNSLIHDARRENGETGKEEITLP
VLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSEGKERYISPREASAEGVTLY
RQEKITVSQGDRMRFSKSDLERGYVANSIWEVQSVSGDSVTLSDGKTTRTLTPKADQAQQHIDLAYAITA
HGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDSREGWIKAIKHSPEKATAHDILEP
RNDRAVKSADLLFGRARPLDETAAGRAALQQSGLAQGNSPGKFISPGKKYPQPHVALPAFDKNGKAAGIW
LSPLTDRDGRLEAIGGEGRIMGNDAARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDRP
WNPGAITGGRVWADPAPVGPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEPA
DRVKEVIGDVIRGLERDRPGPEKTTLPDDPQFRRQEAAIQQVASESLQRERLQAVERDMVRDLNREKTLG
GD

  Protein domains


Predicted by InterproScan.

(576-628)

(10-283)

(1432-1554)

(634-713)

(970-1156)


  Protein structure



No available structure.




Auxiliary protein


ID   7287 GenBank   WP_020805752
Name   WP_020805752_pBSKP1 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.

(1-125)


  Protein structure


Source ID Structure
AlphaFold DB A0A377TIM3


T4CP


ID   15294 GenBank   WP_023313941
Name   traD_OUI59_RS28070_pBSKP1 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: 85666.78 Da        Isoelectric Point: 5.2499

>WP_023313941.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacterales]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTSFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDAPASGTADTNSHAGEQPEPVSQPA
PAEVTVSPAPVKAPATTKMPAAEPSARTAEPPVLRVTTVPLIKPKAAAAAAAAATASSAGTPAAAAGGTE
QELAQQSAEQGQDMLPAGMNKDGVIEDMQAYDAWADEQTLRDMQRREEVNINHSHRHDEQDDVEIGGNF

  Protein domains


Predicted by InterproScan.

(172-560)

(32-128)

  Protein structure



No available structure.




T4SS


T4SS were predicted by using oriTfinder2.

Region 1: 119829..129552

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
OUI59_RS28070 (OUI59_28070) 119829..122138 - 2310 WP_023313941 type IV conjugative transfer system coupling protein TraD virb4
OUI59_RS28075 (OUI59_28075) 122267..122803 - 537 WP_268657994 hypothetical protein -
OUI59_RS28080 (OUI59_28080) 122818..122919 - 102 Protein_126 type IV conjugative transfer system protein TraV -
OUI59_RS28085 (OUI59_28085) 122942..123538 - 597 WP_023316398 conjugal transfer pilus-stabilizing protein TraP -
OUI59_RS28090 (OUI59_28090) 123531..124955 - 1425 WP_023316397 F-type conjugal transfer pilus assembly protein TraB traB
OUI59_RS28095 (OUI59_28095) 124955..125695 - 741 WP_020804840 type-F conjugative transfer system secretin TraK traK
OUI59_RS28100 (OUI59_28100) 125682..126248 - 567 WP_020316627 type IV conjugative transfer system protein TraE traE
OUI59_RS28105 (OUI59_28105) 126268..126573 - 306 WP_004178059 type IV conjugative transfer system protein TraL traL
OUI59_RS28110 (OUI59_28110) 126587..126955 - 369 WP_020316649 type IV conjugative transfer system pilin TraA -
OUI59_RS28115 (OUI59_28115) 127024..127224 - 201 WP_048289787 TraY domain-containing protein -
OUI59_RS28120 (OUI59_28120) 127310..128011 - 702 WP_023316396 hypothetical protein -
OUI59_RS28125 (OUI59_28125) 128249..128641 - 393 WP_020805752 conjugal transfer relaxosome DNA-binding protein TraM -
OUI59_RS28130 (OUI59_28130) 129145..129552 + 408 WP_279615448 transglycosylase SLT domain-containing protein virB1
OUI59_RS28135 (OUI59_28135) 129590..130120 - 531 WP_020277941 antirestriction protein -
OUI59_RS28140 (OUI59_28140) 130745..131578 - 834 WP_020277940 N-6 DNA methylase -
OUI59_RS28145 (OUI59_28145) 131625..131855 - 231 WP_020805755 hypothetical protein -
OUI59_RS28150 (OUI59_28150) 131943..132290 - 348 WP_020316654 hypothetical protein -
OUI59_RS28155 (OUI59_28155) 132356..132736 - 381 WP_015632488 hypothetical protein -
OUI59_RS28160 (OUI59_28160) 133253..133603 - 351 WP_020277938 hypothetical protein -
OUI59_RS28165 (OUI59_28165) 133600..133872 - 273 WP_023280873 hypothetical protein -
OUI59_RS28170 (OUI59_28170) 134062..134547 + 486 WP_020277937 hypothetical protein -


Host bacterium


ID   21101 GenBank   NZ_CP113790
Plasmid name   pBSKP1 Incompatibility group   IncFIB
Plasmid size   154584 bp Coordinate of oriT [Strand]   128952..129000 [+]
Host baterium   Klebsiella variicola subsp. tropica strain BSK_177V2

Cargo genes


Drug resistance gene   -
Virulence gene   -
Metal resistance gene   arsC, arsB, arsR, arsH, silE, silS, silR, silC, silF, silB, silA, silP, pcoA, pcoB, pcoC, fecD, fecE
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIE9