Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   106279
Name   oriT_pKP309 in_silico
Organism   Klebsiella pneumoniae strain KP309
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP089881 (104149..104198 [+], 50 nt)
oriT length   50 nt
IRs (inverted repeats)      7..14, 17..24  (GCAAAATT..AATTTTGC)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 50 nt

>oriT_pKP309
AAATCTGCAAAATTTTAATTTTGCGTAGTGTGTGGTCATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   4204 GenBank   WP_029498346
Name   traI_LVQ72_RS25480_pKP309 insolico UniProt ID   A0A2R4NEL5
Length   1752 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1752 a.a.        Molecular weight: 190742.66 Da        Isoelectric Point: 6.1403

>WP_029498346.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacteriaceae]
MLSFSQVKSAGSAGNYYTEKDNYYVIGSMEERWQGKGAELLGLEGKVDKQVFTELLQGKLPDGSDLTRIQ
DGVNKHRPGYDLTFSAPKSVSMLAMLGGDKRLIDAHNRAVTVALNQVESLASTRVKKDGVSETVLTGNLI
IARFNHDTSRAQDPQIHTHSVVINATQNGDKWQTLASDTVGKTGFSETILANRIAFGKIYQNSLRADVES
MGYKTVDAGRNGMWEMEGVPVESFSTRSQELLEAAGPDASLKSRDVAALDTRKSKEAIDPAENMVEWMNT
LKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLEA
KDGVFDLARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVPF
SDAVSVLAQDRPVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVTG
KSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTYR
WQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRHEGVLGEKDT
TITALTPVWLDSKSRGVRDYYREGMVMERWDPENRTHDRFVIDRVTASSNMLTLKDRDGVRLDLKVSAVD
SQWTLFRADTLPVAEGERLAVLGKIPDTRLKGGESITVMKVEEGQLTVQRPGQKTTQTLAVGAGVFDGIK
IGHGWVESPGRSVSETAMVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSEQ
LKTRSGETDLDAAIAQQKAGLRTPAEQAIHLAIPLLESEKLTFSRPQLLATALETGGGKVPMADIDTTIQ
AQIRSGQLLNVPVAHGYGNDLLISRQTWDAEKSILTHVLEGKDAVAPLMDRVPASLMTDLTAGQRAATRM
ILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLHD
TQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIVAGGGRAVSSGDNDQLQPIAPGQPFRLMQQRS
AADVAIMKEIVRQMPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGAWAPGSSVVEFTPKQEKAIEK
ALSEGKTLLEGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITLP
VLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSEGKERYISPREASAEGVTLY
RQEKITVSQGDRMRFSKSDLERGYVANSIWEVQSVSGDSVTLSDGKLTRTLTPKADQAQQHIDLAYAITA
HGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDSREGWIKAIKHSPEKATAHDILEP
RNDRAVKSADLLFGRARPLDETAAGRAALQQSGLAQGNSPGKFISPGKKYPQPHVALPAFDKNGKAAGIW
LSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDRP
WNPGAITGGRIWAEPAPVAPVPQTGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEPA
DRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEEAIQQVASERLQRERLQAVERDMVRDLNREKTLG
GD

  Protein domains


Predicted by InterproScan.

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

(634-713)

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 helicase TraI (TraI_C)

(1432-1554)


  Protein structure



No available structure.




T4CP

ID   4229 GenBank   WP_048255491
Name   traD_LVQ72_RS25485_pKP309 insolico UniProt ID   _
Length   760 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 760 a.a.        Molecular weight: 84914.98 Da        Isoelectric Point: 5.0560

>WP_048255491.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTSFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSREIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDAPEPGPADTDSHAGEQPEPVSPPA
PAEMTVSPAPVKAPPTTKRPAAEPPVLPVTPIPLLKPKAAAAAATASSAGTPAAAAGGTEQELAQQSAEQ
GQDMLPAGMNEDGVIEDMQAYAAWLADEQTQRDMQRREEVNINHNHRHDEQDDVEIGGNI

  Protein domains


Predicted by InterproScan.

Type IV secretion-system coupling protein DNA-binding domain (TrwB_AAD_bind)

(172-560)

F sex factor protein N terminal (TraD_N)

(32-128)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 75544..104756

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
LVQ72_RS25485 (LVQ72_25440) 75544..77826 - 2283 WP_048255491 type IV conjugative transfer system coupling protein TraD virb4
LVQ72_RS25490 (LVQ72_25445) 78184..78915 - 732 WP_004152629 conjugal transfer complement resistance protein TraT -
LVQ72_RS25495 (LVQ72_25450) 79105..79632 - 528 WP_029498351 conjugal transfer protein TraS -
LVQ72_RS25500 (LVQ72_25455) 79638..82487 - 2850 WP_023329044 conjugal transfer mating-pair stabilization protein TraG traG
LVQ72_RS25505 (LVQ72_25460) 82487..83866 - 1380 WP_023158000 conjugal transfer pilus assembly protein TraH traH
LVQ72_RS25510 (LVQ72_25465) 83844..84287 - 444 WP_023158001 F-type conjugal transfer protein TrbF -
LVQ72_RS25515 (LVQ72_25470) 84333..84890 - 558 WP_023158002 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
LVQ72_RS25520 (LVQ72_25475) 84862..85101 - 240 WP_048255490 type-F conjugative transfer system pilin chaperone TraQ -
LVQ72_RS25525 (LVQ72_25480) 85112..85864 - 753 WP_015632513 type-F conjugative transfer system pilin assembly protein TraF traF
LVQ72_RS25530 (LVQ72_25485) 85885..86211 - 327 WP_015632512 hypothetical protein -
LVQ72_RS25535 (LVQ72_25490) 86224..86472 - 249 WP_004152675 hypothetical protein -
LVQ72_RS25540 (LVQ72_25495) 86450..86704 - 255 WP_032433943 conjugal transfer protein TrbE -
LVQ72_RS25545 (LVQ72_25500) 86736..88691 - 1956 WP_015065533 type-F conjugative transfer system mating-pair stabilization protein TraN traN
LVQ72_RS25550 (LVQ72_25505) 88750..89397 - 648 WP_015632510 type-F conjugative transfer system pilin assembly protein TrbC trbC
LVQ72_RS25555 (LVQ72_25510) 89673..90662 - 990 WP_015632509 conjugal transfer pilus assembly protein TraU traU
LVQ72_RS25560 (LVQ72_25515) 90659..91060 - 402 WP_004194979 hypothetical protein -
LVQ72_RS25565 (LVQ72_25520) 91095..91730 - 636 WP_047670041 type-F conjugative transfer system protein TraW traW
LVQ72_RS25570 (LVQ72_25525) 91730..92119 - 390 WP_015632507 type-F conjugative transfer system protein TrbI -
LVQ72_RS25575 (LVQ72_25530) 92119..94758 - 2640 WP_015632506 type IV secretion system protein TraC virb4
LVQ72_RS25580 (LVQ72_25535) 94830..95228 - 399 WP_015632505 hypothetical protein -
LVQ72_RS25585 (LVQ72_25540) 95236..95625 - 390 WP_015632504 hypothetical protein -
LVQ72_RS25590 (LVQ72_25545) 95668..96072 - 405 WP_032433941 hypothetical protein -
LVQ72_RS25595 (LVQ72_25550) 96139..96450 - 312 WP_015632502 hypothetical protein -
LVQ72_RS25600 (LVQ72_25555) 96451..96669 - 219 WP_004171484 hypothetical protein -
LVQ72_RS25605 (LVQ72_25560) 96708..96977 - 270 WP_032433956 hypothetical protein -
LVQ72_RS25610 (LVQ72_25565) 96982..97392 - 411 WP_015632501 hypothetical protein -
LVQ72_RS25615 (LVQ72_25570) 97524..98108 - 585 WP_014386196 type IV conjugative transfer system lipoprotein TraV traV
LVQ72_RS25620 (LVQ72_25575) 98131..98727 - 597 WP_047670043 conjugal transfer pilus-stabilizing protein TraP -
LVQ72_RS25625 (LVQ72_25580) 98720..100144 - 1425 WP_015632498 F-type conjugal transfer pilus assembly protein TraB traB
LVQ72_RS25630 (LVQ72_25585) 100144..100884 - 741 WP_047670045 type-F conjugative transfer system secretin TraK traK
LVQ72_RS25635 (LVQ72_25590) 100871..101437 - 567 WP_016831035 type IV conjugative transfer system protein TraE traE
LVQ72_RS25640 (LVQ72_25595) 101457..101762 - 306 WP_004144424 type IV conjugative transfer system protein TraL traL
LVQ72_RS25645 (LVQ72_25600) 101776..102144 - 369 WP_004194426 type IV conjugative transfer system pilin TraA -
LVQ72_RS25650 (LVQ72_25605) 102206..102412 - 207 WP_171773970 TraY domain-containing protein -
LVQ72_RS25655 (LVQ72_25610) 102545..103264 - 720 WP_016831034 conjugal transfer protein TrbJ -
LVQ72_RS25660 (LVQ72_25615) 103464..103880 - 417 WP_072145360 conjugal transfer relaxosome DNA-binding protein TraM -
LVQ72_RS25665 (LVQ72_25620) 104271..104756 + 486 WP_004178063 transglycosylase SLT domain-containing protein virB1
LVQ72_RS25670 (LVQ72_25625) 104789..105118 - 330 WP_011977736 DUF5983 family protein -
LVQ72_RS25675 (LVQ72_25630) 105151..105972 - 822 WP_004182076 DUF932 domain-containing protein -
LVQ72_RS25680 (LVQ72_25635) 106800..107363 - 564 WP_004182054 methyltransferase -
LVQ72_RS25685 (LVQ72_25640) 107411..108766 - 1356 WP_004182052 DUF3560 domain-containing protein -
LVQ72_RS25690 (LVQ72_25645) 108818..109048 - 231 WP_001568051 hypothetical protein -
LVQ72_RS25695 (LVQ72_25650) 109140..109367 - 228 WP_004182050 hypothetical protein -

Host bacterium

ID   6716 GenBank   NZ_CP089881
Plasmid name   pKP309 Incompatibility group   IncFII
Plasmid size   253878 bp Coordinate of oriT [Strand]   104149..104198 [+]
Host baterium   Klebsiella pneumoniae strain KP309

Cargo genes

Drug resistance gene   blaTEM-1B, aph(6)-Id, aph(3'')-Ib, sul2, blaCTX-M-14, blaLAP-2, qnrS1, sul1, qacE, dfrA1, tet(A)
Virulence gene   -
Metal resistance gene   silE, silS, silR, silC, silF, silB, silA, silP, pcoA, pcoB, pcoC, pcoD, pcoR, pcoS, pcoE, arsR, arsD, arsA, arsB, arsC, fecE, fecD
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -