Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   102788
Name   oriT_pUCLAOXA232-5.X in_silico
Organism   Klebsiella pneumoniae strain UCLAOXA232KP
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP012571 (27395..27444 [-], 50 nt)
oriT length   50 nt
IRs (inverted repeats)      7..14, 17..24  (GCAAAATT..AATTTTGC)
Location of nic site      33..34
Conserved sequence flanking the
  nic site    		  TGTGTGGTGA
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 50 nt

>oriT_pUCLAOXA232-5.X
AAATCTGCAAAATTTTAATTTTGCGTAGTGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2060 GenBank   WP_015065542
Name   traI_AM278_RS29120_pUCLAOXA232-5.X insolico UniProt ID   K7R3U7
Length   1752 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1752 a.a.        Molecular weight: 190318.03 Da        Isoelectric Point: 6.2890

>WP_015065542.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacterales]
MLSFSQVKSAGSAGNYYTEKDNYYVIGSMEERWQGKGAELLGLEGKVDKQVFTELLQGKLPDGSDLTRIQ
DGVNKHRPGYDLTFSAPKSVSMLAMLGGDKRLIDAHNRAVTVALNQVESLASTRVKKDGVSETVLTGNLI
IARFNHDTSRAQDPQIHTHSVVINATQNGDKWQTLASDTVGKTGFSETILANRIAFGKIYQNSLRADVES
MGYKTVDAGRNGMWEMEGVPVESFSTRSQELREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMNT
LKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLEA
KDGVFELARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVPF
SDAVSVLAQDRPVMGIVSGQGGATGQRERVAELTLMSREQGRDVHILAADNRSRDFLAGDVRLAGETVTG
KSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALAVLKDSGVNTYR
WQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKDT
TITALTPVWLDSKSRGVRDYYREGMVMERWDPENRTHDRFVIDRVTASSNMLTLKDREGGRLDLKVSAVD
SQWTLFRADTLPVAEGERLAVLGKIPDTRLKGGESITVMKVEEGQLTVQRPGQKTTQTLAAGAGVFDGIK
VGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSEQ
LKSRSGETDLDTAIAQQKAGLHTPAEQAIHLAIPLLESQDLTFSRPQLLATAMETGGGKVSMADIDTTIQ
AQIRSGQLLNVPVAHGYGNDLLISRQTWDAEKSILTHVLEGKGAVAPLMDRVPASLMTDLTAGQRAATRM
ILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLHD
TQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIAAGGGRAVPSGDTDQLPPIASGQPFRLTQQRS
AADVAIMKEIVRQMPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGAWAPGSSVVEFTPKQEKAIEK
ALSEGKTLPEGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITLP
VLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSEGKERFISPREASAEGVTLY
RQEKITVSQGDRMRFSKSDPERGYVANSIWEVQSVSGDSVTLSDGKLTRTLTPKAEQAQQHIDLAYAITA
HGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDSREGWIKAIKHSPEKATAHDILEP
RNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGSSPGKFISPGKKYPQPHVALPAFDKNGKAAGIW
LSPLTDRDGRLEAIGGGGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDRP
WNPGAMTGGRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEPA
DRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEAAIQQVASERLQRERLQAVERDMVRDLNREKTLG
GD

  Protein domains


Predicted by InterproScan.

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

(576-628)

DNA helicase TraI (TraI_C)

(1432-1554)

TrwC relaxase (TrwC)

(11-283)

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

(634-713)

AAA domain (AAA_30)

(970-1156)


  Protein structure



No available structure.




T4CP

ID   1717 GenBank   WP_015065541
Name   traD_AM278_RS29115_pUCLAOXA232-5.X insolico UniProt ID   _
Length   770 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 770 a.a.        Molecular weight: 86025.00 Da        Isoelectric Point: 5.0577

>WP_015065541.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacterales]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTSFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDDDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSREIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDAPASGPADTNSHAGEQPEPVSQPA
PADMTVSPEPVKAPPTIKRPAAEPSVRTTEPSVLRVTTVPLIKPKAAAAAAAASTASSSGAPATAAGGTQ
QELAQQSAEQGQDMLPAGMNEDGVIEDMQAYDAWLADEQTQRDMQRREEVNINHSHRHDEQDDVEIGGNF

  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: 26837..55480

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
AM278_RS32335 (AM278_27690) 21878..22039 + 162 Protein_28 hypothetical protein -
AM278_RS32520 21970..22206 - 237 WP_306046130 hypothetical protein -
AM278_RS28885 (AM278_27695) 22188..23168 - 981 WP_020806188 IS5-like element ISKpn26 family transposase -
AM278_RS28890 (AM278_27700) 23261..23473 + 213 WP_019706020 hypothetical protein -
AM278_RS28895 (AM278_27705) 23484..23708 + 225 WP_014343499 hypothetical protein -
AM278_RS28900 (AM278_27710) 23789..24109 + 321 WP_004152720 type II toxin-antitoxin system RelE/ParE family toxin -
AM278_RS28905 (AM278_27715) 24099..24377 + 279 WP_004152721 helix-turn-helix transcriptional regulator -
AM278_RS28910 (AM278_27720) 24378..24791 + 414 WP_023287139 helix-turn-helix domain-containing protein -
AM278_RS28930 (AM278_27730) 25621..26442 + 822 WP_004152492 DUF932 domain-containing protein -
AM278_RS28935 26475..26804 + 330 WP_053390269 DUF5983 family protein -
AM278_RS28940 (AM278_27735) 26837..27322 - 486 WP_001568108 transglycosylase SLT domain-containing protein virB1
AM278_RS28945 (AM278_27740) 27713..28129 + 417 WP_072145360 conjugal transfer relaxosome DNA-binding protein TraM -
AM278_RS28950 (AM278_27745) 28328..29047 + 720 WP_162899473 conjugal transfer protein TrbJ -
AM278_RS28955 (AM278_27750) 29180..29383 + 204 WP_171486139 TraY domain-containing protein -
AM278_RS28960 (AM278_27755) 29448..29816 + 369 WP_004194426 type IV conjugative transfer system pilin TraA -
AM278_RS28965 (AM278_27760) 29830..30135 + 306 WP_004144424 type IV conjugative transfer system protein TraL traL
AM278_RS28970 (AM278_27765) 30155..30721 + 567 WP_004144423 type IV conjugative transfer system protein TraE traE
AM278_RS28975 (AM278_27770) 30708..31448 + 741 WP_013214019 type-F conjugative transfer system secretin TraK traK
AM278_RS28980 (AM278_27775) 31448..32872 + 1425 WP_032426793 F-type conjugal transfer pilus assembly protein TraB traB
AM278_RS28985 (AM278_27780) 32986..33570 + 585 WP_004161368 type IV conjugative transfer system lipoprotein TraV traV
AM278_RS28990 (AM278_27785) 33893..34111 + 219 WP_004195468 hypothetical protein -
AM278_RS28995 (AM278_27790) 34112..34423 + 312 WP_013214022 hypothetical protein -
AM278_RS29000 (AM278_27795) 34490..34894 + 405 WP_004197817 hypothetical protein -
AM278_RS29015 (AM278_27805) 35271..35669 + 399 WP_014343490 hypothetical protein -
AM278_RS29020 (AM278_27810) 35741..38380 + 2640 WP_013214024 type IV secretion system protein TraC virb4
AM278_RS29025 (AM278_27815) 38380..38769 + 390 WP_013214025 type-F conjugative transfer system protein TrbI -
AM278_RS29030 (AM278_27820) 38769..39404 + 636 WP_013214026 type-F conjugative transfer system protein TraW traW
AM278_RS29035 (AM278_27825) 39439..39840 + 402 WP_004194979 hypothetical protein -
AM278_RS29040 (AM278_27830) 39837..40826 + 990 WP_013214027 conjugal transfer pilus assembly protein TraU traU
AM278_RS29045 (AM278_27835) 40839..41477 + 639 WP_004193871 type-F conjugative transfer system pilin assembly protein TrbC trbC
AM278_RS29050 (AM278_27840) 41536..43491 + 1956 WP_071854293 type-F conjugative transfer system mating-pair stabilization protein TraN traN
AM278_RS29055 43523..43777 + 255 WP_023287133 conjugal transfer protein TrbE -
AM278_RS29060 (AM278_27845) 43755..44003 + 249 WP_013214029 hypothetical protein -
AM278_RS29065 (AM278_27850) 44016..44342 + 327 WP_004152676 hypothetical protein -
AM278_RS29070 (AM278_27855) 44363..45115 + 753 WP_004152677 type-F conjugative transfer system pilin assembly protein TraF traF
AM278_RS29075 (AM278_27860) 45126..45365 + 240 WP_064146598 type-F conjugative transfer system pilin chaperone TraQ -
AM278_RS29080 (AM278_27865) 45337..45894 + 558 WP_071854294 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
AM278_RS29085 (AM278_27870) 45940..46383 + 444 WP_023287131 F-type conjugal transfer protein TrbF -
AM278_RS29090 (AM278_27875) 46361..47740 + 1380 WP_072159474 conjugal transfer pilus assembly protein TraH traH
AM278_RS29095 (AM278_27880) 47740..50583 + 2844 WP_015065537 conjugal transfer mating-pair stabilization protein TraG traG
AM278_RS29100 (AM278_27885) 50594..51118 + 525 WP_015065538 hypothetical protein -
AM278_RS29105 (AM278_27890) 51427..52158 + 732 WP_032329926 conjugal transfer complement resistance protein TraT -
AM278_RS32030 52350..53039 + 690 WP_015065540 hypothetical protein -
AM278_RS29115 (AM278_27900) 53168..55480 + 2313 WP_015065541 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   3231 GenBank   NZ_CP012571
Plasmid name   pUCLAOXA232-5.X Incompatibility group   IncR
Plasmid size   126863 bp Coordinate of oriT [Strand]   27395..27444 [-]
Host baterium   Klebsiella pneumoniae strain UCLAOXA232KP

Cargo genes

Drug resistance gene   sul1, dfrA1, ARR-3
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -