Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   104122
Name   oriT_2022CK-00781|unnamed5 in_silico
Organism   Klebsiella grimontii strain 2022CK-00781
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP117735 (29427..29476 [-], 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    		  GGTGTGGTGA
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 50 nt

>oriT_2022CK-00781|unnamed5
AAATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3034 GenBank   WP_273863606
Name   traI_PTC90_RS32135_2022CK-00781|unnamed5 insolico UniProt ID   _
Length   1753 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1753 a.a.        Molecular weight: 190608.53 Da        Isoelectric Point: 6.2409

>WP_273863606.1 conjugative transfer relaxase/helicase TraI [Klebsiella grimontii]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMDERWQGKGAEALGIDGKAVDKALFTELLKGKLPDGSDLTRI
QDGANRHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVTEAVRQLETLAATRVMTDGKSETVLTGNL
IVAKFNHDTNRNQEPQIHTHAVVINATQNGDKWQSLGTDKIGKTGFIENVYANQIAFGKLYREAFKPLVE
KLGYETEVVGKHGMWEMKGVPVEPFSTRSQEVREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMN
TLKETGFDIRGYREAANARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLE
AKDGVFELARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVP
FSDAVSVLAQDRPVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVT
GKSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTY
RWQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKD
TTITALTPVWLDSKSRGVRDYYREGMVMERWDPETRTHDRFVIDRVTASSNMLTLKDRDGDRLDLKVSAV
DSQWTLFRAETLPVAEGERLAVLGKIPDTRLKGGESVTVMKVEEGQLTVQRPGQKTTQTLAVGAGVFDGI
KIGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSE
QLKARSGETDLDAAIAQQKAGLHTPAEQAIHLAIPLLESQDLTFSRPQLLATAMETGGGKVSMADIDTTI
QAQIRSGQLLNVPVAHGYGNDLLISRQTWDAEKSILTHVLEGKGAVAPLMDRVPASLMTDLTAGQRAATR
MILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVEARTTASFLH
DTQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIAAGGGRAVPSGDTDQLPPIASGQPFRLTQQR
SAADVAIMKEIVRQVPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGAWAPGSSVVEFTQKQEKEIE
KALSEGKTLPEGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITL
PVLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSEGKERFISPREASAEGVTL
YRQEKITVSQGDRMRFSKSDPERGYVANSIWEVQSVSGDSVTLSDGKITRTLTPKAEQAQQHIDLAYAIT
AHGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDNREGWIKAIKNSPEKATAHDILE
PRNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGSSPGKFISPGKKYPQPHVALPAFDKNGKAAGI
WLSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDR
PWNPGAMTGGRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEP
ADRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEAAIQQVASERLQRERLQAVERDMVRDLNREKTL
GGD

  Protein domains


Predicted by InterproScan.

DNA helicase TraI (TraI_C)

(1433-1555)

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

(577-629)

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

(635-714)

AAA domain (AAA_30)

(971-1157)

TrwC relaxase (TrwC)

(10-284)


  Protein structure



No available structure.




T4CP

ID   2924 GenBank   WP_032072078
Name   traD_PTC90_RS32130_2022CK-00781|unnamed5 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: 85822.78 Da        Isoelectric Point: 4.9615

>WP_032072078.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTGFAFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGVASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDDDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDAPASGPADTNSHAGEQPEPVSQPA
PADMTVSPAPVKAPPTTKMPAEEPSVRATEPSVLRLTTVPLIKPKAAAAAAAAATASSAGTPAAAAGGTE
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: 31935..59078

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
PTC90_RS31950 (PTC90_31945) 28295..28837 + 543 WP_020804853 antirestriction protein -
PTC90_RS31955 (PTC90_31950) 28860..29282 - 423 WP_020315406 transglycosylase SLT domain-containing protein -
PTC90_RS31960 (PTC90_31955) 29776..30174 + 399 WP_004152493 conjugal transfer relaxosome DNA-binding protein TraM -
PTC90_RS31965 (PTC90_31960) 30348..31034 + 687 WP_004152494 transcriptional regulator TraJ family protein -
PTC90_RS31970 (PTC90_31965) 31113..31499 + 387 WP_004152495 TraY domain-containing protein -
PTC90_RS31975 (PTC90_31970) 31553..31921 + 369 WP_004194426 type IV conjugative transfer system pilin TraA -
PTC90_RS31980 (PTC90_31975) 31935..32240 + 306 WP_004178059 type IV conjugative transfer system protein TraL traL
PTC90_RS31985 (PTC90_31980) 32260..32826 + 567 WP_115808217 type IV conjugative transfer system protein TraE traE
PTC90_RS31990 (PTC90_31985) 32813..33553 + 741 WP_013214019 type-F conjugative transfer system secretin TraK traK
PTC90_RS31995 (PTC90_31990) 33553..34977 + 1425 WP_032426793 F-type conjugal transfer pilus assembly protein TraB traB
PTC90_RS32000 (PTC90_31995) 35091..35315 + 225 Protein_50 type IV conjugative transfer system lipoprotein TraV -
PTC90_RS32005 (PTC90_32000) 35866..36138 + 273 WP_273863597 hypothetical protein -
PTC90_RS32010 (PTC90_32005) 36229..36521 + 293 Protein_52 hypothetical protein -
PTC90_RS32015 (PTC90_32010) 36545..36777 + 233 Protein_53 hypothetical protein -
PTC90_RS32020 (PTC90_32015) 36809..37052 + 244 Protein_54 hypothetical protein -
PTC90_RS32025 (PTC90_32020) 37343..37709 + 367 Protein_55 hypothetical protein -
PTC90_RS32030 (PTC90_32025) 37778..40411 + 2634 Protein_56 type IV secretion system protein TraC -
PTC90_RS32035 (PTC90_32030) 40510..40844 + 335 Protein_57 type-F conjugative transfer system protein TrbI -
PTC90_RS32040 (PTC90_32035) 40844..41470 + 627 WP_020314628 type-F conjugative transfer system protein TraW traW
PTC90_RS32045 (PTC90_32040) 41514..42473 + 960 WP_029497356 conjugal transfer pilus assembly protein TraU traU
PTC90_RS32050 (PTC90_32045) 42488..43036 + 549 WP_022631518 hypothetical protein -
PTC90_RS32055 (PTC90_32050) 43757..44359 + 603 WP_022631520 hypothetical protein -
PTC90_RS32060 (PTC90_32055) 44504..45151 + 648 WP_039698503 type-F conjugative transfer system pilin assembly protein TrbC trbC
PTC90_RS32065 (PTC90_32060) 45210..47165 + 1956 WP_039698502 type-F conjugative transfer system mating-pair stabilization protein TraN traN
PTC90_RS32070 (PTC90_32065) 47198..47479 + 282 WP_032419932 hypothetical protein -
PTC90_RS32075 (PTC90_32070) 47469..47696 + 228 WP_012540032 conjugal transfer protein TrbE -
PTC90_RS32080 (PTC90_32075) 47707..48033 + 327 WP_273863599 hypothetical protein -
PTC90_RS32085 (PTC90_32080) 48054..48806 + 753 WP_004152677 type-F conjugative transfer system pilin assembly protein TraF traF
PTC90_RS32090 (PTC90_32085) 48817..49056 + 240 WP_004144400 type-F conjugative transfer system pilin chaperone TraQ -
PTC90_RS32095 (PTC90_32090) 49028..49585 + 558 WP_013214031 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
PTC90_RS32100 (PTC90_32095) 49631..50074 + 444 WP_004194305 F-type conjugal transfer protein TrbF -
PTC90_RS32105 (PTC90_32100) 50052..51431 + 1380 WP_273863600 conjugal transfer pilus assembly protein TraH traH
PTC90_RS32110 (PTC90_32105) 51431..54280 + 2850 WP_273863602 conjugal transfer mating-pair stabilization protein TraG traG
PTC90_RS32115 (PTC90_32110) 54293..54841 + 549 WP_004152623 conjugal transfer entry exclusion protein TraS -
PTC90_RS32120 (PTC90_32115) 55025..55756 + 732 WP_004152622 conjugal transfer complement resistance protein TraT -
PTC90_RS32125 (PTC90_32120) 55948..56637 + 690 WP_022644928 hypothetical protein -
PTC90_RS32130 (PTC90_32125) 56766..59078 + 2313 WP_032072078 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   4561 GenBank   NZ_CP117735
Plasmid name   2022CK-00781|unnamed5 Incompatibility group   -
Plasmid size   69503 bp Coordinate of oriT [Strand]   29427..29476 [-]
Host baterium   Klebsiella grimontii strain 2022CK-00781

Cargo genes

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