Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   114587
Name   oriT_pC45-p3 in_silico
Organism   Enterobacter cloacae complex sp. isolate C45
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_LT991960 (26951..26999 [-], 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_pC45-p3
AATCTGCAAAATTTTAATTTTGCGTAGTGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   9349 GenBank   WP_107535770
Name   traI_DBR02_RS26490_pC45-p3 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: 190326.02 Da        Isoelectric Point: 6.2242

>WP_107535770.1 conjugative transfer relaxase/helicase TraI [Enterobacter cloacae complex sp.]
MLSFSQVKSAGSAGNYYTEKDNYYVIGSMEERWQGKGAEALGLEGKVDKQIFTELLQGKLPDGSDLTRIQ
DGVNKHRPGYDLTFSAPKSVSMLAMLGGDKRLIDAHNRAVTVALNQVESLASTRVQKDGVSETVLTGNLI
IARFNHDTSRAQDPQIHTHSVVINATQNGDKWQTLASDTVGKTGFSENILANRIAFGKIYQNTLRADVES
LGYRTVDAGKNGMWEMEGVPVESFSTRSQELREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMNT
LKETGFDIRGYREAADARAAELTRAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLEA
KDGVFELARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVPF
SDAVSVLAQDRPVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVTG
KSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTYR
WQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGLESVAQISGTREQSVLNGLIRDSLRNEGVLGEKDT
TITALTPVWLDSKSRGVRDYYREGMVMERWDPETRTHDRFVIDRVTGSSNMLTLKDREGVRLDLKVSAVD
SQWTLFRADTLPVAEGERLAVLGKIPDTRLKGGESVTVMKVEDGQLTVQRPGQKTTQTLSVGAGVFDGIK
IGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSEQ
LKARSGETDLDAAIAQQKAGLHTPAEQAIHLAIPLLESQDLTFSRPQLLATAMETGGGKVSMADIDTTIQ
AQIRSGQLLNVPVAPGRGNDLLISRQAWDAEKSILTRVLEGKDAVAPLMDRVPASLMTDLTAGQRAATRM
ILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLHD
TQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIAAGGGRAVPSGDTDQLPPIASGQPFRLTQQRS
AADVAIMKEIVRQIPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGAWAPGSSVVEFTPTQEKAIQK
ALSEGKTLPAGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITLP
VLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSDGKERYISPREASAEGVTLY
RQEKITVSQGDRMRFSKSDPERGYVANSIWEVQSVAGDSVTLSDGKTTRTLTPKADQAQQHIDLAYAITA
HGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDSREGWIKAIKHSPEKATAHDILEP
RNDRAVKSADLLFGRARPLDETAAGRAALQQSGLAQGNSPGKFISPGKKYPQPHVALPAFDKNGKAAGIW
LSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDRP
WNPGAITGGRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKKAEQTAREMAGEARKAGEPA
DRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEEAIQQVASERLQRERLQAVERDMVRDLNREKTLG
GD

  Protein domains


Predicted by InterproScan.

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

(634-713)

TrwC relaxase (TrwC)

(11-283)

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

(576-628)

DNA helicase TraI (TraI_C)

(1432-1554)

AAA domain (AAA_30)

(970-1156)


  Protein structure



No available structure.




Auxiliary protein

ID   5466 GenBank   WP_004197733
Name   WP_004197733_pC45-p3 insolico UniProt ID   A0A0E3KB00
Length   129 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 129 a.a.        Molecular weight: 14835.90 Da        Isoelectric Point: 4.6012

>WP_004197733.1 MULTISPECIES: conjugal transfer relaxosome DNA-binding protein TraM [Bacteria]
MGKVQAYPSDEVCEKINAIVEKRRMEGAKDKDVSFSSISTMLLELGLRVYEAQMERKESGFNQMAFNRAL
LESVVKTQFSVNKILGIECLSPHVKDDPRWQWKSMVLNIQEDVQEAMRNFFPDEDAEGE

  Protein domains


Predicted by InterproScan.

TraM protein, DNA-binding (Tra_M)

(1-124)


  Protein structure


Source ID Structure
AlphaFold DB A0A0E3KB00


T4CP

ID   10847 GenBank   WP_064343438
Name   traD_DBR02_RS26485_pC45-p3 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: 85584.66 Da        Isoelectric Point: 5.3307

>WP_064343438.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTGFAFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGVASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDAPASGPDDAGSHAGEQPEPVSQPA
PAVMTVTPAPVKSPPTTKRPAAEPSARTAEPPVLRVTTVPLIKPKAAAAAGTAATASSAGTPAAAAGGTE
QVLAQQSAEQGQAMLPAGMNEDGVIEDMQAYDAWADEQTQRDMQRREEVNINHSHRHDEQDDLEIGGNF

  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: 29413..54521

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
DBR02_RS26285 24599..24946 + 348 WP_022644944 hypothetical protein -
DBR02_RS26290 25039..25185 + 147 WP_022644943 hypothetical protein -
DBR02_RS27105 25233..25469 + 237 Protein_35 SAM-dependent DNA methyltransferase -
DBR02_RS26300 25818..26360 + 543 WP_022644941 antirestriction protein -
DBR02_RS26305 26384..26806 - 423 WP_072205880 transglycosylase SLT domain-containing protein -
DBR02_RS26310 27311..27700 + 390 WP_004197733 conjugal transfer relaxosome DNA-binding protein TraM -
DBR02_RS26315 27939..28613 + 675 WP_004197737 hypothetical protein -
DBR02_RS26320 28805..28969 + 165 WP_032444506 TraY domain-containing protein -
DBR02_RS26325 29031..29399 + 369 WP_004194426 type IV conjugative transfer system pilin TraA -
DBR02_RS26330 29413..29718 + 306 WP_004178059 type IV conjugative transfer system protein TraL traL
DBR02_RS26335 29738..30304 + 567 WP_004194424 type IV conjugative transfer system protein TraE traE
DBR02_RS26340 30291..31031 + 741 WP_009309865 type-F conjugative transfer system secretin TraK traK
DBR02_RS26345 31031..32455 + 1425 WP_004194260 F-type conjugal transfer pilus assembly protein TraB traB
DBR02_RS26350 32569..33153 + 585 WP_009309868 type IV conjugative transfer system lipoprotein TraV traV
DBR02_RS26355 33285..33695 + 411 WP_009309869 hypothetical protein -
DBR02_RS26360 33700..33984 + 285 WP_107535765 hypothetical protein -
DBR02_RS26365 34008..34232 + 225 WP_060598869 hypothetical protein -
DBR02_RS26370 34225..34536 + 312 WP_107535766 hypothetical protein -
DBR02_RS26375 34603..35007 + 405 WP_004197817 hypothetical protein -
DBR02_RS26390 35384..35782 + 399 WP_023179972 hypothetical protein -
DBR02_RS26395 35854..38493 + 2640 WP_107535767 type IV secretion system protein TraC virb4
DBR02_RS26400 38493..38882 + 390 WP_004197815 type-F conjugative transfer system protein TrbI -
DBR02_RS26405 38882..39508 + 627 WP_009309871 type-F conjugative transfer system protein TraW traW
DBR02_RS26410 39550..39939 + 390 WP_004194992 hypothetical protein -
DBR02_RS26415 39936..40925 + 990 WP_009309872 conjugal transfer pilus assembly protein TraU traU
DBR02_RS26420 40938..41576 + 639 WP_011977786 type-F conjugative transfer system pilin assembly protein TrbC trbC
DBR02_RS26425 41635..43590 + 1956 WP_107535768 type-F conjugative transfer system mating-pair stabilization protein TraN traN
DBR02_RS26430 43622..43876 + 255 WP_004195500 conjugal transfer protein TrbE -
DBR02_RS26435 43854..44102 + 249 WP_004152675 hypothetical protein -
DBR02_RS26440 44115..44441 + 327 WP_004194451 hypothetical protein -
DBR02_RS26445 44462..45214 + 753 WP_042946327 type-F conjugative transfer system pilin assembly protein TraF traF
DBR02_RS26450 45225..45464 + 240 WP_009309875 type-F conjugative transfer system pilin chaperone TraQ -
DBR02_RS26455 45436..46008 + 573 WP_009309876 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
DBR02_RS26460 46001..46429 + 429 WP_004152689 hypothetical protein -
DBR02_RS26465 46416..47786 + 1371 WP_009309877 conjugal transfer pilus assembly protein TraH traH
DBR02_RS26470 47786..50659 + 2874 WP_107535769 conjugal transfer mating-pair stabilization protein TraG traG
DBR02_RS26750 51394..52086 + 693 WP_009309879 hypothetical protein -
DBR02_RS26485 52212..54521 + 2310 WP_064343438 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   15022 GenBank   NZ_LT991960
Plasmid name   pC45-p3 Incompatibility group   -
Plasmid size   65087 bp Coordinate of oriT [Strand]   26951..26999 [-]
Host baterium   Enterobacter cloacae complex sp. isolate C45

Cargo genes

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