Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   108336
Name   oriT_pSD21_mcr8 in_silico
Organism   Enterobacter cloacae strain SD21
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP093916 (60563..60612 [-], 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_pSD21_mcr8
AAATCTGCAAAATTTTAATTTTGCGTAGTGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   5576 GenBank   WP_022631527
Name   traI_MQH03_RS24395_pSD21_mcr8 insolico UniProt ID   U5N3A2
Length   1752 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1752 a.a.        Molecular weight: 190332.06 Da        Isoelectric Point: 6.2397

>WP_022631527.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacteriaceae]
MLSFSQVKSAGSAGNYYTEKDNYYVIGSMEERWQGKGAELLGLEGKVDKQVFTELLQGKLPDGSDLTRIQ
DGVNKHRPGYDLTFSAPKSVSMLAMLGGDKRLIDAHNRAVTVALNQVESLASTRVKKDGVSETVLTGNLI
IARFNHDTSRAQDPQIHTHSVVINATQNGDKWQTLASDTVGKTGFSETILANRIAFGKIYQNSLRADVES
MGYKTVDAGRNGMWEMEGVPVESFSTRSQELREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMNT
LKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLEA
KDGVFELARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVPF
SDAVSVLAQDRPVMGIVSGQGGATGQRERVAELTLMSREQGRDVHILAADNRSRDFLAGDVRLAGETVTG
KSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTYR
WQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKDT
TITALTPVWLDSKSRGVRDYYREGMVMERWDPENRTHDRFVIDRVTASSNMLTLKDREGGRLDLKVSAVD
SQWTLFRADTLPVAEGERLAVLGKIPDTRLKGGESITVMKVEEGQLTVQRPGQKTTQTLAAGAGVFDGIK
VGHGWVESPGRSVSETATVFASVTQLELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSEQ
LKSRSGETDLDTAIAQQKAGLHTPAEQAIHLAIPLLESQDLTFSRPQLLATAMETGGGKVSMADIDTTIQ
AQIRSGQLLNVPVAHGYGNDLLISRQTWDAEKSILTHVLEGKGAVAPLMDRVPASLMTDLTAGQRAATRM
ILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLHD
TQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIAAGGGRAVPSGDTDQLPPIASGQPFRLTQQRS
AADVAIMKEIVRQMPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGAWAPGSSVVEFTPKQEKAIEK
ALSEGKTLPEGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITLP
VLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSEGKERFISPREASAEGVTLY
RQEKITVSQGDRMRFSKSDPERGYVANSIWEVQSVSGDSVTLSDGKLTRTLTPKAEQAQQHIDLAYAITA
HGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDNREGWIKAIKHSPEKATAHDILEP
RNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGSSPGKFISPGKKYPQPHVALPAFDKNGKAAGIW
LSPLTDRDGRLEAIGGGGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDRP
WNPGAMTGGRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEPA
DRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEAAIQQVASERLQRERLQAVERDMVRDLNREKTLG
GD

  Protein domains


Predicted by InterproScan.

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

(576-628)

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

(634-713)

DNA helicase TraI (TraI_C)

(1432-1554)

TrwC relaxase (TrwC)

(11-283)

AAA domain (AAA_30)

(970-1156)


  Protein structure



No available structure.




T4CP

ID   5952 GenBank   WP_015065541
Name   traD_MQH03_RS24390_pSD21_mcr8 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: 60005..89687

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
MQH03_RS24170 (MQH03_24170) 56025..56381 + 357 WP_019706019 hypothetical protein -
MQH03_RS24175 (MQH03_24175) 56442..56654 + 213 WP_019706020 hypothetical protein -
MQH03_RS24180 (MQH03_24180) 56674..56889 + 216 WP_142381705 hypothetical protein -
MQH03_RS24185 (MQH03_24185) 56970..57290 + 321 WP_015065521 type II toxin-antitoxin system RelE/ParE family toxin -
MQH03_RS24190 (MQH03_24190) 57280..57558 + 279 WP_020801586 helix-turn-helix transcriptional regulator -
MQH03_RS24195 (MQH03_24195) 57559..57960 + 402 WP_015065522 helix-turn-helix domain-containing protein -
MQH03_RS24200 (MQH03_24200) 58789..59610 + 822 WP_004152492 DUF932 domain-containing protein -
MQH03_RS24205 (MQH03_24205) 59643..59972 + 330 WP_069335041 DUF5983 family protein -
MQH03_RS24210 (MQH03_24210) 60005..60490 - 486 WP_001568108 transglycosylase SLT domain-containing protein virB1
MQH03_RS24215 (MQH03_24215) 60881..61297 + 417 WP_072145360 conjugal transfer relaxosome DNA-binding protein TraM -
MQH03_RS24220 (MQH03_24220) 61497..62216 + 720 WP_015065526 hypothetical protein -
MQH03_RS24225 (MQH03_24225) 62349..62552 + 204 WP_171486139 TraY domain-containing protein -
MQH03_RS24230 (MQH03_24230) 62617..62985 + 369 WP_004194426 type IV conjugative transfer system pilin TraA -
MQH03_RS24235 (MQH03_24235) 62999..63304 + 306 WP_004144424 type IV conjugative transfer system protein TraL traL
MQH03_RS24240 (MQH03_24240) 63324..63890 + 567 WP_004144423 type IV conjugative transfer system protein TraE traE
MQH03_RS24245 (MQH03_24245) 63877..64617 + 741 WP_164530159 type-F conjugative transfer system secretin TraK traK
MQH03_RS24250 (MQH03_24250) 64617..66041 + 1425 WP_004194260 F-type conjugal transfer pilus assembly protein TraB traB
MQH03_RS24255 (MQH03_24255) 66155..66739 + 585 WP_015065529 type IV conjugative transfer system lipoprotein TraV traV
MQH03_RS24260 (MQH03_24260) 66871..67281 + 411 WP_032329942 hypothetical protein -
MQH03_RS24265 (MQH03_24265) 67387..67605 + 219 WP_004152501 hypothetical protein -
MQH03_RS24270 (MQH03_24270) 67606..67917 + 312 WP_004152502 hypothetical protein -
MQH03_RS24275 (MQH03_24275) 67984..68388 + 405 WP_004152503 hypothetical protein -
MQH03_RS24280 (MQH03_24280) 68581..68823 + 243 WP_226340492 hypothetical protein -
MQH03_RS24285 (MQH03_24285) 68831..69229 + 399 WP_011977783 hypothetical protein -
MQH03_RS24290 (MQH03_24290) 69301..71940 + 2640 WP_004152505 type IV secretion system protein TraC virb4
MQH03_RS24295 (MQH03_24295) 71940..72329 + 390 WP_004152506 type-F conjugative transfer system protein TrbI -
MQH03_RS24300 (MQH03_24300) 72329..72955 + 627 WP_009309871 type-F conjugative transfer system protein TraW traW
MQH03_RS24305 (MQH03_24305) 72997..73404 + 408 WP_248766918 hypothetical protein -
MQH03_RS24315 (MQH03_24315) 74160..75149 + 990 WP_009309872 conjugal transfer pilus assembly protein TraU traU
MQH03_RS24320 (MQH03_24320) 75162..75800 + 639 WP_164530161 type-F conjugative transfer system pilin assembly protein TrbC trbC
MQH03_RS24325 (MQH03_24325) 75859..77814 + 1956 WP_013023827 type-F conjugative transfer system mating-pair stabilization protein TraN traN
MQH03_RS24330 (MQH03_24330) 77846..78100 + 255 WP_004152674 conjugal transfer protein TrbE -
MQH03_RS24335 (MQH03_24335) 78078..78326 + 249 WP_004152675 hypothetical protein -
MQH03_RS24340 (MQH03_24340) 78339..78665 + 327 WP_004152676 hypothetical protein -
MQH03_RS24345 (MQH03_24345) 78686..79438 + 753 WP_004152677 type-F conjugative transfer system pilin assembly protein TraF traF
MQH03_RS24350 (MQH03_24350) 79449..79688 + 240 WP_004144400 type-F conjugative transfer system pilin chaperone TraQ -
MQH03_RS24355 (MQH03_24355) 79660..80217 + 558 WP_013214031 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
MQH03_RS24360 (MQH03_24360) 80263..80706 + 444 WP_004194305 F-type conjugal transfer protein TrbF -
MQH03_RS24365 (MQH03_24365) 80684..82063 + 1380 WP_164530163 conjugal transfer pilus assembly protein TraH traH
MQH03_RS24370 (MQH03_24370) 82063..84912 + 2850 WP_013609534 conjugal transfer mating-pair stabilization protein TraG traG
MQH03_RS24375 (MQH03_24375) 84915..85448 + 534 WP_014343486 conjugal transfer protein TraS -
MQH03_RS24380 (MQH03_24380) 85634..86365 + 732 WP_032329926 conjugal transfer complement resistance protein TraT -
MQH03_RS24385 (MQH03_24385) 86557..87246 + 690 WP_015065540 hypothetical protein -
MQH03_RS24390 (MQH03_24390) 87375..89687 + 2313 WP_015065541 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   8771 GenBank   NZ_CP093916
Plasmid name   pSD21_mcr8 Incompatibility group   IncFIA
Plasmid size   100852 bp Coordinate of oriT [Strand]   60563..60612 [-]
Host baterium   Enterobacter cloacae strain SD21

Cargo genes

Drug resistance gene   mcr-8
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIE9