Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   105440
Name   oriT_pM297-1.1 in_silico
Organism   Klebsiella pneumoniae strain M297-1
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP051491 (96750..96799 [+], 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_pM297-1.1
AAATCTGCAAAATTTTAATTTTGCGTAGTGTGTGGTCATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3709 GenBank   WP_029498346
Name   traI_HGK25_RS26080_pM297-1.1 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   3696 GenBank   WP_048255491
Name   traD_HGK25_RS26085_pM297-1.1 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: 68145..94363

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HGK25_RS26085 (HGK25_26610) 68145..70427 - 2283 WP_048255491 type IV conjugative transfer system coupling protein TraD virb4
HGK25_RS26090 (HGK25_26615) 70785..71516 - 732 WP_004152629 conjugal transfer complement resistance protein TraT -
HGK25_RS26095 (HGK25_26620) 71706..72233 - 528 WP_029498351 conjugal transfer protein TraS -
HGK25_RS26100 (HGK25_26625) 72239..75088 - 2850 WP_023329044 conjugal transfer mating-pair stabilization protein TraG traG
HGK25_RS26105 (HGK25_26630) 75088..76467 - 1380 WP_023158000 conjugal transfer pilus assembly protein TraH traH
HGK25_RS26110 (HGK25_26635) 76445..76888 - 444 WP_023158001 F-type conjugal transfer protein TrbF -
HGK25_RS26115 (HGK25_26640) 76934..77491 - 558 WP_023158002 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
HGK25_RS26120 (HGK25_26645) 77463..77702 - 240 WP_048255490 type-F conjugative transfer system pilin chaperone TraQ -
HGK25_RS26125 (HGK25_26650) 77713..78465 - 753 WP_015632513 type-F conjugative transfer system pilin assembly protein TraF traF
HGK25_RS26130 (HGK25_26655) 78486..78812 - 327 WP_015632512 hypothetical protein -
HGK25_RS26135 (HGK25_26660) 78825..79073 - 249 WP_004152675 hypothetical protein -
HGK25_RS26140 (HGK25_26665) 79051..79305 - 255 WP_032433943 conjugal transfer protein TrbE -
HGK25_RS26145 (HGK25_26670) 79337..81292 - 1956 WP_015065533 type-F conjugative transfer system mating-pair stabilization protein TraN traN
HGK25_RS26150 (HGK25_26675) 81351..81998 - 648 WP_015632510 type-F conjugative transfer system pilin assembly protein TrbC trbC
HGK25_RS26155 (HGK25_26680) 82274..83263 - 990 WP_015632509 conjugal transfer pilus assembly protein TraU traU
HGK25_RS26160 (HGK25_26685) 83260..83661 - 402 WP_004194979 hypothetical protein -
HGK25_RS26165 (HGK25_26690) 83696..84331 - 636 WP_047670041 type-F conjugative transfer system protein TraW traW
HGK25_RS26170 (HGK25_26695) 84331..84720 - 390 WP_015632507 type-F conjugative transfer system protein TrbI -
HGK25_RS26175 (HGK25_26700) 84720..87359 - 2640 WP_015632506 type IV secretion system protein TraC virb4
HGK25_RS26180 (HGK25_26705) 87431..87829 - 399 WP_015632505 hypothetical protein -
HGK25_RS26185 (HGK25_26710) 87837..88226 - 390 WP_015632504 hypothetical protein -
HGK25_RS26190 (HGK25_26715) 88269..88673 - 405 WP_032433941 hypothetical protein -
HGK25_RS26195 (HGK25_26720) 88740..89051 - 312 WP_015632502 hypothetical protein -
HGK25_RS26200 (HGK25_26725) 89052..89270 - 219 WP_004171484 hypothetical protein -
HGK25_RS26205 (HGK25_26730) 89309..89578 - 270 WP_032433956 hypothetical protein -
HGK25_RS26210 (HGK25_26735) 89583..89993 - 411 WP_015632501 hypothetical protein -
HGK25_RS26215 (HGK25_26740) 90125..90709 - 585 WP_014386196 type IV conjugative transfer system lipoprotein TraV traV
HGK25_RS26220 (HGK25_26745) 90732..91328 - 597 WP_047670043 conjugal transfer pilus-stabilizing protein TraP -
HGK25_RS26225 (HGK25_26750) 91321..92745 - 1425 WP_015632498 F-type conjugal transfer pilus assembly protein TraB traB
HGK25_RS26230 (HGK25_26755) 92745..93485 - 741 WP_047670045 type-F conjugative transfer system secretin TraK traK
HGK25_RS26235 (HGK25_26760) 93472..94038 - 567 WP_016831035 type IV conjugative transfer system protein TraE traE
HGK25_RS26240 (HGK25_26765) 94058..94363 - 306 WP_004144424 type IV conjugative transfer system protein TraL traL
HGK25_RS26245 (HGK25_26770) 94377..94745 - 369 WP_004194426 type IV conjugative transfer system pilin TraA -
HGK25_RS26250 (HGK25_26775) 94807..95013 - 207 WP_171773970 TraY domain-containing protein -
HGK25_RS26255 (HGK25_26780) 95146..95865 - 720 WP_016831034 conjugal transfer protein TrbJ -
HGK25_RS26260 (HGK25_26785) 96065..96481 - 417 WP_072145360 conjugal transfer relaxosome DNA-binding protein TraM -
HGK25_RS26265 (HGK25_26790) 96872..97355 + 484 Protein_111 transglycosylase SLT domain-containing protein -
HGK25_RS26270 (HGK25_26795) 97388..97711 - 324 Protein_112 DUF5983 family protein -
HGK25_RS26275 (HGK25_26800) 97744..98565 - 822 WP_209750550 DUF932 domain-containing protein -

Host bacterium

ID   5878 GenBank   NZ_CP051491
Plasmid name   pM297-1.1 Incompatibility group   IncFII
Plasmid size   222864 bp Coordinate of oriT [Strand]   96750..96799 [+]
Host baterium   Klebsiella pneumoniae strain M297-1

Cargo genes

Drug resistance gene   aph(3'')-Ib, aph(6)-Id, blaCTX-M-14, blaLAP-2, qnrS1
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, fecD
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -