Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   118870
Name   oriT_P1927|p00002 in_silico
Organism   Klebsiella sp. P1927
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP073379 (66588..66637 [-], 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_P1927|p00002
AAATCTGCAAAATTTTAATTTTGCGTAGTGTGTGGTCATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   11963 GenBank   WP_029498346
Name   traI_KB892_RS29270_P1927|p00002 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   14010 GenBank   WP_048255491
Name   traD_KB892_RS29265_P1927|p00002 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: 66030..95242

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
KB892_RS29055 (KB892_29055) 61419..61646 + 228 WP_004182050 hypothetical protein -
KB892_RS29060 (KB892_29060) 61738..61968 + 231 WP_001568051 hypothetical protein -
KB892_RS29065 (KB892_29065) 62020..63375 + 1356 WP_004182052 DUF3560 domain-containing protein -
KB892_RS29070 (KB892_29070) 63423..63986 + 564 WP_004182054 methyltransferase -
KB892_RS29075 (KB892_29075) 64814..65635 + 822 WP_004182076 DUF932 domain-containing protein -
KB892_RS29080 (KB892_29080) 65668..65997 + 330 WP_011977736 DUF5983 family protein -
KB892_RS29085 (KB892_29085) 66030..66515 - 486 WP_004178063 transglycosylase SLT domain-containing protein virB1
KB892_RS29090 (KB892_29090) 66906..67322 + 417 WP_072145360 conjugal transfer relaxosome DNA-binding protein TraM -
KB892_RS29095 (KB892_29095) 67522..68241 + 720 WP_016831034 conjugal transfer protein TrbJ -
KB892_RS29100 (KB892_29100) 68374..68580 + 207 WP_171773970 TraY domain-containing protein -
KB892_RS29105 (KB892_29105) 68642..69010 + 369 WP_004194426 type IV conjugative transfer system pilin TraA -
KB892_RS29110 (KB892_29110) 69024..69329 + 306 WP_004144424 type IV conjugative transfer system protein TraL traL
KB892_RS29115 (KB892_29115) 69349..69915 + 567 WP_016831035 type IV conjugative transfer system protein TraE traE
KB892_RS29120 (KB892_29120) 69902..70642 + 741 WP_047670045 type-F conjugative transfer system secretin TraK traK
KB892_RS29125 (KB892_29125) 70642..72066 + 1425 WP_015632498 F-type conjugal transfer pilus assembly protein TraB traB
KB892_RS29130 (KB892_29130) 72059..72655 + 597 WP_047670043 conjugal transfer pilus-stabilizing protein TraP -
KB892_RS29135 (KB892_29135) 72678..73262 + 585 WP_014386196 type IV conjugative transfer system lipoprotein TraV traV
KB892_RS29140 (KB892_29140) 73394..73804 + 411 WP_015632501 hypothetical protein -
KB892_RS29145 (KB892_29145) 73809..74078 + 270 WP_032433956 hypothetical protein -
KB892_RS29150 (KB892_29150) 74117..74335 + 219 WP_004171484 hypothetical protein -
KB892_RS29155 (KB892_29155) 74336..74647 + 312 WP_015632502 hypothetical protein -
KB892_RS29160 (KB892_29160) 74714..75118 + 405 WP_032433941 hypothetical protein -
KB892_RS29165 (KB892_29165) 75161..75550 + 390 WP_015632504 hypothetical protein -
KB892_RS29170 (KB892_29170) 75558..75956 + 399 WP_015632505 hypothetical protein -
KB892_RS29175 (KB892_29175) 76028..78667 + 2640 WP_015632506 type IV secretion system protein TraC virb4
KB892_RS29180 (KB892_29180) 78667..79056 + 390 WP_015632507 type-F conjugative transfer system protein TrbI -
KB892_RS29185 (KB892_29185) 79056..79691 + 636 WP_211778029 type-F conjugative transfer system protein TraW traW
KB892_RS29190 (KB892_29190) 79726..80127 + 402 WP_004194979 hypothetical protein -
KB892_RS29195 (KB892_29195) 80124..81113 + 990 WP_015632509 conjugal transfer pilus assembly protein TraU traU
KB892_RS29200 (KB892_29200) 81389..82036 + 648 WP_015632510 type-F conjugative transfer system pilin assembly protein TrbC trbC
KB892_RS29205 (KB892_29205) 82095..84050 + 1956 WP_015065533 type-F conjugative transfer system mating-pair stabilization protein TraN traN
KB892_RS29210 (KB892_29210) 84082..84336 + 255 WP_032433943 conjugal transfer protein TrbE -
KB892_RS29215 (KB892_29215) 84314..84562 + 249 WP_004152675 hypothetical protein -
KB892_RS29220 (KB892_29220) 84575..84901 + 327 WP_015632512 hypothetical protein -
KB892_RS29225 (KB892_29225) 84922..85674 + 753 WP_015632513 type-F conjugative transfer system pilin assembly protein TraF traF
KB892_RS29230 (KB892_29230) 85685..85924 + 240 WP_048255490 type-F conjugative transfer system pilin chaperone TraQ -
KB892_RS29235 (KB892_29235) 85896..86453 + 558 WP_023158002 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
KB892_RS29240 (KB892_29240) 86499..86942 + 444 WP_023158001 F-type conjugal transfer protein TrbF -
KB892_RS29245 (KB892_29245) 86920..88299 + 1380 WP_023158000 conjugal transfer pilus assembly protein TraH traH
KB892_RS29250 (KB892_29250) 88299..91148 + 2850 WP_023329044 conjugal transfer mating-pair stabilization protein TraG traG
KB892_RS29255 (KB892_29255) 91154..91681 + 528 WP_029498351 conjugal transfer protein TraS -
KB892_RS29260 (KB892_29260) 91871..92602 + 732 WP_004152629 conjugal transfer complement resistance protein TraT -
KB892_RS29265 (KB892_29265) 92960..95242 + 2283 WP_048255491 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   19302 GenBank   NZ_CP073379
Plasmid name   P1927|p00002 Incompatibility group   IncFIB
Plasmid size   213917 bp Coordinate of oriT [Strand]   66588..66637 [-]
Host baterium   Klebsiella sp. P1927

Cargo genes

Drug resistance gene   qnrS1, blaLAP-2, sul1, qacE, dfrA1, tet(A), blaCTX-M-14
Virulence gene   -
Metal resistance gene   pcoE, pcoS, pcoR, pcoD, pcoC, pcoB, pcoA, silP, silA, silB, silF, silC, silR, silS, silE, fecD, fecE, arsC, arsB, arsA, arsD, arsR
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -