Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   104598
Name   oriT_pRX.G5M15_1 in_silico
Organism   Klebsiella pneumoniae subsp. pneumoniae strain RX.G5M15
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP118937 (123664..123713 [+], 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_pRX.G5M15_1
AAATCTGCAAAATTTTAATTTTGCGTAGTGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3307 GenBank   WP_075253033
Name   traI_PX704_RS25770_pRX.G5M15_1 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: 190742.63 Da        Isoelectric Point: 6.1038

>WP_075253033.1 conjugative transfer relaxase/helicase TraI [Klebsiella pneumoniae]
MLSFSQVKSAGSAGNYYTEKDNYYVIGSMEERWQGKGAELLGLEGKVDKQVFTELLQGKLPDGSDLTRIQ
DGVNKHRPGYDLTFSAPKSVSMLAMLGGDKRLIDAHNRAVTVALNQVESLASTRVKKDGVSETVLTGNLI
IARFNHDTSRAQDPQIHTHSVVINATQNGDKWQTLASDTVGKTGFSETILANRIAFGKIYQNSLRADVES
MGYKTVDAGRNGMWEMEGVPVESFSTRSQELREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMNT
LKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLEA
KDGVFDLARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVPF
SDAVSVLAQDRPVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETMTG
KSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTYR
WQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRHEGVLGEKDT
TITALTPVWLDSKSRGVRDYYREGMVMERWDPENRTHDRFVIDRVTASSNMLTLKDRDGVRLDLKVSAVD
SQWTLFRADTLPVAEGERLAVLGKIPDTRLKGGESITVMKVEDGQLTVQRPGQKTTQTLAVGTGVFDGIK
IGHGWVESPGRSVSETATVFASVTQRELDKATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSEQ
LKTRSGETDLDAAIAQQKAGLHTPAEQAIHLAIPLLESQDLTFTRPQLLATALETGGDKVPMWSIEMTIK
KQIKSGQLLNVGVSPGHGNDLLISRQTWDAEKSILTRVLEGKDAVAPLMDRVPASLMTDLTAGQRAATRM
ILETPDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPHVIGLGPTHRAVGEMQSAGVDARTTASFLHD
TQLLQRNGQTPDFSNTLFLLDESSMVGLSDTAKALSLIAAGGGRAVLSGDTDQLQSISPGQPFRLMQQRS
AADVAIMKEIVRQVPELRPAVYSLIDRDIDRALATIEQVTPERVPRKEGAWVPGSSVVEFTPTQEEEIRK
ALSKGESLPAGQPATLYEALVKDYTGRTPEAQSQTLIITHLNNDRRALNGLIHDARRENGETGREEITLP
VLVTSNIRDGELRKLSTWTAHKGAVALVDNVYHRIDNVDKDNQLITLTDSEGKERYISPREASAEGVTLY
RQEEITVSQGDRMRFSKSDPERGYVANSVWEVQSVSGDSVTLSDGKTTRTLTPKADEAQQHIDLAYAITA
HGAQGASEPYAIALEGMVGARKLMASFESAYVGLSRMKQHVQVYTDRREGWIKAIQHSPEKATAHDILEP
RNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGSSPGKFISPGKKYPQPHVALPAFDKNGKAAGIW
LSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDRP
WNPGAMTGGRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEPV
DRVKEVIGDVIRGLERDRPGTEKTTLPDDPQLRRQEAAIQQVASERLQRERLQAVERDMVRDLNREKTLG
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)

AAA domain (AAA_30)

(970-1157)

DNA helicase TraI (TraI_C)

(1432-1554)


  Protein structure



No available structure.




T4CP

ID   3249 GenBank   WP_077274204
Name   traD_PX704_RS25775_pRX.G5M15_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: 84835.84 Da        Isoelectric Point: 5.0502

>WP_077274204.1 type IV conjugative transfer system coupling protein TraD [Klebsiella pneumoniae]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTSFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSREIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDAPASGPADTDSHAGEQPEPVSPPA
PADMTVSPAPVKAPPTTKRPAAEPPVLPVTPIPLLKPKAAAAAATASSAGTPAAAAGGTEQELAQQSAEQ
GQDMLPAGMNEDGVIEDMQAYDAWLADDQTQRDMQRREEVNINHSHRHDEQDDVEIGGNI

  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: 94715..124265

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
PX704_RS25775 (PX704_25780) 94715..96997 - 2283 WP_077274204 type IV conjugative transfer system coupling protein TraD virb4
PX704_RS25780 (PX704_25785) 97124..97813 - 690 WP_075253034 hypothetical protein -
PX704_RS25785 (PX704_25790) 98006..98509 - 504 Protein_100 complement resistance protein TraT -
PX704_RS25790 (PX704_25795) 98515..99117 - 603 WP_071604857 hypothetical protein -
PX704_RS25795 (PX704_25800) 99140..101962 - 2823 WP_275107636 conjugal transfer mating-pair stabilization protein TraG traG
PX704_RS25800 (PX704_25805) 101962..103341 - 1380 WP_072198238 conjugal transfer pilus assembly protein TraH traH
PX704_RS25805 (PX704_25810) 103319..103762 - 444 WP_015632515 F-type conjugal transfer protein TrbF -
PX704_RS25810 (PX704_25815) 103807..104364 - 558 WP_275107637 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
PX704_RS25815 (PX704_25820) 104336..104575 - 240 WP_023340931 type-F conjugative transfer system pilin chaperone TraQ -
PX704_RS25820 (PX704_25825) 104586..105338 - 753 WP_015632513 type-F conjugative transfer system pilin assembly protein TraF traF
PX704_RS25825 (PX704_25830) 105359..105685 - 327 WP_275107638 hypothetical protein -
PX704_RS25830 (PX704_25835) 105698..105946 - 249 WP_004152675 hypothetical protein -
PX704_RS25835 (PX704_25840) 105924..106178 - 255 WP_032433943 conjugal transfer protein TrbE -
PX704_RS25840 (PX704_25845) 106210..108165 - 1956 WP_015632511 type-F conjugative transfer system mating-pair stabilization protein TraN traN
PX704_RS25845 (PX704_25850) 108224..108871 - 648 WP_015632510 type-F conjugative transfer system pilin assembly protein TrbC trbC
PX704_RS25850 (PX704_25855) 109147..110136 - 990 WP_015632509 conjugal transfer pilus assembly protein TraU traU
PX704_RS25855 (PX704_25860) 110133..110534 - 402 WP_275107639 hypothetical protein -
PX704_RS25860 (PX704_25865) 110569..111204 - 636 WP_275107640 type-F conjugative transfer system protein TraW traW
PX704_RS25865 (PX704_25870) 111204..111593 - 390 WP_015632507 type-F conjugative transfer system protein TrbI -
PX704_RS25870 (PX704_25875) 111593..114232 - 2640 WP_275107641 type IV secretion system protein TraC virb4
PX704_RS25875 (PX704_25880) 114304..114702 - 399 WP_275107642 hypothetical protein -
PX704_RS25880 (PX704_25885) 114710..115099 - 390 WP_015632504 hypothetical protein -
PX704_RS25885 (PX704_25890) 115142..115546 - 405 WP_032433941 hypothetical protein -
PX704_RS25890 (PX704_25895) 115613..115924 - 312 WP_117056193 hypothetical protein -
PX704_RS25895 (PX704_25900) 115925..116143 - 219 WP_042938569 hypothetical protein -
PX704_RS25900 (PX704_25905) 116167..116457 - 291 WP_117056194 hypothetical protein -
PX704_RS25905 (PX704_25910) 116486..116884 - 399 WP_275107643 hypothetical protein -
PX704_RS25910 (PX704_25915) 117039..117623 - 585 WP_275107644 type IV conjugative transfer system lipoprotein TraV traV
PX704_RS25915 (PX704_25920) 117646..118242 - 597 WP_275107645 conjugal transfer pilus-stabilizing protein TraP -
PX704_RS25920 (PX704_25925) 118235..119659 - 1425 WP_275107646 F-type conjugal transfer pilus assembly protein TraB traB
PX704_RS25925 (PX704_25930) 119659..120399 - 741 WP_013214019 type-F conjugative transfer system secretin TraK traK
PX704_RS25930 (PX704_25935) 120386..120952 - 567 WP_004144423 type IV conjugative transfer system protein TraE traE
PX704_RS25935 (PX704_25940) 120972..121277 - 306 WP_004144424 type IV conjugative transfer system protein TraL traL
PX704_RS25940 (PX704_25945) 121291..121659 - 369 WP_004194426 type IV conjugative transfer system pilin TraA -
PX704_RS25945 (PX704_25950) 121721..121927 - 207 WP_171773970 TraY domain-containing protein -
PX704_RS25950 (PX704_25955) 122060..122779 - 720 WP_275107647 conjugal transfer protein TrbJ -
PX704_RS25955 (PX704_25960) 122979..123395 - 417 WP_072145360 conjugal transfer relaxosome DNA-binding protein TraM -
PX704_RS25960 (PX704_25965) 123858..124265 + 408 WP_275107665 transglycosylase SLT domain-containing protein virB1
PX704_RS25965 (PX704_25970) 124303..124833 - 531 WP_023292160 antirestriction protein -
PX704_RS25970 (PX704_25975) 125458..126303 - 846 WP_117056199 N-6 DNA methylase -
PX704_RS25975 (PX704_25980) 126350..126580 - 231 WP_004197732 hypothetical protein -
PX704_RS25980 (PX704_25985) 126668..127015 - 348 WP_117056200 hypothetical protein -
PX704_RS25985 (PX704_25990) 127082..127462 - 381 WP_275107648 hypothetical protein -
PX704_RS25990 (PX704_25995) 128179..128283 - 105 Protein_141 transcriptional regulator -
PX704_RS25995 (PX704_26000) 128287..128565 - 279 WP_004152721 helix-turn-helix transcriptional regulator -
PX704_RS26000 (PX704_26005) 128555..128875 - 321 WP_046664178 type II toxin-antitoxin system RelE/ParE family toxin -
PX704_RS26005 (PX704_26010) 128956..129180 - 225 WP_117056201 hypothetical protein -

Host bacterium

ID   5037 GenBank   NZ_CP118937
Plasmid name   pRX.G5M15_1 Incompatibility group   IncFIB
Plasmid size   152213 bp Coordinate of oriT [Strand]   123664..123713 [+]
Host baterium   Klebsiella pneumoniae subsp. pneumoniae strain RX.G5M15

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   -
Degradation gene   bphA
Symbiosis gene   -
Anti-CRISPR   AcrIE9