Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101352
Name   oriT_pIncFIBK in_silico
Organism   Klebsiella pneumoniae strain BA27412
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_JACXCD010000018 (38150..38199 [-], 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_pIncFIBK
AAATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTCATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1253 GenBank   WP_180350936
Name   traI_IEE98_RS24035_pIncFIBK insolico UniProt ID   _
Length   1753 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1753 a.a.        Molecular weight: 190662.79 Da        Isoelectric Point: 6.4606

>WP_180350936.1 conjugative transfer relaxase/helicase TraI [Klebsiella pneumoniae]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMDERWQGKGAEALGIDGKAVDKALFTELLKGKLPDGSDLTRI
QDGANKHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVTEAVRQLETLAATRVMTDGKSETVLTGNL
IVAKFNHDTNRNQEPQIHTHAVVINATQNGDKWQSLGTDKIGKTGFIENVYANQIAFGKLYREAFKPLVE
KLGYETEVVGKHGMWEMKGVPVEPFSTRSQEVREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMN
TLKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLE
AKDGVFELARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKAQSQEVQRQNHVSVTPDASVVRQVP
FSDAVSVLAQDRPVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVT
GKSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTY
RWQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRHEGVLGEKD
TTITALTPMWLDSKSRGVRDYYREGMVMERWDPENRTHDRFVIDRVTASSNMLTLKDRDGVRLDLKVSAV
DSQWTLFRADTLPVAEGERLAVLGKIPDTRLKGGESITVMKVEEGQLTVQRPGQKTTQTLAVGAGVFDGI
KIGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSE
QLKTRSGETDLDAAIAQQKAGLRTPAEQAIHLAIPLLESEKLTFSRPQLLATALETGGGKVPMADIDTTI
QAQIRSGQLLNVPVAHGYGNDLLISRQTWDAEKSILTHVLEGKDAVAPLMDRVPASLMTDLTAGQRAATR
MILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLH
DTQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIVAGGGRAVSSGDNDQLQPIAPGQPFRLMQQR
SAADVAIMKEIVRQMPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGAWAPGSSVVEFTPKQEKAIE
KALSEGKTLPEGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITL
PVLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSEGKERYISPREASAEGVTL
YRQEKITVSQGDRMRFSKSDPERGYVANSIWEVQSVSGDSVTLSDGKLTRTLTPKADQAQQHIDLAYAIT
AHGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDSREGWIKAIKHSPEKATAHDILE
PRNDRAVKSADLLFGRARPLDETAAGRAALQQSGLAQGSSPGKFISPGKKYPQPHVALPAFDKNGKAAGI
WLSPLTDRDGRLEAIGREGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDR
PWNPGAMTGGRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEP
ADRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEAAIQQVASESLQRERLQAVERGMVRDLNRGKTL
GGD

  Protein domains


Predicted by InterproScan.

AAA domain (AAA_30)

(971-1157)

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

(577-629)

TrwC relaxase (TrwC)

(10-284)

DNA helicase TraI (TraI_C)

(1433-1555)

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

(635-714)


  Protein structure



No available structure.




T4CP

ID   861 GenBank   WP_257608640
Name   traD_IEE98_RS24030_pIncFIBK insolico UniProt ID   _
Length   767 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 767 a.a.        Molecular weight: 85808.91 Da        Isoelectric Point: 5.1787

>WP_257608640.1 type IV conjugative transfer system coupling protein TraD [Klebsiella pneumoniae]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTSFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDQNTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSREIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDAPASGPADTNSHAGEQPEPISQPA
PADMTVSPAPVKAPPRTKMPAEEPSVRATEPSVLRLTTVPLIKPKAAAAAATASSAGTPAAAAGGTEQEL
AQQSAEQGQDMLPAGMNEDGVIEDMQAYDAWLADEQTQRDMQRREEVNINHSHRHDEQDDVEIGGNF

  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: 37592..66366

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
IEE98_RS23825 (IEE98_23790) 32929..33333 - 405 WP_032104594 translesion error-prone DNA polymerase V autoproteolytic subunit -
IEE98_RS23830 (IEE98_23795) 33567..33797 + 231 WP_004118481 hypothetical protein -
IEE98_RS23835 (IEE98_23800) 34318..34743 + 426 WP_016529597 antirestriction protein -
IEE98_RS23840 (IEE98_23805) 34980..35234 + 255 WP_004152754 DNA polymerase III subunit theta -
IEE98_RS23845 (IEE98_23810) 35269..35586 + 318 WP_004118473 hypothetical protein -
IEE98_RS23850 (IEE98_23815) 36376..37197 + 822 WP_032104544 DUF932 domain-containing protein -
IEE98_RS23855 (IEE98_23820) 37230..37559 + 330 WP_265710078 DUF5983 family protein -
IEE98_RS23860 (IEE98_23825) 37592..38077 - 486 WP_004178063 transglycosylase SLT domain-containing protein virB1
IEE98_RS23865 (IEE98_23830) 38468..38884 + 417 WP_074181767 conjugal transfer relaxosome DNA-binding protein TraM -
IEE98_RS23870 (IEE98_23835) 39084..39803 + 720 WP_171819460 conjugal transfer protein TrbJ -
IEE98_RS23875 (IEE98_23840) 39936..40142 + 207 WP_171773970 TraY domain-containing protein -
IEE98_RS23880 (IEE98_23845) 40204..40572 + 369 WP_032104546 type IV conjugative transfer system pilin TraA -
IEE98_RS23885 (IEE98_23850) 40586..40891 + 306 WP_004144424 type IV conjugative transfer system protein TraL traL
IEE98_RS23890 (IEE98_23855) 40911..41477 + 567 WP_004144423 type IV conjugative transfer system protein TraE traE
IEE98_RS23895 (IEE98_23860) 41464..42204 + 741 WP_004152497 type-F conjugative transfer system secretin TraK traK
IEE98_RS23900 (IEE98_23865) 42204..43628 + 1425 WP_180350930 F-type conjugal transfer pilus assembly protein TraB traB
IEE98_RS23905 (IEE98_23870) 43701..44285 + 585 WP_020277945 type IV conjugative transfer system lipoprotein TraV traV
IEE98_RS23910 (IEE98_23875) 44866..45156 + 291 WP_032104549 hypothetical protein -
IEE98_RS23915 (IEE98_23880) 45180..45398 + 219 WP_004195468 hypothetical protein -
IEE98_RS23920 (IEE98_23885) 45399..45729 + 331 Protein_51 hypothetical protein -
IEE98_RS23925 (IEE98_23890) 45774..46178 + 405 WP_032104551 hypothetical protein -
IEE98_RS23930 (IEE98_23895) 46220..46516 + 297 WP_265710083 FmdE family protein -
IEE98_RS23935 (IEE98_23900) 46541..46940 + 400 Protein_54 hypothetical protein -
IEE98_RS23940 (IEE98_23905) 47012..49651 + 2640 WP_265710085 type IV secretion system protein TraC virb4
IEE98_RS23945 (IEE98_23910) 49651..50040 + 390 WP_004167468 type-F conjugative transfer system protein TrbI -
IEE98_RS23950 (IEE98_23915) 50040..50675 + 636 WP_020325113 type-F conjugative transfer system protein TraW traW
IEE98_RS23955 (IEE98_23920) 50710..51111 + 402 Protein_58 hypothetical protein -
IEE98_RS23960 (IEE98_23925) 51108..52097 + 990 WP_032104558 conjugal transfer pilus assembly protein TraU traU
IEE98_RS23965 (IEE98_23930) 52373..53020 + 648 WP_032104559 type-F conjugative transfer system pilin assembly protein TrbC trbC
IEE98_RS23970 (IEE98_23935) 53079..55034 + 1956 WP_265710088 type-F conjugative transfer system mating-pair stabilization protein TraN traN
IEE98_RS23975 (IEE98_23940) 55066..55320 + 255 WP_032104561 conjugal transfer protein TrbE -
IEE98_RS23980 (IEE98_23945) 55298..55546 + 249 WP_032104562 hypothetical protein -
IEE98_RS23985 (IEE98_23950) 55559..55885 + 327 WP_004144402 hypothetical protein -
IEE98_RS23990 (IEE98_23955) 55906..56658 + 753 WP_032104565 type-F conjugative transfer system pilin assembly protein TraF traF
IEE98_RS23995 (IEE98_23960) 56669..56908 + 240 WP_004144400 type-F conjugative transfer system pilin chaperone TraQ -
IEE98_RS24000 (IEE98_23965) 56880..57437 + 558 WP_004152678 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
IEE98_RS24005 (IEE98_23970) 57483..57926 + 444 WP_014343488 F-type conjugal transfer protein TrbF -
IEE98_RS24010 (IEE98_23975) 57904..59283 + 1380 WP_180350934 conjugal transfer pilus assembly protein TraH traH
IEE98_RS24015 (IEE98_23980) 59283..62126 + 2844 WP_265710092 conjugal transfer mating-pair stabilization protein TraG traG
IEE98_RS24020 (IEE98_23985) 62137..62661 + 525 WP_015632518 conjugal transfer entry exclusion protein -
IEE98_RS24025 (IEE98_23990) 62970..63701 + 732 WP_004152629 conjugal transfer complement resistance protein TraT -
IEE98_RS24030 (IEE98_23995) 64063..66366 + 2304 WP_257608640 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   1796 GenBank   NZ_JACXCD010000018
Plasmid name   pIncFIBK Incompatibility group   IncFIB
Plasmid size   80371 bp Coordinate of oriT [Strand]   38150..38199 [-]
Host baterium   Klebsiella pneumoniae strain BA27412

Cargo genes

Drug resistance gene   -
Virulence gene   iroB, iroC, iroD, iroN, rmpA
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -