Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101345
Name   oriT_pIncFIIK in_silico
Organism   Klebsiella pneumoniae strain K4
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_JAHZMD010000023 (52945..52993 [+], 49 nt)
oriT length   49 nt
IRs (inverted repeats)      6..13, 16..23  (GCAAAATT..AATTTTGC)
Location of nic site      32..33
Conserved sequence flanking the
  nic site    		  GGTGTGGTGA
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 49 nt

>oriT_pIncFIIK
AATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1251 GenBank   WP_130973550
Name   traI_K0026_RS23355_pIncFIIK 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: 190778.77 Da        Isoelectric Point: 6.1566

>WP_130973550.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Klebsiella]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMDERWQGKGAEALGIDGKAVDKALFTELLKGKLPDGSDLTRI
QDGANRHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVTEAVRQLETLAATRVMTDGKSETVLTGNL
IVAKFNHDTNRNQEPQIHTHAVVINATQNGDKWQSLGTDKIGKTGFIENVYANQIAFGKLYREAFKPLVE
KLGYETEVVGKHGMWEMKGVPVEPFSTRSQEVREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMN
TLKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLE
AKDGVFDLARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVP
FSDAVSVLAQDRLVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVT
GKSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTY
RWQGGQQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKD
TTITALTPVWLDSKSRGVRDYYREGMVMERWDPENRTHDRFVIDRVTASSNMLTLKDRDGVRLDLKVSAV
DSQWTLFRADTLPVAEGERLAVLGKIPDTRLKGGESITVMKVEEGQLTVQRPGQKTTQTLAVGAGVFDGI
KIGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSE
QLKSRSGETDLDAAIAQQKAGLHTPAEQAIHLAIPLLESQDLTFSRPQLLATAMETGGGKVSMADIDTTI
QAQIRSGQLLNVPVAHGYGNDLLISRQTWDAEKSILTHVLEGKDAVAPLMDRVPASLMTDLTAGQRAATR
MILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLH
DTQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIVAGGGRAVSSGDNDQLQPIAPGQPFRLMQQR
SAADVAIMKEIVRQMPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGSWAPGSSVVEFTPKQEKAIE
KALSEGKTLPEGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITL
PVLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSEGKERFISPREASAEGVTL
YRQEKITVSQGDRMRFSKSDPERGYVANSIWEVQSVSGDSVTLSDGKITRTLTPKAEQAQQHIDLAYAIT
AHGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDNREGWIKAIKNSPEKATAHDILE
PRNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGSSPGKFISPGKKYPQPHVALPAFDKNGKAAGI
WLSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDR
PWNPGAMTGGRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEP
ADRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEEAIQQVASERLQRERLQAVERDMVRDLNREKTL
GGD

  Protein domains


Predicted by InterproScan.

TrwC relaxase (TrwC)

(10-284)

DNA helicase TraI (TraI_C)

(1433-1555)

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

(577-629)

AAA domain (AAA_30)

(971-1157)

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

(635-714)


  Protein structure



No available structure.




Auxiliary protein

ID   439 GenBank   WP_020805752
Name   WP_020805752_pIncFIIK insolico UniProt ID   A0A377TIM3
Length   130 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 130 a.a.        Molecular weight: 14772.81 Da        Isoelectric Point: 4.5715

>WP_020805752.1 MULTISPECIES: conjugal transfer relaxosome DNA-binding protein TraM [Gammaproteobacteria]
MAKIQVYVNDNVAEKINAIAVQRRAEGAKEKDISYSSIASMLLELGLRVYEAQMERKESGFNQMAFNRAL
LESMVKTQFTVNKVLGIECLSPHVNGNPKWEWSGLIENIRDDVSAVMEKFFPNESEIEDE

  Protein domains


Predicted by InterproScan.

TraM protein, DNA-binding (Tra_M)

(1-125)


  Protein structure


Source ID Structure
AlphaFold DB A0A377TIM3


T4CP

ID   858 GenBank   WP_259503552
Name   traD_K0026_RS23360_pIncFIIK insolico UniProt ID   _
Length   769 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 769 a.a.        Molecular weight: 85918.02 Da        Isoelectric Point: 5.0632

>WP_259503552.1 type IV conjugative transfer system coupling protein TraD [Klebsiella pneumoniae]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTGFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGIASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSREIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKITEGFIPRRLDTRVDARLSALLEEREAEGSLARALFTPDAPASGPADTDSHAGEQPEPVSQPA
PADMTVSPAPVKAPPTTKMPAAEPSVRATEPPVLRVTTVPLIKPKAAAAAAAASTASSAGIPAAAAGGTE
QELAQQSAEQGLDMLPAGMNEDGVIEDMQAYDAWADEQTQRDMQRREEVNINHSHRHDEQDDVEIGGNF

  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: 25233..50566

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
K0026_RS23360 (K0026_23335) 25233..27542 - 2310 WP_259503552 type IV conjugative transfer system coupling protein TraD virb4
K0026_RS23365 (K0026_23340) 27902..28633 - 732 WP_004152629 conjugal transfer complement resistance protein TraT -
K0026_RS23370 (K0026_23345) 28823..29350 - 528 WP_004153030 hypothetical protein -
K0026_RS23375 (K0026_23350) 29356..32205 - 2850 WP_259503551 conjugal transfer mating-pair stabilization protein TraG traG
K0026_RS23380 (K0026_23355) 32205..33575 - 1371 WP_004178055 conjugal transfer pilus assembly protein TraH traH
K0026_RS23385 (K0026_23360) 33562..33990 - 429 WP_023292146 hypothetical protein -
K0026_RS23390 (K0026_23365) 33983..34564 - 582 WP_104458519 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
K0026_RS23395 (K0026_23370) 34536..34775 - 240 WP_259503550 type-F conjugative transfer system pilin chaperone TraQ -
K0026_RS23400 (K0026_23375) 34786..35538 - 753 WP_004152686 type-F conjugative transfer system pilin assembly protein TraF traF
K0026_RS23405 (K0026_23380) 35559..35885 - 327 WP_004152685 hypothetical protein -
K0026_RS26100 35931..36116 - 186 WP_004152684 hypothetical protein -
K0026_RS23410 (K0026_23385) 36113..36349 - 237 WP_042922352 conjugal transfer protein TrbE -
K0026_RS23415 (K0026_23390) 36381..38336 - 1956 WP_259503549 type-F conjugative transfer system mating-pair stabilization protein TraN traN
K0026_RS23420 (K0026_23395) 38395..39033 - 639 WP_259503548 type-F conjugative transfer system pilin assembly protein TrbC trbC
K0026_RS23425 (K0026_23400) 39046..40005 - 960 WP_259503555 conjugal transfer pilus assembly protein TraU traU
K0026_RS23430 (K0026_23405) 40049..40675 - 627 WP_023307538 type-F conjugative transfer system protein TraW traW
K0026_RS23435 (K0026_23410) 40675..41064 - 390 WP_040088224 type-F conjugative transfer system protein TrbI -
K0026_RS23440 (K0026_23415) 41064..43703 - 2640 WP_259503547 type IV secretion system protein TraC virb4
K0026_RS23445 (K0026_23420) 43775..44173 - 399 WP_072158599 hypothetical protein -
K0026_RS23450 (K0026_23425) 44181..44471 - 291 WP_259503546 hypothetical protein -
K0026_RS23455 (K0026_23430) 44468..44872 - 405 WP_023307543 hypothetical protein -
K0026_RS23460 (K0026_23435) 44939..45256 - 318 WP_117099048 hypothetical protein -
K0026_RS23465 (K0026_23440) 45257..45475 - 219 WP_004171484 hypothetical protein -
K0026_RS23470 (K0026_23445) 45499..45789 - 291 WP_032423381 hypothetical protein -
K0026_RS23475 (K0026_23450) 45794..46204 - 411 WP_023307546 hypothetical protein -
K0026_RS23480 (K0026_23455) 46336..46905 - 570 WP_023307547 type IV conjugative transfer system lipoprotein TraV traV
K0026_RS23485 (K0026_23460) 47118..47531 - 414 Protein_47 conjugal transfer pilus-stabilizing protein TraP -
K0026_RS23490 (K0026_23465) 47524..48948 - 1425 WP_259503545 F-type conjugal transfer pilus assembly protein TraB traB
K0026_RS23495 (K0026_23470) 48948..49688 - 741 WP_004152497 type-F conjugative transfer system secretin TraK traK
K0026_RS23500 (K0026_23475) 49675..50241 - 567 WP_004152602 type IV conjugative transfer system protein TraE traE
K0026_RS23505 (K0026_23480) 50261..50566 - 306 WP_004178059 type IV conjugative transfer system protein TraL traL
K0026_RS23510 (K0026_23485) 50580..50948 - 369 WP_020316649 type IV conjugative transfer system pilin TraA -
K0026_RS23515 (K0026_23490) 51017..51217 - 201 WP_048289787 TraY domain-containing protein -
K0026_RS23520 51303..52004 - 702 WP_259503544 hypothetical protein -
K0026_RS23525 (K0026_23500) 52242..52634 - 393 WP_020805752 conjugal transfer relaxosome DNA-binding protein TraM -
K0026_RS23530 (K0026_23505) 53138..53545 + 408 WP_259503554 transglycosylase SLT domain-containing protein -
K0026_RS23535 (K0026_23510) 53583..54113 - 531 WP_023292160 antirestriction protein -

Host bacterium

ID   1789 GenBank   NZ_JAHZMD010000023
Plasmid name   pIncFIIK Incompatibility group   IncFII
Plasmid size   58994 bp Coordinate of oriT [Strand]   52945..52993 [+]
Host baterium   Klebsiella pneumoniae strain K4

Cargo genes

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