Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   105490
Name   oriT_pKAM622_4 in_silico
Organism   Klebsiella quasipneumoniae subsp. quasipneumoniae strain KAM622
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_AP026396 (44283..44331 [-], 49 nt)
oriT length   49 nt
IRs (inverted repeats)     _
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 49 nt

>oriT_pKAM622_4
AATCTGCAAAATTTTAATTCTGCAAAGTGTTAATTTATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3740 GenBank   WP_276086050
Name   traI_P4I30_RS30060_pKAM622_4 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: 190408.94 Da        Isoelectric Point: 6.0254

>WP_276086050.1 conjugative transfer relaxase/helicase TraI [Klebsiella quasipneumoniae]
MLSFSQVKSAGSAGNYYTEKDNYYVIGSMEERWQGKGAEALGLEGKVDKQIFTELLQGKLPDGSDLTRIQ
DGVNKHRPGYDLTFSAPKSVSMLAMLGGDKRLIDAHNRAVTVALNQVESLASTRVQKDGVSETVLTGNLI
IARFNHDTSRAQDPQIHTHSVVINATQNGDKWQTLASDTVGKTGFSENILANRIAFGKIYQNTLRADVES
LGYRTVDAGKNGMWEMEGVPVESFSTRSQELREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMNT
LKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLEA
KDGVFELARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTSDASVVRQAPF
SDAVSVLAQDRPVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVTG
KSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTYR
WQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKDT
TITALTPVWLDSKSRGVRDYYREGMVMERWDPETRTHDRFVIDRVTASSNMLTLKDREGDRLDLKVSAVD
SQWTLFRADTLPVAEGERLAVLGKIPDTRLKGGESVTVMKVEDGQLTVQRPGQKTTQTLAVGAGVFDGIK
VGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSEQ
LKSRSGETDLDAAIAQQKAGLHTPAEQAIHLAIPLLESQDLTFSRPQLLATAMETGGGKVSMADIDTTIQ
AQIRSGQLLNVPVAPGRGNDLLISRQAWDAEKSILTRVLEGKDAVAPLMDRVPDSLMTDLTAGQRAATRM
ILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLHD
TQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIAAGGGRAVPSGDTDQLPPIASGQPFRLTQQRS
AADVAIMKEIVRQVPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGAWAPGSSVVEFTQKQEKAIEK
ALSEGKTLPEGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITLP
VLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSEGKERFISPREASAEGVTLY
RQEKITVSQGDRMRFSKSDPERGYVANSIWEVQSVSGDSVTLSDGKITRTLTPKAEQAQQHIDLAYAITA
HGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDNREGWIKAIKNSPEKATAHDILEP
RNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGSSPGKFISPGKKYPQPHVALPAFDKNGKAAGIW
LSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDRP
WNPGAMTGGRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEPA
DRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEAAIQQVASERLQRERLQAVERDMVRDLNREKTLG
GD

  Protein domains


Predicted by InterproScan.

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

(576-628)

TrwC relaxase (TrwC)

(11-283)

DNA helicase TraI (TraI_C)

(1432-1554)

AAA domain (AAA_30)

(970-1156)

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

(634-713)


  Protein structure



No available structure.




Auxiliary protein

ID   1692 GenBank   WP_004197733
Name   WP_004197733_pKAM622_4 insolico UniProt ID   A0A0E3KB00
Length   129 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 129 a.a.        Molecular weight: 14835.90 Da        Isoelectric Point: 4.6012

>WP_004197733.1 MULTISPECIES: conjugal transfer relaxosome DNA-binding protein TraM [Bacteria]
MGKVQAYPSDEVCEKINAIVEKRRMEGAKDKDVSFSSISTMLLELGLRVYEAQMERKESGFNQMAFNRAL
LESVVKTQFSVNKILGIECLSPHVKDDPRWQWKSMVLNIQEDVQEAMRNFFPDEDAEGE

  Protein domains


Predicted by InterproScan.

TraM protein, DNA-binding (Tra_M)

(1-124)


  Protein structure


Source ID Structure
AlphaFold DB A0A0E3KB00


T4CP

ID   3735 GenBank   WP_009309880
Name   traD_P4I30_RS30055_pKAM622_4 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: 85571.58 Da        Isoelectric Point: 5.1733

>WP_009309880.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTGFAFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGVASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDDDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDAPASGPDDAGSHAGEQPEPVSQPA
PAVMTVTPAPVKSPPTTKRPAAEPSARTAEPPVLRVTTVPLIKPKAAAAAGTAATASSAGTPAAAAGGTE
QVLAQQSAEQGQAMLPAGMNEDGVIEDMQAYDAWADEQTQRDMQRREEVNINHSHRHDEQDDLEIGGNF

  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: 46697..72675

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
P4I30_RS29880 (KAM622c_58730) 42068..42298 + 231 WP_020314756 hypothetical protein -
P4I30_RS29885 42383..42502 + 120 Protein_55 SAM-dependent DNA methyltransferase -
P4I30_RS29890 (KAM622c_58740) 43151..43693 + 543 WP_020314754 antirestriction protein -
P4I30_RS29895 (KAM622c_58750) 43716..44138 - 423 WP_020315406 transglycosylase SLT domain-containing protein -
P4I30_RS29900 (KAM622c_58760) 44627..45016 + 390 WP_004197733 conjugal transfer relaxosome DNA-binding protein TraM -
P4I30_RS29905 46089..46250 + 162 WP_276086055 TraY domain-containing protein -
P4I30_RS29910 (KAM622c_58790) 46375..46683 + 309 WP_023158014 type IV conjugative transfer system pilin TraA -
P4I30_RS29915 (KAM622c_58800) 46697..47002 + 306 WP_004178059 type IV conjugative transfer system protein TraL traL
P4I30_RS29920 (KAM622c_58810) 47022..47588 + 567 WP_004194424 type IV conjugative transfer system protein TraE traE
P4I30_RS29925 (KAM622c_58820) 47575..48315 + 741 WP_009309865 type-F conjugative transfer system secretin TraK traK
P4I30_RS29930 (KAM622c_58830) 48315..49739 + 1425 WP_004194260 F-type conjugal transfer pilus assembly protein TraB traB
P4I30_RS29935 49853..50437 + 585 WP_009309868 type IV conjugative transfer system lipoprotein TraV traV
P4I30_RS29940 (KAM622c_58840) 50569..50979 + 411 WP_009309869 hypothetical protein -
P4I30_RS29945 (KAM622c_58850) 51044..52078 - 1035 WP_116994126 IS630 family transposase -
P4I30_RS29950 (KAM622c_58860) 52187..52405 + 219 WP_004195468 hypothetical protein -
P4I30_RS29955 (KAM622c_58870) 52406..52703 + 298 Protein_69 hypothetical protein -
P4I30_RS29960 (KAM622c_58880) 52784..53188 + 405 WP_004197817 hypothetical protein -
P4I30_RS29965 53565..53974 + 410 Protein_71 hypothetical protein -
P4I30_RS29970 (KAM622c_58900) 54035..56674 + 2640 WP_004197813 type IV secretion system protein TraC virb4
P4I30_RS29975 (KAM622c_58910) 56674..57063 + 390 WP_004197815 type-F conjugative transfer system protein TrbI -
P4I30_RS29980 (KAM622c_58920) 57063..57689 + 627 WP_009309871 type-F conjugative transfer system protein TraW traW
P4I30_RS29985 (KAM622c_58930) 57731..58120 + 390 WP_004194992 hypothetical protein -
P4I30_RS29990 (KAM622c_58940) 58117..59106 + 990 WP_009309872 conjugal transfer pilus assembly protein TraU traU
P4I30_RS29995 (KAM622c_58950) 59119..59757 + 639 WP_004193871 type-F conjugative transfer system pilin assembly protein TrbC trbC
P4I30_RS30000 (KAM622c_58960) 59816..61759 + 1944 WP_276086047 type-F conjugative transfer system mating-pair stabilization protein TraN traN
P4I30_RS30005 (KAM622c_58970) 61803..62057 + 255 WP_004195500 conjugal transfer protein TrbE -
P4I30_RS30010 (KAM622c_58980) 62035..62283 + 249 WP_004152675 hypothetical protein -
P4I30_RS30015 (KAM622c_58990) 62296..62622 + 327 WP_004194451 hypothetical protein -
P4I30_RS30020 (KAM622c_59000) 62643..63395 + 753 WP_009309874 type-F conjugative transfer system pilin assembly protein TraF traF
P4I30_RS30025 (KAM622c_59010) 63406..63645 + 240 WP_009309875 type-F conjugative transfer system pilin chaperone TraQ -
P4I30_RS30030 (KAM622c_59020) 63617..64189 + 573 WP_009309876 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
P4I30_RS30035 (KAM622c_59030) 64182..64610 + 429 WP_004152689 hypothetical protein -
P4I30_RS30040 (KAM622c_59040) 64597..65967 + 1371 WP_276086048 conjugal transfer pilus assembly protein TraH traH
P4I30_RS30045 (KAM622c_59050) 65967..68827 + 2861 Protein_87 conjugal transfer mating-pair stabilization protein TraG -
P4I30_RS30050 (KAM622c_59070) 69550..70239 + 690 WP_276086049 hypothetical protein -
P4I30_RS30055 (KAM622c_59080) 70366..72675 + 2310 WP_009309880 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   5928 GenBank   NZ_AP026396
Plasmid name   pKAM622_4 Incompatibility group   IncFII
Plasmid size   82879 bp Coordinate of oriT [Strand]   44283..44331 [-]
Host baterium   Klebsiella quasipneumoniae subsp. quasipneumoniae strain KAM622

Cargo genes

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