Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   116151
Name   oriT_pKAM645_4 in_silico
Organism   Klebsiella quasipneumoniae subsp. quasipneumoniae strain KAM645
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_AP026424 (40966..41015 [-], 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    		  GGTGTGGTGA
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 50 nt

>oriT_pKAM645_4
AAATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   10331 GenBank   WP_261902536
Name   traI_OCV84_RS29485_pKAM645_4 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: 190678.77 Da        Isoelectric Point: 6.3385

>WP_261902536.1 conjugative transfer relaxase/helicase TraI [Klebsiella quasipneumoniae]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMDERWQGKGAEALGIDGKAVDKALFTELLKGKLPDGSDLTRI
QDGANKHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVTEAVRQLETLAATRVMTDGKSETVLTGNL
IVAKFNHDTNRNQEPQIHTHAVVINATQNGDKWQSLGTDKIGKTGFIENVYANQIAFGKLYREAFKPLVE
KLGYETEVVGKHGMWEMKGVPVEPFSTRSQEVREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMN
TLKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLE
AKDGVFELARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVP
FSDAVSVLAQDRPVMGIVSGQGGAAGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVT
GKSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTY
RWQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRNEGVLGEKD
TTITALTPVWLDSKSRGVRDYYREGMVMERWDPETRTHDRFVIDRVTASSNMLTLKDREGGRLDLKVSAV
DSQWTLFRAETLPVAEGERLAVLGKIPDTRLKGGESITVMKVEDGQLTVQRPGQKTTQTLAVGAGVFDGI
KIGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSE
QLKTRSGETDLDAAIAQQKAGLRTPAEQAIHLAIPLLESEKLTFSRPQLLATALETGGGKVPMADIDTTI
QAQIRSGQLLNVPVAHGYGNDLLISRKTWDAEKSILTHVLEGKDAVAPLMDRVPASLMTDLTAGQRAATR
MILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLH
DTQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIVAGGGRAVSSGDNDQLQPIAPGQPFRLMQQR
SAADVAIMKEIVRQMPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGSWAPGSSVVEFTPKQEKAIE
KALSEGKTLPAGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITL
PVLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSDGKERYISPREASAEGVTL
YRQEKITVSQGDRMRFSKSDLERGYVANSIWEVQSVSGDSVTLSDGKTTRTLTPKADQAQQHIDLAYAIT
AHGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDSREGWIKAIQHSPEKATAHDILE
PRNDRAVKSADLLFGRARPLDETAAGRAALQQSGLAQGNSPGKFISPGKKYPQPHVALPAFDKNGKAAGI
WLSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDR
PWNPGAMTGGRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEP
VDRVKEVIGDVIRGLERDRPGPEKTTLPDDPQFRRQEEAIQQVASERLQRERLQAVERDMVRDLNREKTL
GGD

  Protein domains


Predicted by InterproScan.

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

(635-714)

AAA domain (AAA_30)

(971-1157)

DNA helicase TraI (TraI_C)

(1433-1555)

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

(577-629)

TrwC relaxase (TrwC)

(10-284)


  Protein structure



No available structure.




T4CP

ID   12081 GenBank   WP_109043163
Name   traD_OCV84_RS29480_pKAM645_4 insolico UniProt ID   _
Length   770 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 770 a.a.        Molecular weight: 85926.01 Da        Isoelectric Point: 5.0615

>WP_109043163.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Klebsiella]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTVWCGEQLWTSFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDAPASGPADTNSHAGEQPEPVSQPA
PADMTVSPAPVKAPPTTKMPAEEPSVRATEPSVLRLTTVPLIKPKAAAAAAAAATASSAGTPAAAAGGTE
QELAQQSAEQGQDMLPAGMNEDGVIEDMQAYDAWLADEQTQRDMQRREEVNINHSHRHDEQDEVEIGGNF

  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: 43475..69170

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
OCV84_RS29290 (KAM645c_57040) 38850..39197 + 348 WP_109043188 hypothetical protein -
OCV84_RS29295 (KAM645c_57050) 39290..39436 + 147 WP_109043194 succinate dehydrogenase flavoprotein subunit -
OCV84_RS29300 (KAM645c_57060) 39849..40376 + 528 WP_109043195 antirestriction protein -
OCV84_RS29305 (KAM645c_57070) 40414..40821 - 408 WP_109043189 transglycosylase SLT domain-containing protein -
OCV84_RS29310 (KAM645c_57080) 41315..41713 + 399 WP_042938822 conjugal transfer relaxosome DNA-binding protein TraM -
OCV84_RS29315 (KAM645c_57090) 41888..42574 + 687 WP_004152494 transcriptional regulator TraJ family protein -
OCV84_RS29320 (KAM645c_57100) 42653..43039 + 387 WP_004152495 TraY domain-containing protein -
OCV84_RS29325 (KAM645c_57110) 43093..43461 + 369 WP_004194426 type IV conjugative transfer system pilin TraA -
OCV84_RS29330 (KAM645c_57120) 43475..43780 + 306 WP_004178059 type IV conjugative transfer system protein TraL traL
OCV84_RS29335 (KAM645c_57130) 43800..44366 + 567 WP_004152602 type IV conjugative transfer system protein TraE traE
OCV84_RS29340 (KAM645c_57140) 44353..45093 + 741 WP_013214019 type-F conjugative transfer system secretin TraK traK
OCV84_RS29345 (KAM645c_57150) 45093..46517 + 1425 WP_032426793 F-type conjugal transfer pilus assembly protein TraB traB
OCV84_RS29350 (KAM645c_57160) 46631..47215 + 585 WP_261902535 type IV conjugative transfer system lipoprotein TraV traV
OCV84_RS29355 (KAM645c_57170) 47347..47757 + 411 WP_032329942 hypothetical protein -
OCV84_RS29360 (KAM645c_57180) 47863..48081 + 219 WP_004152501 hypothetical protein -
OCV84_RS29365 (KAM645c_57190) 48082..48393 + 312 WP_004152502 hypothetical protein -
OCV84_RS29370 (KAM645c_57200) 48460..48864 + 405 WP_004152503 hypothetical protein -
OCV84_RS29375 (KAM645c_57210) 48907..49296 + 390 WP_004153076 hypothetical protein -
OCV84_RS29380 49304..49702 + 399 WP_011977783 hypothetical protein -
OCV84_RS29385 (KAM645c_57220) 49774..52413 + 2640 WP_004152505 type IV secretion system protein TraC virb4
OCV84_RS29390 (KAM645c_57230) 52413..52802 + 390 WP_004152506 type-F conjugative transfer system protein TrbI -
OCV84_RS29395 (KAM645c_57240) 52802..53428 + 627 WP_009309871 type-F conjugative transfer system protein TraW traW
OCV84_RS29400 (KAM645c_57250) 53470..53859 + 390 WP_004194992 hypothetical protein -
OCV84_RS29405 (KAM645c_57260) 53856..54845 + 990 WP_073558193 conjugal transfer pilus assembly protein TraU traU
OCV84_RS29410 (KAM645c_57270) 54858..55496 + 639 WP_011977786 type-F conjugative transfer system pilin assembly protein TrbC trbC
OCV84_RS29415 (KAM645c_57280) 55555..57485 + 1931 Protein_77 type-F conjugative transfer system mating-pair stabilization protein TraN -
OCV84_RS29420 (KAM645c_57300) 57517..57771 + 255 WP_004195500 conjugal transfer protein TrbE -
OCV84_RS29425 (KAM645c_57310) 57749..57997 + 249 WP_004152675 hypothetical protein -
OCV84_RS29430 (KAM645c_57320) 58010..58336 + 327 WP_004194451 hypothetical protein -
OCV84_RS29435 (KAM645c_57330) 58357..59109 + 753 WP_009309874 type-F conjugative transfer system pilin assembly protein TraF traF
OCV84_RS29440 (KAM645c_57340) 59120..59359 + 240 WP_009309875 type-F conjugative transfer system pilin chaperone TraQ -
OCV84_RS29445 (KAM645c_57350) 59331..59903 + 573 WP_009309876 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
OCV84_RS29450 (KAM645c_57360) 59896..60324 + 429 WP_015065560 hypothetical protein -
OCV84_RS29455 (KAM645c_57370) 60311..61681 + 1371 WP_109043160 conjugal transfer pilus assembly protein TraH traH
OCV84_RS29460 (KAM645c_57380) 61681..64355 + 2675 Protein_86 conjugal transfer mating-pair stabilization protein TraG -
OCV84_RS29465 65050..65618 + 569 Protein_87 complement resistance protein TraT -
OCV84_RS29470 (KAM645c_57400) 65811..66503 + 693 WP_162762153 hypothetical protein -
OCV84_RS29475 (KAM645c_57410) 66524..66787 + 264 WP_142372547 hypothetical protein -
OCV84_RS29480 (KAM645c_57420) 66858..69170 + 2313 WP_109043163 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   16584 GenBank   NZ_AP026424
Plasmid name   pKAM645_4 Incompatibility group   -
Plasmid size   79512 bp Coordinate of oriT [Strand]   40966..41015 [-]
Host baterium   Klebsiella quasipneumoniae subsp. quasipneumoniae strain KAM645

Cargo genes

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