Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   102344
Name   oriT_KZN_INI_KINF_24|unnamed45 in_silico
Organism   Klebsiella pneumoniae strain KZN_INI_KINF_24
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_VOOC01000099 (1994..2042 [-], 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_KZN_INI_KINF_24|unnamed45
AATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1779 GenBank   WP_025712711
Name   traI_FTO35_RS30130_KZN_INI_KINF_24|unnamed45 insolico UniProt ID   A0A7G9AB41
Length   1753 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1753 a.a.        Molecular weight: 190484.63 Da        Isoelectric Point: 6.5078

>WP_025712711.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Klebsiella]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMDERWQGKGAEALGIDGKAVDKALFTELLKGKLPDGSDLTRI
QDGANKHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVTEAVRQLETLAATRVMTDGKSETVLTGNL
IVAKFNHDTNRNQEPQIHTHAVVINATQNGDKWQSLGTDKIGKTGFIENVYANQIAFGKLYREAFKPLVE
KLGYETEVVGKHGMWEMKGVPVEPFSTRSQEVREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMN
TLKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLE
AKDGVFELARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVP
FSDAVSVLAQDRPVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVT
GKSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTY
RWQGGHKTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRHEGVLGEKD
TTITALTPVWLDSKSRGVRDYYREGMVMERWDPETRTHDRFVIDRVTASSNMLTLKDRDGVRLDLKVSAV
DSQWTLFRADTLPVAEGERLAVLGKIPDTRLKGGESITVMKVEDGQLTVQRPGQKTTQTLAVGAGVFDGI
KVAHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSE
QLKSRSGETDLDAAIVQQKAGLRTPAEQAIHLAIPLLESEKLTFSRPQLLATALETGGGKVPMADIDTTI
QAQIRSGQLLNVPVAHGYGNDLLISRQTWDAEKSILTHVLEGKDAVAPLMDRVPASLMTDLTAGQRAATR
MILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLH
DTQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIVAGGGRAVSSGDNDQLQPIAPGQPFRLMQQR
SAADIAIMKEIVRQVPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGVWAPGGSVVEFTPKQEKAIQ
KALSEGKTLPAGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITL
PVLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSDGKERYISPREASAEGVTL
YRQEKITVSQGDRMRFSKSDLERGYVANSIWEVQSVAGDSVTLSDGKTTRTLTPKADQAQQHIDLAYAIT
AHGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDSREGWIKAIKHSPEKATAHDILE
PRNDRAVKSADLLFGRARPLDETAAGRAALQQSGLAQGNSPGKFISPGKKYPQPHVALPAFDKNGKAAGI
WLSPLTDRDGRLEAIGGEGRIMGNDAARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDR
PWNPGAITGGRVWAEQAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEP
ADRVKEVIGDVIRGLERDRAGTEKTTLPDDPQFRRQEAAIQQVASESLQRERLQAVERDMVRDLNREKTL
GGD

  Protein domains


Predicted by InterproScan.

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)

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

(635-714)

TrwC relaxase (TrwC)

(10-284)


  Protein structure



No available structure.




T4CP

ID   1362 GenBank   WP_025712710
Name   traD_FTO35_RS30125_KZN_INI_KINF_24|unnamed45 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: 85947.01 Da        Isoelectric Point: 5.1165

>WP_025712710.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Gammaproteobacteria]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTVWCGEQLWTSFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMRKDDDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDTPEPGPADTDSHASEQPEPVSPPA
PAVMTVTPAPVKSPPTTKRPAAEPSVRATEPPVLRGTTVPLIKPKAAAAATAASTASSAGAPAAAAGGTE
QELAQQSAEQGQDMLPAGMNEDGVIEDMQAYDAWLADEQTQRDMQRREEVNINHSHRHDEQDDVEIGGNF

  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: 1436..30244

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
FTO35_RS29935 (FTO35_29935) 220..1041 + 822 WP_023316395 DUF932 domain-containing protein -
FTO35_RS29940 (FTO35_29940) 1074..1403 + 330 WP_011977736 DUF5983 family protein -
FTO35_RS29945 (FTO35_29945) 1436..1921 - 486 WP_001568108 transglycosylase SLT domain-containing protein virB1
FTO35_RS29950 (FTO35_29950) 2353..2745 + 393 WP_004194114 conjugal transfer relaxosome DNA-binding protein TraM -
FTO35_RS29955 (FTO35_29955) 2975..3676 + 702 WP_025712700 hypothetical protein -
FTO35_RS29960 (FTO35_29960) 3762..3962 + 201 WP_046664192 TraY domain-containing protein -
FTO35_RS29965 (FTO35_29965) 4030..4398 + 369 WP_004194426 type IV conjugative transfer system pilin TraA -
FTO35_RS29970 (FTO35_29970) 4412..4717 + 306 WP_004144424 type IV conjugative transfer system protein TraL traL
FTO35_RS29975 (FTO35_29975) 4737..5303 + 567 WP_004144423 type IV conjugative transfer system protein TraE traE
FTO35_RS29980 (FTO35_29980) 5290..6030 + 741 WP_004152497 type-F conjugative transfer system secretin TraK traK
FTO35_RS29985 (FTO35_29985) 6030..7454 + 1425 WP_015065626 F-type conjugal transfer pilus assembly protein TraB traB
FTO35_RS29990 (FTO35_29990) 7528..8112 + 585 WP_020277945 type IV conjugative transfer system lipoprotein TraV traV
FTO35_RS31835 8267..8665 + 399 WP_020277946 hypothetical protein -
FTO35_RS31840 (FTO35_30000) 8736..8984 + 249 WP_223175793 hypothetical protein -
FTO35_RS30005 (FTO35_30005) 9008..9244 + 237 WP_042929429 hypothetical protein -
FTO35_RS30010 (FTO35_30010) 9226..9537 + 312 WP_025712701 hypothetical protein -
FTO35_RS30015 (FTO35_30015) 9604..10008 + 405 WP_004197817 hypothetical protein -
FTO35_RS30020 (FTO35_30020) 10051..10350 + 300 WP_025712702 hypothetical protein -
FTO35_RS30025 (FTO35_30025) 10358..10756 + 399 WP_074193813 hypothetical protein -
FTO35_RS30030 (FTO35_30030) 10828..13467 + 2640 WP_025712704 type IV secretion system protein TraC virb4
FTO35_RS30035 (FTO35_30035) 13467..13856 + 390 WP_013214025 type-F conjugative transfer system protein TrbI -
FTO35_RS30040 (FTO35_30040) 13856..14482 + 627 WP_025712705 type-F conjugative transfer system protein TraW traW
FTO35_RS30045 (FTO35_30045) 14526..15485 + 960 WP_202560610 conjugal transfer pilus assembly protein TraU traU
FTO35_RS30050 (FTO35_30050) 15498..16136 + 639 WP_022644933 type-F conjugative transfer system pilin assembly protein TrbC trbC
FTO35_RS30055 (FTO35_30055) 16195..18150 + 1956 WP_025712707 type-F conjugative transfer system mating-pair stabilization protein TraN traN
FTO35_RS30060 (FTO35_30060) 18182..18436 + 255 WP_020804203 conjugal transfer protein TrbE -
FTO35_RS30065 (FTO35_30065) 18414..18662 + 249 WP_004152675 hypothetical protein -
FTO35_RS30070 (FTO35_30070) 18675..19001 + 327 WP_004144402 hypothetical protein -
FTO35_RS30075 (FTO35_30075) 19022..19774 + 753 WP_004152677 type-F conjugative transfer system pilin assembly protein TraF traF
FTO35_RS30080 (FTO35_30080) 19785..20024 + 240 WP_004144400 type-F conjugative transfer system pilin chaperone TraQ -
FTO35_RS30085 (FTO35_30085) 19996..20553 + 558 WP_004152678 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
FTO35_RS30090 (FTO35_30090) 20599..21042 + 444 WP_025712708 F-type conjugal transfer protein TrbF -
FTO35_RS30095 (FTO35_30095) 21020..22399 + 1380 WP_074187349 conjugal transfer pilus assembly protein TraH traH
FTO35_RS30100 (FTO35_30100) 22399..25242 + 2844 WP_020805032 conjugal transfer mating-pair stabilization protein TraG traG
FTO35_RS30105 (FTO35_30105) 25253..25786 + 534 WP_004197891 hypothetical protein -
FTO35_RS30115 (FTO35_30115) 26194..26923 + 730 Protein_35 conjugal transfer complement resistance protein TraT -
FTO35_RS31435 27116..27805 + 690 WP_014343485 hypothetical protein -
FTO35_RS30125 (FTO35_30125) 27932..30244 + 2313 WP_025712710 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   2788 GenBank   NZ_VOOC01000099
Plasmid name   KZN_INI_KINF_24|unnamed45 Incompatibility group   IncFII
Plasmid size   42130 bp Coordinate of oriT [Strand]   1994..2042 [-]
Host baterium   Klebsiella pneumoniae strain KZN_INI_KINF_24

Cargo genes

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