Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101725
Name   oriT_pRHBSTW-00904_3 in_silico
Organism   Klebsiella pneumoniae strain RHBSTW-00904
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_JABXPA010000003 (56463..56512 [-], 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_pRHBSTW-00904_3
AAATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1463 GenBank   WP_065953842
Name   traI_HV321_RS28070_pRHBSTW-00904_3 insolico UniProt ID   A0A839CRE9
Length   1753 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1753 a.a.        Molecular weight: 190420.61 Da        Isoelectric Point: 6.3863

>WP_065953842.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Klebsiella]
MMSIGSVKSADKAADYYTNKDNYYVIGSMDERWQGKGAEALGIDGKAVDKALFTELLKGKLPDGSDLTRI
QDGANKHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVTEAVRQLETLAATRVMTDGKSETVLTGNL
IVAKFNHDTNRNQEPQIHTHAVVINATQNGDKWQSLGTDKIGKTGFIENVYANQIAFGKLYREAFKPLVE
KLGYETEVVGKHGMWEMKGVPVEPFSTRTQEVREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMN
TLKETGFDIRGYREAADSRAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLE
AKDGVFELARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVP
FSDAVSVLAQDRPVMGIVSGQGGAAGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVT
GKSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTY
RWQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGLESVAQISGTREQSVLNGLIRDSLRNEGVLGEKD
TTITALTPVWLDSKSRGVRDYYREGMVMESWDPETRTHDRFVIDRVTASSNMLTLKDREGGRLDLKVSAV
DSQWTLFRADTLPVAEGERLAVLGKIPDTRLKGGESITVMKVEDGQLTVQRPGQKTTQTLAVGAGVFDGI
KIGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSE
QLKTRSGETDLDAAIAQQKAGLRTPAEQAIHLAIPLLESEKLTFSRPQLLATALETGGGKVPMADIDTTI
QAQIRSGQLLNVPVAHGYGNDLLISRQTWDAEKSILTHVLEGKDAVAPLMDRVPASLMTDLTAGQRAATR
MILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLH
DTQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIVAGGGRAVSSGDNDQLQPIAPGQPFRLMQQR
SAADIAIMKEIVRQVPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGAWAPGSSVVEFTPAQEKAIQ
KALSEGKTLPAGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHGARRENGETGKEEITL
PVLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQMITLTDSEGKERYISPREASAEGVTL
YRQEKITVSQGDRMRFSKSDLERGYVANSIWEVQSVAGDSVTLSDGKTTRTLTPKADQAQQHIDLAYAIT
AHGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDSREGWIKAIKHSPEKATAHDILE
PRNDRAVKSADLLFGRARLLDETAAGRAALQQSGLAQGNSPGKFISPGKKYPQPHVALPAFDKNGKAAGI
WLSPLTDRDGRLEAIGGEGRIMGNDAARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDR
PWNPGAMTGGRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEP
VDRVKEVIGDVIRGLERDRPGPEKTTLPDDPQFRRQEAAIQQVASESLQRERLQAVERDMVRDLNREKTL
GGD

  Protein domains


Predicted by InterproScan.

TrwC relaxase (TrwC)

(11-284)

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

(635-714)

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

(577-629)

DNA helicase TraI (TraI_C)

(1433-1555)

AAA domain (AAA_30)

(971-1157)


  Protein structure



No available structure.




T4CP

ID   1142 GenBank   WP_032436737
Name   traD_HV321_RS28065_pRHBSTW-00904_3 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: 85553.49 Da        Isoelectric Point: 5.0065

>WP_032436737.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Klebsiella]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTSFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDDDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREGRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDAPASGPDDAGSHAGERPELASQPA
PAEVTVSPAPVKAPATTTMPAAEPSARTAEPPVLRVTTVPLIKPKAAAAAAAAATASSAGTPAAAAGGTE
QELAQQSAEQGQDMLPAGMNEDGVIEDMQAYDAWADEQTQRDMQRREEVNINHSHRHDEQDDVEIGGNF

  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: 55905..85749

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HV321_RS27845 (HV321_27845) 52182..52538 + 357 WP_004152717 hypothetical protein -
HV321_RS27850 (HV321_27850) 52599..52811 + 213 WP_004152718 hypothetical protein -
HV321_RS27855 (HV321_27855) 52822..53046 + 225 WP_004152719 hypothetical protein -
HV321_RS27860 (HV321_27860) 53127..53447 + 321 WP_004152720 type II toxin-antitoxin system RelE/ParE family toxin -
HV321_RS27865 (HV321_27865) 53437..53715 + 279 WP_004152721 helix-turn-helix transcriptional regulator -
HV321_RS27870 (HV321_27870) 53716..54129 + 414 WP_023280875 transcriptional regulator -
HV321_RS27875 (HV321_27875) 54689..55516 + 828 WP_023307552 DUF932 domain-containing protein -
HV321_RS27880 (HV321_27880) 55543..55872 + 330 WP_011977736 DUF5983 family protein -
HV321_RS27885 (HV321_27885) 55905..56390 - 486 WP_001568108 transglycosylase SLT domain-containing protein virB1
HV321_RS27890 (HV321_27890) 56825..57217 + 393 WP_032436755 conjugal transfer relaxosome DNA-binding protein TraM -
HV321_RS27895 (HV321_27895) 57424..58119 + 696 WP_023307551 transcriptional regulator TraJ family protein -
HV321_RS27900 (HV321_27900) 58203..58574 + 372 WP_004208838 TraY domain-containing protein -
HV321_RS27905 (HV321_27905) 58628..58996 + 369 WP_023307550 type IV conjugative transfer system pilin TraA -
HV321_RS27910 (HV321_27910) 59010..59315 + 306 WP_004178059 type IV conjugative transfer system protein TraL traL
HV321_RS27915 (HV321_27915) 59335..59901 + 567 WP_004152602 type IV conjugative transfer system protein TraE traE
HV321_RS27920 (HV321_27920) 59888..60628 + 741 WP_004152497 type-F conjugative transfer system secretin TraK traK
HV321_RS27925 (HV321_27925) 60628..62052 + 1425 WP_023307549 F-type conjugal transfer pilus assembly protein TraB traB
HV321_RS27930 (HV321_27930) 62045..62464 + 420 Protein_76 conjugal transfer pilus-stabilizing protein TraP -
HV321_RS27935 (HV321_27935) 62676..63245 + 570 WP_023307547 type IV conjugative transfer system lipoprotein TraV traV
HV321_RS27940 (HV321_27940) 63377..63787 + 411 WP_023307546 hypothetical protein -
HV321_RS27945 (HV321_27945) 63792..64082 + 291 WP_032423381 hypothetical protein -
HV321_RS27950 (HV321_27950) 64106..64324 + 219 WP_004171484 hypothetical protein -
HV321_RS27955 (HV321_27955) 64325..64663 + 339 WP_032436750 hypothetical protein -
HV321_RS27960 (HV321_27960) 64708..65112 + 405 WP_023307543 hypothetical protein -
HV321_RS27965 (HV321_27965) 65109..65399 + 291 WP_023307542 hypothetical protein -
HV321_RS27970 (HV321_27970) 65407..65805 + 399 WP_072158599 hypothetical protein -
HV321_RS27975 (HV321_27975) 65877..68516 + 2640 WP_016528865 type IV secretion system protein TraC virb4
HV321_RS27980 (HV321_27980) 68516..68905 + 390 WP_032436749 type-F conjugative transfer system protein TrbI -
HV321_RS27985 (HV321_27985) 68905..69531 + 627 WP_023307538 type-F conjugative transfer system protein TraW traW
HV321_RS27990 (HV321_27990) 69575..70534 + 960 WP_015065634 conjugal transfer pilus assembly protein TraU traU
HV321_RS27995 (HV321_27995) 70547..71185 + 639 WP_015065635 type-F conjugative transfer system pilin assembly protein TrbC trbC
HV321_RS28000 (HV321_28000) 71244..73199 + 1956 WP_181467678 type-F conjugative transfer system mating-pair stabilization protein TraN traN
HV321_RS28005 (HV321_28005) 73231..73467 + 237 WP_032436746 conjugal transfer protein TrbE -
HV321_RS30475 73464..73649 + 186 WP_032436745 hypothetical protein -
HV321_RS28010 (HV321_28010) 73695..74021 + 327 WP_032436744 hypothetical protein -
HV321_RS28015 (HV321_28015) 74042..74794 + 753 WP_015065637 type-F conjugative transfer system pilin assembly protein TraF traF
HV321_RS28020 (HV321_28020) 74805..75044 + 240 WP_004144400 type-F conjugative transfer system pilin chaperone TraQ -
HV321_RS28025 (HV321_28025) 75016..75573 + 558 WP_004152678 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
HV321_RS28030 (HV321_28030) 75618..76060 + 443 Protein_97 F-type conjugal transfer protein TrbF -
HV321_RS28035 (HV321_28035) 76038..77417 + 1380 WP_072158600 conjugal transfer pilus assembly protein TraH traH
HV321_RS28040 (HV321_28040) 77417..79552 + 2136 Protein_99 conjugal transfer mating-pair stabilization protein TraG -
HV321_RS28050 (HV321_28050) 80785..81471 + 687 Protein_101 conjugal transfer protein TraG -
HV321_RS28055 (HV321_28055) 81495..82097 + 603 WP_023280878 hypothetical protein -
HV321_RS28060 (HV321_28060) 82349..83080 + 732 WP_032415736 conjugal transfer complement resistance protein TraT -
HV321_RS30200 83271..83384 + 114 Protein_104 hypothetical protein -
HV321_RS28065 (HV321_28065) 83440..85749 + 2310 WP_032436737 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   2169 GenBank   NZ_JABXPA010000003
Plasmid name   pRHBSTW-00904_3 Incompatibility group   IncFIB
Plasmid size   96966 bp Coordinate of oriT [Strand]   56463..56512 [-]
Host baterium   Klebsiella pneumoniae strain RHBSTW-00904

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   merR, merT, merP, merC, merA, merD, merE
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -