Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   117751
Name   oriT_pBDA134-6 in_silico
Organism   Klebsiella sp. BDA134-6
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP064785 (133101..133147 [+], 47 nt)
oriT length   47 nt
IRs (inverted repeats)      4..11, 14..21  (GCAAAATT..AATTTTGC)
Location of nic site      30..31
Conserved sequence flanking the
  nic site    		  GGTGTGGTGA
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 47 nt

>oriT_pBDA134-6
TCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   11283 GenBank   WP_195729733
Name   traI_IYV58_RS27925_pBDA134-6 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: 190702.74 Da        Isoelectric Point: 6.4586

>WP_195729733.1 conjugative transfer relaxase/helicase TraI [Klebsiella sp. BDA134-6]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSLEERWQGKGAEALGLDGKAVDKAVFTELLKGKLPDGSDLTRM
QDGANKHRPGYDLTFSAPKSVSVMAMLGGDRRLIDAHNQAVTEAVRQIETLAATRVMTDGKSETVLTGNL
IVAKFNHDTNRNQEPQLHTHAVVINATQNGDKWQSLGTDTVGKTGFIENVYANQIAFGKIYRELFKPLVE
KLGYETEVVGKHGMWEMKDVPVEPFSTRSQELREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMN
TLKETGFDIRGYREAADGRAAALSSAPPAPVKTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLE
AKPGVFDLARTGIDAAIEREQLIPLDREKGLFTSNIHVLDELSVKALSQEVQRQNHVSVTPDASEVRQAP
FSDAVSVLAQDRPTMGIVSGQGGAAGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDARLAGETVT
GKSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKESGVNTY
RWQGGKQATADIISEPDKGARYSRLAEEFAVSVREGQESVAQISGTREQSVLNNVIRGTLKNEGVLGNRE
MTVTALTPVWLDSKNRGVRDYYREGMVMERWDPETRKHDRFVIDRVTASSNMLTLKDREGGRLDLKVSAV
DSQWTLFRTDKLPVAEGERLAVLGKIPDTRLKGGESVTVLRMDKDQLTVQRPGQKTTQTLPVGSSPFDGI
KVGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHIRLYSAQDAARTTEKLTRHTAFSVVSE
QLKARSGETDLEAAIAQQKAGLHTPAEQAIHLSIPLLESNSLTFTRPQLLATALETGGGKVPMAEIEATI
QAQIKAGSLLNVPVSPGHGNDLLISRQTWDAEKSILTRVLEGKDAVAPLMDRVPASLMTDLTAGQRAATR
MILESTDRFTVVQGYAGVGKTTQFKAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLH
DMQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIAAGGGRAVPSGDTDQLPPIPSGQPFRLTQQR
SAADVAIMKEIVRQVPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGAWAPGSSVVEFTPKQEKAIE
KALSEGKTLPAGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRTLNGMIHNARRENGETGKEEITL
PVLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDRVNQLITLTDSEGKERYISPREASAEGVTL
YRQEKITVSQGDRMRFSKSDPERGYVANSIWEVQSVSGDSVTLSDGKLTRTLTPKADQAQQHIDLAYAIT
AHGAQGASEPYAIALEGVVGGREQMASFESAYVALSRMKQHVQVYTDSREGWVNAIRSSPSKATAHDILE
PRNDRTIKNAGQLFGRAKPLDEIAAGRAALQQSGLARGSSPGKFISPGKKYPQPHVALPAFDKNGKEAGI
WLSPLTDRDGRLEAIGGEGRVMGDESARFVALQNSRNGESLLAGNMSEGVRTARDHPDSGVIVRLAGDDR
PWNPQAITGGRIWADPLPNLPLPDTGADITLPPDVLAQRAAEEAQRREMERQAEQATREVAGEEKKTGEP
GERIKEVIGDVIRGLERDSPGEEKARLPDDPQTRRQEAAIQQVVSESLQRERLQQMERDMVRDLNREKTL
GGD

  Protein domains


Predicted by InterproScan.

AAA domain (AAA_30)

(971-1157)

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

(577-629)

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

(635-714)

DNA helicase TraI (TraI_C)

(1433-1555)

TrwC relaxase (TrwC)

(10-284)


  Protein structure



No available structure.




T4CP

ID   13172 GenBank   WP_195729734
Name   traD_IYV58_RS27930_pBDA134-6 insolico UniProt ID   _
Length   773 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 773 a.a.        Molecular weight: 86636.67 Da        Isoelectric Point: 4.9767

>WP_195729734.1 type IV conjugative transfer system coupling protein TraD [Klebsiella sp. BDA134-6]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTSFVLAAVVSLVICIVTFFVASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGQASDIKIGDLPILLNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPMDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDQPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKVAEGFIQRTFDTRVDARLNALLAAREAEGSLARMLFTPDAPEAEHADQGSKAGAQHEPVKQPE
PAEGTVSPVPVTALSAAKTPAAEDPVKSPETLRPEVSDTRITTVPLIRTKPASSATGTAAAAAGVTAHTG
GTEQELAQQSADVGQEMMPAGMNEDGEIEDMQAYDAWLADELTQRDMQRREEVNINHSHRRDEQDDIEIG
GNF

  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: 105695..130752

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
IYV58_RS27930 (IYV58_27930) 105695..108016 - 2322 WP_195729734 type IV conjugative transfer system coupling protein TraD virb4
IYV58_RS27935 (IYV58_27935) 108211..108942 - 732 WP_075912709 conjugal transfer complement resistance protein TraT -
IYV58_RS27940 (IYV58_27940) 109083..109673 - 591 WP_139316161 hypothetical protein -
IYV58_RS27945 (IYV58_27945) 109689..112511 - 2823 WP_195729735 conjugal transfer mating-pair stabilization protein TraG traG
IYV58_RS27950 (IYV58_27950) 112511..113881 - 1371 WP_075912707 conjugal transfer pilus assembly protein TraH traH
IYV58_RS27955 (IYV58_27955) 113868..114296 - 429 WP_075912706 conjugal transfer protein TrbF -
IYV58_RS27960 (IYV58_27960) 114289..114789 - 501 WP_265090827 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
IYV58_RS27965 (IYV58_27965) 114833..115072 - 240 WP_075912704 type-F conjugative transfer system pilin chaperone TraQ -
IYV58_RS27970 (IYV58_27970) 115508..115921 - 414 WP_139316160 hypothetical protein -
IYV58_RS27975 (IYV58_27975) 115956..116708 - 753 WP_075912702 type-F conjugative transfer system pilin assembly protein TraF traF
IYV58_RS27980 (IYV58_27980) 116729..117055 - 327 WP_075912701 hypothetical protein -
IYV58_RS27985 (IYV58_27985) 117297..117530 - 234 WP_075912699 conjugal transfer protein TrbE -
IYV58_RS27990 (IYV58_27990) 117520..117801 - 282 WP_049071714 hypothetical protein -
IYV58_RS27995 (IYV58_27995) 117834..119708 - 1875 WP_075912698 type-F conjugative transfer system mating-pair stabilization protein TraN traN
IYV58_RS28000 (IYV58_28000) 119705..120322 - 618 WP_075912697 type-F conjugative transfer system pilin assembly protein TrbC trbC
IYV58_RS28005 (IYV58_28005) 120335..121318 - 984 WP_170873323 conjugal transfer pilus assembly protein TraU traU
IYV58_RS28010 (IYV58_28010) 121337..121963 - 627 WP_075912695 type-F conjugative transfer system protein TraW traW
IYV58_RS28015 (IYV58_28015) 121960..122352 - 393 WP_195729737 type-F conjugative transfer system protein TrbI -
IYV58_RS28020 (IYV58_28020) 122352..124991 - 2640 WP_075912693 type IV secretion system protein TraC virb4
IYV58_RS28025 (IYV58_28025) 125072..125482 - 411 WP_195729738 hypothetical protein -
IYV58_RS28030 (IYV58_28030) 125479..125883 - 405 WP_142473651 hypothetical protein -
IYV58_RS28035 (IYV58_28035) 125880..126101 - 222 WP_195729739 hypothetical protein -
IYV58_RS28040 (IYV58_28040) 126125..126418 - 294 WP_195729740 hypothetical protein -
IYV58_RS28445 126488..126892 - 405 WP_227676971 hypothetical protein -
IYV58_RS28050 (IYV58_28050) 127058..127624 - 567 WP_195729741 type IV conjugative transfer system lipoprotein TraV traV
IYV58_RS28055 (IYV58_28055) 127719..129134 - 1416 WP_195729742 F-type conjugal transfer pilus assembly protein TraB traB
IYV58_RS28060 (IYV58_28060) 129134..129874 - 741 WP_195729743 type-F conjugative transfer system secretin TraK traK
IYV58_RS28065 (IYV58_28065) 129861..130427 - 567 WP_075912683 type IV conjugative transfer system protein TraE traE
IYV58_RS28070 (IYV58_28070) 130447..130752 - 306 WP_020323523 type IV conjugative transfer system protein TraL traL
IYV58_RS28075 (IYV58_28075) 130766..131131 - 366 WP_142469910 type IV conjugative transfer system pilin TraA -
IYV58_RS28080 (IYV58_28080) 131192..131395 - 204 WP_171972759 TraY domain-containing protein -
IYV58_RS28085 (IYV58_28085) 131549..132223 - 675 WP_195729744 conjugal transfer protein TrbJ -
IYV58_RS28090 (IYV58_28090) 132411..132797 - 387 WP_195729745 conjugal transfer relaxosome DNA-binding protein TraM -
IYV58_RS28095 (IYV58_28095) 133292..133714 + 423 WP_195729803 transglycosylase SLT domain-containing protein -
IYV58_RS28100 (IYV58_28100) 133736..134278 - 543 WP_195729746 antirestriction protein -
IYV58_RS28105 (IYV58_28105) 134273..134752 + 480 WP_195729804 hypothetical protein -
IYV58_RS28110 (IYV58_28110) 134903..135067 - 165 Protein_130 SAM-dependent DNA methyltransferase -
IYV58_RS28115 (IYV58_28115) 135101..135331 - 231 WP_049071029 hypothetical protein -

Host bacterium

ID   18184 GenBank   NZ_CP064785
Plasmid name   pBDA134-6 Incompatibility group   IncFIB
Plasmid size   149270 bp Coordinate of oriT [Strand]   133101..133147 [+]
Host baterium   Klebsiella sp. BDA134-6

Cargo genes

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