Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   102846
Name   oriT_pCR14_3 in_silico
Organism   Klebsiella pneumoniae strain CR14
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP015395 (91978..92027 [+], 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_pCR14_3
AAATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2118 GenBank   WP_004153029
Name   traI_A6P37_RS29850_pCR14_3 insolico UniProt ID   A0A422WEA5
Length   1753 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1753 a.a.        Molecular weight: 190808.90 Da        Isoelectric Point: 6.2081

>WP_004153029.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacteriaceae]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMDERWQGKGAEALGIDGKAVDKALFTELLKGKLPDGSDLTRI
QDGANRHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVTEAVRQLETLAATRVMTDGKSETVLTGNL
IVAKFNHDTNRNQEPQIHTHAVVINATQNGDKWQSLGTDKIGKTGFIENVYANQIAFGKLYREAFKPLVE
KLGYETEVVGKHGMWEMKGVPVEPFSTRSQEVREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMN
TLKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLE
AKDGVFDLARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVP
FSDAVSVLAQDRLVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVT
GKSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTY
RWQGGQQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKD
TTITALTPVWLDSKSRGVRDYYREGMVMERWDPENRTHDRFVIDRVTASSNMLTLKDRDGVRLDLKVSAV
DSQWTLFRAETLPVAEGERLAVLGKIPDTRLKGGESITVMKVEEGQLTVQRPGQKTTQTLAVGAGVFDGI
KIGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSE
QLKSRSGETDLDAAIAQQKAGLHTPAEQAIHLAIPLLESQDLTFSRPQLLATAMETGGGKVSMADIDTTI
QAQIRSGQLLNVPVAHGYGNDLLISRQTWDAEKSILTHVLEGKDAVAPLMDRVPASLMTDLTAGQRAATR
MILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLH
DTQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIVAGGGRAVSSGDNDQLQPIAPGQPFRLMQQR
SAADVAIMKEIVRQMPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGAWAPGSSVVEFTPKQEKAIE
KALSEGKTLPEGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITL
PVLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSEGKERFISPREASAEGVTL
YRQEKITVSQGDRMRFSKSDPERGYVANSIWEVQSVSGDSVTLSDGKITRTLTPKAEQAQQHIDLAYAIT
AHGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDNREGWIKAIKNSPEKATAHDILE
PRNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGSSPGKFISPGKKYPQPHVALPAFDKNGKAAGI
WLSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDR
PWNPGAMTGGRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKKAEQTAREMAGEARKAGEP
ADRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEEAIQQVASERLQRERLQAVERDMVRDLNREKTL
GGD

  Protein domains


Predicted by InterproScan.

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)

AAA domain (AAA_30)

(971-1157)

TrwC relaxase (TrwC)

(10-284)


  Protein structure



No available structure.




T4CP

ID   1782 GenBank   WP_004152630
Name   traD_A6P37_RS29855_pCR14_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: 85951.02 Da        Isoelectric Point: 5.0632

>WP_004152630.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTGFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSREIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKITEGFIPRRLDTRVDARLSALLEEREAEGSLARALFTPDAPASGPADTDSHAGEQPEPVSQPA
PADMTVSPAPVKAPPTTKMPAAEPSVRATEPPVLRVTTVPLIKPKAAAAAAAASTASSAGIPAAAAGGTE
QELAQQSAEQGQDMLPAGMNEDGVIEDMQAYDAWADEQTQRDMQRREEVNINHSHRHDEQDDVEIGGNF

  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: 64212..92585

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
A6P37_RS29855 (A6P37_29495) 64212..66521 - 2310 WP_004152630 type IV conjugative transfer system coupling protein TraD virb4
A6P37_RS29860 (A6P37_29500) 66881..67612 - 732 WP_004152629 conjugal transfer complement resistance protein TraT -
A6P37_RS29865 (A6P37_29505) 67802..68329 - 528 WP_004153030 hypothetical protein -
A6P37_RS29870 (A6P37_29510) 68335..71184 - 2850 WP_004178054 conjugal transfer mating-pair stabilization protein TraG traG
A6P37_RS29875 (A6P37_29515) 71184..72554 - 1371 WP_004178055 conjugal transfer pilus assembly protein TraH traH
A6P37_RS29880 (A6P37_29520) 72541..72969 - 429 WP_004152689 hypothetical protein -
A6P37_RS29885 (A6P37_29525) 72962..73534 - 573 WP_004152688 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
A6P37_RS29890 (A6P37_29530) 73506..73745 - 240 WP_004152687 type-F conjugative transfer system pilin chaperone TraQ -
A6P37_RS29895 (A6P37_29535) 73756..74508 - 753 WP_004152686 type-F conjugative transfer system pilin assembly protein TraF traF
A6P37_RS29900 (A6P37_29540) 74529..74855 - 327 WP_004152685 hypothetical protein -
A6P37_RS32765 (A6P37_29545) 74901..75086 - 186 WP_004152684 hypothetical protein -
A6P37_RS29910 (A6P37_29550) 75083..75319 - 237 WP_004152683 conjugal transfer protein TrbE -
A6P37_RS29915 (A6P37_29555) 75351..77306 - 1956 WP_004153093 type-F conjugative transfer system mating-pair stabilization protein TraN traN
A6P37_RS29920 (A6P37_29560) 77354..77992 - 639 WP_004152682 type-F conjugative transfer system pilin assembly protein TrbC trbC
A6P37_RS29925 (A6P37_29565) 78005..78964 - 960 WP_015065634 conjugal transfer pilus assembly protein TraU traU
A6P37_RS29930 (A6P37_29570) 79008..79634 - 627 WP_004152590 type-F conjugative transfer system protein TraW traW
A6P37_RS29935 (A6P37_29575) 79634..80023 - 390 WP_004152591 type-F conjugative transfer system protein TrbI -
A6P37_RS29940 (A6P37_29580) 80023..82662 - 2640 WP_004152592 type IV secretion system protein TraC virb4
A6P37_RS29945 (A6P37_29585) 82734..83132 - 399 WP_004153071 hypothetical protein -
A6P37_RS29955 (A6P37_29590) 83428..83832 - 405 WP_004152594 hypothetical protein -
A6P37_RS29960 (A6P37_29595) 83899..84216 - 318 WP_004152595 hypothetical protein -
A6P37_RS29965 84217..84435 - 219 WP_004171484 hypothetical protein -
A6P37_RS29970 (A6P37_29600) 84459..84749 - 291 WP_004152596 hypothetical protein -
A6P37_RS29975 (A6P37_29605) 84754..85164 - 411 WP_004152597 lipase chaperone -
A6P37_RS29980 85296..85865 - 570 WP_004152598 type IV conjugative transfer system lipoprotein TraV traV
A6P37_RS29985 (A6P37_29610) 85888..86484 - 597 WP_004152599 conjugal transfer pilus-stabilizing protein TraP -
A6P37_RS29990 (A6P37_29615) 86477..87901 - 1425 WP_004233801 F-type conjugal transfer pilus assembly protein TraB traB
A6P37_RS29995 (A6P37_29620) 87901..88641 - 741 WP_004152497 type-F conjugative transfer system secretin TraK traK
A6P37_RS30000 (A6P37_29625) 88628..89194 - 567 WP_004144423 type IV conjugative transfer system protein TraE traE
A6P37_RS30005 (A6P37_29630) 89214..89519 - 306 WP_004144424 type IV conjugative transfer system protein TraL traL
A6P37_RS30010 (A6P37_29635) 89533..89901 - 369 WP_004152496 type IV conjugative transfer system pilin TraA -
A6P37_RS30015 (A6P37_29640) 89955..90341 - 387 WP_004152495 TraY domain-containing protein -
A6P37_RS30020 (A6P37_29645) 90420..91106 - 687 WP_004152494 transcriptional regulator TraJ family protein -
A6P37_RS30025 (A6P37_29650) 91280..91678 - 399 WP_004152493 conjugal transfer relaxosome DNA-binding protein TraM -
A6P37_RS30030 (A6P37_29655) 92100..92585 + 486 WP_001568108 transglycosylase SLT domain-containing protein virB1
A6P37_RS30035 92618..92947 - 330 WP_011977736 DUF5983 family protein -
A6P37_RS30040 (A6P37_29660) 92980..93801 - 822 WP_004152492 DUF932 domain-containing protein -
A6P37_RS30055 (A6P37_29665) 94621..95454 - 834 WP_004152751 N-6 DNA methylase -
A6P37_RS30060 (A6P37_29670) 95505..95651 - 147 WP_004152750 hypothetical protein -
A6P37_RS30065 (A6P37_29675) 95746..96093 - 348 WP_004152749 hypothetical protein -
A6P37_RS30070 (A6P37_29680) 96150..96503 - 354 WP_004152748 hypothetical protein -
A6P37_RS30085 (A6P37_29685) 97133..97483 - 351 WP_004153414 hypothetical protein -

Host bacterium

ID   3289 GenBank   NZ_CP015395
Plasmid name   pCR14_3 Incompatibility group   IncFIB
Plasmid size   116419 bp Coordinate of oriT [Strand]   91978..92027 [+]
Host baterium   Klebsiella pneumoniae strain CR14

Cargo genes

Drug resistance gene   blaTEM-1A, blaOXA-9, blaKPC-2
Virulence gene   -
Metal resistance gene   merA, merD, merE
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIE9