Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   105046
Name   oriT_pC2315-4-KPC in_silico
Organism   Klebsiella pneumoniae strain C2315
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP039831 (136088..136136 [-], 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_pC2315-4-KPC
AATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3532 GenBank   WP_162263844
Name   traI_FBF54_RS28850_pC2315-4-KPC 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: 190542.67 Da        Isoelectric Point: 6.4604

>WP_162263844.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Klebsiella]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMDERWQGKGAEALGIDGKAVDKALFTELLKGKLPDGSDLTRI
QDGANKHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVTEAVRQLETLAATRVMTDGKSETVLTGNL
IVAKFNHDTNRNQEPQIHTHAVVINATQNGDKWQSLGTDKIGKTGFIENVYENQIAFGKLYREAFKPLVE
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)

TrwC relaxase (TrwC)

(10-284)

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

(577-629)

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

(635-714)


  Protein structure



No available structure.




T4CP

ID   3499 GenBank   WP_025712710
Name   traD_FBF54_RS28845_pC2315-4-KPC 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: 135530..164338

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
FBF54_RS28630 (FBF54_28915) 130924..131151 + 228 WP_001568050 hypothetical protein -
FBF54_RS28635 (FBF54_28920) 131243..131473 + 231 WP_001568051 hypothetical protein -
FBF54_RS28640 (FBF54_28925) 131525..132880 + 1356 WP_025712699 DUF3560 domain-containing protein -
FBF54_RS28645 (FBF54_28930) 132928..133491 + 564 WP_117140893 methyltransferase -
FBF54_RS28655 (FBF54_28940) 134314..135135 + 822 WP_023316395 DUF932 domain-containing protein -
FBF54_RS28660 (FBF54_28945) 135168..135497 + 330 WP_011977736 DUF5983 family protein -
FBF54_RS28665 (FBF54_28950) 135530..136015 - 486 WP_001568108 transglycosylase SLT domain-containing protein virB1
FBF54_RS28670 (FBF54_28955) 136447..136839 + 393 WP_004194114 conjugal transfer relaxosome DNA-binding protein TraM -
FBF54_RS28675 (FBF54_28960) 137069..137770 + 702 WP_025712700 hypothetical protein -
FBF54_RS28680 (FBF54_28965) 137856..138056 + 201 WP_046664192 TraY domain-containing protein -
FBF54_RS28685 (FBF54_28970) 138124..138492 + 369 WP_004194426 type IV conjugative transfer system pilin TraA -
FBF54_RS28690 (FBF54_28975) 138506..138811 + 306 WP_004144424 type IV conjugative transfer system protein TraL traL
FBF54_RS28695 (FBF54_28980) 138831..139397 + 567 WP_004144423 type IV conjugative transfer system protein TraE traE
FBF54_RS28700 (FBF54_28985) 139384..140124 + 741 WP_004152497 type-F conjugative transfer system secretin TraK traK
FBF54_RS28705 (FBF54_28990) 140124..141548 + 1425 WP_015065626 F-type conjugal transfer pilus assembly protein TraB traB
FBF54_RS28710 (FBF54_28995) 141622..142206 + 585 WP_020277945 type IV conjugative transfer system lipoprotein TraV traV
FBF54_RS29365 142361..142759 + 399 WP_020277946 hypothetical protein -
FBF54_RS29370 (FBF54_29005) 142830..143078 + 249 WP_223175793 hypothetical protein -
FBF54_RS28720 (FBF54_29010) 143102..143338 + 237 WP_042929429 hypothetical protein -
FBF54_RS28725 (FBF54_29015) 143320..143631 + 312 WP_025712701 hypothetical protein -
FBF54_RS28730 (FBF54_29020) 143698..144102 + 405 WP_004197817 hypothetical protein -
FBF54_RS29040 (FBF54_29025) 144145..144444 + 300 WP_025712702 hypothetical protein -
FBF54_RS28745 (FBF54_29030) 144452..144850 + 399 WP_162263842 hypothetical protein -
FBF54_RS28750 (FBF54_29035) 144922..147561 + 2640 WP_025712704 type IV secretion system protein TraC virb4
FBF54_RS28755 (FBF54_29040) 147561..147950 + 390 WP_013214025 type-F conjugative transfer system protein TrbI -
FBF54_RS28760 (FBF54_29045) 147950..148576 + 627 WP_025712705 type-F conjugative transfer system protein TraW traW
FBF54_RS28765 (FBF54_29050) 148620..149579 + 960 WP_202560610 conjugal transfer pilus assembly protein TraU traU
FBF54_RS28770 (FBF54_29055) 149592..150230 + 639 WP_022644933 type-F conjugative transfer system pilin assembly protein TrbC trbC
FBF54_RS28775 (FBF54_29060) 150289..152244 + 1956 WP_025712707 type-F conjugative transfer system mating-pair stabilization protein TraN traN
FBF54_RS28780 (FBF54_29065) 152276..152530 + 255 WP_020804203 conjugal transfer protein TrbE -
FBF54_RS28785 (FBF54_29070) 152508..152756 + 249 WP_004152675 hypothetical protein -
FBF54_RS28790 (FBF54_29075) 152769..153095 + 327 WP_004144402 hypothetical protein -
FBF54_RS28795 (FBF54_29080) 153116..153868 + 753 WP_004152677 type-F conjugative transfer system pilin assembly protein TraF traF
FBF54_RS28800 (FBF54_29085) 153879..154118 + 240 WP_004144400 type-F conjugative transfer system pilin chaperone TraQ -
FBF54_RS28805 (FBF54_29090) 154090..154647 + 558 WP_004152678 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
FBF54_RS28810 (FBF54_29095) 154693..155136 + 444 WP_025712708 F-type conjugal transfer protein TrbF -
FBF54_RS28815 (FBF54_29100) 155114..156493 + 1380 WP_162263843 conjugal transfer pilus assembly protein TraH traH
FBF54_RS28820 (FBF54_29105) 156493..159336 + 2844 WP_020805032 conjugal transfer mating-pair stabilization protein TraG traG
FBF54_RS28825 (FBF54_29110) 159347..159880 + 534 WP_004197891 hypothetical protein -
FBF54_RS28835 (FBF54_29120) 160288..161017 + 730 Protein_176 conjugal transfer complement resistance protein TraT -
FBF54_RS28840 161210..161899 + 690 WP_014343485 hypothetical protein -
FBF54_RS28845 (FBF54_29130) 162026..164338 + 2313 WP_025712710 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   5484 GenBank   NZ_CP039831
Plasmid name   pC2315-4-KPC Incompatibility group   IncFIA
Plasmid size   175540 bp Coordinate of oriT [Strand]   136088..136136 [-]
Host baterium   Klebsiella pneumoniae strain C2315

Cargo genes

Drug resistance gene   blaKPC-2
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -