Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   115458
Name   oriT_p15732-KPC in_silico
Organism   Serratia marcescens strain 201315732
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_MN823984 (3667..3715 [-], 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_p15732-KPC
AATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   9899 GenBank   WP_064291677
Name   traI_H5G99_RS00205_p15732-KPC insolico UniProt ID   A0A6I4Y321
Length   1753 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1753 a.a.        Molecular weight: 190676.77 Da        Isoelectric Point: 6.3386

>WP_064291677.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacterales]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMDERWQGKGAEALGIDGKAVDKALFTELLKGKLPDGSDLTRI
QDGANKHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVTEAVRQLETLAATRVMTDGKSETVLTGNL
IVAKFNHDTNRNQEPQIHTHAVVINATQNGDKWQSLGTDKIGKTGFIENVYANQIAFGKLYREAFKPLVE
KLGYETEVVGKHGMWEMKGVPVEPFSTRSQEVREAAGPDASLKSRDVAALDTRKSKDAIDPAEKMVEWMN
TLKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLE
AKDGVFELARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVP
FSDAVSVLAQDRPVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVT
GKSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTY
RWQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKD
TTITALTPVWLDSKSRGVRDYYREGMVMERWDPETRTHDRFVIDRVTGSSNMLTLKDREGVRLDLKVSAV
DSQWTLFRADTLPVAEGERLAVLGKIPDTRLKGGESITVMKVEEGQLTVQRPGQKTTQTLAVGAGVFDGI
KIGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSE
QLKTRSGETDLDAAIAQQKAGLRTPAEQAIHLAIPLLESEKLTFSRPQLLATALETGGGKVSMADIDTTI
QAQIRSGQLLNVPVAHGYGNDLLISRQTWDAEKSILTHVLEGKDAVAPLMDRVPASLMTDLTAGQRAATR
MILESTDRFTVVQGYAGVGKTTQLRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLH
DTQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIVAGGGRAVSSGDNDQLQPIAPGQPFRLTQQR
SAADVAIMKEIVRQMPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGAWAPGSSVVEFTPKQEKAIE
KALSEGKTLPEGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITL
PVLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKANQLITLTDSEGKERYISPREASAEGVTL
YRQEKITVSQGDRMRFSKSDLERGYVANSIWEVQSVSGDSVTLSDGKLTRTLTPKADQAQQHIDLAYAIT
AHGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDNREGWIKAIKHSPEKATAHDILE
PRNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGSSPGKFISPGKKYPQPHVALPAFDKNGKAAGI
WLSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDR
PWNPGAMTGGRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEP
ADRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEEAIQQVASERLQRERLQAVERDMVRDLNREKTL
GGD

  Protein domains


Predicted by InterproScan.

TrwC relaxase (TrwC)

(10-284)

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

(577-629)

AAA domain (AAA_30)

(971-1157)

DNA helicase TraI (TraI_C)

(1433-1555)

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

(635-714)


  Protein structure



No available structure.




T4CP

ID   11539 GenBank   WP_072101984
Name   traD_H5G99_RS00200_p15732-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: 85967.95 Da        Isoelectric Point: 5.0577

>WP_072101984.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacterales]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTSFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDDDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSREIS
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDTPASGPADTDSHASEQPEPVSPPA
PAVMTVTPAPVKSPPTTKRPAAEPSVRATEPPVLRGTTVPLIKPKAAAAATAASTASSAGAPAAAAGGTE
QELAQQSAEQGQDMLPAGMNEDGVIEDMQAYDAWLTDEQTQRDMQRREEVNINHSHRHDEQDDVEIGGNF

  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: 3109..31582

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
H5G99_RS00010 61..381 + 321 WP_004152720 type II toxin-antitoxin system RelE/ParE family toxin -
H5G99_RS00015 371..649 + 279 WP_004152721 helix-turn-helix transcriptional regulator -
H5G99_RS00020 650..1063 + 414 WP_069985713 type II toxin-antitoxin system HigA family antitoxin -
H5G99_RS00025 1893..2714 + 822 WP_023287138 DUF932 domain-containing protein -
H5G99_RS00030 2747..3076 + 330 WP_071994324 DUF5983 family protein -
H5G99_RS00035 3109..3594 - 486 WP_032440470 transglycosylase SLT domain-containing protein virB1
H5G99_RS00040 4026..4418 + 393 WP_004194114 conjugal transfer relaxosome DNA-binding protein TraM -
H5G99_RS00045 4648..5349 + 702 WP_004194113 hypothetical protein -
H5G99_RS00050 5435..5635 + 201 WP_004194116 TraY domain-containing protein -
H5G99_RS00055 5704..6072 + 369 WP_004194426 type IV conjugative transfer system pilin TraA -
H5G99_RS00060 6086..6391 + 306 WP_004144424 type IV conjugative transfer system protein TraL traL
H5G99_RS00065 6411..6977 + 567 WP_004144423 type IV conjugative transfer system protein TraE traE
H5G99_RS00070 6964..7704 + 741 WP_013023821 type-F conjugative transfer system secretin TraK traK
H5G99_RS00075 7704..9128 + 1425 WP_004194260 F-type conjugal transfer pilus assembly protein TraB traB
H5G99_RS00080 9201..9785 + 585 WP_032440547 type IV conjugative transfer system lipoprotein TraV traV
H5G99_RS00085 10108..10326 + 219 WP_004195468 hypothetical protein -
H5G99_RS00090 10327..10638 + 312 WP_029497417 hypothetical protein -
H5G99_RS00095 10705..11109 + 405 WP_004197817 hypothetical protein -
H5G99_RS00100 11488..11886 + 399 WP_023179972 hypothetical protein -
H5G99_RS00105 11958..14597 + 2640 WP_013214024 type IV secretion system protein TraC virb4
H5G99_RS00110 14597..14986 + 390 WP_004167468 type-F conjugative transfer system protein TrbI -
H5G99_RS00115 14986..15621 + 636 WP_029497419 type-F conjugative transfer system protein TraW traW
H5G99_RS00120 15656..16057 + 402 WP_004194979 hypothetical protein -
H5G99_RS00125 16054..17043 + 990 WP_029497420 conjugal transfer pilus assembly protein TraU traU
H5G99_RS00130 17056..17694 + 639 WP_069985712 type-F conjugative transfer system pilin assembly protein TrbC trbC
H5G99_RS00135 17753..19708 + 1956 WP_030003482 type-F conjugative transfer system mating-pair stabilization protein TraN traN
H5G99_RS00140 19740..19994 + 255 WP_004152674 conjugal transfer protein TrbE -
H5G99_RS00145 19972..20220 + 249 WP_004152675 hypothetical protein -
H5G99_RS00150 20233..20559 + 327 WP_004152676 hypothetical protein -
H5G99_RS00155 20580..21332 + 753 WP_004152677 type-F conjugative transfer system pilin assembly protein TraF traF
H5G99_RS00160 21343..21582 + 240 WP_004144400 type-F conjugative transfer system pilin chaperone TraQ -
H5G99_RS00165 21554..22111 + 558 WP_013214031 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
H5G99_RS00170 22157..22600 + 444 WP_004194305 F-type conjugal transfer protein TrbF -
H5G99_RS00175 22578..23957 + 1380 WP_014343487 conjugal transfer pilus assembly protein TraH traH
H5G99_RS00180 23957..26806 + 2850 WP_013609534 conjugal transfer mating-pair stabilization protein TraG traG
H5G99_RS00185 26809..27342 + 534 WP_014343486 conjugal transfer protein TraS -
H5G99_RS00190 27528..28259 + 732 WP_004152629 conjugal transfer complement resistance protein TraT -
H5G99_RS00195 28452..29141 + 690 WP_072101983 hypothetical protein -
H5G99_RS00200 29270..31582 + 2313 WP_072101984 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   15891 GenBank   NZ_MN823984
Plasmid name   p15732-KPC Incompatibility group   -
Plasmid size   107763 bp Coordinate of oriT [Strand]   3667..3715 [-]
Host baterium   Serratia marcescens strain 201315732

Cargo genes

Drug resistance gene   blaKPC-2
Virulence gene   -
Metal resistance gene   merE, merD, merA, merP, merT, merR
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIE9