Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   105948
Name   oriT_M8|pC in_silico
Organism   Ensifer adhaerens strain M8
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP098810 (128849..128883 [+], 35 nt)
oriT length   35 nt
IRs (inverted repeats)      19..24, 29..34  (CGTCGC..GCGACG)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 35 nt

>oriT_M8|pC
TCCAAGGGCGCAATTATACGTCGCTGATGCGACGC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   4010 GenBank   WP_252161520
Name   traA_NE863_RS35540_M8|pC insolico UniProt ID   _
Length   1107 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1107 a.a.        Molecular weight: 123042.23 Da        Isoelectric Point: 9.9099

>WP_252161520.1 Ti-type conjugative transfer relaxase TraA [Ensifer adhaerens]
MAVPHFSVSVVARGSGRSAVLSAAYRHCAKMEYEREARTIDYTRKRGLLHEEFVIPAGAPEWLRSMIADR
SVSGASEAFWNKVEDFEKRSDAQLAKDVTIALPIELTAEQNIALVRDFVELHITAKGMVADWVYHDVPGN
PHVHLMTTLRPLTEDGFGAKKVAVTGPDGNPVRNDAGKIVYELWAGSPDDFNAFRDGWFACQNRHLAMAG
LDIRVDGRSFEKQGIEVEPTIHIGVGATAIDRKAEQAKTRASAGSPKLERIELQEERRSENARRIQRRPE
IVLNLITREKSVFDERDVAKILHRYIDDAALFQSLMVRVLQSPEALRLERERIAFATGIRVPAKYTTREL
IRLEAEMANRAIWLSGRTSHGVREAVLEATFARHSRLSEEQKTAIEHVAGPERIAAVIGRAGAGKTTMMK
AAREAWEAAGYRVVGGALAGKAAEGLEKEAGIASRTLSSWELRWSGGRNQLDAKTIFVLDEAGMVSSRQM
AHLVETVTKAGAKLVLVGDPEQLQPIEAGAAFRAIADRIGYAELETIYRQREQWMRDASLDLARGKIRKA
VDAYTAEGRMIGLRLKDDAIETLIADWSRDYDPAKTTLILAHLRRDVRMLNEMARAELVERGVLGEGFAF
RTEDGHRNFAIGDQIVFLKNEGSLGVKNGMLGKVVEAAQNRIVAEIGEGEHRRQVIVEQRFYGNLDHGYA
TTIHKSQGATVDRVKVLASLSLDRHLTYVAMTRHREDLRVYYGTRSFAFAGGLIKILSRKNAKETTLDYE
KASFYRQALRFAEARGLHIVNVARTVARDRLEWTIRQKQKLADLAHRLLAIGAKLGFAKAPKPTHSQSSK
ETKPMVAGIATFSKTIEQAVADKLESDPGLKKQWEDVSSRFHLVYAQPEAAFKTVNVDAMVRDETVAKST
LAKLASQPESFGALKGKSGLLASRADKQDRERAERNVPTLAQSLGDYMRQRSQAEQRYQAEEVEVRRKVS
IDIPALSPNARQTLERVRDAIDRNDLPAALEFALADKMVKAELEGFAQAVAERFGERTFLPLAAKDTNGE
TFNAITAGMSPGQKAEVQSAWSMMRAVQKLGAHERTTEALKQANTMRQAKSQGLSLK

  Protein domains


Predicted by InterproScan.

MobA/MobL family (MobA_MobL)

(17-243)

AAA domain (AAA_30)

(387-570)

Viral (Superfamily 1) RNA helicase (Viral_helicase1)

(697-741)

BID domain of Bartonella effector protein (Bep) (Bep_C_terminal)

(863-959)


  Protein structure



No available structure.




T4CP

ID   4017 GenBank   WP_252161517
Name   traG_NE863_RS35525_M8|pC insolico UniProt ID   _
Length   660 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 660 a.a.        Molecular weight: 70891.80 Da        Isoelectric Point: 9.5434

>WP_252161517.1 Ti-type conjugative transfer system protein TraG [Ensifer adhaerens]
MTANKLALAGAPVVLMILVVIGMAGIEQWLSAFGKTETARLTLGRAGIAAPYVAAAATGVIFLFASAGAT
SIKFAGWGTAAGSIATILIAVVRETTRLAAFAGYVPAGKSTVSYLDPATMVGGSAALMVGCFALRIALIG
NAAFARAEPKRIRGQRALHGEADWMKMQDAAKLFADTGGIVIGERYRVDKDSTAARSFRADDAETWGAGG
KSPLLCFDGSFGSSHGIVFAGSGGFKTTSVTIPTALKWGGGLVVLDPSNEVAPMVREQRKGAARFIRILD
PKEPETGFNALDWIGRFGGTKEEDIASVASWIMSDSGGARGVRDDFFRASALQLLTALIADVCLSGHTDQ
QHQTLRQVRSNLAEPEPKLRERLQEIYDNSNSDFVKENVAAFVNMTPETFSGVYANAVKETHWLSYPNYA
ALVSGSTFSTDALADGKTDVFINIDLKTLETHAGLARVVIGSFLNAIYNRDGEMKGRALFLLDEVARLGY
MRILETARDAGRKYGITLTMIYQSIGQMRETYGGRDAASKWFESASWISFAAINDPDTADYISKRCGTTT
VEIAQVSRSSQARGSSRTRSKQLAARPLIQPHEVLRMRADEQIVFTAGNAPLRCGRAIWFRRDDMKACVG
TNRFHPSGKTSEARLIQPARSATSKADPGQ

  Protein domains


Predicted by InterproScan.

Type IV secretory system Conjugative DNA transfer (T4SS-DNA_transf)

(163-635)

  Protein structure



No available structure.



ID   4018 GenBank   WP_252161535
Name   t4cp2_NE863_RS35620_M8|pC insolico UniProt ID   _
Length   818 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 818 a.a.        Molecular weight: 92073.72 Da        Isoelectric Point: 5.6760

>WP_252161535.1 conjugal transfer protein TrbE [Ensifer adhaerens]
MVALKRFRAAGPSFADLVPYAGLVDNGVLLLKDGSLMAGWYFAGPDSESATDLERNELSRQINTILSRLG
SGWMIQVEAVRVPTFDYPSDDRCHFPDPVTRAIDAERRAHFGREQEHFESKHALVLTYRPLESKRTALSK
YIYSDEESRKKTYADTVLFIFKNAIREVEQYFANTLSIRRMETREVAERGGERRARYDELLQFVRFCITG
ENHPIRLPDAPMYLDWIATAELEHGLTPKVENRFLGIVAIDGLPAESWPGILNSLDLMPLTYRWSSRFIF
LDAQEARQKLERTRKKWQQKVRPFFDQLFQTQSRSVDQDAMTMVAETEDAIALASSQLVAYGYYTPVIVL
FDHDREGLQEKAEAIRRLIQAEGFGARIETLNATDAYLGSLPGNWYANVREPLINTSNLADLIPLNSVWS
GNPVAPCPFYPANSPPLMQVASGSTPFRLNLHVDDVGHTLIFGPTGSGKSTLLALIAAQFRRYEQAQIFA
FDKGNSLLPLTLATGADHYEIGGDEHDEGRALAFCPLSDLASDADRAWATEWIEMLVALQGVAITPDHRN
AISRQVGLMADAPGRSLSDFVSGVQMREIKDALHHYTVDGPMGQLLDAERDGLSLGAFQTFEIEQLMNMG
ERNLVPVLTYLFRRIEKRLDGSPSLIVLDEAWLMLGHPVFRSKIREWLKVLRKANCAVVLATQSISDAER
SGIIDVLKESCPTKICLPNGAARESGTREFYERIGFNERQIEIVSNAIPKREYYVVTPEGRRLFDMALGP
VALSFVGASGKEDLKRIRTLHSEHGRDWPIQWLQTRGVHDAVSLLDFE

  Protein domains


Predicted by InterproScan.

CagE, TrbE, VirB family, component of type IV transporter system (CagE_TrbE_VirB)

(192-400)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 134017..147517

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
NE863_RS35545 (NE863_35545) 132281..132847 + 567 WP_252161521 conjugative transfer signal peptidase TraF -
NE863_RS35550 (NE863_35550) 132837..134000 + 1164 WP_252161522 conjugal transfer protein TraB -
NE863_RS35555 (NE863_35555) 134017..134631 + 615 WP_252161523 TraH family protein virB1
NE863_RS35560 (NE863_35560) 134940..135356 + 417 WP_252161524 DUF6088 family protein -
NE863_RS35565 (NE863_35565) 135346..136257 + 912 WP_252161525 nucleotidyl transferase AbiEii/AbiGii toxin family protein -
NE863_RS35570 (NE863_35570) 136254..136475 - 222 WP_252161526 helix-turn-helix transcriptional regulator -
NE863_RS35575 (NE863_35575) 136668..136988 + 321 WP_252161527 transcriptional repressor TraM -
NE863_RS35580 (NE863_35580) 136985..137701 - 717 WP_252161600 autoinducer binding domain-containing protein -
NE863_RS35585 (NE863_35585) 138005..139303 - 1299 WP_252161528 IncP-type conjugal transfer protein TrbI virB10
NE863_RS35590 (NE863_35590) 139315..139752 - 438 WP_252161529 conjugal transfer protein TrbH -
NE863_RS35595 (NE863_35595) 139756..140568 - 813 WP_252161530 P-type conjugative transfer protein TrbG virB9
NE863_RS35600 (NE863_35600) 140584..141246 - 663 WP_252161531 conjugal transfer protein TrbF virB8
NE863_RS35605 (NE863_35605) 141268..142443 - 1176 WP_252161532 P-type conjugative transfer protein TrbL virB6
NE863_RS35610 (NE863_35610) 142437..142637 - 201 WP_252161533 entry exclusion protein TrbK -
NE863_RS35615 (NE863_35615) 142634..143437 - 804 WP_252161534 P-type conjugative transfer protein TrbJ virB5
NE863_RS35620 (NE863_35620) 143409..145865 - 2457 WP_252161535 conjugal transfer protein TrbE virb4
NE863_RS35625 (NE863_35625) 145875..146174 - 300 WP_252161536 conjugal transfer protein TrbD virB3
NE863_RS35630 (NE863_35630) 146167..146550 - 384 WP_252161537 TrbC/VirB2 family protein virB2
NE863_RS35635 (NE863_35635) 146540..147517 - 978 WP_252161538 P-type conjugative transfer ATPase TrbB virB11
NE863_RS35640 (NE863_35640) 147527..148150 - 624 WP_252161539 acyl-homoserine-lactone synthase -

Host bacterium

ID   6385 GenBank   NZ_CP098810
Plasmid name   M8|pC Incompatibility group   -
Plasmid size   148523 bp Coordinate of oriT [Strand]   128849..128883 [+]
Host baterium   Ensifer adhaerens strain M8

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   -
Degradation gene   nahI
Symbiosis gene   -
Anti-CRISPR   AcrIIA11b.3