Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   102576
Name   oriT_pSM130A_Rh08 in_silico
Organism   Rhizobium leguminosarum strain SM130A
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_SIOG01000007 (96474..96507 [-], 34 nt)
oriT length   34 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: 34 nt

>oriT_pSM130A_Rh08
TCCAAGGGCGCAATTATACGTCGCTGGCGCGACG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1924 GenBank   WP_130679584
Name   traA_ELH81_RS31195_pSM130A_Rh08 insolico UniProt ID   _
Length   1108 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1108 a.a.        Molecular weight: 123120.17 Da        Isoelectric Point: 9.8201

>WP_130679584.1 Ti-type conjugative transfer relaxase TraA [Rhizobium leguminosarum]
MAVPHFSVSVVARGSGRSAVLSAAYRHCARMEFEREARTIDYTRKQGLLHEEFVIPADAPEWVRSMIADR
SVAGASEAFWNKVEGFEKRSDAQLAKDVTIALPLELTAEQNIALMRDFVERHITAQGMVADWVYHDVLGN
PHVHLMTTLRPLTEDGFGSKKVAVLGPDGKPIRNDAGKIVYQLWAGNTDDFNAFRDGWFACQNKHLALAG
LDLRIDGRSFERQGIDLEPTIHLGVGTKAIERKAEQSDHKSETSTPKLERIALQEERRSENARRIQRRPE
IVLDLITREKSVFDERDVAKVLYRYIDDVALFQSLMVRILQSREALRLERERINFATGIRTPAKYTTREM
IRLEAEMANRAIWLSGRASHGVREEVLQATFARHSRLSDEQRTAIEHVAGGERIAAVIGRAGAGKTTMMK
AAREAWETAGYRVVGGALAGKAAEGLEREAGIVSRTLSSWELRWNQGRNQLDDKTVFVLDEAGMVSSRQM
ALFVEAVTKAGAKLVLVGDPEQLQPIEAGAAFRAIADRIGYAELETIYRQRQQWMRDASLDLARGNVRKA
VDAYTAHGRMIGLRLKDEAVESLIAAWDRDYDPSKTSLILAHLRRDVRKLNDMARAKLVERSVIADGSAF
KTEDGTRMFAAGDQIVFLKNEGSLGVKNGMLAKVIEATPGRVVAELGEGEHRRLVTIEQRFYNNLDHGYA
TTIHKSQGATVDRVKVLASLSLDRHLTYVAMTRHREDLAVYYGSRSFAKSGGLIPILSRRNAKETTLDYE
KASFYGQALRFAEARGFHLVNVARTIADDRLQWAVRQKQKLADLGARLAAIAAALGLVRGSNKHSIPNTI
KEAKPMVSGITTFPKSLDQAVEDKLAADPGLKKQWEDVSTRFQLVYANPEAAFKAINVDTMLKDQSVAQS
TLARVAGEPESFGALKGKTGLLASRGDKQDREKAIANVPALARNLERYLRERAEAEFKHETEERAVRLKV
SVDIPALSPAAKQTLERVRDAIDRNDLPAGLEYALADKMVKAELEGFAKAVSERFGERTFLSLAAKDTSG
KTFETVTAGMTAGQKAEVQSAWNSMRTVQQLAAYERTTEALKQAETLRQTKSQGLSLK

  Protein domains


Predicted by InterproScan.

Viral (Superfamily 1) RNA helicase (Viral_helicase1)

(695-740)

MobA/MobL family (MobA_MobL)

(17-243)

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

(864-960)

AAA domain (AAA_30)

(387-570)


  Protein structure



No available structure.




T4CP

ID   1550 GenBank   WP_130679568
Name   t4cp2_ELH81_RS31100_pSM130A_Rh08 insolico UniProt ID   _
Length   816 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 816 a.a.        Molecular weight: 91622.37 Da        Isoelectric Point: 5.9765

>WP_130679568.1 conjugal transfer protein TrbE [Rhizobium leguminosarum]
MVALKRFRVTGPSFADLVPYAGLVDNGVLLLKDGSLMAGWYFAGPDSESATDLERNELSRQINAVLSRLG
SGWMIQVEAIRIPTVDYPTEDRCHFPDPVTRAIDAERRAHFAREQGHFESKHALILTYRPLESKKTALSK
YIYSDEESRKKSYADTVLFVFKNAVRELEQYFSNTLSIRRMETRETVERGGERIARYDELLQFARFCTTG
ESHPIRLPDVPMYLDWIATAELEHGLTPKVENRFLGVVAIDGLPAESWPGILNSLDLMPLTYRWSSRFIF
LDAEEARQKLERTRKKWQQKVRPFFDQIFQTQSRSVDQDAMTMVAETEDAIAQASSQLVAYGYYTPVVVL
FDSDREALQEKAEAVRRLIQAEGFGARIETLNATDAYLGSLPGNWYCNIREPLINTSNLADLIPLNSVWS
GNPVAPCPFYAPNSPPLMQVASGSTAFRLNLHVDDVGHTLIFGPTGSGKSTLLALIAAQFRRYEHAQIFA
FDKGSSLLPLTLAAGGDHYEIGGDSVEEGRALAFCPLSELKSDADRAWATEWIEMLVGLQGVTITPDHRN
AISRQIGLMASASGRSLSDFVSGVQLREIKDALHHYTVDGPMGQLLDAEEDGLTLGAFQTFEIEQLMNMG
ERNLVPALTYLFRRIEKRLEGSPSLILLDEAWLMLGHPVFRDKIREWLKVLRKANCAVVLATQSISDAER
SGIIDVLKESCPTKICLPNGAAREFGTREFYERIGFNERQIEIVATAMPKREYYVATPEGRRLFDMSLGP
VALSFVGASGKEDLKRIRALKSEHGRHWPIHWLETRGVHDAASLFK

  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.



ID   1551 GenBank   WP_130679587
Name   traG_ELH81_RS31210_pSM130A_Rh08 insolico UniProt ID   _
Length   644 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 644 a.a.        Molecular weight: 69275.44 Da        Isoelectric Point: 9.3423

>WP_130679587.1 Ti-type conjugative transfer system protein TraG [Rhizobium leguminosarum]
MTINRIALVVVPAALMILAVIGMTGIEHGLSGIGKTETARLAWGRAGIALPYLASAAVGILFLFATAGSI
SIKQAGWGVVAGCSGTILIAALRESMRLATFTKALPADKTVFAYLDPATSIGMVAAFMCACFAVRVAFIG
NAAFASAAPKRIRGKRALHGEADWMKLTEAAKLFAEAGGIVIGERYRVDKDSAAAQAFSADSADTWGAGG
KSPLLCFDGSFGSSHGIVFAGSGGFKTTSVTIPTALKWGGTLIVLDPSNEVAPMVSAHRGGAGRDVFVLD
PRKPDIGFNVLDWVGRFGGTKEEDIASVASWIMSDNGGARGVRDDFFRASALQLLTALIADVCLSGHTDE
KEQTLRQVRMNLSEPEPTLRKRLQDIYDNSGSDFVKENVAAFVNMTPETFSGVYANAVKETHWLSYPNYA
ALVSGKKFSTSDIAAGNTDVFINIDLKTLETHSGLARVIIGSFLNAIYNRDGQIKGRALFLLDEVARLGY
MRIIETARDAGRKYGITLTMIYQSIGQMRETYGGRDAASKWFESASWISFAAINDPETADYISRRCGMTT
VEIDQVSRNFQAKGSSRTRSKQLAARPLIQPHEVLRMRADEQIVFTAGNAPLRCGRAIWFRRDDMKASVG
PNRFHMIGDTPKPA

  Protein domains


Predicted by InterproScan.

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

(163-634)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 75619..91335

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
ELH81_RS35895 70665..70808 - 144 Protein_52 replication initiation protein RepC -
ELH81_RS31065 (ELH81_31065) 70946..72160 - 1215 WP_130679561 plasmid replication protein RepC -
ELH81_RS31070 (ELH81_31070) 72352..73386 - 1035 WP_130679562 plasmid partitioning protein RepB -
ELH81_RS31075 (ELH81_31075) 73383..74606 - 1224 WP_130679563 plasmid partitioning protein RepA -
ELH81_RS31080 (ELH81_31080) 74985..75608 + 624 WP_130679564 acyl-homoserine-lactone synthase -
ELH81_RS31085 (ELH81_31085) 75619..76596 + 978 WP_130679565 P-type conjugative transfer ATPase TrbB virB11
ELH81_RS31090 (ELH81_31090) 76586..76969 + 384 WP_130679566 TrbC/VirB2 family protein virB2
ELH81_RS31095 (ELH81_31095) 76962..77261 + 300 WP_130679567 conjugal transfer protein TrbD virB3
ELH81_RS31100 (ELH81_31100) 77272..79722 + 2451 WP_130679568 conjugal transfer protein TrbE virb4
ELH81_RS31105 (ELH81_31105) 79700..80497 + 798 WP_130679569 P-type conjugative transfer protein TrbJ virB5
ELH81_RS31110 (ELH81_31110) 80494..80694 + 201 WP_130679570 entry exclusion protein TrbK -
ELH81_RS31115 (ELH81_31115) 80688..81869 + 1182 WP_130679571 P-type conjugative transfer protein TrbL virB6
ELH81_RS31120 (ELH81_31120) 81890..82552 + 663 WP_130679572 conjugal transfer protein TrbF virB8
ELH81_RS31125 (ELH81_31125) 82570..83382 + 813 WP_130679573 P-type conjugative transfer protein TrbG virB9
ELH81_RS31130 (ELH81_31130) 83386..83826 + 441 WP_130742952 conjugal transfer protein TrbH -
ELH81_RS31135 (ELH81_31135) 83838..85124 + 1287 WP_130685537 IncP-type conjugal transfer protein TrbI virB10
ELH81_RS31140 (ELH81_31140) 85308..86048 + 741 WP_130679576 LuxR family transcriptional regulator -
ELH81_RS31145 (ELH81_31145) 86154..86852 + 699 WP_130762841 autoinducer binding domain-containing protein -
ELH81_RS31150 (ELH81_31150) 86856..87146 - 291 WP_130679578 transcriptional repressor TraM -
ELH81_RS31155 (ELH81_31155) 87438..87686 + 249 WP_130679579 helix-turn-helix transcriptional regulator -
ELH81_RS31160 (ELH81_31160) 87807..88439 + 633 WP_130679580 DUF433 domain-containing protein -
ELH81_RS31165 (ELH81_31165) 88436..88809 + 374 Protein_73 DUF5615 family PIN-like protein -
ELH81_RS31170 (ELH81_31170) 89100..89927 + 828 WP_245487467 aminoglycoside phosphotransferase family protein -
ELH81_RS31175 (ELH81_31175) 90085..90534 - 450 WP_130679913 GNAT family N-acetyltransferase -
ELH81_RS31180 (ELH81_31180) 90715..91335 - 621 WP_130679581 TraH family protein virB1
ELH81_RS31185 (ELH81_31185) 91352..92515 - 1164 WP_130679582 conjugal transfer protein TraB -
ELH81_RS31190 (ELH81_31190) 92505..93014 - 510 WP_245487465 conjugative transfer signal peptidase TraF -

Host bacterium

ID   3020 GenBank   NZ_SIOG01000007
Plasmid name   pSM130A_Rh08 Incompatibility group   -
Plasmid size   213806 bp Coordinate of oriT [Strand]   96474..96507 [-]
Host baterium   Rhizobium leguminosarum strain SM130A

Cargo genes

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