Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   102534
Name   oriT_pSM149A_Rh13 in_silico
Organism   Rhizobium leguminosarum strain SM149A
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_SIPN01000006 (37193..37242 [-], 50 nt)
oriT length   50 nt
IRs (inverted repeats)      22..27, 32..37  (CGTCGC..GCGACG)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 50 nt

>oriT_pSM149A_Rh13
GGATCCAAGGGCGCAATTATACGTCGCTGACGCGACGCCCTGCTGAAGGG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1885 GenBank   WP_011654745
Name   traA_ELI14_RS35825_pSM149A_Rh13 insolico UniProt ID   Q1M997
Length   1197 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1197 a.a.        Molecular weight: 131887.62 Da        Isoelectric Point: 9.1379

>WP_011654745.1 MULTISPECIES: Ti-type conjugative transfer relaxase TraA [Rhizobium]
MAVPHFSVSIVARGSGRSAVLSAAYRHCAKMEFEREARTIDYSRKQGLLHEEFVIPETAPDWLRSMIADR
SVSGASEAFWNKVEAFEKRADAQLAKDVTIALPVELSNDQNIALVRDFVERHITAKGMVADWVYHDALGN
PHIHLMTTLRPLTEDGFGAKKVAVLAPAGKPVRNDAGKIVYELWAGSTDDFNAFRDGWFACQNRHLALAG
LDIRIDGRSFEKQGIELTPTIHLGVGTKAIERKGDNKTGWGEEKVALERLELQEERRAENARRIQRNPEI
VLDLITREKSVFDERDIAKILYRYIDDAALFQNLMARILQSPQTLRLDRERMDLVTGVRAPSKYTTRELI
RLEAQMANQAIWLSQRSSHGVRHAVLSGVFSRHDRLSDEQKTAIEHVAGPERIAAVIGRAGAGKTTMMKA
ARQAWEAAGYRVVGGALAGKAAEGLEKEAGIASRTLSAWELRWDQERDRLDEKSVFVLDEAGMVSSRQMA
RFVEAVTVSGAKLVLVGDPEQLQPIEAGAAFRAISGRIGYAELETIYRQREQWMRDASLDLARGNVSAAL
DAYAQRDMVRTGWTRDEAITALIADWDHEYDPAKSTLILAHRRIDVRLLNEMARSKLVERGLIEAGHAFK
TEDGTRQLAAGDQIVFLKNEGSLGVKNGMLARVVDAQPGRIVAEIGNGEDRRRVVVEQRFYANVDHGYAT
TVHKSQGATVDRVKVLASSTLDRHLSYVAMTRHRETAELYVGLEEFAQRRGGVLIAHGEAPYEHKPGNRD
SYYVTLGFADGQERTVWGVDLARAMDASGARIGDRIGLKHVGSQRVTLPDGTEVDRNSWKVVPVEELAMA
RLHERLSRPGSKETTLDYQDASHYRAALRFAEARSLHLMNVARTIAHDQLQWTIRQSSKLAELGARLVAV
AAKLGLGGAKSTVSTTSAIKEAKPMVSGTTTFPRSIGQAAEDKLSADPGLKASWQEVSARFHHVFADPQA
AFKTVNVDAMLANGTVAATTIVQIAEQPESFGALKGKTGLFAGSAEKRAHDTALVNAPALARDLQGFIAK
RAEAASRYEDEERAVRTKLSLDIPALSASAKQVLERVRDAIDRNDIPAGLEFALADKMVKAELEGFAKAV
SERFGERTFLPLAAKTADGKAFEVASAGMQPAQKNELRSAWDTIRTVQQLAAHERTAVALKQAEAIRQTQ
TKGLSLK

  Protein domains


Predicted by InterproScan.

AAA domain (AAA_30)

(386-572)

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

(953-1047)

Viral (Superfamily 1) RNA helicase (Viral_helicase1)

(696-739)

MobA/MobL family (MobA_MobL)

(17-243)


  Protein structure


Source ID Structure
AlphaFold DB Q1M997


T4CP

ID   1486 GenBank   WP_011654760
Name   t4cp2_ELI14_RS35740_pSM149A_Rh13 insolico UniProt ID   _
Length   811 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 811 a.a.        Molecular weight: 90895.34 Da        Isoelectric Point: 5.8208

>WP_011654760.1 MULTISPECIES: conjugal transfer protein TrbE [Rhizobium]
MVALRTFRSTGPSFADLVPYAGLVDNGILLLKDGSLMAGWYFAGPDSESATDFERNELSRQINSILSRLG
TGWMIQVEAVRVPTTEYPSAERSHFPDAVTLLIDHERRRHFGQERGHFESRHALILTYRPPERRRSGLTR
YIYSDNESRSAKYADTALDAFRRSIREIEQYLGNVLSVQRMQTREVSERDGARVARYDELFQFIRFAITG
ENHPVRLPEIPMYLDWLATAELEHGLTPRVEGRFLGVIAIDGLPAESWPGILNSLNLMPLTYRWSSRFIF
LDAEEAKQRLERARKKWQQKVRPFFDQLFQTQSRSVDQDAMAMVAETEDAIAEASSQLVAYGYYTPVIVL
FDESRSALQEKAEAVRRLIQAEGFGARIETLNATDAFLGSLPGNWYCNIREPLINTRNLADLVPLNSVWS
GQPFAPCPFYPPDAPPLMQVASGSTPFRLNLHVDDVGHTLIFGPTGSGKSTLLALIAAQFCRYEKAQVFA
FDKGNSMLTLTLGVGGDHYEIGGESGEGASLAFCPLSELSTDADRAWASEWIETLVSLQGVTIAPDHRNA
ISRQIGLMASAPGRSLSDFVSGVQMREIKDALHHYTVDGPMGLLLDAEEDGLTLGRFQCFEIEQLMNMGE
RNLVPVLTYLFRRIEKRLDGSPSLIVLDEAWLMLGHPVFRDKIREWLKVLRKANCAVILATQSISDAERS
GIIDVLKESCPTKICLPNGAARETGTREFYERIGFNARQIEIVANAIPKREYYVTSPDGRRLFDMSLGPV
TLSFVGASGKADLARIRALSSTHGLEWPGQWLIERGINRNE

  Protein domains


Predicted by InterproScan.

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

(186-400)

Helicase HerA, central domain (DUF87)

(457-492)

  Protein structure



No available structure.



ID   1487 GenBank   WP_011654742
Name   traG_ELI14_RS35840_pSM149A_Rh13 insolico UniProt ID   _
Length   650 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 650 a.a.        Molecular weight: 70597.42 Da        Isoelectric Point: 9.7031

>WP_011654742.1 MULTISPECIES: Ti-type conjugative transfer system protein TraG [Rhizobium]
MTPKRILVAGIPAVAMVAIALTFPGIERWLSAFGTTDQAKLMLGRIGLALPYALAGACGVMFLFGTKGSI
NVKTSGWSVAAGGLGVIAVAALREGSRLLTFASQVPARRTLLSYADPSTIIGAGTALLVTFFALRVARMG
NAAFTRSEPRRIRGKRALHGEADWMTMQEAEKLFPETGGIVIGERYRVDRDDPAATSFRPGEPTSWGRGG
SPPLLCFDGSFGSSHGIVFAGSGGFKTTSVTIPTALKWGGSLVVLDPSNEVAPMVMEHRRKAGRRVIVLD
PKNAQSGFNALDWIGRHGGTKEEDIAAVASWIMSDSGRATGVRDDFFRASGLQLLTAMIADVCLSGHTDE
KHQTLRQVRANLSEPEPKLRARLQEIYDNSASDFVKENVAAFVNMTPETFSGVYANAIKETHWLSYANYG
ALVSGSSFSTEALADGETDVFINIDLKALETHAGLARVIIGSFLNAIYHRDGAIKGRALFLLDEVARLGY
MRVLETARDAGRKYGITLTMIYQSIGQLRETYGGRDASSKWFESASWISFAAINDPETADYISRRCGTTT
VEIDQVSRSFQSRGSSRTRSKQLASRQLIQPHEVLRMRADEQIVFTAGNAPLRCGRAIWFRRSDMKSCVG
ENRFQQRGDRPEVSASAEPN

  Protein domains


Predicted by InterproScan.

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

(163-635)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 16568..31796

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
ELI14_RS35710 (ELI14_35705) 12528..13745 - 1218 WP_011654635 plasmid replication protein RepC -
ELI14_RS35715 (ELI14_35710) 13920..14879 - 960 WP_011654634 plasmid partitioning protein RepB -
ELI14_RS35720 (ELI14_35715) 15003..16199 - 1197 WP_011654633 plasmid partitioning protein RepA -
ELI14_RS35725 (ELI14_35720) 16568..17533 + 966 WP_011654763 P-type conjugative transfer ATPase TrbB virB11
ELI14_RS35730 (ELI14_35725) 17523..17915 + 393 WP_011654762 TrbC/VirB2 family protein virB2
ELI14_RS35735 (ELI14_35730) 17908..18207 + 300 WP_011654761 conjugal transfer protein TrbD virB3
ELI14_RS35740 (ELI14_35735) 18218..20653 + 2436 WP_011654760 conjugal transfer protein TrbE virb4
ELI14_RS35745 (ELI14_35740) 20646..21455 + 810 WP_011654759 P-type conjugative transfer protein TrbJ virB5
ELI14_RS35750 (ELI14_35745) 21452..21652 + 201 WP_028744197 entry exclusion protein TrbK -
ELI14_RS35755 (ELI14_35750) 21646..22827 + 1182 WP_011654758 P-type conjugative transfer protein TrbL virB6
ELI14_RS35760 (ELI14_35755) 22849..23511 + 663 WP_011654757 conjugal transfer protein TrbF virB8
ELI14_RS35765 (ELI14_35760) 23527..24357 + 831 WP_011654756 P-type conjugative transfer protein TrbG virB9
ELI14_RS35770 (ELI14_35765) 24361..24807 + 447 WP_011654755 conjugal transfer protein TrbH -
ELI14_RS35775 (ELI14_35770) 24823..26121 + 1299 WP_011654754 IncP-type conjugal transfer protein TrbI virB10
ELI14_RS35780 (ELI14_35775) 26323..26622 + 300 WP_011654753 transcriptional repressor TraM -
ELI14_RS35785 (ELI14_35780) 26623..27327 - 705 WP_011654752 autoinducer binding domain-containing protein -
ELI14_RS35790 (ELI14_35785) 27615..29234 + 1620 WP_130749038 hypothetical protein -
ELI14_RS35795 (ELI14_35790) 29224..30219 + 996 WP_011654750 alpha/beta hydrolase -
ELI14_RS35800 (ELI14_35795) 30362..30541 + 180 WP_018010295 hypothetical protein -
ELI14_RS35805 (ELI14_35800) 30538..31155 + 618 WP_011654749 hypothetical protein -
ELI14_RS35810 (ELI14_35805) 31179..31796 - 618 WP_011654748 TraH family protein virB1
ELI14_RS35815 (ELI14_35810) 31812..32978 - 1167 WP_011654747 conjugal transfer protein TraB -
ELI14_RS35820 (ELI14_35815) 32968..33534 - 567 WP_011654746 conjugative transfer signal peptidase TraF -

Host bacterium

ID   2978 GenBank   NZ_SIPN01000006
Plasmid name   pSM149A_Rh13 Incompatibility group   -
Plasmid size   42773 bp Coordinate of oriT [Strand]   37193..37242 [-]
Host baterium   Rhizobium leguminosarum strain SM149A

Cargo genes

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