Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   114686
Name   oriT_pSR7 in_silico
Organism   Aminobacter sp. SR38
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP062119 (92526..92565 [-], 40 nt)
oriT length   40 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: 40 nt

>oriT_pSR7
TCCAAGGGCGCAATTATACGTCGCTGACGCGACGCCTTGC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   9421 GenBank   WP_192321735
Name   traA_IG197_RS33790_pSR7 insolico UniProt ID   _
Length   1100 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1100 a.a.        Molecular weight: 123039.76 Da        Isoelectric Point: 9.9870

>WP_192321735.1 Ti-type conjugative transfer relaxase TraA [Aminobacter sp. SR38]
MAVPHFSVSIVSRGDGRSVVLSAAYRHCAKMEYEREARSVDYTRKQGLLHEAFSVPPDAPQWLRSLIADC
SVAGASEAFWNKVEAFEKRSDAQLAKDITIALPLELSAEQNIALVRDFVERRILARGMVADWVYHDAPGN
PHVHLMMTLRPLTEDGFGSKKVAVMGENGEVLRTKTGKIVYELWAGGIDDFTALRDAWFEIQNQHLALGG
IDLRVDGRSYAERGIDLVPTTHIGVGAKAIQRKSAREGHEMSLERIELLEARRKENASRILKRPEIVLDI
VSSEKSVFDERDIAKILHRYVDDAVTFQQLMVRILQSPEALRIERDGIDLATGAKIRSRYTTRELIRIEA
KMAKQSLWLSQRTSHGVRQKVLDSVLARHAQLSQEQRVAIEHVVDEARIAAVVGRAGAGKTTMMKAAREV
WELAGYRVVGAALAGKAAEGLEKEAGIVSRTLASWELRWKQGRDLLDKSTVFVVDEAGMVASKQMALVVE
AATLAGAKLALVGDPEQLQPIEAGAAFRAIVDRIGYAELETIYRQREEWMRAASLDLARGHVAQAIHAYG
EHGRVRGSELKAQAIDSLIGDWNSDYDPTKTTLILAHLRRDVRALNSLARARLVERGIVGVGHDFRTDDG
LRQFDAGDQIVFLKNETSLGVKNGMIGRVVEAAPNRIVAAIGEGEHRRLVTVEQRFYPNIDHGYATTIHK
SQGATVDRVKVLASLSLDRHLTYVAMTRHREDMALYYGRRSFAKVGGLETILSRTNAKETTLDYERGTLY
RQALRFAENRGLHISRVARTLVRDRLDWMLRQKERLTDLVQRFRVHGERLGLLQSPTTQIRNRAEPMVAG
VTVFARSLADVVEERLLADPALAKQWEEMSTRFRYVFADPEAAFRAMDFNALLTNHKAAQRTLAQLVSEP
ASLGAFKGRTGLLASKADKEARRVAEVNVPALKRDIERYLQMRTVAAERIEKEEQAHRHRLSIEIPALSP
AARSVLETIREAIDRNDLPAALAHIRDNREVRLEIDGFNRAIAERLGERTLLGNAARVASGAHFDKAAEG
LRAGEREKLRDAWPLMRVAQQIAAHERTTQALTQVAQLRMAQRQGLAWKL

  Protein domains


Predicted by InterproScan.

AAA domain (AAA_30)

(381-568)

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

(855-951)

MobA/MobL family (MobA_MobL)

(17-243)


  Protein structure



No available structure.




T4CP

ID   10947 GenBank   WP_192321737
Name   traG_IG197_RS33805_pSR7 insolico UniProt ID   _
Length   641 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 641 a.a.        Molecular weight: 69100.28 Da        Isoelectric Point: 9.1021

>WP_192321737.1 Ti-type conjugative transfer system protein TraG [Aminobacter sp. SR38]
MTASKLLLAVTPATLMIASLFGSTGAGDWLAAFGMNDGARLILGHGVLALPCILSATVGIIFLFAAAGAA
NIKAAGWGVVTGSTVAILIAMVRETMRLSMLTGHLPVGQSALFYADPASILGVLVALFSGLFGFRVAVIG
NAAFARGAPRRIRGKRAVHGEAEWMSMQVAQRLFPDTGGIVVGERYRVDRDSVSAMAFRAYSKESWGAGG
RSPLLCFDGSFGSCHGMVFAGSGGFKTTSVTIPTALKWAGSLVVLDPSSEVAPMVIAHRRRAGRNVVVLD
PAEATIGFNALDWIGRFGSTKEEDIVAVATWVMTDNARQTSARDDFFRASALQLLTALIADVCLSGHTGP
KDQTLRQVRSNLSEPEPKLRERLTQIHQQSASAFVKENVAVFVNMTPETFSGVYANAVKETHWLSYPNYA
ALVSGEAFTTDDLANGGTDLFIALDLKVLGAHPGLARVIIGALMNAIYNRKGAVAAKTLFVLDEVARLGY
LSILETARDAGRKYGLTLIMIFQSIGQMREAYGGRDATSKWFESASWISFAAINDPDTADYISRRCGDTT
VEVDQVSRTSQTSGSSRSRSKQLYRRPLILPDEVMRMRSDEQIVFTAGNPPLRCGRAVWFRRDDMTGCVR
QNRFHLNEDEA

  Protein domains


Predicted by InterproScan.

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

(163-635)

  Protein structure



No available structure.



ID   10948 GenBank   WP_192321346
Name   t4cp2_IG197_RS34270_pSR7 insolico UniProt ID   _
Length   825 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 825 a.a.        Molecular weight: 91990.81 Da        Isoelectric Point: 6.0389

>WP_192321346.1 conjugal transfer protein TrbE [Aminobacter sp. SR38]
MAALRPFRHSGPSFADLVPYAGLIANGVILLKDGSLMAGWYFAGPDSESSTDAERNEISRQINAILSRLG
SGWMVQVEAVRLPTVAYPATAECHFPDPVTRAIDAERRAHFEREKGHYESRHALILTYHPPTRQRSGLTR
YLYSDPDSRAATYADKVLETFQTAIREVEQYLANVLSIRRMETRSAEERGGFLTAHYDELFQFIRFCITG
ENHPVRLPDIPMYLDWLVTAELQHGLTPIVESRFLGVVAIDGLPAESWPGILNSLDLMPLTYRWSSRFMF
LDDQEARQKLERTRKKWQQKIRPFFDQLFQTQSRSIDQDALTMVAETEDAIAQASSQLVAYGYYTPVIVL
FDESSTRLRENCEAVRRLIQAEGFGARIETLNATEAFLGSLPGNWYANVREPLIHTRNLSDLIPLNSVWS
GSPIAPCPFYPPASPPLMQVASGSTPFRLNLHVDDVGHTLIFGPTGSGKSTLLALIVAQFRRYPGAQIFA
FDKGRSMLPLTLAAGGDHYEIGADSDISTGEGASSVSALAFCPLSDLATDADRAFASEWIETLVALQGIS
ITPDHRNAISRQVALLTDARGRSLSDFVSGVQMREIKEALHHYTVDGPMGQLLDAESDGLSLGSLQTFEI
EELMNMGERNLVPVLTYLFRKIEKRLTGAPSLIVLDEAWLMLGHPTFRDKIREWLKVLRKANCAVVLATQ
SISDAERSGIIDVLKESCPTKICLPNGAAREAGTREFYQRIGFNERQIEIVATAVPKREYYVASPEGRRL
FDMSLGPLTLSFVGVTGKQDLQRILALKREHGADWPIYWLEMRGIAHAAAFFPST

  Protein domains


Predicted by InterproScan.

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

(195-400)

Helicase HerA, central domain (DUF87)

(457-492)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 207343..216933

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
IG197_RS34245 (IG197_34245) 202855..204060 - 1206 WP_067969602 plasmid partitioning protein RepA -
IG197_RS34255 (IG197_34255) 207343..208314 + 972 WP_192321344 P-type conjugative transfer ATPase TrbB virB11
IG197_RS34260 (IG197_34260) 208304..208675 + 372 WP_067969593 TrbC/VirB2 family protein virB2
IG197_RS34265 (IG197_34265) 208668..208967 + 300 WP_067969590 conjugal transfer protein TrbD virB3
IG197_RS34270 (IG197_34270) 208980..211457 + 2478 WP_192321346 conjugal transfer protein TrbE virb4
IG197_RS34275 (IG197_34275) 211483..212238 + 756 WP_246765525 P-type conjugative transfer protein TrbJ virB5
IG197_RS34280 (IG197_34280) 212247..212447 + 201 WP_246765553 entry exclusion protein TrbK -
IG197_RS34285 (IG197_34285) 212441..213631 + 1191 WP_192321352 P-type conjugative transfer protein TrbL virB6
IG197_RS34290 (IG197_34290) 213649..214311 + 663 WP_192321354 conjugal transfer protein TrbF virB8
IG197_RS34295 (IG197_34295) 214329..215180 + 852 WP_192321356 P-type conjugative transfer protein TrbG virB9
IG197_RS34300 (IG197_34300) 215182..215616 + 435 WP_192321358 conjugal transfer protein TrbH -
IG197_RS34305 (IG197_34305) 215629..216933 + 1305 WP_192321360 IncP-type conjugal transfer protein TrbI virB10
IG197_RS34310 (IG197_34310) 217384..218085 + 702 WP_192321362 autoinducer binding domain-containing protein -
IG197_RS34315 (IG197_34315) 218314..218793 + 480 WP_192321364 transposase -
IG197_RS34320 (IG197_34320) 218949..219578 + 630 WP_192321366 hypothetical protein -
IG197_RS34325 (IG197_34325) 220146..221162 + 1017 WP_192321368 YihY/virulence factor BrkB family protein -

Host bacterium

ID   15121 GenBank   NZ_CP062119
Plasmid name   pSR7 Incompatibility group   -
Plasmid size   359029 bp Coordinate of oriT [Strand]   92526..92565 [-]
Host baterium   Aminobacter sp. SR38

Cargo genes

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