Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   115203
Name   oriT_pRsp_Pop5_2 in_silico
Organism   Rhizobium sp. Pop5
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP099401 (198851..198883 [+], 33 nt)
oriT length   33 nt
IRs (inverted repeats)      13..19, 24..30  (ACGTCGC..GCGACGT)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 33 nt

>oriT_pRsp_Pop5_2
AGGGCGCAATATACGTCGCTGTCGCGACGTCCT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   9716 GenBank   WP_258156953
Name   traA_NE852_RS26665_pRsp_Pop5_2 insolico UniProt ID   _
Length   1543 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1543 a.a.        Molecular weight: 169721.17 Da        Isoelectric Point: 9.2281

>WP_258156953.1 Ti-type conjugative transfer relaxase TraA [Rhizobium sp. Pop5]
MAIMFIRAQVISRGAGRSIISAAAYRHRTRMMDEQVGASFNYRGGASDLVHEELALPDCVPNWLHEAIDG
LSVAGASEALWNAVEAFETLGNAQLARELIIALPEELTRAENIALVREFVRDNLTARGMVVDWVYHDKDG
NPHAHVMTTLRPLAEEGFGRKRVTIMGEDGKPLRVVTPDSPNGRIVNRVWAGDRETMKVWKIAWAETANR
HLALAGHEIRLDGRSYAEQGLDGIAQKHVGPGRAALSGKGKELYFAPADLARRQEMADRLLAEPALLLKQ
LSNERSTFDERDIAKALHRYVDDPADFANIRARLMASDELVMLKPQQADAETGKAAEPAIFTTREILRIE
YDMVQSAQILSKRIGFGVSVRHVEAAIKSVETGDPQKALKLDAEQVDAIRHVTGESGIAAVVGLAGAGKS
TLLAAARAAWESEGRRVIGAALSGKAAEGLEDSSGIRSRTLASLELAWAGGRDLLERGNVLVVDEAGMVS
SQQMARVLKVAEDAGAKVVLVGDAMQLQPIQAGAAFRAISERIGFAELSGVRRQRATWAREASRLFARGE
TGKGLDAYAQQGHLVEAETREDIIGRIVGDWTAARRQAIQDSVAAGNDGRLRGDELLVLAHTNDDVKRLN
EALRSVMSDAGALTDARKFQTARGPREFAAGDRIIFLENARFLEPRARHFGPQYVKNGMLGTVISTGDKR
GDPLLSVRLNDGRDVVISEASYGNVDHGYAATIHKSQGVTVDRTFVLATGMMDQHLTYVSMTRHRDRADL
YAAREDFEARPEWERKPHVDHAAGVTGELVETGKAKFRPNDEDADDSPYADVKTDDGSVHRLWGVSLPKA
LDEGGVSAGDTVTLRKDGVERVKVQIPIVDGKTGQKRFEEREVDRNVWTAKRVETAEDRQQRLEQESHRP
ELFKPLVERLSRSGAKTTTLDFESEAGYRAQAQDFARRRGLDHLALAAAGMEEGVGRQLAWIAAKREQVA
KLWERASVALGFAIERERHVSYNEVRSETKTVSGDDAGRGRYLIAPTTVFARSVEEDARRAQLASPAWKE
REAILQPLLEKIYRDPDAALVALNALASNMRVEPRRLADDLAVAPARLGRLRGSELIIEGRAARDERNVA
TAALPELLPLARAHATEFRRNAARFESREQQRRAHMSLSVPGLSRTALKRLVEIEAVRRQGGDDAYKTAF
VFAAEDLAVVQEIKAVSEALTERFGWRAFSSKADAVAERNMAERMPEDLESIRREKLIRLFEAVKRFAEE
QHLAERRDRSKIVAGASAVPAMESGRENVTVPPMLAAVTEFKTSVDDEARSRALAGPLYRQQRAALASVA
RTIWRDPAKVVGKIDDLLAKGFAADRIAAAITKDPAAYGALRGSNRLMDRLLASGRERKAAAQAVPEAAM
RLRSLGSAYASLLDAERQAIIEERRRMAVAIPSLSGAAEDALLRLVNEAKSSGRTLSPSATSLDANIRRE
FAAVSTALDERFGRNAILRQEQGLINRVPPIQHRAFEAMQERLKVLQQAVRMDSSDKIIAERRHRTVSRG
HDH

  Protein domains


Predicted by InterproScan.

MobA/MobL family (MobA_MobL)

(17-246)

AAA domain (AAA_30)

(391-578)

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

(1315-1406)

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

(1045-1127)


  Protein structure



No available structure.




T4CP

ID   11333 GenBank   WP_258156951
Name   traG_NE852_RS26650_pRsp_Pop5_2 insolico UniProt ID   _
Length   639 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 639 a.a.        Molecular weight: 70683.75 Da        Isoelectric Point: 9.2605

>WP_258156951.1 Ti-type conjugative transfer system protein TraG [Rhizobium sp. Pop5]
MGIRGKTHPSLLLVLAPIAVTTITIYIVGWRWSELAAGMSGKMEYWFLRAAPVPPLLFGPLAGLLTVWAL
PLHRRRPVAMASLLCFLGVAAFYALREFSRLAPTVQARVVPWDRALSYLDMVAIAATIAGFLAVAVSARI
SIVVPDEIKRARRGIFGDADWLPMAAAGKLFPPDGEIVVGERYRVDKEIVHELPFDANDRSTWGQGGKAP
LLTYKQDFDSTHMLFFAGSGGYKTTSNVVPTALRYTGPMICLDPSIEVAPMVVEHRTNALGREVMVLDPT
NPTMGFNVLDGIERSSQKEEDIVGIAHMLLSESARFESSTGSYFQSQAHNLLTGLLAHVMLSPEYAGRRN
LRSLREIVSEPEPSVLAMLRDIQENSQSDFIRETLGVFTNMTEQTFSGVYSTASKDTQWLSLDNYAALVC
GKVFKPSDIVSGRKDVFLNIPASILRSYPGIGRVIIGSLINAMMQADGAFRRRALFMLDEVDLLGYMRVL
EEARDRGRKYGISMMLMYQSVGQLERHFGKDGATSWIEGCAFASYAAVKAIDTARTVSAQCGEMTVEVKG
SSRNLGWDSRNGGTRKSESVSFQRRPLIMPHEITQSMRKDEQIIIVQGQSPIRCGRAIYFRRKEMDGVAK
ANRFVKPVT

  Protein domains


Predicted by InterproScan.

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

(171-633)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 177048..186656

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
NE852_RS26500 (NE852_26425) 173476..174131 + 656 Protein_153 hypothetical protein -
NE852_RS26505 (NE852_26430) 174208..175398 + 1191 WP_008530441 hypothetical protein -
NE852_RS26510 (NE852_26435) 176034..176405 - 372 WP_037172833 MarR family transcriptional regulator -
NE852_RS26515 (NE852_26440) 176505..177044 + 540 WP_258156945 hypothetical protein -
NE852_RS26520 (NE852_26445) 177048..177710 + 663 WP_258156946 transglycosylase SLT domain-containing protein virB1
NE852_RS26525 (NE852_26450) 177707..178006 + 300 WP_008530452 TrbC/VirB2 family protein virB2
NE852_RS26530 (NE852_26455) 178014..178352 + 339 WP_008530453 type IV secretion system protein VirB3 virB3
NE852_RS26535 (NE852_26460) 178345..180711 + 2367 WP_258156947 VirB4 family type IV secretion/conjugal transfer ATPase virb4
NE852_RS26540 (NE852_26465) 180708..181409 + 702 WP_258156948 P-type DNA transfer protein VirB5 virB5
NE852_RS26545 (NE852_26470) 181432..181638 + 207 WP_008530460 EexN family lipoprotein -
NE852_RS26550 (NE852_26475) 181642..182574 + 933 WP_008530462 type IV secretion system protein virB6
NE852_RS26555 (NE852_26480) 182615..182905 + 291 WP_008530464 hypothetical protein -
NE852_RS26560 (NE852_26485) 182907..183578 + 672 WP_008530466 virB8 family protein virB8
NE852_RS26565 (NE852_26490) 183575..184432 + 858 WP_008530467 P-type conjugative transfer protein VirB9 virB9
NE852_RS26570 (NE852_26495) 184441..185616 + 1176 WP_258156949 type IV secretion system protein VirB10 virB10
NE852_RS26575 (NE852_26500) 185625..186656 + 1032 WP_258156950 P-type DNA transfer ATPase VirB11 virB11
NE852_RS26580 (NE852_26505) 186825..187016 - 192 WP_128623583 hypothetical protein -
NE852_RS26585 (NE852_26510) 187013..188203 - 1191 WP_008530471 DUF1173 domain-containing protein -
NE852_RS26590 (NE852_26515) 188753..188962 + 210 WP_008530472 hypothetical protein -
NE852_RS26595 (NE852_26520) 188976..190013 + 1038 WP_008530473 toprim domain-containing protein -
NE852_RS26600 (NE852_26525) 190153..190335 - 183 WP_008530475 hypothetical protein -
NE852_RS26605 (NE852_26530) 190334..191272 + 939 WP_008530478 DUF2493 domain-containing protein -

Host bacterium

ID   15638 GenBank   NZ_CP099401
Plasmid name   pRsp_Pop5_2 Incompatibility group   -
Plasmid size   503518 bp Coordinate of oriT [Strand]   198851..198883 [+]
Host baterium   Rhizobium sp. Pop5

Cargo genes

Drug resistance gene   -
Virulence gene   gmd
Metal resistance gene   hupE2
Degradation gene   -
Symbiosis gene   noeL
Anti-CRISPR   -