Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   103759
Name   oriT_p712 in_silico
Organism   Ralstonia pickettii
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NC_019318 (32879..32953 [-], 75 nt)
oriT length   75 nt
IRs (inverted repeats)      25..31, 37..43  (TAACCGG..CCGGTTA)
Location of nic site      62..63
Conserved sequence flanking the
  nic site    		  TCCTGCCCGC
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 75 nt

>oriT_p712
CGAATAAGGGACAGTGAAGATAGATAACCGGCTTGCCCGGTTAGCTAACTTCACCCATCCTGCCCGCCTTACGGC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2791 GenBank   WP_015061637
Name   Relaxase_HS994_RS00190_p712 insolico UniProt ID   I3RYN8
Length   740 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 740 a.a.        Molecular weight: 81671.57 Da        Isoelectric Point: 10.6618

>WP_015061637.1 TraI/MobA(P) family conjugative relaxase [Ralstonia pickettii]
MIAKHVPMRSLGKSDFAGLAEYITDAQSKTERLGLVTVTNCQAGTVQAATDEVLATQHMNTRATGDKTFH
LLVSFRAGEKPDTDTLKAIEERICAGLGYGEHQRISAVHHDTDNLHIHIAINKIHPTRNTMHEPFQSYRT
LGELCEVLERDYGLEKDNHTPARSIAEGRAADMERHAGVESLVGWIKRECLEEIKAAQSWTELHEALQAN
GLELRAKGNGFVIEAGDGTQVKASTVARELSKPKLEARFGPFEASPERQAETKAKRQYQKKPVRLRVNTV
ELYARYKADQQTLAATQRAALDKARQRKTRKVEDAKRSNRLRRATIKVLGENRLNKKLLYAQASKALRAE
IDSINKQYQKDRQDCYDAHKRRTWADWLKKEALQGNSEALAALRAREAAQGLKGNTVKGEGQAKPGHAPV
VDNITKKGTIIFRAGKTAVRDDGDKLQVSREATREGLQQALRLAMERYGNRITVNGTAAFKAQIIRAAVD
SQLPITFADPALESRRQALLKKENTHDRPEQDRGRTGRGTGRAGSRPAADDNATRSGINAGGSGRNPAGG
IHAAGQHRKPDIGRIGRVPPPQRKNRLRALSKLGVVRIASGSEVLLPRDVPGHMEQQGTQPDNALRRGVS
GPGGRLDARPEYKPEQVKAMDKYIAEREGKRLKGFDIPKHSRYTDGYGALSFAGMRNVEGQDLALVRRGD
DVMVMPIDQATARRLKRIAIGDAVSITPKGSIKTSKGRSR

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(12-251)

Large polyvalent protein-associated domain 7 (LPD7)

(421-508)


  Protein structure


Source ID Structure
AlphaFold DB I3RYN8


T4CP

ID   2618 GenBank   WP_031942766
Name   t4cp2_HS994_RS00195_p712 insolico UniProt ID   _
Length   634 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 634 a.a.        Molecular weight: 69698.95 Da        Isoelectric Point: 8.4143

>WP_031942766.1 MULTISPECIES: type IV secretory system conjugative DNA transfer family protein [Pseudomonadota]
MKIKMNNAVGPQVRSAKPKPSKLLPTLGVLSLAGGLQASTQFFAHTFQYQASLGPNIGHVYAPWSILQWA
SKWYGHYPNEIMSAGSMGMLVTTVGLLGVAIAKVVASNTSKANEYLHGSARWAEKKDIQAAGLLPRPRTV
LEVVTGKEEATATGVYVGGWEDKDGSFYYLRHSGPEHVLCYAPTRSGKGVGLVVPTMLSWPASAVITDLK
GELWALTAGWRKKHAKNRVLRFEPASSSGGICWNPLDEIRLGTEFEVGDVQNLAQLIVDPDGKGLDSHWQ
KTAFSLLVGVILHALYKAKADGTYATLPSVDAMLADPNRDIGELWMEMTTYGHVDGQNHHAIGSAARDMM
DRPEEEAGSVLSTAKSYLSLYRDPVVARSVSKSEFRIKDLMHQDDPASLYIVTQPNDKARLRPLVRIMVN
MIVRLLADKMDFEDGRPVAHYKHRLLMMLDEFPSLGKLEILQESLAFVAGYGIKCYLICQDINQLKSRET
GYGHDETITSNCHVQNAYPPNRVETAEHLSRLTGQTTIVKEQITTSGRRTAAMLGQVSRTFQEVQRPLLT
PDECLRMPGPRKSATGEIEQAGDMVVYVAGYPAIYGKQPLYFKDPVFQARAAIPAPKVSDKTIHIQDAGQ
GITI

  Protein domains


Predicted by InterproScan.

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

(121-621)

  Protein structure



No available structure.



ID   2619 GenBank   WP_015061655
Name   t4cp2_HS994_RS00300_p712 insolico UniProt ID   _
Length   852 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 852 a.a.        Molecular weight: 94240.21 Da        Isoelectric Point: 6.2436

>WP_015061655.1 MULTISPECIES: VirB4 family type IV secretion/conjugal transfer ATPase [Pseudomonadota]
MIESIAFAIAVLGAVLLLILFARIRAVDAELKLKKHRSKDAGLADLLNYAAMVDDGVIVGKNGSFMAAWL
YKGDDNASSTDEQREMVSFRINQALAGLGSGWMVHVDAVRRPAPNYSDRGHSTFPDPLSAAMDEERRQLF
QGLGTMYEGYFVLTVTWFPPLLAQRKFVELMFDDDAISPDHKARTMGLIKQFKRETTSIESRLSSAVKLT
RLRGQKVVTEEGREVTHDDFLSWLQFCITGLHHPVQLPSNPMYLDALIGGQEMFGGVVPKVGRNFVQVVA
VEGFPLESTPGVLTALGELACEYRWSSRFIFMDQHEAVAHLDKFRKKWRQKVRGFFDQVFNTNSGNIDQD
ALSMVGDAEAAIAEVNSGLVAVGYYTGVVVLMDEDRTRLEQSARQVEKAINRMGFAARIETINTLDAFLG
SLPGHGVENVRRPLINTLNLSDLLPTSTIWTGLANAPCPMYPPLAPALMHCVTHGATPFRLNLHVRDLGH
TFMFGPTGAGKSTHLGLIAAQLRRYAGMSIFAFDKGMSMYPLAAGIRAASKGKSGLHFTVAADDDQLAFC
PLQFLETKGDRAWAMEWIDTILTLNGVETTPGQRNEIGNAILSMHASGAHTLSEFSVTIQDETIREAIRQ
YTVDGTMGHLLDAETDGLSLSDFTVFEIEELMNLGEKFALPVLLYLFRRIERALHGQPAVIILDEAWLML
GHPAFRAKIREWLKVLRKANCLVLMATQSLSDAANSGILDVIVESTATKIFLPNVYARDEDTAALYRRMG
LNARQIEILATAIPKRQYYYVSENGRRLYDLALGPLALAFVGASDKESVATIKSLEAKFGYAWVDEWLAG
RGLNLNDYLEAA

  Protein domains


Predicted by InterproScan.

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

(220-431)

TraG P-loop domain (P-loop_TraG)

(626-754)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 49658..60283

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HS994_RS00220 44765..45097 - 333 WP_172684580 SMR family transporter -
HS994_RS00225 45104..45643 - 540 WP_172684581 TetR/AcrR family transcriptional regulator -
HS994_RS00230 (p712_0450) 45853..46503 + 651 WP_015061642 recombinase family protein -
HS994_RS00235 (p712_0460) 46533..46940 - 408 WP_015061643 hypothetical protein -
HS994_RS00240 (p712_0470) 46985..47416 - 432 WP_031942760 OmpA family protein -
HS994_RS00245 (p712_0480) 47431..48129 - 699 WP_015061645 TraX family protein -
HS994_RS00250 (p712_0490) 48143..48400 - 258 WP_031942758 hypothetical protein -
HS994_RS00255 (p712_0500) 48397..49038 - 642 WP_102636876 transglycosylase SLT domain-containing protein -
HS994_RS00260 (p712_0510) 49053..49640 - 588 WP_015061647 TrbM/KikA/MpfK family conjugal transfer protein -
HS994_RS00265 (p712_0520) 49658..51433 - 1776 WP_031942757 P-type conjugative transfer protein TrbL virB6
HS994_RS00270 (p712_0530) 51441..51665 - 225 WP_015061649 entry exclusion lipoprotein TrbK -
HS994_RS00275 (p712_0540) 51675..52442 - 768 WP_015061650 P-type conjugative transfer protein TrbJ virB5
HS994_RS00280 (p712_0550) 52460..53848 - 1389 WP_015061651 TrbI/VirB10 family protein virB10
HS994_RS00285 (p712_0560) 53852..54301 - 450 WP_015061652 TrbH protein -
HS994_RS00290 (p712_0570) 54303..55196 - 894 WP_015061653 P-type conjugative transfer protein TrbG virB9
HS994_RS00295 (p712_0580) 55215..55979 - 765 WP_015061654 conjugal transfer protein TrbF virB8
HS994_RS00300 (p712_0590) 55976..58534 - 2559 WP_015061655 VirB4 family type IV secretion/conjugal transfer ATPase virb4
HS994_RS00305 (p712_0600) 58531..58842 - 312 WP_015061656 conjugal transfer protein TrbD virB3
HS994_RS00310 (p712_0610) 58846..59307 - 462 WP_015061657 conjugal transfer system pilin TrbC virB2
HS994_RS00315 (p712_0620) 59321..60283 - 963 WP_015061658 P-type conjugative transfer ATPase TrbB virB11
HS994_RS00320 (p712_0630) 60569..60946 - 378 WP_015061659 transcriptional regulator -
HS994_RS00325 (p712_0640) 61063..61404 + 342 WP_031942755 single-stranded DNA-binding protein -
HS994_RS00330 (p712_0650) 61456..62691 + 1236 WP_015061661 plasmid replication initiator TrfA -

Host bacterium

ID   4199 GenBank   NC_019318
Plasmid name   p712 Incompatibility group   -
Plasmid size   62798 bp Coordinate of oriT [Strand]   32879..32953 [-]
Host baterium   Ralstonia pickettii

Cargo genes

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