Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   121679
Name   oriT_MEALZ_p in_silico
Organism   Methylotuvimicrobium alcaliphilum 20Z
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NC_016108 (113939..114045 [+], 107 nt)
oriT length   107 nt
IRs (inverted repeats)     _
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 107 nt

>oriT_MEALZ_p
CCGGCCAGCCTCGCAGAGCAGGATGTCCGTTGAGTGCGTAGCGCGAATAAGGTCAGTGAAGCAGGAACATCCCGCTTGCGGGTGGGCCTACTTCACACATCCTGCCC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   13677 GenBank   WP_014133162
Name   traI_MEALZ_RS20415_MEALZ_p insolico UniProt ID   G4T4Q0
Length   733 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 733 a.a.        Molecular weight: 81219.07 Da        Isoelectric Point: 10.7259

>WP_014133162.1 TraI/MobA(P) family conjugative relaxase [Methylotuvimicrobium alcaliphilum]
MIAKHVPMRSLGKSNFAGLADYITDAQEKTERLGAVQVTNCEAGTVQAAIAEALATQHLNTRAKGDKTYH
LLVSFRTGEKPGVDTLRAIEERICMGLGYGEHQRISAVHYDTDNLHIHIAINKIHPTRHTMHEPYYPHKT
LAELCTILERDYRLEPDNHIPRKSGSENRAADMERHAGVESLLGWIKRECLDEIRSAATWTDLHRVMHEN
GLELRERGNGFVIEAGDGTRVKASTLSRELSKSKLEDRLGPFEASPQRQTQAKRHYQKSPIRLRVDTVEL
YAKYKAEQQTSTAARAAELDKARKRKERRIEAAKQSSRLRRTAIKTLTEGRLVKKLLYAQASQALRNEIQ
SINKQYRRERQGFYDAFRRRTWADWLKQEAMQGSAEALTALRAREASQGLKGNTVKGDGQARPGSGQAPT
LDNITKKGTIIFRAGRSAVRDDGDRLQISREASHEGLQQALTLAMERYGSRITVNGAAEFKAQIIRAAVD
SRLPITFADPILESRRQALLIKEHSHDKRTAQHRVRAGRGIGRSESGVAADRHATRSELYGRAGGGRGTG
GNVSAGVSRKPDIGGIGRVPPPQSRHRLRGLSQLGVVRIAGGSEVLLPRDVSGHLEQQGAKPDNALRRGV
SGAGVSPEQITAAKKYIDEREQKRLKINDIPKHNLYNGQKGAFAYAGVRTVEGQALALLKQGDDVMVMPI
DQATTRRLKRVGIGDFITITPIGSIKTTSGRSR

  Protein domains


Predicted by InterproScan.

Large polyvalent protein-associated domain 7 (LPD7)

(422-508)

Relaxase/Mobilisation nuclease domain (Relaxase)

(12-251)


  Protein structure


Source ID Structure
AlphaFold DB G4T4Q0


Auxiliary protein

ID   7539 GenBank   WP_014133163
Name   WP_014133163_MEALZ_p insolico UniProt ID   G4T4Q1
Length   122 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 122 a.a.        Molecular weight: 13687.84 Da        Isoelectric Point: 9.8890

>WP_014133163.1 conjugal transfer transcriptional regulator TraJ [Methylotuvimicrobium alcaliphilum]
MEHKKKTRKSTPPIKVYCLPEERELIEGNARAAGMSLSSFLMTVGQGYKITGIVDYEQVRELARINGDLG
RLGGLLKLWLTDDVRTAHFSDATIRALLNRIEATQNEMGRVMKSIVQPRAES

  Protein domains



No domain identified.



  Protein structure


Source ID Structure
AlphaFold DB G4T4Q1


T4CP

ID   15984 GenBank   WP_046061750
Name   t4cp2_MEALZ_RS20095_MEALZ_p insolico UniProt ID   _
Length   846 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 846 a.a.        Molecular weight: 94086.42 Da        Isoelectric Point: 6.5919

>WP_046061750.1 VirB4 family type IV secretion/conjugal transfer ATPase [Methylotuvimicrobium alcaliphilum]
MIEVLAIMIAVLGVVLLLMLFARIRSVDAELKLKKYRSKDAGLGDLLNYAAVVDDGVIVGKNGSFMAAWI
YKGDDNASSTDAQREMVSFRINQALVGLGSGWMVHVDAVRRPAPNYAELGLSHFPDPVSAAIDEERRRLF
ERLGTMYEGYFVLTLTWFPPVLAQRKFVELMFDDNTPAPNHRARTTGLITQFKREITSIEERLLTAITMT
RLRGQKVVTEEGASVTHDDFLSWIQFCITGKHHPVQLPSNPMYLDALIGGQELRTGVVPKIGRSLIQVVA
IEGFPLESTPGILSALGELSCDYRWSSRFIFMDQHEAVAHLDKFRKKWRQKVRGFFDQVFNTNTGPIDQD
ALSMVEDAESAIAEVNSGFVAMGYYTSVVILMHEDRTRLEAIARQVEKAINRLGFVARIETTNTMDAYLG
SLPGHGVENVRRPLINTMNLADLLPTSTIWTGSATAPCPLYPPMSQALMHCVTHGATPFRLNLHVRDVGH
TFMFGPTGAGKSTHLAIIAAQLRRYAGMSIYAFDKGMSIYPLTKAVGGLHFSVAGDGESLAFCPLQFLET
RGDRAWAMEWIDTILALNGLITTPEQRNKIGHAILSMSGTQSRTLSDFSTTVQDLPIREALQQYTIGSSM
GYLLDAEEDGLSLSSFTTFEIEELMGLGDKFALPVLLYLFRRIERSLHGQPAVIILDEAWLMLGHPVFRD
KIREWLKVLRKANCLVLMATQSLSDAANSGILDVIVESTATKIFLPNVYARDEDTAALYRRMGLNARQIE
ILATAIPKQQYYYVSEYGRRLYDLALGPLALSLAGASDKDSVAAIKNLETKFGDRWVHEWLAGRGLKLND
YLEPAI

  Protein domains


Predicted by InterproScan.

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

(221-431)

TraG P-loop domain (P-loop_TraG)

(620-747)

  Protein structure



No available structure.



ID   15985 GenBank   WP_014133161
Name   t4cp2_MEALZ_RS20410_MEALZ_p insolico UniProt ID   _
Length   633 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 633 a.a.        Molecular weight: 69709.54 Da        Isoelectric Point: 7.3054

>WP_014133161.1 type IV secretory system conjugative DNA transfer family protein [Methylotuvimicrobium alcaliphilum]
MSTKHHNAVGPQVRRKKQGNKLLPALGVLSLGGGLQAATQYFAAAFNYQESLGVHINHVYSPWSILQWGT
AWYSQYPNEFMQAGSVGILVSTTGLLSVAVAKVIASNSSKATEHLHGSARWAGEQDIQAAGLLPRPRTFL
EAVTGKESPSSTGVYVGGWEDNQGKFYYLRHNGPEHVLTYAPTRSGKGVGLVVPTLLSWPASAVITDLKG
ELWALTAGWRKRHAKNKVLNFAPASVSGGVCWNPLDEIRTGTEYEVGDVQNLAALIVDPDGKGLESHWQK
TAFALLVGVILHALYKAKQEGTQATLPSVDAMLADPNRDIAELWMEMVTYGHYQNGENHPAIGSAARDMM
DRPEEEAGSVLSTAKSYLALYRDPVVAKNVSQSEFRIKDLMNHDDPVSLYIVTQPNDKSRLKPLVRVMVN
MIVRLLADKMEFENGRPVAHYKHRLLLMLDEFPSLGKLEILQESLAFVAGYGIKCYLICQDINQLKSRET
GYGHDEQITSNCHVQNAYPPNRIETAEHLSRLTGQTTVIKEQITTSGRRTAAMMGQVSRTIQEVQRPLLT
ADECLRMPGPRKNAAGEIEEAGDMVIYVAGYPAIYGKQPLYFKDSIFQARASIPAPLLSDKLIQVHDEVE
ITI

  Protein domains


Predicted by InterproScan.

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

(120-620)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 30792..41262

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
MEALZ_RS20055 (MEALZ_p0026) 26817..27587 - 771 WP_014133092 ParA family protein -
MEALZ_RS20060 27584..27889 - 306 WP_017842850 TrfB-related DNA-binding protein -
MEALZ_RS20065 (MEALZ_p0027) 28002..28337 - 336 WP_014133093 KleE stable inheritance protein -
MEALZ_RS20070 (MEALZ_p0028) 29003..30022 - 1020 WP_014133094 replication initiator protein A -
MEALZ_RS20075 (MEALZ_p0029) 30202..30564 + 363 WP_014133095 transcriptional regulator -
MEALZ_RS20080 (MEALZ_p0030) 30792..31754 + 963 WP_014133096 P-type conjugative transfer ATPase TrbB virB11
MEALZ_RS20085 (MEALZ_p0031) 31766..32188 + 423 WP_014133097 conjugal transfer system pilin TrbC virB2
MEALZ_RS20090 (MEALZ_p0032) 32190..32501 + 312 WP_014133098 conjugal transfer protein TrbD virB3
MEALZ_RS20095 (MEALZ_p0033) 32501..35041 + 2541 WP_046061750 VirB4 family type IV secretion/conjugal transfer ATPase virb4
MEALZ_RS20100 (MEALZ_p0034) 35038..35778 + 741 WP_014133100 conjugal transfer protein TrbF virB8
MEALZ_RS20105 (MEALZ_p0035) 35799..36695 + 897 WP_014133101 P-type conjugative transfer protein TrbG virB9
MEALZ_RS20110 (MEALZ_p0036) 36700..37131 + 432 WP_014133102 TrbH protein of DNA transfer system -
MEALZ_RS20115 (MEALZ_p0037) 37135..38493 + 1359 WP_014133103 TrbI/VirB10 family protein virB10
MEALZ_RS20120 (MEALZ_p0038) 38591..39385 + 795 WP_046061751 P-type conjugative transfer protein TrbJ virB5
MEALZ_RS20130 (MEALZ_p0039) 39667..41262 + 1596 WP_014133105 P-type conjugative transfer protein TrbL virB6
MEALZ_RS20135 (MEALZ_p0040) 41277..41897 + 621 WP_014133106 transglycosylase SLT domain-containing protein -
MEALZ_RS22890 41952..42119 - 168 WP_162473026 hypothetical protein -
MEALZ_RS22460 (MEALZ_p0042) 42347..42637 + 291 WP_014133107 hypothetical protein -
MEALZ_RS20140 42915..43337 + 423 WP_046061729 hypothetical protein -
MEALZ_RS20145 (MEALZ_p0046) 43334..43912 + 579 WP_014133109 hypothetical protein -
MEALZ_RS20150 43956..44498 + 543 WP_046061730 hypothetical protein -

Host bacterium

ID   22106 GenBank   NC_016108
Plasmid name   MEALZ_p Incompatibility group   -
Plasmid size   128415 bp Coordinate of oriT [Strand]   113939..114045 [+]
Host baterium   Methylotuvimicrobium alcaliphilum 20Z

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrVA2