oriTDB
The information of the oriT region
oriTDB accession number 100097
Name oriT_pHH2-227  insolico
Sequence Completeness intact
oriT length 341 nt
oriT sequence GTGCCATCTGCGCTTTGTGGTCCTAGTTGTGGTCCCAAAAGTATAGCAAACTCGGGCTAT TACGCAACATCTGTGGTCCCTGTAGACCACGGATGTTTAGCGCCATTGCGCCGGAAGTCG TTGAAAATCAACGACTTACGCGCACCGAAAGGTGCGTATTGTCTATAGCCCAGATTTAAG GATACCAACCCTGCTTTTAAGGACGAAAACCATGCCGATAACGCCAGCGTGACCCTAAAG AGGGTCAAAACTGCTCCCAATGCGCTATGCGCATTGGGTTATCGTGCAACAATAATGCAA CTATAATGCTATGATGGTGCGACAATGATGCAGAAAATCAG
IR (inverted repeat)IR1: [66-78] [85-97] nt  (AACATCTGTGGTC..GACCACGGATGTT)
IR2: [115-122] [130-137] nt  (AAGTCGTT..AACGACTT)
IR3: [141-146] [151-156] nt  (CGCACC..GGTGCG)
IR4: [230-236] [241-247] nt  ( TGACCCT..AGGGTCA)
IR5: [256-265] [269-278] nt  (CCCAATGCGC..GCGCATTGGG)
Location of nic site [164-165]
Conserved sequence flanking the
  nic site 		TGTCT|ATAGC
Note The oriT of pHH2-227 is almost identical to that of R7K.
L:66-78;R:85-97;L:115-122;R:130-137;L:141-146;R:151-156;L:230-236;R:241-247;L:256-265;R:269-278;D:164-165
Visualization of oriT structure
Reference
[1] Król JE et al (2013) Invasion of E. coli biofilms by antibiotic resistance plasmids. Plasmid. 70(1):110-9. [PMID:23558148]
I. Information of Relaxase
ID 92
Name TrwC_pHH2-227 insolico
GenBank accession number AEY63615
Family MOBF
Length 966 aa
UniProt ID H2DDW0
PDB ID _
Pfam TrwC [PF08751.10], Evalue: 1.20E-83, Aligned region: 12..288
AAA_30 [PF13604.5], Evalue: 1.30E-45, Aligned region: 472..659
Viral_helicase1 [PF01443.17], Evalue: 2.50E-06, Aligned region: 492..697
UvrD_C_2 [PF13538.5], Evalue: 3.90E-07, Aligned region: 847..894
AAA_19 [PF13245.5], Evalue: 8.60E-06, Aligned region: 477..601
Note conjugative relaxase
Protein sequence [Download] MLSHMVLTRQDIGRAASYYEDGADDYYAKDGDASEWQGKGAEELGLSGEVDSKRFRELLA
GNIGEGHRIMRSATRQDSKERIGLDLTFSAPKSVSLQALVAGDAEIIKAHDRAVARTLEQ
AEARAQARQKIQGKTRIETTGNLVIGKFRHETSRERDPQLHTHAVILNMTKRSDGQWRAL
KNDEIVKATRYLGAVYNAELAHELQKLGYQLRYGKDGNFDLAHIDRQQIEGFSKRTEQIA
EWYAARGLDPNSVSLEQKQAAKVLSRAKKTSVDREALRAEWQATAKELGIDFSRREWSGR
EKGGSEKQAHSFMPSDEAAKRAVRYAINHLTERQSVMDERELVDTAMKHAVGAARLEDIQ
KELLRQTETGYLIREAPRYRPGGQTGPTDEPGKTRAEWIAELAAKGMKQGAARERVDNAI
KTGGLVPIEPRYTTQTALEREKRILQIERDGRGAVAPVIAAEAARERLASTNLNQGQREA
AELIVSAANRVVGVQGFAGTGKSHMLDTAKQMIEGEGYHVRALAPYGSQVKALRELNVEA
NTLASFLRAKDKNIDSRTVLVIDEAGVVPTRLMEQTLKLAEKAGARVVLMGDTAQTKAIE
AGRPFDQLQAAGMQTAHMREIQRQKNPELKIAVELAAAGKASSSLERIKDVTEIKNHHER
RAAVAEAYIALKPDERDRTLIVSGTNEARREINQIVREGLGTAGKGIEFDTLVRVDTTQA
ERRHSKNYQVGHVIQPERDYAKTGLQRGELYRVVETGPGNRLTVIGEHDGQRIQFSPMTH
TKISVYQPERAELAVGDTIRITRNDKHLDLANGDRMKVVAVEDRKVTVTDGKRNVELPTD
KPLHVDHAYATTVHSSQGLTSDRVLIDAHAESRTTAKDVYYVAISRARFEARVFTNDRGK
LPAAIARENIKSAAHDLARDRGGRSAAAERQREQQREAERNRQTQQPAHDRQKAAREAER
GMEAGR
Reference
[1] Król JE et al (2013) Invasion of E. coli biofilms by antibiotic resistance plasmids. Plasmid. 70(1):110-9. [PMID:23558148]


II. Auxiliary DNA-binding protein(s) of the relaxosome
# ID Name GenBank Length Note
1 133 TrwA_pHH2-227 insolico AEY63617 121 aa relaxosome accessory protein TrwA
Information of T4CP
ID 92
Name TrwB_pHH2-227 insolico
SecReT4 accesion number _
GenBank accession number AEY63616
Family TrwB/TraD
Length 507
UniProt ID H2DDW1
PDB ID _
Pfam TrwB_AAD_bind [PF10412.8], Evalue: 6.60E-97, Aligned region: 109..491
TraG-D_C [PF12696.6], Evalue: 2.70E-21, Aligned region: 350..472
T4SS-DNA_transf [PF02534.13], Evalue: 1.50E-12, Aligned region: 297..489
Note coupling protein TrwB
Protein sequence [Download] MHPDDQRKVSAGIVIVLPLIFWITAVQKTEVLGSPKLLALWELMKLTPQKPILLLSALGG
LAVGVLFVWLLNSVGQGEFGGAPFKRFLRGTRIVSGGKLKRMTREKAKQVTVAGVPMPRD
AEPRHLLVNGATGTGKSVLLRELAYTGLLRGDRMVIVDPNGDMLSKFGRDKDVILNPYDK
RTKGWSFFNEIRNDYDWQRYALSVVPRGKTDEAEEWASYGRLLLRETAKKLALIGTPSMR
ELFHWTTIATFDDLRGFLEGTLAESLFAGSNEASKALTSARFVLSDKLPEHVTMPDGDFS
IRSWLEDPNGGNLFITWREDMGPALRPLISAWVDVVCTSILSLPEEPKRRLWLFIDELAS
LEKLASLADALTKGRKAGLRVVAGLQSTSQLDDVYGVKEAQTLRASFRSLVVLGGSRTDP
KTNEDMSLSLGEHEVERDRYSKNTGKHHSTGRALERVRERVVMPAEIANLPDLTAYVGFA
GNRPIAKVPLEIKQFANRQPAFVEGTI

Reference
 N/A
Information of plasmid
ID 92
Plasmid name pHH2-227
GenBank accession number JN581942.1
Incompatibility group IncW
Genome size 38963 bp
Coordinate of oriT  [Strand]
Drug resistance insolico resistance to tetracycline and sulfonamide
Heavy-metal resistance _
Virulence factor _
Xenobiotic degradation _
Host bacterium [NCBI Taxonomy ID] Uncultured bacterium [77133]
Reference
[1] Król JE et al (2013) Invasion of E. coli biofilms by antibiotic resistance plasmids. Plasmid. 70(1):110-9. [PMID:23558148]

Microbial Bioinformatics Group in MML, SJTU