oriTDB
The information of the oriT region
oriTDB accession number 100038
Name oriTB_pSKU146  insolico
Sequence Completeness intact
oriT length 175 nt
oriT sequence TATGAACTTCCCCACCAAGATATTTTGATAAAATGACTTGTTGCACAAAATGACATTGAG CACTACCAAACTGAACGGGAGTTAAAAATGGAAAATGGTAATCTTAAGGGATATCCTGAC TTAATTATTTACAAAAATGATGATAGTGAAATTTATATAGAATTTGAACGAACAC
IR (inverted repeat)IR1: [16-26] [30-40] nt  (CAAGATATTTT..AAAATGACTTG)
IR2: [42-48] [56-62] nt  (TGCACAA..TTGAGCA)
IR3: [107-112] [113-117] nt  (AGGGAT..ATCCT)
IR4: [124-130] [135-141] nt  (ATTATTT..AAATGAT)
IR5: [146-153] [161-169] nt  (GTGAAATT..AATTTGAAC)
Location of nic site [118-119] nt
Conserved sequence flanking the
  nic site 		TATCCTG|A
Note putative oriT region; oriTB
L:16-26;R:30-40;L:42-48;R:56-62;L:107-112;R:113-117;L:124-130;R:135-141;L:146-153;R: 161-169;D: 118-119
Visualization of oriT structure
Reference
[1] Davis RE et al (2005) Cryptic plasmid pSKU146 from the wall-less plant pathogen Spiroplasma kunkelii encodes an adhesin and components of a type IV translocation-related conjugation system. Plasmid. 53(2):179-90. [PMID:15737404]
 N/A
Information of T4CP
ID 36
Name Mob_pSKU146 insolico
SecReT4 accesion number _
GenBank accession number YP_138235
Family TrwB/TraD
Length 504
UniProt ID Q5VCB6
PDB ID _
Pfam TrwB_AAD_bind [PF10412.8], Evalue: 4.10E-06, Aligned region: 122..183
TrwB_AAD_bind [PF10412.8], Evalue: 2.00E-09, Aligned region: 265..491
TraG-D_C [PF12696.6], Evalue: 6.10E-11, Aligned region: 351..468
DUF87 [PF01935.16], Evalue: 5.80E-06, Aligned region: 123..357
Note contains VirD4 domain; similar to Mob protein of Streptococcus mutans accession number NP_114056, conjugative coupling factor of Vibrio cholerae GenBank Accession Number AAL59680
Protein sequence [Download] MLKKIINWRDKNISNKIIYWFIFIFVVPFILLCFINCASAIIIMFLKYHTLDFKNFHIAY
VDKYSWIISLVLFVIGFLFFLWFYVCHKIDNMDSPKIKQQKSSKASDKEFKTLQLKMLAL
NNKYGIPKTNLSQHTILVGTTGSGKTTTLMFLVKQLTQLFKQTTIIIDGKGDIDLINKVK
QQDPNAFIWEIGGTTEYNPFATKDSVVLSDKIMSLFTFSEPHYEALVNDYVLILTETLIN
KNVELTLENIIKYFDIKELKQLISKKDNNYEYLEKLNEDDILGMRSRLNVYRQQLKTNIG
INNKLLELITKHKTILFSINSLMYPKLAGSVGKIIIQDLKELTTLKPVNQKINIVLDEFN
VFASETIINLINKSRSFNYQCFLSFQTINDLKTNNMNLTDTIFGNVNSIVCHNIKDPNTT
EYVASVFGTQETEKLTRQLDFKNNTADMGSVRSVDEFVVHPNDLKTLKIGECYFKTTLPS
GKLFIKKIKINPTYLDGVFQKLNK

Reference
[1] Davis RE et al (2005) Cryptic plasmid pSKU146 from the wall-less plant pathogen Spiroplasma kunkelii encodes an adhesin and components of a type IV translocation-related conjugation system. Plasmid. 53(2):179-90. [PMID:15737404]
Information of plasmid
ID 36
Plasmid name pSKU146
GenBank accession number NC_006400.1
Incompatibility group IncP1
Genome size 14615 bp
Coordinate of oriT  [Strand] 377..551 [+]; 1160..1334 [+]
Drug resistance _
Heavy-metal resistance _
Virulence factor insolico Plasmid pSKU146 harbors genes encoding putative proteins similar to known bacterial virulence factors and conjugative elements including Mob family proteins, origins of plasmid transfer, Vir domains, ICEF ORF-like proteins,and the ScARP1 adhesin of S. citri, implicating a role of pSKU146-encoded genes in conjugal cell-to-cell ommunication and pathogenesis.
Xenobiotic degradation _
Host bacterium [NCBI Taxonomy ID] Spiroplasma kunkelii CR2-3x [273035]
Reference
[1] Davis RE et al (2005) Cryptic plasmid pSKU146 from the wall-less plant pathogen Spiroplasma kunkelii encodes an adhesin and components of a type IV translocation-related conjugation system. Plasmid. 53(2):179-90. [PMID:15737404]

Microbial Bioinformatics Group in MML, SJTU