Display Settings:

Items per page

Results: 7

4.
Figure 7

Figure 7. Potential virulence factor, protein serine/tyrosine phosphatase. (locus: CLIBASIA_03975, gi: 254780898).. From: Predictive Sequence Analysis of the Candidatus Liberibacter asiaticus Proteome.

(A) Domain diagram of the protein (B) Predicted structure of the protein. The side-chains of the active site residues are shown.

Qian Cong, et al. PLoS One. 2012;7(7):e41071.
5.
Figure 5

Figure 5. Potential virulence factor, von Willebrand factor type A domain containing protein.. From: Predictive Sequence Analysis of the Candidatus Liberibacter asiaticus Proteome.

(locus: CLIBASIA_03630, gi: 254780833). (A) Domain diagram of the protein (B) Predicted structure of the protein colored in rainbow. The side-chains of the conserved residues for metal binding are shown.

Qian Cong, et al. PLoS One. 2012;7(7):e41071.
6.
Figure 2

Figure 2. Venn diagram of the predicted protein coding genes by different methods in the Ca. L. asiaticus genome.. From: Predictive Sequence Analysis of the Candidatus Liberibacter asiaticus Proteome.

The yellow disk represents the set of protein coding genes identified by NCBI and the pink disk stands for the set of protein coding genes predicted by the SEED. The red, blue and green circle includes all confidently predicted protein coding genes, transmembrane proteins and secreted proteins via Sec in the proteome after manual inspection.

Qian Cong, et al. PLoS One. 2012;7(7):e41071.
7.
Figure 1

Figure 1. Illustration of the webpage.. From: Predictive Sequence Analysis of the Candidatus Liberibacter asiaticus Proteome.

(A) Section I: basic information with function predictions from different resources and links to other databases. (B) Section II: local sequence feature prediction. It contains the following information: (1) sequence (highlighted according to the property of amino acid) from NCBI database; (2),(3) secondary structure prediction by PSIPRED and SSPRO (H: α helix, E: β strand, C: coils); (4) Coil and loop (highlighted in pink) prediction by DISEMBL; (5) Flexible loop (highlighted in pink) prediction by DISEMBL; (6) Low complexity region (highlighted in light red) prediction by SEG; (7)-(9): Disordered region (highlighted in red) prediction by DISPRED, DISEMBL and DISPRO; (10)-(15) Transmembrane helix (highlighted in blue) prediction by TMHMM, TOPPRED2, HMMTOP, MEMSAT, MEMSATSVM, Phobius; (14)-(17) Signal Peptide (highlighted in green) prediction by MEMSATSVM, Phobius, SignalP Hidden Markov Model mode and SignalP Neural Network mode; (18) Coiled coils (highlighted in yellow) prediction by COILS; (19),(20) Sequence colored by conservation (highlighted from white, through yellow to dark red as the level of conservation increases) computed on the Multiple Sequence Alignment of homologous proteins filtered by 70% or 90% sequence identity. (C) Section III: top 10 homologs detected by BLAST or 2 iterations of PSI-BLAST are listed. For each hit, the alignment and the species associated with the hit are provided. (D) Section IV: homologous protein families and conserved domains detected by RPS-BLAST. The confident hits detected by certain method are listed and the relative information of each protein family and its alignment to the Ca. L. asiaticus protein can be retrieved. (E) Section VI: evolutionary related protein domains detected by RPS-BLAST in SCOP database. It includes a table summarizing all confident hits, followed by details of each hit, including its hierarchy in SCOP, the alignment and the 3D structure visualized in Jmol.

Qian Cong, et al. PLoS One. 2012;7(7):e41071.

Display Settings:

Items per page

Supplemental Content

Recent activity

Your browsing activity is empty.

Activity recording is turned off.

Turn recording back on

See more...
Write to the Help Desk