CAcnesDB

The database contains entries for individual proteins identified in the organism strain. Each protein entry typically includes an unique identifier, protein name, annotation, functional class, structure, pockets, ligands and other metadata.

Query by Protein ID

Query by Gene Name

Query by UniProtID

Query by NCBI Protein ID

Query by Name

Circular Genome view

SUMMARY

Gene Information

Category	Count	Details
Gene Finding	2369	2297 protein coding genes 55 protein non-coding genes (6 rRNA + 47 tRNA + 2tmRNA) 17 pseudogenes
Mapping	2297	'PPA' ID were mapped to all the 2297 genes UniProt IDs were mapped to 2297 genes NCBI Protein IDs were mapped to 2297 genes NCBI RefSeq IDs were mapped to 2199 genes

Biological Inference (Gene Ontology)

Category	Details	Slim Details
BIOLOGICAL INFERENCE (GENE ONTOLOGY)	BP: For 1402 CDS MF: For 1620 CDS CC: For 1052 CDS	Slim BP: For 1036 CDS Slim MF: For 1566 CDS Slim CC: For 326 CDS

HOMOLOGY PREDICTION

Sub-Category	Details
Sequence-Sequence	1721 (CDS) Filtered results with e-value < 0.001
Profile-Profile	2297 (CDS) Filtered results with e-value < 0.001

KEGG

Category	Details	Counts	Additional Info
KEGG	KEGG Orthology (KO) KEGG Pathway	1503 925	KEGG Orthology were extensively curated and assigned for individual gene. 902 (Already present in the KEGG database) + 23 (Current work)

Domain/Motif/Signature Prediction

Category	Details	Remarks
DOMAIN/ MOTIF/ SIGNATURE PREDICTION	InterProScan domains were assigned for 1958 protein coding genes	PFam domains were assigned for 1872 protein coding genes CDD domains were assigned for 938 protein coding genes PANTHER domains were assigned for 1633 protein coding genes Prositepatterns domains were assigned for 456 protein coding genes PrositeProfiles domains were assigned for 631 protein coding genes Coils domains were assigned for 141 protein coding genes SFLD domains were assigned for 24 protein coding genes Gene3D domains were assigned for 1659 protein coding genes SMART domains were assigned for 418 protein coding genes PIRSF domains were assigned for 298 protein coding genes HAMAP domains were assigned for 454 protein coding genes PRINTS domains were assigned for 294 protein coding genes MobiDBLite domains were assigned for 573 protein coding genes SUPERFAMILY domains were assigned for 1593 protein coding genes TIGRFAM domains were assigned for 705 protein coding genes

VIRULENCE PREDICTION

PREDICTION	Details	Remarks
VIRULENCE PREDICTION	VirulentPred VFDB 1692	Based on AAC: 896; DCB: 780; HDCB: 666; PSI: 762; PSSM: 755; SVM: 715 From blastP against setA (with e-value < 0.001): 438; From blastP against setB (with e-value < 0.001): 550"

REGULATORY ROLE PREDICTION

Sub-Category	Details	Remarks
REGULATORY ROLE PREDICTION	P2RP DeepTFactor	TCS: [HK: 12, RR: 12, PP: 1] TF: [TR: 60, OCS: 24, RR: 11, SF: 7] ODP: 4 106

STRUCTURE PREDICTION

SubCategory	Details
Quality	2280 (out of 2297 CDS) No predicted structures for 17 protein-coding genes.

TM-align

Sub-Category	Count	Details
TM-align	1546 (out of 2280 predicted proteins structures)	TM-align resulted in 61047000 pairs of predicted structures with PDB templates. The columns are 'Query ID', 'PDB Template ID', 'Alignment length', 'RMSD', 'Sequence Identity', 'TMScore1', 'TMScore2'. Further the results were filtered with (TMSocre1 and TMScore > 0.5).

POCKET DETECTION

Sub-Category	Count	Details
POCKET DETECTION	14586 (Consensus Pockets)	TM-align resulted in 61047000 pairs of predicted structures with PDB templates. The columns are 'Query ID', 'PDB Template ID', 'Alignment length', 'RMSD', 'Sequence Identity', 'TMScore1', 'TMScore2'. Further the results were filtered with TMSocre1 and TMScore > 0.5.