CDD v3.07

[06 AUG 2012]  The CDD v3.07 release includes 495 new or updated NCBI-curated domains.

CDD v3.06

[29 MAY 2012]  The CDD v3.06 release includes 310 new or updated NCBI-curated domains.

Conserved Domain searches now launched for blastx queries

[28 MAR 2012]  Conserved Domain searches are now being launched for all nucleotide queries shorter than 10,000 base pairs submitted to blastx, the BLAST program that translates a nucleotide query sequence in six reading frames and compares each translation against the protein data set. The blastx search results page includes a concise display of the conserved domains found on the translated reading frames, and that graphic links to the corresponding interactive view in the CD-Search tool.

CDD v3.05

[23 MAR 2012]  The CDD v3.05 release includes 161 new or updated NCBI-curated domain models and now mirrors TIGRFAM v12.

CDD v3.04

[08 MAR 2012]  The CDD v3.04 release includes 166 new or updated NCBI-curated domain models..

CDD v3.03

[19 JAN 2012]  The CDD v3.03 release includes 174 new or updated NCBI-curated domain models and now mirrors PFAM v26.

CDD v3.02

[07 DEC 2011]  The CDD v3.02 release includes 170 new or updated NCBI-curated domain models and now mirrors TIGRFAM v11.

CDD v3.01

[09 NOV 2011]  The CDD v3.01 release includes 298 new or updated NCBI-curated domains.

CD-Search now accepts nucleotide sequences as queries

[04 NOV 2011]  The CD-Search tool now accepts nucleotide sequences as queries. It translates them in all six reading frames and searches each protein product against the RPS-BLAST databases. CD-Search will combine the results for all the proteins into a single page, but will only display the translated reading frames that picked up a match in CDD. The help document provides additional details.

CDD v3.00

[28 Oct 2011]  The CDD v3.00 release contains the same conserved domain models as the previous release (CDD v2.32). However, the composition of some superfamily clusters have changed, and the single domain/multidomain status assigned to some conserved domain models has also changed. These changes are due to a slightly revised E-value calculation implemented in the BLAST program suite (including RPS-BLAST), which now uses a new variant of the Finite Size Correction that produces more accurate E-values for short query and/or subject sequences.

CDTree now includes the latest version of Cn3D

[18 OCT 2011]  A new CDTree software bundle is now available and includes the most recent version of NCBI's 3D structure viewing program, Cn3D 4.3. CDTree is:

• a powerful tool to aid in the classification of protein sequences and investigate their evolutionary relationships
• a web-based helper application used by the CDD on-line search service to permit user interaction with pre-defined protein domain hierarchies
• an integrated software environment organized to help users assimilate large amounts of biological data from various resources by access to a suite of analysis methods
• an alignment editor and 3D structure visualization program through its integration with Cn3D 4.3

New version of CDART offers new functions & features

[05 OCT 2011]  A new release of the Conserved Domain Architecture Retrieval Tool (CDART) is available and offers new functions and features for finding proteins that have domain architectures similar to a query protein (illustrated example):

• reengineered for improved performance with long query proteins and complicated domain architectures
• expanded input options now allow you to enter a query as:
• protein sequence
• set of conserved domains
• multiple queries
• similarity scores are now displayed in search results for more transparent ranking/sorting
• new options to filter your results include the ability to include/exclude proteins from specific organisms and/or proteins that contain specific conserved domains, and to combine the filters with Boolean logic.
• try a search with your favorite protein!

CDD v2.32

[02 SEP 2011]  The CDD v2.32 release includes 14 new or updated NCBI-curated domains, suppresses pfam10695, and fixes errors in superfamily clustering.

Entrez CDD interface redesign

[25 JULY 2011]  The Conserved Domain Database now has a revised home page, search interface, and search results display, to have functions similar to those available in PubMed. Changes include: (a) a streamlined home page with links to related resources; (b) an "Advanced Search" page, which provides the ability to build a query one term at a time, browse the index of any search field, and combine earlier searches; and (c) new search results displays that provide links in the right margin to search filters, related data, and tools.

CDD v2.31

[19 AUG 2011]  The CDD v2.31 release includes 292 new or updated NCBI-curated domains and now mirrors SMART v6.0.

CDD v2.30

[16 JUN 2011]  The CDD v2.30 release includes 201 new or updated NCBI-curated domains.

CDD v2.29

[13 MAY 2011]  The CDD v2.29 release includes 256 new or updated NCBI-curated domains, and now mirrors TIGRFAM v10.1 and Pfam v25.

CDD v2.28

[30 MAR 2011]  The CDD v2.28 release includes 611 new or updated NCBI-curated domains and now mirrors TIGRFAM v10.

CDD v2.27

[02 MAR 2011]  The CDD v2.27 release includes 357 new or updated NCBI-curated domains.

CDD v2.26

[29 DEC 2010]  The CDD v2.26 release includes 124 new or updated NCBI-curated domains as well as the most recent data from PRK.

CDD v2.25

[07 OCT 2010]  The CDD v2.25 release includes 88 new or updated NCBI-curated domains.

Batch CD-Search

[30 SEP 2010]   A Batch CD-Search tool is now available for the computation and download of conserved domain annotation on large sets of protein queries. Input up to 100,000 protein query sequences as a list of sequence identifiers and/or raw sequence data, then download output in a variety of formats (including tab-delimited text files) or view the search results graphically. See the help document for additional details, including information on using Batch CD-Search for scripted data downloads.

CDD v2.24

[09 SEP 2010]  The CDD v2.24 release includes 196 new or updated NCBI-curated domains.

CDD v2.23

[29 JUL 2010]  The CDD v2.23 release includes 174 new or updated NCBI-curated domains.

CDD v2.22

[26 MAY 2010]  The CDD v2.22 release includes 443 new or updated NCBI-curated domains.

CDD v2.21

[13 APR 2010]  The CDD v2.21 release includes 489 new or updated NCBI-curated domains as well as the most recent data from PRK, which now includes domain models for plant-specific (non-chloropast) proteins, indicated by PLN accession number prefixes.

CDD v2.20

[19 MAR 2010]  The CDD v2.20 release includes 107 new or updated NCBI-curated domains, and now mirrors TIGRFAM v9.0.

CDD v2.19

[01 FEB 2010]  The CDD v2.19 release includes PFAM v24.0 as well as 532 new or updated NCBI-curated domains.

CDD v2.18

[10 DEC 2009]  The CDD v2.18 release includes 489 new or updated NCBI-curated domains.

CDD v2.17

[04 JUN 2009]  The CDD v2.17 release includes 484 new or updated NCBI-curated domains, as well as records from a new data source, TIGRFAM, and protozoan domains from the Protein Clusters (PRK) database.

Specific Hits

[08 MAY 2008]  The CD-Search tool now shows four types of hits in search results, including specific hits. A specific hit is a high confidence association between a protein query sequence and a conserved domain, resulting in a high confidence level for the inferred function of the protein query sequence. more...

Superfamilies

[08 MAY 2008]  The Conserved Domain Database (CDD) is now organized into superfamilies. A superfamily cluster is a set of conserved domain models that generate overlapping annotation on the same protein sequences. These models are assumed to represent evolutionarily related domains and may be redundant with each other. more...