What is CD-search?

What is CD-search?

We describe the Conserved Domain Search service (CD-Search), a web-based tool for the detection of structural and functional domains in protein sequences. CD-Search uses BLAST(R) heuristics to provide a fast, interactive service, and searches a comprehensive collection of domain models.

What is conserved domain sequence?

CDD is a protein annotation resource that consists of a collection of well-annotated multiple sequence alignment models for ancient domains and full-length proteins. High confidence associations between a query sequence and conserved domains are shown as specific hits.

How do you find the domain of a protein sequence?

One way to identify a domain is to find the part of a target protein that has sequence or structural similarities with a template through homology alignment. Another way is to predict the domain boundaries from a protein sequence.

What is the use of CDD database in NCBI Entrez?

The Conserved Domain Database (CDD) is now indexed as a separate database within the Entrez system and linked to other Entrez databases such as MEDLINE®. This allows users to search for domain types by name, for example, or to view the domain architecture of any protein in Entrez’s sequence database.

What is the purpose of a conserved domain search?

The goal of the NCBI conserved domain curation project is to provide database users with insights into how patterns of residue conservation and divergence in a family relate to functional properties, and to provide useful links to more detailed information that may help to understand those sequence/structure/function …

What is the significance of a conserved domain?

We define conserved domains as recurring units in molecular evolution, the extents of which can be determined by sequence and structure analysis. Conserved domains contain conserved sequence patterns or motifs, which allow for their detection in polypeptide sequences.

What is a putative domain?

Description. A putative DNA-binding domain with a conserved structure is found in several different protein families. The core structure of the domain consists of a three-helical fold that is architecturally similar to that of the “winged-helix” fold, but is topologically distinct.

What is RPS blast?

RPS-BLAST is a variant of the PSI-BLAST program. Whereas PSI-BLAST first builds a PSSM that is used as a query for subsequent database searches, RPS-BLAST uses a protein sequence query to search a database of precalculated PSSMs in a single pass.

What is CDD in KYC process?

Customer Due Diligence (CDD) or Know Your Customer (KYC) policies are the cornerstones of an effective AML/CTF program. Put simply, they are the act of performing background checks on the customer to ensure that they are properly risk assessed before being onboarded.

How do you know if a region is conserved?

Conserved sequences may be identified by homology search, using tools such as BLAST, HMMER, OrthologR, and Infernal. Homology search tools may take an individual nucleic acid or protein sequence as input, or use statistical models generated from multiple sequence alignments of known related sequences.

Back To Top