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<meta name="description" content="Quick start (How To) guides for using the Conserved Domain Database (CDD), a resource of the National Center for Biotechnology Information (NCBI) Structure Group" />
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<meta name="keywords" content="Conserved Domain Database (CDD), CD-Search, RPS-BLAST, proteins, protein sequences, classification, families, superfamilies, superfamily, protein function, homologous, homologs, orthologs, multiple sequence alignment, protein sequence analysis and annotation, CDTree, CD Tree, Conserved Domain Architecture Retrieval Tool (CDART), Molecular Modeling Database (MMDB), Cn3D structure viewing software, 3-D, three-dimensional structures, macromolecular structures, x-ray crystallography, nuclear magnetic resonance (NMR) spectroscopy, nucleic acids, nucleotide sequences, DNA, RNA, ligands, bound chemicals, drugs, medicine, NCBI, National Center for Biotechnology Information" />
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<title>How To Use the Conserved Domain Database (CDD)</title>
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<TD class="DocTitleText" align="left"> Conserved Domains and Protein Classification</TD>
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<TD class="NavResourceButtonInactive" align="center" valign="center" style="white-space: nowrap;"><A href="../cdd.shtml"> OVERVIEW </A></TD>
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<TD class="NavResourceButtonInactive" align="center" valign="center" style="white-space: nowrap;"><A href="cdd_search.html"> SEARCH </A></TD>
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<TD class="NavResourceButtonInactive" align="center" valign="center" style="white-space: nowrap;"><A href="//ftp.ncbi.nih.gov/pub/mmdb/cdd"> FTP </A></TD>
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<TD class="SteelBlueCell HeaderText2B" ALIGN="LEFT" VALIGN="TOP">How to use CDD: examples</TD>
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<SPAN class="MiniText"> <BR></SPAN>
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<P class="indent20bottomspace ThumbText2">This page provides <B>quick start guides</B> for some common types of searches.<BR>The <a href="../cdd_help.shtml"><B>CDD Help document</B></a> provides detailed descriptions of the database content, search system, and display formats.<BR>Once records of interest are retrieved, follow Entrez's "Links" to <a href="../../Macromol/structure_discover.html"><B>discover associations among previously disparate data</B></A>.</P>
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<TD class="WhiteCell" WIDTH="50" ALIGN="Center" VALIGN="TOP"> </TD>
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<TD class="WhiteCell TOCText" ALIGN="LEFT" VALIGN="TOP">
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<UL>
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<LI><A HREF="cdd_how_to_protein_function.html">Identify the putative <B>function of a protein</B> sequence.</A></LI><BR>
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<LI><A HREF="cdd_how_to_protein_classification_sparcle.html">Identify a <B>protein's classification</B> based on domain architecture.</A></LI><BR>
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<LI><A HREF="cdd_how_to_conserved_features.html">Identify the specific <B>amino acids</B> in a protein sequence that are putatively <B>involved in functions such as binding or catalysis</B>, as mapped from conserved domain annotations to the query sequence.</A></LI><BR>
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<LI><A HREF="cdd_how_to_embed_query_in_alignment.html">View a <B>protein query sequence embedded within the multiple sequence alignment of a domain model</B>.</A></LI><BR>
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<LI><A HREF="cdd_how_to_view_3d_structure.html"><B>Interactively view</B> the <B>3D structure</B> of a conserved domain</A>.</LI><BR>
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<LI><A HREF="cdd_how_to_domain_architecture.html">Find other <B>proteins with similar domain architecture</B>.</A></LI><BR>
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<LI><A HREF="cdd_how_to_phylo_seq_tree.html">Interactively view the <B>phylogenetic sequence tree</B> for a conserved domain model of interest, with or without a query sequence embedded.</A></LI><BR>
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</UL>
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<!-- P class="indent10"><A HREF="___"><B>Section N</B></A></P>
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<UL>
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<LI><A HREF="___">description with key terms in <B>bold face</B> text text text.</A></LI>
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<LI><A HREF="___">description with key terms in <B>bold face</B> text text text.</A></LI>
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<LI><A HREF="___">description with key terms in <B>bold face</B> text text text.</A></LI>
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<P class="indent20bottomspace ThumbText2">* This page provides <B>quick start guides</B> for some common types of searches.<BR> The <a href="../cdd_help.shtml"><B>CDD Help document</B></a> provides detailed descriptions of the database content, search system, and display formats. Once records of interest are retrieved, follow Entrez's "Links" to <a href="../../Macromol/structure_discover.html"><B>discover associations among previously disparate data</B></A>.</P>
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<TD VALIGN="top" ALIGN="RIGHT"><SPAN CLASS="HELPBAR1" STYLE="color="#646464"">Revised 03 November 2016</SPAN></TD>
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