Sequence Alignments in Search Results

10/20

Use the Advanced Search>Sequence option to search protein, DNA, or RNA sequences using mmseqs2 software. A description of this functionality is available.

The search results include a graphic display of sequence alignments. Please adjust the "Display Results as" menu to "Polymer Entities". Zoom using the mouse scroll (wheel) or the mousepad/touchpad to show the amino acid sequence and mismatches.

Zoom using the mouse scroll (wheel) or the mousepad/touchpad to show the amino acid sequence and mismatches. Help documentation is available.

Advanced Search Query Builder can be used combine these Sequence Searches with other types of searches using Boolean operators (AND/OR/NOT):

• Attribute searching: specific fields or full-text search across all fields, such as ID, deposition information, entry features, and experimental information
• Sequence searching: based on a FASTA sequence (with E-value or % Identity cutoffs);
• Sequence Motif searching: find short sequence patterns in PDB structure FASTA sequences using Simple, PROSITE, or RegEx syntax
• Structure Similarity searching: based on an existing Chain or Assembly of a PDB structure
• Chemical Search: find chemical components by Formula or descriptor

News Index

• 12/31 wwPDB News: 50 Years of the PDB

• 12/28 Season's Greetings

• 12/22 Celebrating 20 Years of Molecule of the Month

• 12/15 Scientific Software Developers and Postdocs

• 12/10 Register Now: Advancing the Case for Collaboration and Integration in Structural Science

• 12/09 Explore Genome-Protein Relationships

• 12/07 Structural Biology and Nobel Prizes

• 12/06 wwPDB News: NMR Restraints Validation Now Available Through OneDep

• 12/03 Legacy API Shutdown December 9

• 12/01 Molecular Origami: Green and Red Fluorescent Proteins

• 11/24 Biocurator Explores SARS-CoV-2 Proteins in Virtual Reality

• 11/23 Explore Improved Carbohydrate Data

• 11/17 Video: Neuronal Signaling and Sodium-Potassium Pump

• 11/10 Congratulations to Stephen K. Burley

• 10/27 Service Disruptions November 3-10

• 10/27 Building Advanced Searches

• 10/25 American Public Health Association Film Festival

• 10/20 Sequence Alignments in Search Results

• 10/20 wwPDB News: PDB Turns 49

• 10/18 Happy Birthday, Irving Geis

• 10/16 Join Us at the STEMteachersEXPO

• 10/13 Build Customize Tabular Reports of PDB Data

• 10/13 Fall Newsletter Published

• 10/12 Dexamethasone and Cytokine Storms

• 10/07 2020 Nobel Prize in Chemistry

• 10/06 Award-Winning Image

• 10/02 Documentation for New and Improved APIs

• 09/29 Structural Biology and Nobel Prizes

• 09/25 Search by Chemical Formula or Descriptor

• 09/24 Poster Prize Awarded at ACA

• 09/22 wwPDB News: Updated Validation Reports for Released PDB Structures

• 09/20 Poster Prize Awarded at ISMB

• 09/16 Announcement: Legacy MyPDB Will Be Discontinued October 2020

• 09/15 Respiratory Droplet

• 09/08 Virtual Boot Camp

• 09/01 Congratulations, Sophia!

• 08/25 Explore Sequence-Structure Relationships

• 08/24 Download Molecular Landscapes

• 08/18 Resources to Fight the COVID-19 Pandemic

• 08/11 Integrative Illustration for Coronavirus Outreach

• 08/11 Real Time Structural Search of the PDB

• 08/04 Insights from 20 Years of the Molecule of the Month

• 07/28 wwPDB News: Access Improved Carbohydrate Data at the PDB

• 07/28 Summer Newsletter Published

• 07/21 Resources to Fight the COVID-19 Pandemic

• 07/21 Integrating PDB Data with NIH Common Fund Data Resources

• 07/14 Drug Discovery Today

• 07/08 Introducing a New Molecular Display

• 07/07 wwPDB News: Coming July 29: Improved Carbohydrate Data at the PDB

• 06/30 Impact of the Protein Data Bank Across Scientific Disciplines

• 06/23 PDB-101 Coronavirus Resources

• 06/16 RCSB PDB in the Time of COVID-19

• 06/09 Sequence Motif Searching

• 06/08 Coronavirus CellPAINT Contest Winners

• 06/02 Education Corner: Biomolecular Modeling in Elementary and Middle School

• 05/26 Biocuration: On the Front Line of Structural Biology

• 05/19 Award-Winning Videos on Molecular Mechanisms of Opioid Action

• 05/12 Enter the Coronavirus CellPAINT Contest

• 05/10 Happy 70th Anniversary, National Science Foundation

• 05/07 Announcement: Legacy MyPDB Will Be Discontinued October 2020

• 05/05 Vote Now for the Viewer's Choice Award

• 05/05 Announcement: Legacy RCSB PDB APIs Will Be Discontinued November 2020

• 05/03 Coronavirus Background For Virtual Meetings

• 05/01 June 1: Retirement of Protein Workshop and Ligand Explorer

• 04/28 Enter the Coronavirus CellPAINT Contest by May 31

• 04/24 Celebrate DNA Day on April 25

• 04/20 Annual Report Published

• 04/16 Access Sequence Information

• 04/15 New APIs Replace REST Services

• 04/14 Access a new and improved PDB-Dev

• 04/08 Welcome to the Next Generation RCSB.org

• 04/07 Molecular Backgrounds For Virtual Meetings

• 04/06 Spring Newsletter Published

• 03/31 High School Students: Submit Opioid Action Videos Before April 28

• 03/25 Beta Test the Next Generation RCSB.org

• 03/25 COVID-19/SARS-CoV-2 Resources

• 03/23 Video: Fighting Coronavirus with Soap

• 03/17 Coloring Coronavirus

• 03/16 Brain Awareness Week

• 03/06 Curated Files for 3D Printing

• 02/25 wwPDB News: Improving carbohydrates in the PDB for 2020

• 02/19 Education Corner: Using PDB in the College Classroom

• 02/18 Improve Your Coordinates, Keep Your ID (Phase II)

• 02/15 Molecular Landscapes: Coronavirus

• 02/06 COVID-19 Coronavirus Resources

• 02/04 wwPDB News: New Coronavirus Protease Structure Available

• 01/28 Special Issue Focused on Tools for Protein Science

• 01/21 2019 FASEB BioArt Winner

• 01/14 NMR data distribution in a unified format at the PDB

• 01/14 Winter Newsletter Published

• 01/08 Time-stamped Copies of PDB and EMDB Archives

• 01/06 Molecule of the Month Newsletter

• 01/02 Celebrating 20 Years of Molecule of the Month