Sequence Details

The sequence tab displays annotated sequences of polymer chains present in the selected structure. These annotations can be viewed in diagram form and in Jmol.

Summary Table

For each representative chain of each unique polymer in the structure a table briefly summarizes information about the polymer:

The sequence display provides a graphical representation of the UniProtKB, PDB - ATOM and PDB - SEQRES sequences. Different 3rd party annotations can be graphically mapped on the sequence and displayed in the Jmol viewer. Select the Add Annotations drop-down to add additional annotations. The drop-down will only display annotations that are available for this sequence. Currently the following annotations are supported:

 

  • SCOP - domain annotations from the SCOP database.
  • CATH - domain annotations from the CATH database.
  • Domain Parser - domain annotations processed with the Domain Parser (DP) algorithm
  • Protein Domain Parser - domain annotations processed with the Domain Parser (PDP) algorithm
  • PFAM - regions with Pfam annotations
  • Interpro - regions with Interpro anntoations
  • DSSP - secondary structure assignment
  • STRIDE - secondary structure assignment
  • Author Sec. Struc. - secondary structure assignment as provided by the author of a PDB entry
  • Protein Modification - protein modifications as detected with software
  • Site Record - both author assigned and detected with software
  • Single Nucleotide Polymorphism (SNP) - data from the LS-SNP database

 

Jmol Interaction

The sequence display is interactive and can map all annotations onto 3D. For this, you need to enable Jmol on this page (by default disabled). Click on the   Display Jmol button on top of the page to enable Jmol. The page reloads and from then on you can project sequence annotations to 3D. Below an example how Jmol can show the interaction of a Histidin with a Hem group (a protein modification feature) in 4hhb

 

 

Sequence Header

The following information is shown on top of the sequence:
  • Description - Taken from _entity.pdbx_description
  • Type - Taken from _entity_poly.type
  • Polymer Id - taken from _entity_.id_
  • Number of residues
  • Domains - clicking on a domain will reload the page in domain context (see below)