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(-) Description

Title :  THE THIRD PDZ DOMAIN FROM THE SYNAPTIC PROTEIN PSD-95 IN COMPLEX WITH A C-TERMINAL PEPTIDE DERIVED FROM CRIPT
 
Authors :  K. I. White, A. S. Raman, R. Ranganathan
Date :  05 Jan 16  (Deposition) - 16 Nov 16  (Release) - 16 Nov 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.65
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Pdz, Glgf, Dhr, Adhesion, Synapse, Synaptic Density, Peptide-Binding Domain, Peptide Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. S. Raman, K. I. White, R. Ranganathan
Origins Of Allostery And Evolvability In Proteins: A Case Study.
Cell(Cambridge, Mass. ) V. 166 468 2016
PubMed-ID: 27321669  |  Reference-DOI: 10.1016/J.CELL.2016.05.047

(-) Compounds

Molecule 1 - DISKS LARGE HOMOLOG 4
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PGEX-4T-1
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: PDZ-3 DOMAIN (UNP RESIDUES 302-402)
    Gene: DLG4, DLGH4, PSD95
    Organism Common: RAT
    Organism Scientific: RATTUS NORVEGICUS
    Organism Taxid: 10116
    Synonym: POSTSYNAPTIC DENSITY PROTEIN 95,PSD-95,SYNAPSE-ASSOCIATED PROTEIN 90,SAP90
 
Molecule 2 - CYSTEINE-RICH PDZ-BINDING PROTEIN
    Chains: B
    Engineered: YES
    Fragment: PDZ3-BINDING DOMAIN (UNP RESIDUES 93-101)
    Organism Common: RAT
    Organism Scientific: RATTUS NORVEGICUS
    Organism Taxid: 10116
    Other Details: SYNTHESIZED USING STANDARD FMOC CHEMISTRY, HPCL PURIFIED, AND LYOPHILIZED.
    Synonym: CYSTEINE-RICH INTERACTOR OF PDZ THREE,CYSTEINE-RICH INTERACTOR OF PDZ3
    Synthetic: YES

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 2)

Asymmetric/Biological Unit (1, 2)
No.NameCountTypeFull Name
1GOL2Ligand/IonGLYCEROL

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREILE A:341 , LEU A:353 , ARG A:354 , ALA A:402 , ASN A:403 , THR A:414 , ASP A:415 , HOH A:630 , HOH A:638 , HOH A:651binding site for residue GOL A 501
2AC2SOFTWAREGLY A:322 , GLU A:373 , GLN A:374 , SER B:8 , HOH B:201binding site for residue GOL B 101

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5HEB)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5HEB)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5HEB)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5HEB)

(-) Exons   (0, 0)

(no "Exon" information available for 5HEB)

(-) Sequences/Alignments

Asymmetric/Biological Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:PROTEIN  Length:119
                                                                                                                                                       
               SCOP domains ----------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhh......eeeeee.......eeeee......eeeeee...hhhhhhh.....eeeeee..ee....hhhhhhhhhhh...eeeeeeeehhhhhh.....eee.....eee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------- Transcript
                 5heb A 297 GSPEFLGEEDIPREPRRIVIHRGSTGLGFNIVGGEDGEGIFISFILAGGPADLSGELRKGDQILSVNGVDLRNASHEQAAIALKNAGQTVTIIAQYKPEEYSRFEANSRVDSSGRIVTD 415
                                   306       316       326       336       346       356       366       376       386       396       406         


Chain B from PDB  Type:PROTEIN  Length:7
                                       
               SCOP domains ------- SCOP domains
               CATH domains ------- CATH domains
               Pfam domains ------- Pfam domains
         Sec.struct. author ...eee. Sec.struct. author
                 SAPs(SNPs) ------- SAPs(SNPs)
                    PROSITE ------- PROSITE
                 Transcript ------- Transcript
                 5heb B   3 NYKQTSV   9
   Legend:   → Mismatch (orange background)
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    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 5HEB)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5HEB)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5HEB)

(-) Gene Ontology  (69, 79)

Asymmetric/Biological Unit(hide GO term definitions)

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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        CRIPT_RAT | Q792Q4: 5hed 5hey 5hf1 5hfb 5hfc 5hfe 5hff
        DLG4_RAT | P31016: 1be9 1bfe 1iu0 1iu2 1jxm 1jxo 1kjw 1qlc 1rgr 1tp3 1tp5 1tq3 2ka9 2mho 2xkx 3gsl 3wp0 3wp1 5b64 5d13 5hdy 5hed 5het 5hey 5hf1 5hf4 5hfb 5hfc 5hfd 5hfe 5hff

(-) Related Entries Specified in the PDB File

1be9 5hdy 5hed 5het 5hey 5hf1 5hf4 5hfb 5hfc 5hfd 5hfe 5hff